@article {9577, title = {Amphidromous shrimps (Decapoda: Caridea): current knowledge and future research}, journal = {Journal of Crustacean Biology}, volume = {44}, year = {2024}, month = {Feb-09-2024}, type = {Review article}, issn = {0278-0372}, doi = {10.1093/jcbiol/ruae003}, url = {https://academic.oup.com/jcb/article-abstract/44/1/ruae003/7604398?redirectedFrom=fulltext\&login=false}, author = {de Mazancourt, Valentin and Ravaux, Juliette} } @article {9558, title = {Ancestors{\textquoteright} Gift: Parental Early Exposure to the Environmentally Realistic Pesticide Mixture Drives Offspring Phenotype in a Larger Extent Than Direct Exposure in the Pacific Oyster, Crassostrea gigas}, journal = {Environmental Science \& Technology}, year = {2024}, issn = {0013-936X}, doi = {10.1021/acs.est.3c0820110}, url = {https://pubs.acs.org/doi/10.1021/acs.est.3c08201}, author = {Sol-Dourdin, Thomas and Guyomard, Killian and Rabiller, Manuella and Houssais, Nina and Cormier, Alexandre and Le Monier, Pauline and Sussarellu, Rossana and Guillaume Rivi{\`e}re} } @article {9592, title = {Demography of endangered juvenile green turtles in face of environmental changes: 10 years of capture-mark-recapture efforts in Martinique}, journal = {Biological Conservation}, volume = {291}, year = {2024}, month = {Jan-03-2024}, pages = {110471}, issn = {00063207}, doi = {10.1016/j.biocon.2024.110471}, url = {https://authors.elsevier.com/c/1icDh1R~eWZv6}, author = {Lelong, Pierre and Besnard, Aur{\'e}lien and Girondot, Marc and Habold, Caroline and Priam, Fabienne and Giraudeau, Mathieu and Le Loc{\textquoteright}h, Guillaume and Le Loc{\textquoteright}h, Aur{\'e}lie and Fournier, Pascal and Fournier-Chambrillon, Christine and Bustamante, Paco and Dupont, Sophie M. and Vincze, Orsolya and Gros-Desormeaux, Jean-Rapha{\"e}l and Martin, Jordan and Bourgeois, Ouv{\'e}a and Lepori, Muriel and R{\'e}gis, Sidney and Lecerf, Nicolas and Lefebvre, Fabien and Aubert, Nathalie and Frouin, C{\'e}dric and Flora, Fr{\'e}d{\'e}ric and Pimentel, Esteban and Pimentel, Manon and Siegwalt, Flora and Jeantet, Lor{\`e}ne and Chambault, Philippine and Hielard, Ga{\"e}lle and Arqu{\'e}, Alexandre and Arthus, Mosiah and Louis-Jean, Laurent and Brador, Aude and Giannasi, Paul and Etienne, Denis and Lecerf, Natha{\"e}l and Chevallier, Pascale and Chevallier, Tao and Meslier, St{\'e}phane and Landreau, Anthony and Maceno, Myriane and Larcher, Eug{\`e}ne and Le Maho, Yvon and Chevallier, Damien} } @article {9552, title = {Dining on corals: stable isotope evidence for close trophic connection between gall crabs (Cryptochiridae) and their stony coral hosts}, journal = {Symbiosis}, year = {2024}, month = {Jul-01-2025}, issn = {0334-5114}, doi = {10.1007/s13199-023-00968-y}, author = {Bravo, Henrique and Charlotte R. Dromard and van der Meer, Marcel T. J. and Schleimer, Anna and van der Meij, Sancia E. T.} } @article {9583, title = {First Record of Kemp{\textquoteright}s Ridley Sea Turtle, Lepidochelys kempii (Garman, 1880), in the Waters of Martinique Island (Lesser Antilles)}, journal = {Animals}, volume = {14}, year = {2024}, month = {Jan-02-2024}, pages = {596}, doi = {10.3390/ani14040596}, url = {https://www.mdpi.com/2076-2615/14/4/596https://www.mdpi.com/2076-2615/14/4/596/pdf}, author = {Chevallier, Damien and Fretey, Jacques and Lescure, Jean and Girondot, Marc} } @article {9610, title = {Freshwater and limno-terrestrial meiofauna of the Massane Forest Reserve in the Eastern French Pyrenees}, journal = {Biogeographia {\textendash} The Journal of Integrative Biogeography}, volume = {39}, year = {2024}, month = {Mar-02-2026}, issn = {1594-7629}, doi = {10.21426/B639162226}, url = {https://escholarship.org/uc/item/36v7z1xj}, author = {Majdi, Nabil and Araujo, Thiago Quintao and Bekkouche, Nicolas and Fontaneto, Diego and Garrigue, Joseph and Larrieu, Laurent and Kamburska, Lyudmila and Kieneke, Alexander and Minowa, Axell Kou and Laumer, Christopher and Sabatino, Raffaella and Sorel, Diane and Stec, Daniel and Traunspurger, Walter} } @article {9457, title = {Intraspecific genetic lineages of a marine mussel show behavioural divergence when exposed to microplastic leachates}, journal = {Environmental Pollution}, volume = {340}, year = {2024}, month = {2024}, issn = {ISSN 0269-7491}, doi = {https://doi.org/10.1016/j.envpol.2023.122779}, author = {Lorenzo Cozzolino and Nicastro, Katy R. and Hubbard, P C and Seuront, Laurent and Christopher D. McQuaid and Zardi, Gerardo I.} } @article {9525, title = {The metabolites of light: Untargeted metabolomic approaches bring new clues to understand light-driven acclimation of intertidal mudflat biofilm}, journal = {Science of The Total Environment}, volume = {912}, year = {2024}, month = {Jan-02-2024}, pages = {168692}, abstract = {The\ microphytobenthos\ (MPB), a\ microbial community\ of primary producers, play a key role in\ coastal ecosystem\ functioning, particularly in intertidal mudflats. These mudflats experience challenging variations of irradiance, forcing the micro-organisms to develop photoprotective mechanisms to survive and thrive in this dynamic environment. Two major adaptations to light are well described in literature: the excess of light\ energy dissipation\ through non-photochemical quenching (NPQ), and the vertical migration in the sediment. These mechanisms trigger considerable scientific interest, but the biological processes and metabolic mechanisms involved in light-driven vertical migration remain largely unknown. To our knowledge, this study investigates for the first time metabolomic responses of a migrational mudflat biofilm exposed for 30\ min to a light gradient of photosynthetically active radiation (PAR) from 50 to 1000\ μmol photons m-2\ s-1. The untargeted metabolomic analysis allowed to identify metabolites involved in two types of responses to light irradiance levels. On the one hand, the production of SFAs and MUFAs, primarily derived from bacteria, indicates a healthy photosynthetic state of MPB under low light (LL; 50 and 100 PAR) and medium light (ML; 250 PAR) conditions. Conversely, when exposed to high light (HL; 500, 750 and 1000 PAR), the MPB experienced light-induced stress, triggering the production of alka(e)nes and fatty alcohols. The physiological and ecological roles of these compounds are poorly described in literature. This study sheds new light on the topic, as it suggests that these compounds may play a crucial and previously unexplored role in light-induced stress\ acclimation\ of migrational MPB biofilms. Since alka(e)nes are produced from FAs\ decarboxylation, these results thus emphasize for the first time the importance of FAs pathways in microphytobenthic biofilms acclimation to light.}, issn = {00489697}, doi = {10.1016/j.scitotenv.2023.168692}, url = {https://linkinghub.elsevier.com/retrieve/pii/S0048969723073205}, author = {Caroline Doose and C{\'e}dric Hubas} } @article {9606, title = {Northeast Atlantic elasmobranch community on the move: Functional reorganization in response to climate change}, journal = {Global Change Biology}, volume = {30}, year = {2024}, month = {Jan-01-2024}, abstract = {While spatial distribution shifts have been documented in many marine fishes under global change, the responses of elasmobranchs have rarely been studied, which may have led to an underestimation of their potential additional threats. Given their irreplaceable role in ecosystems and their high extinction risk, we used a 24-year time series (1997{\textendash}2020) of scientific bottom trawl surveys to examine the effects of climate change on the spatial distribution of nine elasmobranch species within Northeast Atlantic waters. Using a hierarchical modeling of species communities, belonging to the joint species distribution models, we found that suitable habitats for four species increased on average by a factor of 1.6 and, for six species, shifted north-eastwards and/or to deeper waters over the past two decades. By integrating species traits, we showed changes in habitat suitability led to changes in the elasmobranchs trait composition. Moreover, communities shifted to deeper waters and their mean trophic level decreased. We also note an increase in the mean community size at maturity concurrent with a decrease in fecundity. Because skates and sharks are functionally unique and dangerously vulnerable to both climate change and fishing, we advocate for urgent considerations of species traits in management measures. Their use would make it better to identify species whose loss could have irreversible impacts in face of the myriad of anthropogenic threats.}, issn = {1354-1013}, doi = {10.1111/gcb.v30.110.1111/gcb.17157}, url = {https://onlinelibrary.wiley.com/toc/13652486/30/1https://onlinelibrary.wiley.com/doi/10.1111/gcb.17157https://onlinelibrary.wiley.com/doi/pdf/10.1111/gcb.17157}, author = {Coulon, No{\'e}mie and Elliott, Sophie and Teichert, Nils and Auber, Arnaud and McLean, Matthew and Barreau, Thomas and Feunteun, Eric and Carpentier, Alexandre} } @article {9536, title = {Spatial patterns and autocorrelation challenges in ecological conservation}, journal = {Peer Community in Ecology}, year = {2024}, month = {Mar-01-2024}, doi = {10.24072/pci.ecology10.24072/pci.ecology.100536}, url = {https://ecology.peercommunityin.org/}, author = {Goberville, Eric} } @article {9557, title = {Structural and functional characterization of an egg-laying hormone signaling system in a lophotrochozoan {\textendash} The pacific oyster (Crassostrea gigas)}, journal = {General and Comparative Endocrinology}, volume = {346}, year = {2024}, month = {Jan-01-2024}, pages = {114417}, issn = {00166480}, doi = {10.1016/j.ygcen.2023.114417}, url = {https://linkinghub.elsevier.com/retrieve/pii/S0016648023002228}, author = {Favrel, P. and Dubos, M.P. and Bernay, B. and Pasquier, J. and Schwartz, J. and Lefranc, B. and Mouret, L. and Guillaume Rivi{\`e}re and Leprince, J. and Bondon, A.} } @article {9551, title = {Trace element variations in mussels{\textquoteright} shells from continent to sea: The St. Lawrence system, Canada}, journal = {Marine Pollution Bulletin}, volume = {199}, year = {2024}, month = {Jan-02-2024}, pages = {116034}, abstract = {Rare Earth Elements (REE) and several trace elements abundances in mussel{\textquoteright}s shells collected along the St. Lawrence River, the Estuary, and the Gulf of St. Lawrence (EGSL) reveal coherent chemical variations, with a sharp contrast between freshwater and seawater bivalves. In freshwater mussel{\textquoteright}s shells, Rare Earth Elements and Y (REY) patterns are rather flat. Their Mn and Ba concentrations are higher than those of EGSL mussel shells, which are much richer in Sr. Shale-normalized REY abundances in mussel{\textquoteright}s shells from the EGSL show positive anomalies in La and Y and well-marked negative anomalies in Ce, reflecting those of seawater. Prince Edward Island shells show light REE depletion relative to PAAS, positive La and Y anomalies, and negative Ce anomalies. Our data confirm the lack of detectable Gd pollution in the St. Lawrence River and in the EGSL, as well as Pb pollution at the mouth of the Saguenay Fjord and near Rimouski.}, keywords = {Rare earth elements Trace elements Estuary Bivalve Shell Environmental proxy Pollution}, issn = {0025326X}, doi = {10.1016/j.marpolbul.2024.116034}, url = {https://linkinghub.elsevier.com/retrieve/pii/S0025326X24000110}, author = {Guillot, Alice and Barrat, Jean-Alix and Olivier, Fr{\'e}d{\'e}ric and Tremblay, Rejean and Saint-Louis, Richard and Rouget, Marie-Laure and Ben Salem, Douraied} } @article {9528, title = {Tracing the fate of seabird-derived nitrogen in a coral reef using nitrate and coral skeleton nitrogen isotopes}, journal = {Limnology and Oceanography}, year = {2024}, month = {Mar-01-2024}, issn = {0024-3590}, doi = {10.1002/lno.12485}, url = {https://aslopubs.onlinelibrary.wiley.com/doi/10.1002/lno.12485}, author = {Choisnard, No{\'e}mie and Duprey, Nicolas Noel and Wald, Tanja and Thibault, Martin and Houlbr{\`e}que, Fanny and Foreman, Alan D. and Cuet, Pascale and Mireille M.M. Guillaume and Vonhof, Hubert and Sigman, Daniel M. and Haug, Gerald H. and Maguer, Jean-Fran{\c c}ois and L{\textquoteright}Helguen, St{\'e}phane and Mart{\'\i}nez-Garc{\'\i}a, Alfredo and Lorrain, Anne} } @article {9333, title = {Aluminium-based galvanic anode impacts the photosynthesis of microphytobenthos and supports the bioaccumulation of metals released.}, journal = {Aquat Toxicol}, volume = {258}, year = {2023}, month = {2023 May}, pages = {106501}, abstract = {
Very few studies have looked at the potential biological effects of degradation products of galvanic anodes particularly on primary producers which are central to food webs in marine ecosystems. The galvanic anode cathodic protection system (GACP) is widely used to protect submerged metallic structures from corrosion. Aluminium (Al) and zinc (Zn) are the main constituents of galvanic anodes and are therefore released in the marine environment by oxidation process to form ions or oxy-hydroxides. The main objective of our study was to evaluate the effects of the metals released from an aluminium-based galvanic anode on microphytobenthos performance in term of biofilm growing through the analysis of photosynthetic parameters, the determination of chlorophyll and extracellular polymeric substances (EPS). The bioaccumulation of Al and Zn were measured in the microphytobenthic compartment collected at the surface of polyvinyl chloride (PVC) plates exposed during 13 days to seawaters enriched in different concentrations of metals released from dissolution of one anode. Determination of bioconcentration factors confirmed that the microphytobenthos has incorporated Al. A significative effect was observed on the Chl a concentration for the higher tested concentration ([Al]\ =\ 210.1\ {\textpm}\ 60.2\ {\textmu}g L\ \ ; [Zn]\ =\ 20.2\ {\textpm}\ 1.4\ {\textmu}g L\ \ ). The seawater exposed to the anode affected the MPB productivity (ETRII) with consequences on acclimatation light (Ek), absorption cross section of PSII (σ), F/F and NPQ. Regarding the EPS production, the anode degradation presented an impact on high and low molecular weight of both carbohydrates and protein fractions of microphytobenthos suggesting that EPS play an essential role in sequestering metal contaminants to maintain the integrity of the biological membranes and the functionality of the cellular organelles. The accumulation of Al released by GACP in microphytobenthos cells could lead to physiologic problems in photosynthetic organisms.
}, keywords = {Aluminum, Bioaccumulation, Ecosystem, Electrodes, Photosynthesis, Water Pollutants, Chemical, Zinc}, issn = {1879-1514}, doi = {10.1016/j.aquatox.2023.106501}, author = {Levallois, Alexandre and Vivier, Baptiste and Caplat, Christelle and Goux, Didier and Orvain, Francis and Lebel, Jean-Marc and Claquin, Pascal and Chasselin, L{\'e}o and Basuyaux, Olivier and Serpentini, Antoine} } @article {9290, title = {Artificial reef effectiveness changes among types as revealed by underwater hyperspectral imagery}, journal = {Restoration Ecology}, year = {2023}, month = {Dec-07-2024}, pages = {e13978}, abstract = {Artificial reefs (ARs) are designed to mimic natural habitats and promote marine life. Their effectiveness is however debatable and can depend on factors such as structural complexity and construction material. Old artificial reefs (OARs) were made of concrete mold of simple geometric shapes, limiting their ability to mimic the complexity of natural reefs. Recent advancements in three-dimentional (3D)-printing technology have enabled the creation of 3D-printed artificial reefs (3DRs) with biocompatible material and complex structures that can better simulate the natural habitats. We employed underwater hyperspectral technology to estimate the performance of these reefs and compare the benthic photosynthetic signal of natural reefs (NATs) with those of ARs (OARs and 3DRs) in coastal area of the north-western Mediterranean (France and Monaco Principality). We expected differences in reflectance signals between OARs and NATs, and signals closer to NATs in 3DRs than OARs. Underwater hyperspectral technology was able to detect higher chlorophyll-a\ derived signals on NATs than OARs. Moreover, the magnitude of differences between 3DRs and NATs was smaller than that between OARs and NATs. Although ARs were not capable of mimicking natural reefs, the use of 3D-printed ARs might ameliorate their effectiveness for coastal reconciliation.}, issn = {1061-2971}, doi = {10.1111/rec.13978}, url = {https://onlinelibrary.wiley.com/doi/10.1111/rec.13978}, author = {Elisabeth Riera and C{\'e}dric Hubas and Ungermann, Mischa and Rigot, Guy and Pey, Alexis and Patrice Francour and Rossi, Fracesca} } @article {9026, title = {Assessing the impacts of anthropogenic sounds on early stages of benthic invertebrates: The {\textquoteright}Larvosonic system{\textquoteright}.}, journal = {Limnology and Oceanography: Methods}, year = {2023}, month = {Mar-12-2023}, abstract = {Noise produced by human activities has increased in the oceans over the last decades. Whereas most studies have focused on the impact of anthropogenic noise on marine mammals and fishes, those focusing on marine invertebrates\ are\ rarer\ and\ more\ recent,\ especially\ when\ considering\ peri-metamorphic\ benthic\ stages,\ highly sensitive to\ anthropogenic perturbations. A\ careful review\ of the literature reveals\ a\ simplistic characterization of the acoustics within the containers used to quantify larval and juvenile responses to noise, thus weakening the conclusions of such works. To address this problem, we developed the Larvosonic system, a laboratory tank equipped\ with\ acoustic assets\ to\ assess\ the\ impacts\ of\ noise\ on\ young\ stages\ of\ marine\ invertebrates.\ We\ first provide\ a\ careful\ analysis\ of\ the\ tank\ sound\ field\ using\ different\ sound types,\ and\ we\ assess\ the\ effects\ of expanded polystyrene units on the sounds emitted by a professional audio system in order to dampen reverbera- tion\ and\ resonance. Then,\ we\ apply\ this\ acoustic\ calibration\ to\ the\ effects\ of\ both\ pile\ driving\ and\ drilling noises on postlarvae of the scallop bivalve Pecten maximus. Acoustic recordings highlight that diffuser and bass trap\ components\ constitute\ effective\ underwater\ sound\ absorbents,\ reducing\ the\ reflection\ of\ the\ whole\ fre- quency bandwidth. Scallop experiments reveal that both type and level of the tested noise influenced postlarval growth,\ with\ interactive\ effects\ between\ trophic\ environment\ and\ noise\ level/spectra. The\ Larvosonic\ system thus constitutes an efficient tool for bioacoustics research on bentho-planktonic invertebrate species."The egg-laying hormones (ELHs) of gastropod mollusks were characterized more than forty years ago. Yet, they have remained little explored in other mollusks. To gain insights into the functionality of the ELH signaling system in a bivalve mollusk - the oyster Crassostrea gigas, this study investigates the processing of its ELH precursor (Cragi-ELH) by mass spectrometry. Some of the ELH mature peptides identified in this study were subsequently investigated by nuclear magnetic resonance and shown to adopt an extended alpha-helix structure in a micellar medium mimicking the plasma membrane. To further characterize the ELH signaling system in C. gigas, a G protein-coupled receptor phylogenetically related to ecdysozoan diuretic hormone DH44 and corticotropin-releasing hormone (CRH) receptors named Cragi-ELHR was also characterized functionally and shown to be specifically activated by the two predicted mature ELH peptides and their N-terminal fragments. Both Cragi-ELH and Cragi-ELHR encoding genes were mostly expressed in the visceral ganglia (VG). Cragi-ELH expression was significantly increased in the VG of both fully mature male and female oysters at the spawning stage. When the oysters were submitted to a nutritional or hyposaline stress, no change in the expression of the ligand or receptor genes was recorded, except for Cragi-ELHR only during a mild acclimation episode to brackish water. These results suggest a role of Cragi-ELH signaling in the regulation of reproduction but not in mediating the stress response in our experimental conditions.
}, issn = {1095-6840}, doi = {10.1016/j.ygcen.2023.114417}, author = {Favrel, P and Dubos, M P and Bernay, B and Pasquier, J and Schwartz, J and Lefranc, B and Mouret, L and Rivi{\`e}re, G and Leprince, J and Bondon, A} } @article {9467, title = {Structure of planktonic food web in the Gulf of Gab{\`e}s (Southeastern Mediterranean): potential importance of heterotrophic and mixotrophic microzooplankton}, journal = {Aquatic Sciences}, volume = {85}, year = {2023}, month = {Jan-04-2023}, issn = {1015-1621}, doi = {10.1007/s00027-023-00954-y}, url = {https://link.springer.com/10.1007/s00027-023-00954-y}, author = {Mejri Kousri, Kaouther and Belaaj Zouari, Amel and Meddeb, Marouan and Chkili, Oumayma and Nathalie Niquil and Tedetti, Marc and Pagano, Marc and Sammari, Cherif and Khammeri, Yosra and Bel Hassen, Malika and Sakka Hlaili, Asma} } @article {9463, title = {Symbiont-induced phenotypic variation in an ecosystem engineer mediates thermal stress for the associated community}, journal = {Journal of Thermal Biology}, volume = {112}, year = {2023}, month = {2023}, issn = {0306-4565}, doi = {https://doi.org/10.1016/j.jtherbio.2022.103428}, author = {Zardi, Gerardo I. and Seuront, Laurent and Christopher D. McQuaid and Pierre William Froneman and Nicastro, Katy R.} } @article {9064, title = {Temporal pesticide dynamics alter specific eukaryotic taxa in a coastal transition zone}, journal = {Science of The Total Environment}, volume = {866}, year = {2023}, month = {Jan-03-2023}, pages = {161205}, issn = {00489697}, doi = {10.1016/j.scitotenv.2022.161205}, url = {https://linkinghub.elsevier.com/retrieve/pii/S0048969722083097}, author = {Herv{\'e}, Vincent and Sabatier, Pierre and Lambourdi{\`e}re, Josie and Poulenard, J{\'e}r{\^o}me and Pascal Jean Lopez} } @article {9274, title = {Threatened fish species in the Northeast Atlantic are functionally rare}, journal = {Global Ecology and Biogeography}, year = {2023}, month = {Dec-07-2023}, abstract = {The criteria used to define the International Union for Conservation of Nature (IUCN) Red List categories are essentially based on demographic parameters at the species level, but they do not integrate species{\textquoteright} traits or their roles in ecosystems. Consequently, current IUCN-based protection measures may not be sufficient to conserve ecosystem functioning and services. Some species may have a singular combination of traits associated with unique functions. Such functionally distinct species are increasingly recognized as a key facet of biodiversity since they are, by definition, functionally irreplaceable. The aim of this study is to investigate whether threatened species are also functionally rare and to identify which traits determine extinction risk.}, issn = {1466-822X}, doi = {10.1111/geb.13731}, author = {Coulon, No{\'e}mie and Lindegren, Martin and Goberville, Eric and Toussaint, Aur{\`e}le and Receveur, Aurore and Arnaud Auber} } @article {9322, title = {Trace elements in bivalve shells: How {\textquotedblleft}vital effects{\textquotedblright} can bias environmental studies}, journal = {Chemical Geology}, year = {2023}, month = {Jan-08-2023}, pages = {121695}, abstract = {We report on the concentrations of rare earths (REE), Y, Mg, Mn, Cu, Zn, Sr, Ba, Pb and U in a series of wild scallops (Placopecten magellanicus) collected alive on the same day in Saint Pierre et Miquelon (a French archipelago located south of Newfoundland) and ranging in age from 2 to about 20 years. We analyzed representative fragments from the entire last annual shell growth increment of each animal to assess changes in trace element incorporation with age. No correlation with the age of the animals was obtained for Sr and Mn concentrations, which are quite variable from one individual to another, even of similar age. On the other hand, for REE, Y, Cu, Zn, Ba and U, the concentrations measured in the last annual growth increment formed by animals aged 2 to 7 years are similar. From 8 years of age, the concentrations of these elements increased very strongly (for example for Yb, almost by an order of magnitude between 8 and 20 years of age), and possibly with some variation between individuals of the same age. Two elements show a different behavior: Mg concentrations in the shell margins increase continuously with the age of the animals; Pb concentrations are scattered but seem to decrease with the age of the animals.This turning point in the behavior of the elements from 8 years of age coincides with major metabolic changes, since at this age wild P. magellanicus from Newfoundland reduce their growth, in favor of gamete production. Our results demonstrate that metabolic activity of the animals largely controls the incorporation of many trace elements into the shells. These results demonstrate that the age of the animals must be taken into account when their shells are used to study pollution or (paleo)}, issn = {00092541}, doi = {10.1016/j.chemgeo.2023.121695}, url = {https://linkinghub.elsevier.com/retrieve/pii/S0009254123003959}, author = {Barrat, Jean-Alix and Chauvaud, Laurent and Olivier, Fr{\'e}d{\'e}ric and Poitevin, Pierre and Rouget, Marie-Laure} } @article {9461, title = {Transcriptome wide analyses reveal intraspecific diversity in thermal stress responses of a dominant habitat-forming species}, journal = {Scientific Reports}, volume = {13}, year = {2023}, month = {2023}, doi = {https://doi.org/10.1038/s41598-023-32654-w}, author = {Nicastro, Katy R. and Pearson, G.A. and Ramos, X. and Vasco Pearson and Christopher Mc Quaid and Zardi, Gerardo I.} } @article {9126, title = {Unmasking pipefish otolith using synchrotron-based scanning X-ray fluorescenceAbstract}, journal = {Scientific Reports}, volume = {13}, year = {2023}, month = {Jan-12-2023}, doi = {10.1038/s41598-023-31798-z}, url = {https://www.nature.com/articles/s41598-023-31798-z}, author = {Ha{\"y}, Vincent and Berland, Sophie and Medjoubi, Kadda and Somogyi, Andrea and Mennesson, Marion I. and Keith, Philippe and Lord, Clara} } @article {9299, title = {Unmasking pipefish otolith using synchrotron-based scanning X-ray fluorescenceAbstract}, journal = {Scientific Reports}, volume = {13}, year = {2023}, month = {Jan-12-2023}, doi = {10.1038/s41598-023-31798-z}, url = {https://www.nature.com/articles/s41598-023-31798-z}, author = {Ha{\"y}, Vincent and Berland, Sophie and Medjoubi, Kadda and Somogyi, Andrea and Mennesson, Marion I. and Philippe Keith and Lord, Clara} } @article {9407, title = {Updated Checklist of the Freshwater Shrimps (Decapoda: Caridea: Atyidae) of Mindoro Island, the Philippines, with a Description of a New Species of Caridina}, journal = {Arthropoda}, volume = {1}, year = {2023}, month = {Jan-12-2023}, pages = {374 - 397}, doi = {10.3390/arthropoda1040015}, url = {https://www.mdpi.com/2813-3323/1/4/15}, author = {de Mazancourt, Valentin and Freitag, Hendrik and von Rintelen, Kristina and Manuel-Santos, Marivene and von Rintelen, Thomas} } @article {9465, title = {The usefulness of food web models in the ecosystem services framework: Quantifying, mapping, and linking services supply}, journal = {Ecosystem Services}, volume = {63}, year = {2023}, month = {Jan-10-2023}, pages = {101550}, issn = {22120416}, doi = {10.1016/j.ecoser.2023.101550}, url = {https://linkinghub.elsevier.com/retrieve/pii/S2212041623000438}, author = {Nogues, Quentin and Baulaz, Yoann and Clavel, Joanne and Araignous, Emma and Bourdaud, Pierre and Ben Rais Lasram, Frida and Dauvin, Jean-Claude and Girardin, Valerie and Halouani, Ghassen and Le Loc{\textquoteright}h, Francois and Loew-Turbout, Fr{\'e}d{\'e}rique and Raoux, Aurore and Nathalie Niquil} } @article {9118, title = {What are the toxicity thresholds of chemical pollutants for tropical reef-building corals? A systematic review}, journal = {Environmental Evidence}, volume = {12}, year = {2023}, month = {Jan-12-2023}, doi = {10.1186/s13750-023-00298-y}, url = {https://environmentalevidencejournal.biomedcentral.com/articles/10.1186/s13750-023-00298-y}, author = {Ou{\'e}draogo, Dakis-Yaoba and Mell, Hugo and Perceval, Olivier and Burga, Karen and Domart-Coulon, Isabelle and H{\'e}douin, Laetitia and Delaunay, Mathilde and Mireille M.M. Guillaume and Castelin, Magalie and Calvayrac, Christophe and Kerkhof, Odile and Sordello, Romain and Reyjol, Yorick and Ferrier-Pages, Christine} } @article {9301, title = {Why several when one can unite them all? Integrative taxonomic revision of Indo-Pacific freshwater pipefish (Nerophinae)Abstract}, journal = {Zoological Journal of the Linnean Society}, year = {2023}, month = {May-06-2023}, issn = {0024-4082}, doi = {10.1093/zoolinnean/zlad007}, url = {https://academic.oup.com/zoolinnean/advance-article/doi/10.1093/zoolinnean/zlad007/7190493}, author = {Vincent Ha{\"y} and Marion Mennesson and Clara Lord and Philippe Keith} } @article {9182, title = {Additional records of Sicyopus discordipinnis (Watson, 1995) (Oxudercidae: Sicydiinae) in Central Sulawesi, Indonesia.}, journal = {Cybium}, volume = {46}, year = {2022}, month = {02/2022}, pages = {41-43}, author = {Nurjirana and Burhanuddin, A I and Philippe Keith and Haris, A} } @article {8885, title = {Analysing economic costs of invasive alien species with the invacost R package}, journal = {Methods in Ecology and Evolution}, volume = {13}, year = {2022}, month = {Jan-09-2022}, pages = {1930 - 1937}, issn = {2041-210X}, doi = {10.1111/mee3.v13.910.1111/2041-210X.13929}, url = {https://doi.org/10.1111/2041-210X.13929}, author = {Leroy, Boris and Kramer, Andrew M. and Vaissi{\`e}re, Anne-Charlotte and Kourantidou, Melina and Courchamp, Franck and Diagne, Christophe} } @article {9006, title = {Anthropogenic Contaminants Shape the Fitness of the Endangered European Eel: A Machine Learning Approach}, journal = {Fishes}, volume = {7}, year = {2022}, month = {Jan-10-2022}, pages = {274}, abstract = {European eel is thought to be a symbol of the effects of global change on aquatic biodiversity. The species has persisted for millions of years and faced drastic environmental fluctuations thanks to its phenotypic plasticity. However, the species has recently declined to historically low levels under synergistic human pressures. Sublethal chemical contamination has been shown to alter reproductive capacity, but the impacts and required actions are not fully addressed by conservation plans. This paper proposes a modelling approach to quantify the effects of sublethal contamination by anthropogenic pollutants on the expression of life history traits and related fitness of the critically endangered European eel.\ Material and Methods: We sampled female silver eels from eight different catchments across Europe previously shown to be representative of the spectrum of environmental variability and contamination. We measured 11 fitness-related life history traits within four main categories: fecundity, adaptability and plasticity, migratory readiness, and spawning potential. We used machine learning in models to explore the phenotypic reaction (expression of these life history traits) according to geographical parameters, parasite burdens (the introduced nematode\ Anguillicoloides crassus) and anthropogenic contaminants (persistent organic pollutants (POPs) in muscular tissue and trace elements (TEs) in gonads, livers and muscles). Finally, we simulated, the effects of two management scenarios{\textemdash}contamination reduction and contamination increase{\textemdash}on the fecundity and recruitment.\ Results: Contamination in our sampling was shown to have a stronger control on life history traits than do geographic and environmental factors that are currently described in the literature. We modelled different contamination scenarios to assess the benefit of mitigation: these scenarios suggest that reducing pollutants concentrations to the lowest values that occurred in our sampling design would double the fecundity of eels compared to the current situation.\ Discussion: Remediation of contamination could represent a viable management option for increasing the resilience of eel populations, with much more effects than solely reducing fishing mortality. More broadly, our work provides an innovative way for quantitative assessment of the reaction norms of species{\textquoteright} biological traits and related fecundity to contamination by organic and inorganic pollutions thus opening new management and conservation pathways to revert the erosion of biodiversity.}, doi = {10.3390/fishes7050274}, url = {https://www.mdpi.com/2410-3888/7/5/274}, author = {Bourillon, Bastien and Feunteun, Eric and Acou, Anthony and Trancart, Thomas and Teichert, Nils and Belpaire, Claude and Dufour, Sylvie and Bustamante, Paco and Aarestrup, Kim and Walker, Alan and Righton, David} } @article {9069, title = {Arsenic and chlordecone contamination and decontamination toxicokinetics in Sargassum sp.}, journal = {Environmental Science and Pollution Research}, volume = {29}, year = {2022}, month = {Jan-01-2022}, pages = {6 - 16}, issn = {0944-1344}, doi = {10.1007/s11356-020-12127-7}, url = {https://link.springer.com/10.1007/s11356-020-12127-7}, author = {Devault, Damien A. and Massat, F{\'e}lix and Baylet, Alexandre and Dolique, Franck and Pascal Jean Lopez} } @article {8832, title = {Assessing the state of marine biodiversity in the Northeast Atlantic}, journal = {Ecological Indicators}, volume = {141}, year = {2022}, month = {Jan-08-2022}, pages = {109148}, issn = {1470160X}, doi = {10.1016/j.ecolind.2022.109148}, url = {https://linkinghub.elsevier.com/retrieve/pii/S1470160X22006203}, author = {McQuatters-Gollop, A. and Gu{\'e}rin, L. and Arroyo, N.L. and Aubert, A. and Artigas, L.F. and Bedford, J. and Corcoran, E. and Dierschke, V. and Elliott, S.A.M. and Geelhoed, S.C.V. and Gilles, A. and Gonz{\'a}lez-Irusta, J.M. and Haelters, J. and Johansen, M. and Le Loc{\textquoteright}h, F. and Lynam, C.P. and Nathalie Niquil and Meakins, B. and Mitchell, I. and Padegimas, B. and Pesch, R. and Preciado, I. and Rombouts, I. and Safi, G. and Schmitt, P. and Sch{\"u}ckel, U. and Serrano, A. and Stebbing, P. and De la Torriente, A. and Vina-Herbon, C.} } @article {8759, title = {Bi-decadal changes in nutrient concentrations and ratios in marine coastal ecosystems: The case of the Arcachon bay, France}, journal = {Progress in Oceanography}, volume = {201}, year = {2022}, month = {Jan-02-2022}, pages = {102740}, issn = {00796611}, doi = {10.1016/j.pocean.2022.102740}, url = {https://linkinghub.elsevier.com/retrieve/pii/S0079661122000027}, author = {Lheureux, A. and David, V. and Del Amo, Y. and Soudant, D. and Auby, I. and Ganthy, F. and Blanchet, H. and Cordier, M-A. and Costes, L. and Ferreira, S. and Mornet, L. and Nowaczyk, A. and Parra, M. and D{\textquoteright}Amico, F. and Gouriou, L. and Meteigner, C. and Oger-Jeanneret, H. and Rigouin, L. and Rumebe, M. and Tournaire, M-P. and Trut, F. and Trut, G. and Savoye, N.} } @article {8642, title = {Big data approaches to the spatial ecology and conservation of marine megafauna}, journal = {ICES Journal of Marine Science}, year = {2022}, month = {Jul-04-2022}, issn = {1054-3139}, doi = {10.1093/icesjms/fsac059}, url = {https://academic.oup.com/icesjms/advance-article/doi/10.1093/icesjms/fsac059/6564869}, author = {Gr{\'e}millet, David and Chevallier, Damien and Guinet, Christophe} } @article {8804, title = {Biologging of emperor penguins {\textendash} attachment techniques and associated deployment performance}, journal = {PLoS ONE}, year = {2022}, doi = {10.1101/2021.06.08.446548}, url = {https://hal.archives-ouvertes.fr/hal-03409952}, author = {Houstin, Aymeric and Zitterbart, Daniel and Winterl, Alexander and Richter, Sebastian and Planas-Bielsa, V{\'\i}ctor and Chevallier, Damien and Ancel, Andr{\'e} and Fournier, J{\'e}r{\^o}me and Fabry, Ben and Le Bohec, C{\'e}line} } @article {8692, title = {Can~artificial~magnetic~fields~alter the~functional~role~of~the blue mussel, Mytilus edulis?}, journal = {Marine Biology}, volume = {169}, year = {2022}, month = {Jan-06-2022}, abstract = {Along European coasts, the rapid expansion of marine renewable energy devices and their buried power cables, raises major societal concerns regarding the potential effects of their magnetic field emissions (MFs) on marine species and ecosystem functioning. MFs occur at a local spatial scale, which makes sessile species the primary target of chronic and high-intensity exposures. Some of them, as ecosystem engineers, have critical functions in coastal habitats whose behavioral alteration may drive profound consequences at the ecosystem level. In this context, the present experimental study explored the effects of short exposure to direct current MFs, on the feeding behavior of a widespread ecosystem engineer, the blue mussel (Mytilus edulis). A repeated measure design was carried out with adult mussels successively exposed to control treatment (ambient magnetic field of 47 μT) and artificial MF treatment (direct current of 300 μT produced by Helmholtz coils), as measured around power cables. The filtration activity was assessed through valve gap monitoring using an automated image analysis system. The clearance rate was estimated simultaneously by measuring the decrease in algal concentration using flow cytometry. Our findings revealed that mussels placed in MF treatment did not exhibit observable differences in valve activity and filtration rate, thus suggesting that, at such an intensity, artificial MFs do not significantly impair their feeding behavior. However, additional research is required to investigate the sensitivity of other life stages, the effects of mid to long-term exposure to alternative and direct current fields and to test various MF intensities.}, keywords = {Coastal environments, Ecosystem engineers, Filter-feeders, Magnetic fields, Mytilus edulis, Submarine power cables}, issn = {0025-3162}, doi = {10.1007/s00227-022-04065-4}, url = {https://link.springer.com/10.1007/s00227-022-04065-4}, author = {Albert, Luana and Maire, Olivier and Fr{\'e}d{\'e}ric Olivier and Lambert, Christophe and Romero-Ramirez, Alicia and Jolivet, Aur{\'e}lie and Chauvaud, Laurent and Chauvaud, Sylvain} } @article {8409, title = {Carbon dynamics driven by seawater recirculation and groundwater discharge along a forest-dune-beach continuum of a high-energy meso-macro-tidal sandy coast}, journal = {Geochimica et Cosmochimica Acta}, volume = {317}, year = {2022}, month = {Jan-01-2022}, pages = {18 - 38}, issn = {00167037}, doi = {10.1016/j.gca.2021.10.021}, url = {https://linkinghub.elsevier.com/retrieve/pii/S0016703721006244}, author = {Charbonnier, C{\'e}line and Anschutz, Pierre and Gwena{\"e}l Abril and Mucci, Alfonso and Deirmendjian, Loris and Poirier, Dominique and Bujan, St{\'e}phane and Lecroart, Pascal} } @article {9362, title = {Careful amendment of morphological data sets improves phylogenetic frameworks: re-evaluating placement of the fossil Amiskwia sagittiformis}, journal = {Journal of Systematic Palaeontology}, volume = {20}, year = {2022}, month = {Jul-12-2024}, pages = {1 - 14}, issn = {1477-2019}, doi = {10.1080/14772019.2022.2109217}, url = {https://www.tandfonline.com/doi/full/10.1080/14772019.2022.2109217}, author = {Bekkouche, Nicolas and G{\k a}siorowski, Ludwik} } @article {8991, title = {Cephalopod palaeobiology: evolution and life history of the most intelligent invertebratesAbstract}, journal = {Swiss Journal of Palaeontology}, volume = {141}, year = {2022}, month = {Jan-12-2022}, issn = {1664-2376}, doi = {10.1186/s13358-022-00247-1}, url = {https://sjpp.springeropen.com/articles/10.1186/s13358-022-00247-1}, author = {Klug, Christian and Laure Bonnaud-Ponticelli and Nabhitabhata, Jaruwat and Fuchs, Dirk and De Baets, Kenneth and Cheng, Ji and Hoffmann, Ren{\'e}} } @book {8753, title = {Chapter 6 - Fishes and Estuarine Environmental Health}, year = {2022}, pages = {332 - 379}, publisher = {Wiley}, organization = {Wiley}, edition = {1}, abstract = {This chapter addresses the use of fish as indicators of environmental health. The main anthropogenic pressures impacting estuarine fishes are reviewed, as well as the main types of responses by fishes at different levels of biological organisation. Fishes have been widely used to assess estuarine health through different methodological approaches, namely comparisons with historical data or reference conditions, experimental approaches, environmental impact or risk assessment methods, as well as qualitative or quantitative indicators and models. A large number of multi-metric indices based on fish have been proposed and are routinely used in environmental assessments, although to disentangle natural variability from anthropogenic pressures in a multi-stress context of global change is still a major challenge.}, isbn = {9781444336672}, doi = {10.1002/978111970534510.1002/9781119705345.ch6}, url = {https://onlinelibrary.wiley.com/doi/book/10.1002/9781119705345}, author = {Cabral, Henrique N. and Borja, Angel and Fonseca, Vanessa F. and Harrison, Trevor D. and Teichert, Nils and Lepage, Mario and Leal, Miguel C.}, editor = {Whitfield, Alan K. and Able, Kenneth W. and Blaber, Stephen J.M. and Elliott, Michael} } @article {8781, title = {Characterisation of long-term evolution (1950{\textendash}2016) and vulnerability of Mayotte{\textquoteright}s shoreline using aerial photographs and a multidisciplinary vulnerability index}, journal = {Regional Studies in Marine Science}, volume = {55}, year = {2022}, month = {Jan-09-2022}, pages = {102537}, issn = {23524855}, doi = {10.1016/j.rsma.2022.102537}, url = {https://linkinghub.elsevier.com/retrieve/pii/S2352485522001918}, author = {Courteille, Marine and Jeanson, Matthieu and Collin, Antoine and James, Doroth{\'e}e and Claverie, Thomas and Charpentier, Michel and Gairin, Emma and Ren{\'e}-Trouillefou, Malika and Giraud-Renard, El{\'e}a and Franck Dolique and Lecchini, David} } @article {8534, title = {Chlordecone-contaminated epilithic biofilms show increased adsorption capacities}, journal = {Science of The Total Environment}, volume = {825}, year = {2022}, month = {Jan-06-2022}, pages = {153942}, issn = {00489697}, doi = {10.1016/j.scitotenv.2022.153942}, url = {https://linkinghub.elsevier.com/retrieve/pii/S0048969722010348}, author = {C{\'e}dric Hubas and Monti, Dominique and Jean-Michel Mortillaro and Augagneur, Sylvie and Carbon, Anne and Duran, Robert and Karama, Solange and Tarik Meziane and Pardon, Patrick and Risser, Th{\'e}o and Tapie, Nathalie and Najet Thiney and Budzinski, H{\'e}l{\`e}ne and Lauga, B{\'e}atrice} } @article {8649, title = {Classification of underwater photogrammetry data for temperate benthic rocky reef mapping}, journal = {Estuarine, Coastal and Shelf Science}, volume = {270}, year = {2022}, month = {Jan-06-2022}, pages = {107833}, issn = {02727714}, doi = {10.1016/j.ecss.2022.107833}, url = {https://linkinghub.elsevier.com/retrieve/pii/S0272771422000920}, author = {Ternon, Q. and Danet, V. and Thiriet, P. and Ysnel, F. and Eric Feunteun and Collin, A.} } @article {8121, title = {Climate change influences chlorophylls and bacteriochlorophylls metabolism in hypersaline microbial mat}, journal = {Science of The Total Environment}, volume = {802}, year = {2022}, month = {Jan-01-2022}, pages = {149787}, issn = {00489697}, doi = {10.1016/j.scitotenv.2021.149787}, url = {https://linkinghub.elsevier.com/retrieve/pii/S0048969721048622}, author = {Mazi{\`e}re, C. and Bodo, M. and Perdrau, M.A. and Cravo-Laureau, C. and Duran, Robert and Christine Dupuy and C{\'e}dric Hubas} } @inbook {9390, title = {CO2 and CH4 emissions from coastal wetland soils}, booktitle = {Carbon Mineralization in Coastal Wetlands}, year = {2022}, pages = {55{\textendash}91}, publisher = {Elsevier}, organization = {Elsevier}, isbn = {978-0-12-819220-7}, doi = {10.1016/B978-0-12-819220-7.00006-6}, url = {https://linkinghub.elsevier.com/retrieve/pii/B9780128192207000066}, author = {Marchand, Cyril and Frank David and Jacotot, Adrien and Leopold, Audrey and Ouyang, Xiaoguang} } @article {8644, title = {Coastal ocean acidification in Brazil: a brief overview and perspectives}, journal = {Arquivos de Ci{\^e}ncias do Mar}, volume = {55}, year = {2022}, month = {Sep-03-2023}, pages = {345 - 368}, issn = {0374-5686}, doi = {10.32360/acmar.v55iEspecial10.32360/acmar.v55iEspecial.78514}, url = {http://periodicos.ufc.br/arquivosdecienciadomar/issue/view/1159}, author = {Cotovicz Jr., Luiz C and Valente Marins, Rozane and Gwena{\"e}l Abril} } @article {8478, title = {Colimitation assessment of phytoplankton growth using a resource use efficiency approach in the Bay of Seine (French-English Channel)}, journal = {Journal of Environmental Management}, volume = {306}, year = {2022}, month = {Jan-03-2022}, pages = {114487}, issn = {03014797}, doi = {10.1016/j.jenvman.2022.114487}, url = {https://linkinghub.elsevier.com/retrieve/pii/S0301479722000603}, author = {Serre-Fredj, L{\'e}on and Chasselin, L{\'e}o and Jolly, Orianne and Jacqueline, Franck and Pascal Claquin} } @article {8735, title = {Colonisation of artificial structures by primary producers: competition and photosynthetic behaviour}, journal = {Biofouling}, year = {2022}, month = {Apr-06-2023}, pages = {1 - 14}, issn = {0892-7014}, doi = {10.1080/08927014.2022.2088285}, url = {https://www.tandfonline.com/doi/full/10.1080/08927014.2022.2088285}, author = {Vivier, Baptiste and Navon, Maxime and Dauvin, Jean-Claude and Chasselin, L{\'e}o and Deloor, Ma{\"e}l and Orvain, Francis and Rusig, Anne-Marie and Mussio, Isabelle and Boutouil, Mohamed and Pascal Claquin} } @article {8845, title = {Contrasting organic matter composition in pristine and eutrophicated mangroves revealed by fatty acids and stable isotopes (Rio de Janeiro, Brazil)}, journal = {Estuarine, Coastal and Shelf Science}, year = {2022}, month = {Jan-09-2022}, pages = {108061}, abstract = {Mangrove sediments have a high capacity of carbon storage, as the result of larger organic matter (OM) inputs from mangrove trees (litter fall and fine roots production) than OM microbial degradation and export to coastal waters. Mangrove sediments also act as traps for suspended matter and particulate OM (POM) from surrounding water masses. Fatty acids (FAs) markers, δ13C and δ15N signatures were used here to characterize the OM composition in three mangroves located in three coastal embayments of the Rio de Janeiro state (Brazil) with increasing urbanization from a pristine mangrove M1 to a moderately impacted mangrove M2 and a highly impacted mangrove M3. In these mangroves, the δ15N signature of tree leaves and sediments increases with anthropogenic influence, consistent with a large-scale eutrophication gradient along the three regions. At mangrove M1, predominant OM inputs from mangrove trees are highlighted by high proportions of long-chain fatty acids, particularly in the inland station, where high organic carbon concentrations (126\ {\textpm}\ 108\ mg\ g-1) indicate limited sedimentation of mineral particles and high carbon storage capacities. The sedimentary OM of M3 mangrove was more labile as confirmed by the higher proportions of algal fatty acids, enriched δ13C signature and the C/N ratio 1.6 times lower (p\ \<\ 0.001) than in the pristine mangrove M1. At the M2 mangrove site, high contribution of bacterial FAs (around 20\%) to sedimentary OM and high proportion of poorly biodegradable saturated fatty acids suggest that bacteria degrade algal labile OM in surface sediments but do not mineralize the most refractory fraction of OM. At the eutrophic M3 site, our findings suggest that deposition of labile POM induced an increase of fungal biomass on the sediment, apparently enhancing the microbial loop, and potentially leading to mineralization of refractory OM and carbon losses through a priming effect.}, issn = {02727714}, doi = {10.1016/j.ecss.2022.108061}, url = {https://linkinghub.elsevier.com/retrieve/pii/S0272771422003195}, author = {Chynel, Mathias and Rockomanovic, Sofia and Gwena{\"e}l Abril and Barroso, Glenda and Marotta, Humberto and Machado, Wilson and Sanders, Christian J. and Najet Thiney and Tarik Meziane} } @article {8944, title = {Detection of the protistan parasite, Haplosporidium costale in Crassostrea gigas oysters from the French coast: A retrospective study}, journal = {Journal of Invertebrate Pathology}, volume = {195}, year = {2022}, month = {Oct-17-2022}, pages = {107831}, issn = {00222011}, doi = {10.1016/j.jip.2022.107831}, url = {https://linkinghub.elsevier.com/retrieve/pii/S0022201122001161}, author = {Cherif--Feildel, Ma{\"e}va and Lagy, Coralie and Quesnelle, Yann and Bouras, H{\'e}l{\`e}ne and Trancart, Suzanne and Maryline Houssin} } @article {8955, title = {Dynamic evolution of transient receptor potential vanilloid (TRPV) ion channel family with numerous gene duplications and losses}, journal = {Frontiers in Endocrinology}, volume = {13}, year = {2022}, month = {Jan-11-2022}, doi = {10.3389/fendo.2022.1013868}, url = {https://www.frontiersin.org/articles/10.3389/fendo.2022.1013868/full}, author = {Morini, Marina and Bergqvist, Christina A. and Asturiano, Juan F. and Larhammar, Dan and Sylvie Dufour} } @article {8881, title = {Effects of chronic exposure of metals released from the dissolution of an aluminium galvanic anode on the Pacific oyster Crassostrea gigas}, journal = {Aquatic Toxicology}, volume = {Volume 249}, year = {2022}, abstract = {Among the anthropogenic sources releasing metallic species into the marine environment, the galvanic anode cathodic protection system (GACP) is widely used to protect submerged metallic structures from corrosion. Galvanic anodes are an alloy of metals of which the main component is aluminum or zinc. Very few studies were performed to study their potential biological effects. We investigated the chronic toxicity of an aluminum-based galvanic anode on the Pacific oyster, Crassostrea gigas. Oysters were exposed for 84 days to three concentrations of aluminum (50, 100 and 300 {\textmu}g L-1) obtained with an electrochemical experimental device simulating the dissolution of a galvanic anode. At different exposure times, we studied a battery of biomarkers of the immune system, reproductive parameters and the metabolic state of the oysters. Results demonstrated a sensitivity of oysters at the highest concentration and some biological effects were observed especially for the malondialdehyde content in the digestive gland after 84 days of exposure. In addition to these biomarkers, the bioaccumulation of the different metals composing the anode was measured in oysters{\textquoteright} tissues. Bivalves bioaccumulated more zinc than aluminum, even if aluminium was present in greater concentrations during exposures. Moreover, exposure time did not influence the bioaccumulation of aluminum in contrast to zinc.}, keywords = {aluminium, Bioaccumulation, Biological effects, Crassostrea gigas, galvanic anode, Oyster}, doi = {https://doi.org/10.1016/j.aquatox.2022.106223}, author = {Alexandre Levallois and Christelle Caplat and Olivier Basuyaux and Jean-Marc Lebel and Antoine Laisney and Katherine Costil and Antoine Serpentini} } @article {8530, title = {Estimation of the Maternal Investment of Sea Turtles by Automatic Identification of Nesting Behavior and Number of Eggs Laid from a Tri-Axial Accelerometer}, journal = {Animals}, volume = {12}, year = {2022}, month = {Jan-02-2022}, pages = {520}, doi = {10.3390/ani12040520}, url = {https://www.mdpi.com/2076-2615/12/4/520}, author = {Jeantet, Lor{\`e}ne and Hadetskyi, Vadym and Vigon, Vincent and Korysko, Fran{\c c}ois and Paranthoen, Nicolas and Chevallier, Damien} } @article {9003, title = {European flounder foraging movements in an estuarine nursery seascape inferred from otolith microchemistry and stable isotopes}, journal = {Marine Environmental Research}, volume = {182}, year = {2022}, month = {Jan-12-2022}, pages = {105797}, abstract = {Despite the importance of estuarine nurseries in the regulation of many fish stocks, temporal and spatial movements and habitat use patterns of juvenile fish remain poorly understood. Overall, combining several movement metrics allowed us to characterize dispersal patterns of juvenile flounder,\ Platichthys flesus,\ along an estuarine seascape. Specifically, we investigated otolith microchemistry signatures (Sr:Ca and Ba:Ca ratios) and stable isotope ratios (δ13C and δ15N) in muscles of these juveniles, during three consecutive years to assess inter-annual fluctuations in their home range and isotopic niches. The morphological condition and lipid content of individuals were lower in years of high as compared to low dispersal along the estuarine gradient. We discuss these results in relation to the ecosystem productivity and intra- and inter-specific competition level, which in turn affects movements and foraging behaviors of juvenile flounders.}, issn = {01411136}, doi = {10.1016/j.marenvres.2022.105797}, url = {https://linkinghub.elsevier.com/retrieve/pii/S0141113622002422}, author = {Teichert, Nils and Liz{\'e}, Anne and Tabouret, H{\'e}l{\`e}ne and Roussel, Jean-Marc and Bareille, Gilles and Trancart, Thomas and Acou, Anthony and Virag, Laure-Sarah and Pecheyran, Christophe and Alexandre Carpentier and Feunteun, Eric} } @book {9059, title = {European Spatial Data for Coastal and Marine Remote SensingLocal Circalittoral Rocky Seascape Structuring Fish Community: Insights from a Photogrammetric Approach}, year = {2022}, pages = {229 - 234}, publisher = {Springer International Publishing}, organization = {Springer International Publishing}, address = {Cham}, abstract = {Fish face multiple environmental pressures acting as multiscale filters structuring the community [6]. Study of the effect of local (~100 m2) habitat components such as habitat architecture, substrate composition, and benthic community on fish community is still limited because of the technical difficulties to sample reliable descriptors of all these habitat components. Nevertheless, the effect of the 3D architecture, especially the complexity, has been highlighted to act as an important variable, locally structuring fish communities and leading to an increase in diversity (species richness and Shannon index) and quantity (total density and biomass) of fish [1]. Photogrammetry is extending to submarine environment and allows to produce very fine information of the architecture and substrate composition [5], as well as of the benthic community [4]. The influence of the different habitat components (i.e., architecture, substrate composition, and benthic community) on the structure of fish community is here investigated, as well as the interest of photogrammetry in comparison to visual observation (Fig. 1).}, keywords = {Architecture, Benthic community, Fish community, Photogrammetry, Seascape, Substrate composition}, isbn = {978-3-031-16212-1}, doi = {10.1007/978-3-031-16213-810.1007/978-3-031-16213-8_16}, url = {https://link.springer.com/10.1007/978-3-031-16213-8}, author = {Ternon, Quentin and Collin, Antoine and Feunteun, Eric and Ysnel, Fr{\'e}d{\'e}ric and Danet, Valentin and Guillaume, Manon and Thiriet, Pierre}, editor = {Niculescu, Simona} } @article {8951, title = {Exceptional preservation of internal organs in a new fossil species of freshwater shrimp (Caridea: Palaemonoidea) from the Eocene of Messel (Germany)}, journal = {Scientific Reports}, volume = {12}, year = {2022}, month = {Oct-27-2022}, pages = {1-12}, abstract = {A new species of extinct freshwater shrimp was discovered in the Eocene deposit of the Messel Pit Konservat-Lagerst{\"a}tte. This rare find is represented by only a few specimens, one of which showing exceptionally preserved soft tissues and other internal parts like the stomach with possibly gastric ossicles in place, branchiae, the ovary, and the left mandible, never described in a fossil shrimp. The new species Bechleja brevirostris n. sp. is characterized by a short rostrum bearing 6{\textendash}8 dorsal spines and one ventral tooth, and long second pereiopods with strong chelae. One additional specimen shows a slightly different morphology and might belong to a different species. The systematic position of the species among the superfamily Palaemonoidea is discussed, as well as implications for the knowledge of the paleoenvironment of Lake Messel and the paleobiogeography of the Eocene.}, isbn = {0123456789}, issn = {2045-2322}, doi = {10.1038/s41598-022-23125-9}, url = {https://www.nature.com/articles/s41598-022-23125-9}, author = {de Mazancourt, Valentin and Wappler, Torsten and Wedmann, Sonja} } @article {8736, title = {Expected contraction in the distribution ranges of demersal fish of high economic value in the Mediterranean and European SeasAbstract}, journal = {Scientific Reports}, volume = {12}, year = {2022}, month = {Jan-12-2022}, abstract = {Fisheries and aquaculture are facing many challenges worldwide, especially adaptation to climate change. Investigating future distributional changes of largely harvested species has become an extensive research topic, aiming at providing realistic ecological scenarios on which to build management measures, to help fisheries and aquaculture adapt to future climate-driven changes. Here, we use an ensemble modelling approach to estimate the contemporary and future distributional range of eight demersal fish species of high economic value in the Mediterranean Sea. We identify a cardinal influence of (i) temperature on fish species distributions, all being shaped by yearly mean and seasonality in sea bottom temperature, and (ii) the primary production. By assessing the effects of changes in future climate conditions under three Representative Concentration Pathway (RCP2.6, RCP4.5 and RCP8.5) scenarios over three periods of the twenty-first century, we project a contraction of the distributional range of the eight species in the Mediterranean Sea, with a general biogeographical displacement towards the North European coasts. This will help anticipating changes in future catch potential in a warmer world, which is expected to have substantial economic consequences for Mediterranean fisheries.}, doi = {10.1038/s41598-022-14151-8}, url = {https://www.nature.com/articles/s41598-022-14151-8}, author = {Ben Lamine, Emna and Schickele, Alexandre and Goberville, Eric and Beaugrand, Gr{\'e}gory and Allemand, Denis and Raybaud, Virginie} } @article {8713, title = {Fibropapillomatosis Prevalence and Distribution in Immature Green Turtles (Chelonia mydas) in Martinique Island (Lesser Antilles)}, journal = {EcoHealth}, year = {2022}, month = {Mar-06-2022}, issn = {1612-9202}, doi = {10.1007/s10393-022-01601-y}, url = {https://link.springer.com/10.1007/s10393-022-01601-y}, author = {Roost, Thibaut and Schies, Jo-Ann and Girondot, Marc and Robin, Jean-Patrice and Lelong, Pierre and Martin, Jordan and Siegwalt, Flora and Jeantet, Lor{\`e}ne and Giraudeau, Mathieu and Le Loch, Guillaume and Bejarano, Manola and Bonola, Marc and Benhalilou, Abdelwahab and Murgale, C{\'e}line and Andreani, Lucas and Jacaria, Fran{\c c}ois and Campistron, Guilhem and Lathi{\`e}re, Anthony and Martial, Fran{\c c}ois and Hielard, Ga{\"e}lle and Arqu{\'e}, Alexandre and R{\'e}gis, Sidney and Lecerf, Nicolas and Frouin, C{\'e}dric and Lefebvre, Fabien and Aubert, Nathalie and Flora, Fr{\'e}d{\'e}ric and Pimentel, Esteban and Lafolle, Rachelle and Thobor, Florence and Arthus, Mosiah and Etienne, Denis and Lecerf, Natha{\"e}l and All{\'e}nou, Jean-Pierre and Desigaux, Florian and Larcher, Eug{\`e}ne and Larcher, Christian and Curto, Alberto Lo and Befort, Joanne and Maceno-Panevel, Myriane and Lepori, Muriel and Chevallier, Pascale and Chevallier, Tao and Meslier, St{\'e}phane and Landreau, Anthony and Habold, Caroline and Le Maho, Yvon and Chevallier, Damien} } @article {8700, title = {First evidence of migration across the South Pacific in endangered Amsterdam albatross and conservation implications}, journal = {Marine Policy}, volume = {136}, year = {2022}, month = {Jan-02-2022}, pages = {104921}, issn = {0308597X}, doi = {10.1016/j.marpol.2021.104921}, url = {https://linkinghub.elsevier.com/retrieve/pii/S0308597X21005327}, author = {Delord, K. and Poupart, Timoth{\'e}e and Nicolas Gasco and Weimerskirch, H. and Barbraud, Christophe} } @article {8712, title = {First evidence of underwater vocalizations in green sea turtles Chelonia mydas}, journal = {Endangered Species Research}, volume = {48}, year = {2022}, month = {May-05-2022}, pages = {31 - 41}, issn = {1863-5407}, doi = {10.3354/esr01185}, url = {https://www.int-res.com/abstracts/esr/v48/p31-41/}, author = {Charrier, Isabelle and Jeantet, Lor{\`e}ne and Maucourt, L{\'e}o and R{\'e}gis, Sidney and Lecerf, Nicolas and Benhalilou, Abdelwahab and Chevallier, Damien} } @article {9187, title = {First record of Hippichthys albomaculosus Jenkins \& Mailautoka, 2010 (Syngnathidae) in New Caledonia. Cybium, 46(1): 53-55.}, journal = {Cybium}, volume = {46}, year = {2022}, month = {02/2022}, pages = {53-55}, author = {Vincent Ha{\"y} and Charpin Nicolas and Philippe Keith and Clara Lord and Marion Mennesson} } @article {8714, title = {Food selection and habitat use patterns of immature green turtles (Chelonia mydas) on Caribbean seagrass beds dominated by the alien species Halophila stipulacea}, journal = {Global Ecology and Conservation}, volume = {37}, year = {2022}, month = {Jan-09-2022}, pages = {e02169}, issn = {23519894}, doi = {10.1016/j.gecco.2022.e02169}, url = {https://linkinghub.elsevier.com/retrieve/pii/S2351989422001718}, author = {Siegwalt, Flora and Jeantet, Lor{\`e}ne and Lelong, Pierre and Martin, Jordan and Girondot, Marc and Bustamante, Paco and Benhalilou, Abdelwahab and Murgale, C{\'e}line and Andreani, Lucas and Jacaria, Fran{\c c}ois and Campistron, Guilhem and Lathi{\`e}re, Anthony and Barotin, Charl{\`e}ne and Buret-Rochas, Ga{\"e}lle and Barre, Philippe and Hielard, Ga{\"e}lle and Arqu{\'e}, Alexandre and R{\'e}gis, Sidney and Lecerf, Nicolas and Frouin, C{\'e}dric and Lefebvre, Fabien and Aubert, Nathalie and Arthus, Mosiah and Etienne, Denis and All{\'e}nou, Jean-Pierre and Delnatte, C{\'e}sar and Lafolle, Rachelle and Thobor, Florence and Chevallier, Pascale and Chevallier, Tao and Lepori, Muriel and Assio, Cindy and Grand, Cl{\'e}ment and Bonola, Marc and Tursi, Yannick and Varkala, Pierre-Walter and Meslier, St{\'e}phane and Landreau, Anthony and Le Maho, Yvon and Habold, Caroline and Robin, Jean-Patrice and Chevallier, Damien} } @article {8458, title = {From taxonomic to functional dark diversity: Exploring the causes of potential biodiversity and its implications for conservation}, journal = {Journal of Applied Ecology}, volume = {59}, year = {2022}, month = {Jan-01-2022}, pages = {103 - 116}, issn = {0021-8901}, doi = {10.1111/jpe.v59.110.1111/1365-2664.14033}, url = {https://onlinelibrary.wiley.com/toc/13652664/59/1}, author = {Morel, Lo{\"\i}s and Jung, Vincent and Chollet, Simon and Fr{\'e}d{\'e}ric Ysnel and Barbe, Lou} } @article {8821, title = {A functional vulnerability framework for biodiversity conservation}, journal = {Nature Communications}, volume = {13}, year = {2022}, month = {Sep}, pages = {4774}, abstract = {Setting appropriate conservation strategies in a multi-threat world is a challenging goal, especially because of natural complexity and budget limitations that prevent effective management of all ecosystems. Safeguarding the most threatened ecosystems requires accurate and integrative quantification of their vulnerability and their functioning, particularly the potential loss of species trait diversity which imperils their functioning. However, the magnitude of threats and associated biological responses both have high uncertainties. Additionally, a major difficulty is the recurrent lack of reference conditions for a fair and operational measurement of vulnerability. Here, we present a functional vulnerability framework that incorporates uncertainty and reference conditions into a generalizable tool. Through in silico simulations of disturbances, our framework allows us to quantify the vulnerability of communities to a wide range of threats. We demonstrate the relevance and operationality of our framework, and its global, scalable and quantitative comparability, through three case studies on marine fishes and mammals. We show that functional vulnerability has marked geographic and temporal patterns. We underline contrasting contributions of species richness and functional redundancy to the level of vulnerability among case studies, indicating that our integrative assessment can also identify the drivers of vulnerability in a world where uncertainty is omnipresent.}, issn = {2041-1723}, doi = {10.1038/s41467-022-32331-y}, url = {https://doi.org/10.1038/s41467-022-32331-y}, author = {Auber, Arnaud and Waldock, Conor and Maire, Anthony and Goberville, Eric and Albouy, Camille and Algar, Adam C. and McLean, Matthew and Brind{\textquoteright}Amour, Anik and Green, Alison L. and Tupper, Mark and Vigliola, Laurent and Kaschner, Kristin and Kesner-Reyes, Kathleen and Beger, Maria and Tjiputra, Jerry and Toussaint, Aur{\`e}le and Violle, Cyrille and Mouquet, Nicolas and Thuiller, Wilfried and Mouillot, David} } @article {8882, title = {Geographic and taxonomic trends of rising biological invasion costs}, journal = {Science of The Total Environment}, volume = {817}, year = {2022}, month = {Jan-04-2022}, pages = {152948}, issn = {00489697}, doi = {10.1016/j.scitotenv.2022.152948}, url = {https://linkinghub.elsevier.com/retrieve/pii/S0048969722000377}, author = {Haubrock, Phillip J. and Cuthbert, Ross N. and Hudgins, Emma J. and Crystal-Ornelas, Robert and Kourantidou, Melina and Moodley, Desika and Liu, Chunlong and Turbelin, Anna J. and Leroy, Boris and Courchamp, Franck} } @article {8976, title = {Histological study of the oral teeth and their bony support in the Mexican Jurassic gar {\textdagger}Nhanulepisosteus mexicanus (Ginglymodii, Lepisosteidae)}, year = {2022}, abstract = {The palaeohistology of the teeth and bony skeleton of the Late Jurassic gar {\textdagger}Nhanulepisosteus mexi-canus\ is described in detail from thin sections. The teeth are composed of a cone of orthodentine with a pulp cavity filled with parallel canals of osteodentine as variety of eusthenodont type plicidentine. These conspicu-ous histological features differentiate {\textdagger}Nhanulepisosteus\ from the majority of extant and fossil lepisosteids. The teeth are crowned with a small apical cap of acrodine, and are surrounded by a ridged layer of enamel. The bony tissues contain star-shaped osteocytes and canaliculi of Williamson matching exactly those in living lepisosteids, other holosteans, and some basal teleosts. Although the dental histology is distinct from that of extant gar spe-cies, we consider these differences are related to eco-morphological factors, noting that this pattern of histologi-cal arrangement is also found in other fossil gar species.}, keywords = {Bone, Jurassic, Lepisosteidae, Palaeohistology, plicidentine, Teeth, {\textdagger}Nhanulepisosteus}, doi = {10.26028/CYBIUM/2022-461-002}, url = {https://www.sfi-cybium.fr/fr/histological-study-oral-teeth-and-their-bony-support-mexican-jurassic-gar-{\textdagger}nhanulepisosteus}, author = {Brito, Paulo M. and Alvarado-Ortega, J{\'e}sus and Fran{\c c}ois J Meunier} } @article {8853, title = {Host use of the elkorn coral crab Domecia acanthophora (Brachyura : Domeciidae), with a phylogeny of the genus}, journal = {Cahier de Biologie Marine}, volume = {63}, year = {2022}, month = {2022}, pages = {239-246}, author = {Sancia ET Van der Meij and Henrique Bravo and Yun JH Scholten and Charlotte R. Dromard} } @article {8726, title = {Identification of a New Set of Polypeptidic Sex Pheromones from Cuttlefish (Sepia officinalis)}, journal = {Marine Biotechnology}, year = {2022}, month = {Sep-04-2022}, issn = {1436-2228}, doi = {10.1007/s10126-022-10126-y}, url = {https://link.springer.com/10.1007/s10126-022-10126-y}, author = {C{\'e}line Zatylny-Gaudin and Corre, Erwan and Zanuttini, Bruno and Endress, Maxime and Bernay, Beno{\^\i}t and Pontin, Julien and Leduc, Alexandre and Jo{\"e}l Henry} } @article {8869, title = {Immuno-Enzymatic and Proteomic Approaches for Sexing the African Bonytongue (Heterotis niloticus Cuvier, 1829)}, journal = {Fishes}, volume = {7}, year = {2022}, month = {Jan-06-2022}, pages = {106}, doi = {10.3390/fishes7030106}, url = {https://www.mdpi.com/2410-3888/7/3/106}, author = {Koua, N{\textquoteright}Zi Daniel and Henry, Jo{\"e}l and Corre, Erwan and Pontin, Julien and Bernay, Beno{\^\i}t and N{\'u}{\~n}ez-Rodr{\'\i}guez, Jes{\'u}s} } @article {8703, title = {Increasing numbers of killer whale individuals use fisheries as feeding opportunities within subantarctic populations}, journal = {Biology Letters}, volume = {18}, year = {2022}, month = {Jan-02-2022}, doi = {10.1098/rsbl.2021.0328}, url = {https://royalsocietypublishing.org/doi/10.1098/rsbl.2021.0328}, author = {Amelot, Morgane and Plard, Floriane and Guinet, Christophe and Arnould, John P. Y. and Nicolas Gasco and Tixier, Paul} } @article {8448, title = {Insights into the behavioural responses of juvenile thornback ray}, journal = {Journal of Fish Biology}, year = {2022}, month = {Apr-01-2022}, abstract = {As part of energy transition, marine renewable energy devices (MRED) are currently expanding in developed countries inducing the deployment of dense networks of submarine power cables. Concern has thus raised about the cable magnetic emissions (direct or alternating current) because of potential interference with the sensorial environment of magneto-sensitive species, such as sharks and rays. This study sought to assess the short-term behavioural responses of juvenile thornback rays (Raja clavata) (n = 15) to direct and alternating (50 Hz) uniform 450-μT artificial magnetic fields using 1 h focal-sampling design based on a detailed ethogram. Careful control of magnetic fields{\textquoteright} temporal and spatial scales was obtained in laboratory conditions through a custom-made Helmholtz coil device. Overall, qualitative or quantitative behavioural responses of juvenile rays did not significantly vary between control vs. exposed individuals over the morning period. Nonetheless, rays under direct current magnetic field increased their activity over the midday period. Synchronisation patterns were also observed for individuals receiving alternating current exposure (chronologic and qualitative similarities) coupled with a high interindividual variance. Further studies should consider larger batches of juveniles to address the effect of long-term exposure and explore the sensitivity range of rays with dose-response designs.}, issn = {0022-1112}, doi = {10.1111/jfb.14978}, url = {https://onlinelibrary.wiley.com/doi/10.1111/jfb.14978}, author = {Albert, Luana and Fr{\'e}d{\'e}ric Olivier and Jolivet, Aur{\'e}lie and Chauvaud, Laurent and Chauvaud, Sylvain} } @article {9178, title = {An integrative phylogenetic approach for inferring relationships of fossil gobioids}, journal = {PLOS ONE}, volume = {17}, year = {2022}, month = {Aug-07-2022}, pages = {e0271121}, doi = {10.1371/journal.pone.0271121}, url = {https://dx.plos.org/10.1371/journal.pone.0271121}, author = {Gierl, Christoph and Dohrmann, Martin and Philippe Keith and Humphreys, William and Esmaeili, Hamid R. and Vuki{\'c}, Jasna and {\v S}anda, Radek and Reichenbacher, Bettina}, editor = {Mirande, Juan Marcos} } @article {8467, title = {Interaction between the diatom Cylindrotheca closterium and a siliceous mortar in a silica-limited environment}, journal = {Construction and Building Materials}, volume = {321}, year = {2022}, month = {Jan-02-2022}, pages = {126277}, issn = {09500618}, doi = {10.1016/j.conbuildmat.2021.126277}, url = {https://linkinghub.elsevier.com/retrieve/pii/S0950061821040071}, author = {Georges, Marine and Bourguiba, Amel and Boutouil, Mohamed and Chateigner, Daniel and Jolly, Orianne and Pascal Claquin} } @article {9024, title = {Interannual variability of the initiation of the phytoplankton growing period in two French coastal ecosystems}, journal = {Biogeosciences}, volume = {19}, year = {2022}, pages = {5667{\textendash}5687}, abstract = {Decadal time series of chlorophyll\ a\ concentrations sampled at high and low frequencies are explored to study climate-induced impacts on the processes inducing interannual variations in the initiation of the phytoplankton growing period (IPGP) in early spring. We specifically detail the IPGP in two contrasting coastal temperate ecosystems under the influence of rivers highly rich in nutrients: the Bay of Brest and the Bay of Vilaine. In both coastal ecosystems, we observed a large interannual variation in the IPGP influenced by sea temperature, river inputs, light availability (modulated by solar radiation and water turbidity), and turbulent mixing generated by tidal currents, wind stress, and river runoff. We show that the IPGP is delayed by around 30 d in 2019 in comparison with 2010. In situ observations and a one-dimensional vertical model coupling hydrodynamics, biogeochemistry, and sediment dynamics show that the IPGP generally does not depend on one specific environmental factor but on the interaction between several environmental factors. In these two bays, we demonstrate that the IPGP is mainly caused by sea surface temperature and available light conditions, mostly controlled by the turbidity of the system before first blooms. While both bays are hydrodynamically contrasted, the processes that modulate the IPGP are similar. In both bays, the IPGP can be delayed by cold spells and flood events at the end of winter, provided that these extreme events last several days.}, doi = {10.5194/bg-19-5667-2022}, url = {https://bg.copernicus.org/articles/19/5667/2022/}, author = {Poppeschi, Coline and Charria, Guillaume and Daniel, Anne and Verney, Romaric and Rimmelin-Maury, Peggy and Retho, Micha{\"e}l and Goberville, Eric and Emilie Grossteffan and Plus, Martin} } @article {9180, title = {Sicyopterus garra Hora, 1925, a valid species of sicydiine goby from the Andaman Islands, India}, journal = {Journal of Fish Biology}, volume = {101}, year = {2022}, month = {Jan-11-2022}, pages = {1189 - 1198}, issn = {0022-1112}, doi = {10.1111/jfb.v101.510.1111/jfb.15189}, url = {https://onlinelibrary.wiley.com/toc/10958649/101/5}, author = {Praveenraj, Jayasimhan and Kiruba-Sankar, Rajendran and Saravanan, Kandasamy and Thackeray, Tejas and Singh, Pratima and Knight, John Daniel Marcus and Philippe Keith} } @article {8146, title = {Knowledge gaps in economic costs of invasive alien fish worldwide}, journal = {Science of The Total Environment}, volume = {803}, year = {2022}, month = {Jan-01-2022}, pages = {149875}, issn = {00489697}, doi = {10.1016/j.scitotenv.2021.149875}, url = {https://linkinghub.elsevier.com/retrieve/pii/S0048969721049500}, author = {Haubrock, Phillip J. and Bernery, Camille and Cuthbert, Ross N. and Liu, Chunlong and Kourantidou, Melina and Leroy, Boris and Turbelin, Anna J. and Kramer, Andrew M. and Verbrugge, Laura N.H. and Diagne, Christophe and Courchamp, Franck and Gozlan, Rodolphe E.} } @book {9055, title = {La vie en milieu extr{\^e}me}, year = {2022}, pages = {144}, edition = {Editions Quae}, author = {Juliette Ravaux and S{\'e}bastien Duperron} } @article {8975, title = {Life history and ossification patterns in Miguashaia bureaui reveal the early evolution of osteogenesis in coelacanths}, journal = {PeerJ}, volume = {10}, year = {2022}, month = {Jan-01-2022}, pages = {e13175}, abstract = {The study of development is critical for revealing the evolution of major vertebrate lineages. Coelacanths have one of the longest evolutionary histories among osteichthyans, but despite access to extant representatives, the onset of their weakly ossified endoskeleton is still poorly understood. Here we present the first palaeohistological and skeletochronological study of\ Miguashaia bureaui\ from the Upper Devonian of Canada, pivotal for exploring the palaeobiology and early evolution of osteogenesis in coelacanths. Cross sections of the caudal fin bones show that the cortex is made of layers of primary bone separated by lines of arrested growth, indicative of a cyclical growth. The medullary cavity displays remnants of calcified cartilage associated with bony trabeculae, characteristic of endochondral ossification. A skeletochronological analysis indicates that rapid growth during a short juvenile period was followed by slower growth in adulthood. Our new analysis highlights the life history and palaeoecology of\ Miguashaia bureaui\ and reveals that, despite differences in size and habitat, the poor endoskeletal ossification known in the extant\ Latimeria chalumnae\ can be traced back at least 375 million years ago.}, doi = {10.7717/peerj.1317510.37473/fic/10.7717/peerj.13175}, url = {https://peerj.com/articles/13175}, author = {Mond{\'e}jar Fern{\'a}ndez, Jorge and Fran{\c c}ois J Meunier and Cloutier, Richard and Cl{\'e}ment, Ga{\"e}l and Laurin, Michel} } @article {8855, title = {Linking eutrophication to carbon dioxide and methane emissions from exposed mangrove soils along an urban gradient}, journal = {Science of The Total Environment}, volume = {850}, year = {2022}, month = {Jan-12-2022}, pages = {157988}, issn = {00489697}, doi = {10.1016/j.scitotenv.2022.157988}, url = {https://linkinghub.elsevier.com/retrieve/pii/S0048969722050872}, author = {Barroso, Glenda C. and Gwena{\"e}l Abril and Machado, Wilson and Abuchacra, Rodrigo C. and Peixoto, Roberta B. and Bernardes, Marcelo and Marques, Gabriela S. and Sanders, Christian J. and Oliveira, Gabriela B. and Oliveira Filho, Silvio R. and Amora-Nogueira, Leonardo and Marotta, Humberto} } @article {8888, title = {Long-Term Evolution of the Guadeloupean Shoreline (1950{\textendash}2017)}, journal = {Journal of Coastal Research}, volume = {38}, year = {2022}, month = {Jan-09-2022}, doi = {10.2112/JCOASTRES-D-21-00161.1}, url = {https://bioone.org/journals/journal-of-coastal-research/volume-38/issue-5/JCOASTRES-D-21-00161.1/Long-Term-Evolution-of-the-Guadeloupean-Shoreline-19502017/10.2112/JCOASTRES-D-21-00161.1.full}, author = {Giraud-Renard, El{\'e}a and Franck Dolique and Collin, Antoine and James, Doroth{\'e}e and Gairin, Emma and Courteille, Marine and Beaufort, Oc{\'e}ane and Ren{\'e}-Trouillefou, Malika and Dulormne, Maguy and Jeanson, Matthieu and Lecchini, David} } @article {8356, title = {Macrozooplankton and micronekton diversity and associated carbon vertical patterns and fluxes under distinct productive conditions around the Kerguelen Islands}, journal = {Journal of Marine Systems}, volume = {226}, year = {2022}, month = {Jan-02-2022}, pages = {103650}, issn = {09247963}, doi = {10.1016/j.jmarsys.2021.103650}, url = {https://linkinghub.elsevier.com/retrieve/pii/S0924796321001457}, author = {Cott{\'e}, C. and Ariza, A. and Berne, A. and Habasque, J. and Lebourges-Dhaussy, A. and Roudaut, G. and Espinasse, B. and Hunt, B.P.V. and Pakhomov, E.A. and Henschke, N. and Clara P{\'e}ron and Conchon, A. and Koedooder, C. and Izard, L. and Cherel, Y.} } @article {8884, title = {Managing biological invasions: the cost of inaction}, journal = {Biological Invasions}, volume = {24}, year = {2022}, month = {Jan-07-2022}, pages = {1927 - 1946}, issn = {1387-3547}, doi = {10.1007/s10530-022-02755-0}, url = {https://link.springer.com/10.1007/s10530-022-02755-0}, author = {Ahmed, Danish A. and Hudgins, Emma J. and Cuthbert, Ross N. and Kourantidou, Melina and Diagne, Christophe and Haubrock, Phillip J. and Leung, Brian and Liu, Chunlong and Leroy, Boris and Petrovskii, Sergei and Beidas, Ayah and Courchamp, Franck} } @article {8923, title = {Mangrove microbiota along the urban-to-rural gradient of the Cayenne estuary (French Guiana, South America): Drivers and potential bioindicators}, journal = {Science of The Total Environment}, volume = {807}, year = {2022}, month = {Jan-02-2022}, pages = {150667}, issn = {00489697}, doi = {10.1016/j.scitotenv.2021.150667}, url = {https://linkinghub.elsevier.com/retrieve/pii/S0048969721057454}, author = {Fiard, Maud and Cuny, Philippe and Sylvi, L{\'e}a and C{\'e}dric Hubas and J{\'e}z{\'e}quel, Ronan and Lamy, Dominique and Walcker, Romain and El Houssainy, Amonda and Heimb{\"u}rger-Boavida, Lars-Eric and Robinet, Tony and Bihannic, Isabelle and Gilbert, Franck and Michaud, Emma and Guillaume Dirberg and Militon, C{\'e}cile} } @article {8959, title = {Methods to detect spatial biases in tracking studies caused by differential representativeness of individuals, populations and time}, journal = {Diversity and Distributions}, year = {2022}, month = {Mar-10-2024}, issn = {1366-9516}, doi = {10.1111/ddi.13642}, url = {https://onlinelibrary.wiley.com/doi/10.1111/ddi.13642}, author = {Morera-Pujol, Virginia and Catry, Paulo and Magalh{\~a}es, Maria and Clara P{\'e}ron and Reyes-Gonz{\'a}lez, Jos{\'e} Manuel and Granadeiro, Jos{\'e} Pedro and Milit{\~a}o, Teresa and Dias, Maria P. and Oro, Daniel and Dell{\textquoteright}Omo, Giacomo and M{\"u}ller, Martina and Paiva, Vitor H. and Metzger, Benjamin and Neves, Ver{\'o}nica and Navarro, Joan and Karris, Georgios and Xirouchakis, Stavros and Cecere, Jacopo G. and Zamora-L{\'o}pez, Antonio and Forero, Manuela G. and Ouni, Ridha and Romdhane, Mohamed Salah and De Felipe, Fernanda and Zajkov{\'a}, Zuzana and Cruz-Flores, Marta and Gr{\'e}millet, David and Gonz{\'a}lez-Sol{\'\i}s, Jacob and Ramos, Ra{\"u}l} } @article {8752, title = {Modelling past migrations to determine efficient management rules favouring silver eel escapement from a large regulated Floodplain Lake}, journal = {Journal for Nature Conservation}, volume = {67}, year = {2022}, month = {Jan-06-2022}, pages = {126192}, abstract = {As human activities caused a dramatic decline of European eel population since the 1970\ s, the European Union has set targets to ensure a 40\%\ escapement\ to the sea of the silver eel biomass by considerably reducing anthropogenic impact. Thus, human obstacles to fish migration like dams and hydropower plants should enable efficient management measures ensuring safe passage for eels during the migration. In order to provide a quick and efficient assessment of eel conservation measure applied to the\ sluice gates\ of a large\ floodplain\ lake, we implemented a novel evaluation method using predictions on past migration seasons when no management measure were applied. For this purpose, we collected acoustic\ telemetry\ monitoring data over three migration seasons and fitted a predictive model based on Boosted Regression Trees (BRTs) to describe the influence of environmental parameters on migration. The water level difference over two days proved to be decisive, along with early migration occasions in the season, as an increase of at least 10\ cm water level was associated with a sharp increase of migration probability. We then used the BRT model to predict migration occasions at the dam over 8 past seasons and forecast the impact on escapement of management measures if they had been applied. Thanks to this original prospective assessment of dam management measures, we identified an enhanced opening decision rule, capable of increasing the eel escapement for each year of the study. The management measure is particularly efficient during the years with poor hydrological conditions (i.e. droughts), that is the periods with the lowest initial escapement rates. Finally, efficient management measures to increase silver eel escapement were based on increasing the number of\ gate opening\ days by only a few days per year (c.a. 15\%). However, the management measure only focused on silver eel migration, so that further investigations should consider the impacts of other threats occurring during the life cycle. This study also provides a highly operational approach for fast evaluation of conservation measures, avoiding lengthy and expensive monitoring campaigns of classical ex-post assessments.}, keywords = {Eel conservation, fish migration, Predictive model, Reservoir management}, issn = {16171381}, doi = {10.1016/j.jnc.2022.126192}, url = {https://linkinghub.elsevier.com/retrieve/pii/S1617138122000656}, author = {Bourgeaux, Jacques and Teichert, Nils and Gillier, Jean-Marc and Danet, Valentin and Eric Feunteun and Acou, Anthony and Charrier, Fabien and Mazel, Virgile and Alexandre Carpentier and Trancart, Thomas} } @article {9036, title = {Modelling the distribution of vulnerable skate from fisheries dependent data using imperfect detection}, journal = {Progress in Oceanography}, volume = {206}, year = {2022}, month = {Jan-08-2022}, pages = {102859}, issn = {00796611}, doi = {10.1016/j.pocean.2022.102859}, url = {https://linkinghub.elsevier.com/retrieve/pii/S0079661122001185}, author = {Bisch, Ama{\"e}lle and Elliott, Sophie A.M. and Alexandre Carpentier and Acou, Anthony} } @article {8599, title = {A multi-approach study to reveal eel life-history traits in an obstructed catchment before dam removal}, journal = {Hydrobiologia}, year = {2022}, month = {Sep-03-2022}, abstract = {River fragmentation is expected to impact not only movement patterns and distribution of eels within catchment, but also their life-history traits. Here, we used otolith multi-elemental signatures to reconstruct life sequences of European silver eels within an obstructed catchment, just before the removal of hydropower dams. Beyond providing an initial state, we hypothesized that otolith signatures can provide crucial information on the way eels use the watershed. Indeed, their spatial distribution is expected to shape life-history traits, including condition coefficient, trophic level, growth rate, or infection by metazoan parasites. While Sr:Ca and Ba:Ca ratios were complementary in tracing fish movements between freshwater and estuary, the Ba:Ca variations allowed to discriminate three freshwater sectors. The eels assigned to the midstream sector were more mobile and exhibited lower growth rates, probably in response to higher competition at the vicinity of dams. While most eels are currently produced by downstream and midstream sectors, eels assigned to upper reaches of connected tributaries generally display higher richness in native parasite and higher body condition and lipid reserve, known to promote the success of migration and reproduction. In the near future, the dam removals will represent an outstanding experimental framework for evaluating impacts of catchment reconnection.}, keywords = {LA-ICP-MS, life-history trait, metazoan parasites, otolith microchemistry, phenotypic plasticity, river barrier}, issn = {0018-8158}, doi = {10.1007/s10750-022-04833-9}, url = {https://link.springer.com/10.1007/s10750-022-04833-9}, author = {Teichert, Nils and Liz{\'e}, Anne and Tabouret, H{\'e}l{\`e}ne and G{\'e}rard, Claudia and Bareille, Gilles and Acou, Anthony and Alexandre Carpentier and Trancart, Thomas and Virag, Laure-Sarah and Robin, Emma and Druet, Morgan and Prod{\textquoteright}Homme, Jordan and Eric Feunteun} } @article {8725, title = {Multifaceted roles of the egg perivitelline layer in avian reproduction: Functional insights from the proteomes of chicken egg inner and outer sublayers}, journal = {Journal of Proteomics}, volume = {258}, year = {2022}, month = {Jan-04-2022}, pages = {104489}, issn = {18743919}, doi = {10.1016/j.jprot.2022.104489}, url = {https://linkinghub.elsevier.com/retrieve/pii/S1874391922000124}, author = {Br{\'e}geon, M{\'e}gane and Tomas, Daniel and Bernay, Beno{\^\i}t and C{\'e}line Zatylny-Gaudin and Georgeault, Sonia and Labas, Val{\'e}rie and R{\'e}hault-Godbert, Sophie and Guyot, Nicolas} } @article {8600, title = {Multi-method approach shows stock structure in Loligo forbesii squid}, journal = {ICES Journal of Marine Science}, year = {2022}, month = {03}, abstract = {Knowledge of stock structure is a priority for effective assessment of commercially-fished cephalopods. Loligo forbesii squid are thought to migrate inshore for breeding and offshore for feeding and long-range movements are implied from past studies showing genetic homogeneity in the entire neritic population. Only offshore populations (Faroe and Rockall Bank) were considered distinct. The present study applied mitchondrial and microsatellite markers (nine loci) to samples from Rockall Bank, north Scotland, North Sea, various shelf locations in Ireland, English Channel, northern Bay of Biscay, north Spain, and Bay of Cadiz. No statistically significant genetic sub-structure was found, although some non-significant trends involving Rockall were seen using microsatellite markers. Differences in L. forbesii statolith shape were apparent at a subset of locations, with most locations showing pairwise differences and statoliths from north Ireland being highly distinct. This suggests that (i) statolith shape is highly sensitive to local conditions and (ii) L. forbesii forms distinguishable groups (based on shape statistics), maintaining these groups over sufficiently long periods for local conditions to affect the shape of the statolith. Overall evidence suggests that L. forbesii forms separable (ecological) groups over short timescales with a semi-isolated breeding group at Rockall whose distinctiveness varies over time.}, issn = {1054-3139}, doi = {10.1093/icesjms/fsac039}, url = {https://doi.org/10.1093/icesjms/fsac039}, author = {Sheerin, Edel and Barnwall, Leigh and Abad, Esther and Larivain, Angela and Oesterwind, Daniel and Petroni, Michael and Perales-Raya, Catalina and Jean-Paul Robin and Sobrino, Ignacio and Valeiras, Julio and O{\textquoteright}Meara, Denise and Pierce, Graham J and Allcock, A Louise and Power, Anne Marie} } @article {8902, title = {Multiple phytoplankton community responses to environmental change in a temperate coastal system: A trait-based approach}, journal = {Frontiers in Marine Science}, volume = {9}, year = {2022}, month = {Jun-10-2022}, abstract = {The effect of environmental change in structuring the phytoplankton communities of the coastal waters of the Eastern English Channel was investigated by applying a trait-based approach on two decades (1996-2019) of monitoring on diatoms and\ Phaeocystis. We show that phytoplankton species richness in an unbalanced nutrient supply context was influenced by wind-driven processes, ecological specialization for dissolved inorganic phosphorous, temporal niche differentiation, and a competition-defense and/or a growth-defense trade-off, a coexistence mechanism where weak competitors (i.e., slower growing) are better protected against predation. Under the influence of both environmental perturbations (e.g., wind-driven processes, freshwater influence, unbalanced nutrient levels) and biotic interactions (e.g., competition, predation, facilitation), phytoplankton species exhibited specific survival strategies such as investment on growth, adaptation and tolerance of species to environmental stresses, silicification and resource specialization. These strategies have led to more speciose communities, higher productivity, functional redundancy and stability in the last decade. Our results revealed that the unbalanced nutrient reduction facilitated\ Phaeocystis\ blooms and that anthropogenic climate warming and nitrate reduction may threaten the diatom communities of the eastern English Channel in a near future. Our results provide strong support for biogeographical historical and niche-based processes in structuring the phytoplankton community in this temperate region. The variety of species responses that we characterized in this region may help to better understand future changes in pelagic ecosystems, and can serve as a basis to consider functional approaches for future ecosystem management.}, doi = {https://doi.org/10.3389/fmars.2022.914475}, url = {https://www.frontiersin.org/articles/10.3389/fmars.2022.914475/full}, author = {Elsa Breton and Goberville, Eric and Benoit Sautour and Ouadi, Anis and Skouroliakou, Dimitra-Ioli and Seuront, Laurent and Gr{\'e}gory Beaugrand and Kl{\'e}parski, Lo{\"\i}ck and Crouvoisier, Muriel and Pecqueur, David and Salmeron, Christophe and Cauvin, Arnaud and Poquet, Adrien and Garcia, Nicole and Gohin, Francis and Christaki, Urania} } @article {9027, title = {Myctobase, a circumpolar database of mesopelagic fishes for new insights into deep pelagic prey fields}, journal = {Scientific Data}, volume = {9}, year = {2022}, month = {Jan-12-2022}, doi = {10.1038/s41597-022-01496-y}, url = {https://www.nature.com/articles/s41597-022-01496-y}, author = {Woods, Briannyn and Trebilco, Rowan and Walters, Andrea and Hindell, Mark and Guy Duhamel and Flores, Hauke and Moteki, Masato and Patrice Pruvost and Reiss, Christian and Saunders, Ryan A. and Sutton, Caroline and Gan, Yi-Ming and Van de Putte, Anton} } @article {8797, title = {New Insights Into the Evolution of Corticotropin-Releasing Hormone Family With a Special Focus on Teleosts}, journal = {Frontiers in Endocrinology}, volume = {13}, year = {2022}, pages = {937218}, doi = {Doi: 10.3389/fendo.2022.937218}, author = {Maugars, Gersende and Mauvois, Xavier and Martin, Patrick and Rousseau, Karine and Aroua, Salima and Sylvie Dufour} } @article {9294, title = {Obtaining DNA Samples from Sensitive and Endangered Bird Species: A Comparison of Saliva and Blood Samples}, journal = {Ardeola}, volume = {69}, year = {2022}, month = {Jan-07-2022}, abstract = {Methods used to collect biological samples from birds for genetic analyses should allow high-quality DNA to be obtained in sufficient quantities, while limiting negative effects on sampled individuals. In this context, we assessed the potential use of saliva sampling (using buccal swabs) as an alternative to blood sampling (supposedly more stressful) in a near-threatened Caribbean-endemic, the White-crowned Pigeon Patagioenas leucocephala, a bird known to be highly sensitive to capture and handling, based on samples collected from 28 adults captured in the wild. We quantitatively and qualitatively compared DNA extracts, amplifications of two mitochondrial genes (\~{}430 bp and 1040 bp), and molecular sexing between saliva and blood samples. As expected, blood samples provided larger amounts of DNA of heavy molecular weight than buccal swabs. However, buccal swabs were as reliable as blood samples as a source of genetic material to sequence mtDNA. On the other hand, buccal swab samples might require an improved PCR protocol to sex all individuals successfully. We discuss the use of buccal swabs vs. blood sampling as a way to obtain DNA in relation to research objectives and minimising stress and harmful effects.}, doi = {10.13157/arla.69.2.2022.sc110.13157/arla.69.2.2022.sc1.s110.13157/arla.69.2.2022.sc1.s2}, url = {https://bioone.org/journals/ardeola/volume-69/issue-2/arla.69.2.2022.sc1/Obtaining-DNA-Samples-from-Sensitive-and-Endangered-Bird-Species/10.13157/arla.69.2.2022.sc1.full}, author = {Cambrone, Christopher and Motreuil, S{\'e}bastien and Reyes, Francis O. and Landestoy, Miguel A. and C{\'e}zilly, Frank and Bezault, Etienne} } @article {8635, title = {Organic Phosphorus Scavenging Supports Efficient Growth of Diazotrophic Cyanobacteria Under Phosphate DepletionData_Sheet_1.docx}, journal = {Frontiers in Microbiology}, volume = {13}, year = {2022}, month = {Jan-03-2024}, doi = {10.3389/fmicb.2022.84864710.3389/fmicb.2022.848647.s001}, url = {https://www.frontiersin.org/articles/10.3389/fmicb.2022.848647/full}, author = {Rabouille, Sophie and Tournier, Lauralie and Duhamel, Solange and Pascal Claquin and Crispi, Olivier and Talec, Am{\'e}lie and Landolfi, Angela and Oschlies, Andreas} } @article {9066, title = {Pairing AIS data and underwater topography to assess maritime traffic pressures on cetaceans: Case study in the Guadeloupean waters of the Agoa sanctuary}, journal = {Marine Policy}, volume = {143}, year = {2022}, month = {Jan-09-2022}, pages = {105160}, issn = {0308597X}, doi = {10.1016/j.marpol.2022.105160}, url = {https://linkinghub.elsevier.com/retrieve/pii/S0308597X2200207X}, author = {Madon, B{\'e}n{\'e}dicte and Le Guyader, Damien and Jung, Jean-Luc and de Montgolfier, Benjamin and Pascal Jean Lopez and Foulquier, Eric and Bouveret, Laurent and Le Berre, Iwan} } @article {8739, title = {Passive acoustics suggest two different feeding mechanisms in the Atlantic walrus (Odobenus rosmarus rosmarus)}, journal = {Polar Biology}, year = {2022}, month = {Sep-06-2023}, abstract = {The vocal repertoire of walruses has been widely described in the bioacoustic literature. These marine mammals produce several distinct types of vocalizations for intraspecific communication during the breeding season. In this study, we provide the first evidence of walrus-generated sounds during foraging dives when they feed on bivalves. We recorded two types of sounds that we associated to different feeding mechanisms. The first sound type was brief and low in frequency that we relate to the suction of soft parts from the bivalves{\textquoteright} shells through the use of walrus powerful tongues, which is the common feeding behavior reported in the walrus literature. We also recorded a second sound type composed of multiple broadband pulse trains. We hypothesize the latter were associated with bivalve shell cracking by walruses, which would represent a new feeding mechanism in the walrus literature. This new feeding mechanism is either related to bivalves{\textquoteright} ecology or to walruses removing the sediment when searching for food. During this study, we observed bivalves lying on the seafloor instead of being buried in the sediment in walrus feeding areas while scuba diving. As a result, walruses cannot use suction to feed on soft body part of bivalves and have to use another strategy, mastication. Our findings provide a first step towards using passive acoustics to quantify walrus behavior and feeding ecology.}, keywords = {Bioacoustics, bivalves, Feeding Behavior, Marine mammal, Young Sound fjord}, issn = {0722-4060}, doi = {10.1007/s00300-022-03055-y}, url = {https://link.springer.com/10.1007/s00300-022-03055-y}, author = {J{\'e}z{\'e}quel, Youenn and Mathias, Delphine and Fr{\'e}d{\'e}ric Olivier and Amice, Erwan and Chauvaud, Sylvain and Jolivet, Aur{\'e}lie and Bonnel, Julien and Sejr, Mikael K. and Chauvaud, Laurent} } @article {8681, title = {Phylogeography of the veined squid, Loligo forbesii, in European watersAbstract}, journal = {Scientific Reports}, volume = {12}, year = {2022}, month = {Jan-12-2022}, doi = {10.1038/s41598-022-11530-z}, url = {https://www.nature.com/articles/s41598-022-11530-z}, author = {G{\"o}pel, Anika and Oesterwind, Daniel and Barrett, Christopher and Cannas, Rita and Caparro, Luis Silva and Carbonara, Pierluigi and Donnaloia, Marilena and Follesa, Maria Cristina and Larivain, Angela and Laptikhovsky, Vladimir and Lefkaditou, Evgenia and Jean-Paul Robin and Santos, Maria Bego{\~n}a and Sobrino, Ignacio and Valeiras, Julio and Valls, Maria and Vieira, Hugo C. and Wieland, Kai and Bastrop, Ralf} } @article {9005, title = {A possible strong impact of tidal power plant on silver eels{\textquoteright} migration}, journal = {Estuarine, Coastal and Shelf Science}, volume = {278}, year = {2022}, month = {Jan-11-2022}, pages = {108116}, abstract = {Very few\ tidal power\ plants exist in the world. The first one was built in the Rance\ estuary\ (Brittany, France) in 1966 and the second one in South Korea. However, with the increasing demand in renewable energy, other tidal power plant projects are being studied.Deep-sea species endemic to hydrothermal vents face the critical challenge of detecting active sites in a vast environment devoid of sunlight. This certainly requires specific sensory abilities, among which olfaction could be a relevant sensory modality, since chemical compounds in hydrothermal fluids or food odors could potentially serve as orientation cues. The temperature of the vent fluid might also be used for locating vent sites. The objective of this study is to observe the following key behaviors of olfaction in hydrothermal shrimp, which could provide an insight into their olfactory capacities: (1) grooming behavior; (2) attraction to environmental cues (food odors and fluid markers). We designed experiments at both deep-sea and atmospheric pressure to assess the behavior of the vent shrimp and , as well as of the coastal species and for comparison. Here, we show that hydrothermal shrimp groom their sensory appendages similarly to other crustaceans, but this does not clean the dense bacterial biofilm that covers the olfactory structures. These shrimp have previously been shown to possess functional sensory structures, and to detect the environmental olfactory signals tested, but we do not observe significant attraction behavior here. Only temperature, as a signature of vent fluids, clearly attracts vent shrimp and thus is confirmed to be a relevant signal for orientation in their environment.
}, issn = {2075-4450}, doi = {10.3390/insects12111043}, author = {Ravaux, Juliette and Machon, Julia and Shillito, Bruce and Barth{\'e}l{\'e}my, Dominique and Amand, Louis and Cabral, M{\'e}lanie and Delcour, Elise and Zbinden, Magali} } @article {8655, title = {The economic costs of biological invasions in Africa: a growing but neglected threat?}, journal = {NeoBiota}, volume = {67}, year = {2021}, month = {May-07-2023}, pages = {11 - 51}, issn = {1619-0033}, doi = {10.3897/neobiota.67.59132}, url = {https://neobiota.pensoft.net/article/59132/}, author = {Diagne, Christophe and Turbelin, Anna J. and Moodley, Desika and Novoa, Ana and Leroy, Boris and Angulo, Elena and Adamjy, Tasnime and Dia, Cheikh A.K.M. and Taheri, Ahmed and Tambo, Justice and Dobigny, Gauthier and Courchamp, Franck} } @article {8656, title = {Economic costs of biological invasions within North America}, journal = {NeoBiota}, volume = {67}, year = {2021}, month = {07/2021}, pages = {485-510}, author = {Crystal-Ornelas, Rob and Hudgins, Emma J and Cuthbert, Ross N. and Haubrock, Phillip J. and Fantle-Lepczyk, J and Angulo, Elena and Kramer, Andrew M. and Ballesteros-Mejia, Liliana and Leroy, Boris and Leung, Brian and L{\'o}pez-L{\'o}pez, E and Diagne, Christophe and Courchamp, Franck} } @article {8144, title = {Economic costs of invasive alien species across Europe}, journal = {NeoBiota}, volume = {67}, year = {2021}, month = {May-07-2023}, pages = {153 - 190}, issn = {1619-0033}, doi = {10.3897/neobiota.67.58196}, url = {https://neobiota.pensoft.net/article/58196/}, author = {Haubrock, Phillip J. and Turbelin, Anna J. and Cuthbert, Ross N. and Novoa, Ana and Taylor, Nigel G. and Angulo, Elena and Ballesteros-Mejia, Liliana and Bodey, Thomas W. and Capinha, C{\'e}sar and Diagne, Christophe and Essl, Franz and Golivets, Marina and Kirichenko, Natalia and Kourantidou, Melina and Leroy, Boris and Renault, David and Verbrugge, Laura and Courchamp, Franck} } @article {8653, title = {Economic costs of invasive alien species in the Mediterranean basin}, journal = {NeoBiota}, volume = {67}, year = {2021}, month = {May-07-2023}, pages = {427 - 458}, issn = {1619-0033}, doi = {10.3897/neobiota.67.5892610.3897/neobiota.67.58926.suppl110.3897/neobiota.67.58926.suppl2}, url = {https://neobiota.pensoft.net/article/58926/}, author = {Kourantidou, Melina and Cuthbert, Ross N. and Haubrock, Phillip J. and Novoa, Ana and Taylor, Nigel G. and Leroy, Boris and Capinha, C{\'e}sar and Renault, David and Angulo, Elena and Diagne, Christophe and Courchamp, Franck} } @article {8096, title = {Effects of Coastline Modification on Coral Reef Fish Nurseries (Moorea, French Polynesia)}, journal = {Journal of Coastal Research}, volume = {37}, year = {2021}, month = {07/2021}, pages = {842-851}, doi = {10.2112/JCOASTRES-D-20-00060.1}, url = {https://bioone.org/journals/journal-of-coastal-research/volume-37/issue-4/JCOASTRES-D-20-00060.1/Effects-of-Coastline-Modification-on-Coral-Reef-Fish-Nurseries-Moorea/10.2112/JCOASTRES-D-20-00060.1.short}, author = {Gasc, Julien and Gache, Camille and Fr{\'e}d{\'e}ric Bertucci and Madi Moussa, Rakamaly and Waqalevu, Viliame and Lecchini, David} } @article {7883, title = {Effects of Melatonin on Anterior Pituitary Plasticity: A Comparison Between Mammals and Teleosts}, journal = {Frontiers in Endocrinology}, volume = {11}, year = {2021}, month = {Nov-01-2021}, abstract = {Melatonin is a key hormone involved in the photoperiodic signaling pathway. In both teleosts and mammals, melatonin produced in the pineal gland at night is released into the blood and cerebrospinal fluid, providing rhythmic information to the whole organism. Melatonin acts\ via\ specific receptors, allowing the synchronization of daily and annual physiological rhythms to environmental conditions. The pituitary gland, which produces several hormones involved in a variety of physiological processes such as growth, metabolism, stress and reproduction, is an important target of melatonin. Melatonin modulates pituitary cellular activities, adjusting the synthesis and release of the different pituitary hormones to the functional demands, which changes during the day, seasons and life stages. It is, however, not always clear whether melatonin acts directly or indirectly on the pituitary. Indeed, melatonin also acts both upstream, on brain centers that control the pituitary hormone production and release, as well as downstream, on the tissues targeted by the pituitary hormones, which provide positive and negative feedback to the pituitary gland. In this review, we describe the known pathways through which melatonin modulates anterior pituitary hormonal production, distinguishing indirect effects mediated by brain centers from direct effects on the anterior pituitary. We also highlight similarities and differences between teleosts and mammals, drawing attention to knowledge gaps, and suggesting aims for future research.}, doi = {10.3389/fendo.2020.605111}, url = {https://www.frontiersin.org/articles/10.3389/fendo.2020.605111/full}, author = {Ciani, Elia and Haug, Trude M. and Maugars, Gersende and Weltzien, Finn-Arne and Falc{\'o}n, Jack and Fontaine, Romain} } @article {8091, title = {Efficiency of the call-broadcast method for detecting two Caribbean-endemic columbid game species}, journal = {European Journal of Wildlife Research}, volume = {67}, year = {2021}, month = {Jan-08-2021}, issn = {1612-4642}, doi = {10.1007/s10344-021-01507-0}, url = {https://link.springer.com/10.1007/s10344-021-01507-0}, author = {Cambrone, Christopher and Bezault, Etienne and C{\'e}zilly, Frank} } @article {7915, title = {Electron \& Biomass Dynamics of Cyanothece Under Interacting Nitrogen \& Carbon Limitations}, journal = {Frontiers in Microbiology}, volume = {12}, year = {2021}, month = {04/2021}, doi = {10.3389/fmicb.2021.61780210.3389/fmicb.2021.617802.s001}, url = {https://www.frontiersin.org/articles/10.3389/fmicb.2021.617802/full}, author = {Rabouille, Sophie and Campbell, Douglas A. and Masuda, Takako and Zav{\v r}el, Tomas and Bern{\'a}t, Gabor and Polerecky, Lubos and Halsey, Kimberly and Eichner, Meri and Kotabov{\'a}, Eva and Stephan, Susanne and Luke{\v s}, Martin and Pascal Claquin and Bonomi-Barufi, Jose and Lombardi, Ana Teresa and {\v C}erven{\'y}, Jan and Suggett, David J. and Giordano, Mario and Kromkamp, Jacco C. and Pr{\'a}{\v s}il, Ondrej} } @article {8404, title = {Eleotris (Teleostei: Eleotridae) from Indonesia with description of three news species}, journal = {Pacific Science}, volume = {75}, year = {2021}, month = {11/2021}, pages = {469-496}, abstract = {The species of Eleotris from Indonesia are reviewed and compared to the known species described from the area. Nine species are recognized including three new species in the {\textquoteleft}melanosoma{\textquoteright} neuromast pattern group. These are described using genetic and morpho-meristic approaches. The new species differ by a high percentage of genetic divergence in partial COI gene (652 bp) and by several characters including the number of pectoral fin rays, the number of scales in lateral, predorsal, forward and zigzag series. The main characteristics of the other known species in the area in the {\textquoteleft}melanosoma{\textquoteright} group, Eleotris melanosoma Bleeker, 1853 and Eleotris macrolepis (Bleeker, 1875), both belonging to this group, are given for comparison. A key for Eleotris species from Indonesia is provided.}, doi = {https://doi.org/10.2984/75.4.2}, author = {Marion Mennesson and Philippe Keith and Hubert, Nicolas} } @article {7995, title = {Environmental heterogeneity drives phytoplankton community assembly patterns in a tropical riverine system}, journal = {Peer Community In Ecology}, year = {2021}, month = {Jan-05-2023}, doi = {10.24072/pci.ecology.100083}, url = {https://ecology.peercommunityin.org/articles/rec?id=86}, author = {C{\'e}dric Hubas and Goberville, Eric} } @article {8547, title = {Epizoic diatoms on sea turtles and their relationship to host species, behaviour and biogeography: a morphological approach}, journal = {European Journal of Phycology}, volume = {56}, year = {2021}, month = {Feb-10-2021}, pages = {359 - 372}, issn = {0967-0262}, doi = {10.1080/09670262.2020.1843077}, url = {https://www.tandfonline.com/doi/full/10.1080/09670262.2020.1843077}, author = {Riaux-Gobin, Catherine and Ashworth, Matt P. and Kociolek, J.Patrick and Chevallier, Damien and Saenz-Agudelo, Pablo and Witkowski, Andrzej and Daniszewska-Kowalczyk, Genowefa and Gaspar, Cecile and Lagant, Magali and Touron, Margaux and Carpentier, Alice and Stabile, Vie and Planes, Serge} } @proceedings {8068, title = {Establishing water sample protocols for radiocarbon analysis at LAC-UFF, Brazil}, year = {2021}, month = {09/2021}, pages = {1-8}, abstract = {Since the establishment of the first radiocarbon accelerator mass spectrometry facility in Latin America in 2009, the Radiocarbon Laboratory team of Universidade Federal Fluminense (LAC-UFF) has worked to improve sample preparation protocols and increase the range of environmental matrices to be analyzed. We now present the preliminary results for DIC sample preparation protocols. The first validation tests include background evaluation with pMC value (0.35 {\textpm} 0.04) using bicarbonate dissolved in water. We also analyzed surface seawater resulting in pMC value (101.38 {\textpm} 0.38) and a groundwater previously dated from LEMA AMS-Laboratory with pMC value (12.30 {\textpm} 0.15).}, issn = {0033-8222}, doi = {10.1017/RDC.2021.1}, url = {https://www.cambridge.org/core/product/identifier/S0033822221000011/type/journal_article}, author = {Bragan{\c c}a, Daniela and Oliveira, Fabiana and Macario, Kita and Nunes, Vinicius and Muniz, Marcelo and Lamego, Fernando and Gwena{\"e}l Abril and Nepomuceno, Aguinaldo and Sol{\'\i}s, Corina and Rodr{\'\i}guez-Ceja, Mar{\'\i}a} } @article {8466, title = {Estimating ecotoxicological effects of chemicals on tropical reef-building corals; a systematic review protocol}, journal = {Environmental Evidence}, volume = {10}, year = {2021}, month = {Dec-11-2021}, doi = {10.1186/s13750-021-00250-y}, url = {https://environmentalevidencejournal.biomedcentral.com/articles/10.1186/s13750-021-00250-y}, author = {Ou{\'e}draogo, Dakis-Yaoba and Perceval, Olivier and Ferrier-Pages, Christine and Domart-Coulon, Isabelle and H{\'e}douin, Laetitia and Burga, Karen and Mireille M.M. Guillaume and Calvayrac, Christophe and Castelin, Magalie and Reyjol, Yorick and Sordello, Romain} } @article {7412, title = {European small pelagic fish distribution under global change scenarios}, journal = {Fish and Fisheries}, volume = {22}, year = {2021}, month = {10/2020}, pages = {212-225}, abstract = {The spectre of increasing impacts on exploited fish stocks in consequence of warmer climate conditions has become a major concern over the last decades. It is now imperative to improve the way we project the effects of future climate warming on fisheries. While estimating future climate-induced changes in fish distribution is an important contribution to sustainable resource management, the impacts on European small pelagic fish{\textemdash}representing over 50\% of the landings in the Mediterranean and Black Sea between 2000 and 2013{\textemdash}are yet largely understudied. Here, we investigated potential changes in the spatial distribution of seven of the most harvested small pelagic fish species in Europe under several climate change scenarios over the 21st century. For each species, we considered eight Species Distribution Models (SDMs), five General Circulation Models (GCMs) and three emission scenarios (the IPCC Representative Concentration Pathways; RCPs). Under all scenarios, our results revealed that the environmental suitability for most of the seven species may strongly decrease in the Mediterranean and western North Sea while increasing in the Black and Baltic Seas. This potential northward range expansion of species is supported by a strong convergence among projections and a low variability between RCPs. Under the most pessimistic scenario (RCP8.5), climate-related local extinctions were expected in the south-eastern Mediterranean basin. Our results highlight that a multi-SDM, multi-GCM, multi-RCP approach is needed to produce more robust ecological scenarios of changes in exploited fish stocks in order to better anticipate the economic and social consequences of global climate change.}, issn = {1467-2960}, doi = {10.1111/faf.12515}, url = {https://onlinelibrary.wiley.com/doi/10.1111/faf.12515}, author = {Schickele, Alexandre and Goberville, Eric and Leroy, Boris and Gr{\'e}gory Beaugrand and Hattab, Tarek and Patrice Francour and Virginie Raybaud} } @article {8106, title = {Eutrophication overcoming carbonate precipitation in a tropical hypersaline coastal lagoon acting as a CO2 sink (Araruama Lagoon, SE Brazil)}, journal = {Biogeochemistry}, year = {2021}, month = {Jun-08-2022}, issn = {0168-2563}, doi = {10.1007/s10533-021-00842-3}, url = {https://link.springer.com/10.1007/s10533-021-00842-3}, author = {Cotovicz, Luiz C. and Knoppers, Bastiaan A. and R{\'e}gis, Carolina R. and Tremmel, Daniel and Costa-Santos, Suzan and Gwena{\"e}l Abril} } @article {8200, title = {Evidence on the impacts of chemicals arising from human activity on tropical reef-building corals; a systematic map}, journal = {Environmental Evidence}, volume = {10}, year = {2021}, month = {Sep-22-2021}, doi = {10.1186/s13750-021-00237-9}, url = {https://environmentalevidencejournal.biomedcentral.com/articles/10.1186/s13750-021-00237-9}, author = {Ou{\'e}draogo, Dakis-Yaoba and Delaunay, Mathilde and Sordello, Romain and H{\'e}douin, L. and Castelin, Magalie and Perceval, Olivier and Domart-Coulon, Isabelle and Burga, Karen and Ferrier-Pages, Christine and Multon, Romane and Mireille M.M. Guillaume and L{\'e}ger, Cl{\'e}ment and Calvayrac, Christophe and Joannot, Pascale and Reyjol, Yorick} } @article {8728, title = {Exploration of chemosensory ionotropic receptors in cephalopods: the IR25 gene is expressed in the olfactory organs, suckers, and fins of Sepia officinalis.}, journal = {Chem Senses}, volume = {46}, year = {2021}, month = {2021 01 01}, abstract = {While they are mostly renowned for their visual capacities, cephalopods are also good at olfaction for prey, predator, and conspecific detection. The olfactory organs and olfactory cells are well described but olfactory receptors-genes and proteins-are still undescribed in cephalopods. We conducted a broad phylogenetic analysis of the ionotropic glutamate receptor family in mollusks (iGluR), especially to identify IR members (Ionotropic Receptors), a variant subfamily whose involvement in chemosensory functions has been shown in most studied protostomes. A total of 312 iGluRs sequences (including 111 IRs) from gastropods, bivalves, and cephalopods were identified and annotated. One orthologue of the gene coding for the chemosensory IR25 co-receptor has been found in Sepia officinalis (Soff-IR25). We searched for Soff-IR25 expression at the cellular level by in situ hybridization in whole embryos at late stages before hatching. Expression was observed in the olfactory organs, which strongly validates the chemosensory function of this receptor in cephalopods. Soff-IR25 was also detected in the developing suckers, which suggests that the unique {\guillemotleft} taste by touch {\guillemotright} behavior that cephalopods execute with their arms and suckers share features with olfaction. Finally, Soff-IR25 positive cells were unexpectedly found in fins, the two posterior appendages of cephalopods, mostly involved in locomotory functions. This result opens new avenues of investigation to confirm fins as additional chemosensory organs in cephalopods.
}, keywords = {Animals, Cephalopoda, Phylogeny, Receptors, Ionotropic Glutamate, Receptors, Odorant, Sepia, Smell}, issn = {1464-3553}, doi = {10.1093/chemse/bjab047}, author = {Aude Andouche and Valera, St{\'e}phane and S{\'e}bastien Baratte} } @article {7965, title = {First Assessment of the Benthic Meiofauna Sensitivity to Low Human-Impacted Mangroves in French Guiana}, journal = {Forests}, volume = {12}, year = {2021}, month = {Jan-03-2021}, pages = {338}, doi = {10.3390/f12030338}, url = {https://www.mdpi.com/1999-4907/12/3/338}, author = {Michelet, Claire and Zeppilli, Daniela and C{\'e}dric Hubas and Baldrighi, Elisa and Cuny, Philippe and Guillaume Dirberg and Militon, C{\'e}cile and Walcker, Romain and Lamy, Dominique and J{\'e}z{\'e}quel, Ronan and Receveur, Justine and Gilbert, Franck and Houssainy, Amonda El and Dufour, Aur{\'e}lie and Heimb{\"u}rger-Boavida, Lars-Eric and Bihannic, Isabelle and Sylvi, L{\'e}a and Vivier, Baptiste and Michaud, Emma} } @article {7779, title = {First highlight of sound production in the glassy sweeper Pempheris schomburgkii (Pempheridae)}, journal = {Marine Biology}, volume = {168}, year = {2021}, month = {Jan-03-2021}, issn = {0025-3162}, doi = {10.1007/s00227-021-03829-8}, url = {http://link.springer.com/10.1007/s00227-021-03829-8}, author = {Fr{\'e}d{\'e}ric Bertucci and Parmentier, Eric and Hillion, Ana{\"\i}s and Cordonnier, S{\'e}bastien and Lecchini, David and Ren{\'e}-Trouillefou, Malika} } @article {8111, title = {First use of acoustic calls to distinguish cryptic members of a fish species complex}, journal = {Zoological Journal of the Linnean Society}, year = {2021}, month = {08/2021}, doi = {10.1093/zoolinnean/zlab056}, url = {https://doi.org/10.1093/zoolinnean/zlab056}, author = {Parmentier, Eric and Scalbert, Robin and Raick, Xavier and Gache, Camille and Fr{\'e}d{\'e}rich, Bruno and Fr{\'e}d{\'e}ric Bertucci and Lecchini, David} } @article {7804, title = {Food source diversity, trophic plasticity, and omnivory enhance the stability of a shallow benthic food web from a high-Arctic fjord exposed to freshwater inputs}, journal = {Limnology and Oceanography}, volume = {66}, year = {2021}, month = {01/2021}, pages = {S259-S272}, type = {Research}, abstract = {BACKGROUND: In the animal kingdom, mollusca is an important phylum of the Lophotrochozoa. However, few studies have investigated the molecular cascade of sex determination/early gonadal differentiation within this phylum. The oyster Crassostrea gigas is a sequential irregular hermaphrodite mollusc of economic, physiological and phylogenetic importance. Although some studies identified genes of its sex-determining/-differentiating pathway, this particular topic remains to be further deepened, in particular with regard to the expression patterns. Indeed, these patterns need to cover the entire period of sex lability and have to be associated to future sex phenotypes, usually impossible to establish in this sequential hermaphrodite. This is why we performed a gonadal RNA-Seq analysis of diploid male and female oysters that have not changed sex for 4 years, sampled during the entire time-window of sex determination/early sex differentiation (stages 0 and 3 of the gametogenetic cycle). This individual long-term monitoring gave us the opportunity to explain the molecular expression patterns in the light of the most statistically likely future sex of each oyster.
RESULTS: The differential gene expression analysis of gonadal transcriptomes revealed that 9723 genes were differentially expressed between gametogenetic stages, and 141 between sexes (98 and 43 genes highly expressed in females and males, respectively). Eighty-four genes were both stage- and sex-specific, 57 of them being highly expressed at the time of sex determination/early sex differentiation. These 4 novel genes including Trophoblast glycoprotein-like, Protein PML-like, Protein singed-like and PREDICTED: paramyosin, while being supported by RT-qPCR, displayed sexually dimorphic gene expression patterns.
CONCLUSIONS: This gonadal transcriptome analysis, the first one associated with sex phenotypes in C. gigas, revealed 57 genes highly expressed in stage 0 or 3 of gametogenesis and which could be linked to the future sex of the individuals. While further study will be needed to suggest a role for these factors, some could certainly be original potential actors involved in sex determination/early sex differentiation, like paramyosin and could be used to predict the future sex of oysters.
}, keywords = {Animals, Crassostrea, Female, Gene Expression Profiling, Gonads, Humans, Male, Phenotype, Phylogeny, Sex Differentiation, Transcriptome}, issn = {1471-2164}, doi = {10.1186/s12864-021-07838-1}, author = {Broquard, Coralie and Saowaros, Suwansa-Ard and Lepoittevin, M{\'e}lanie and Degremont, Lionel and Lamy, Jean-Baptiste and Morga, Benjamin and Elizur, Abigail and Anne-Sophie Martinez} } @article {8067, title = {Greenhouse gas emissions (CO2 and CH4) and inorganic carbon behavior in an urban highly polluted tropical coastal lagoon (SE, Brazil)}, journal = {Environmental Science and Pollution Research}, year = {2021}, month = {04/2021}, issn = {0944-1344}, doi = {10.1007/s11356-021-13362-2}, url = {http://link.springer.com/10.1007/s11356-021-13362-2}, author = {Cotovicz, Luiz C. and Ribeiro, Renato P. and R{\'e}gis, Carolina Ramos and Bernardes, Marcelo and Sobrinho, Rodrigo and Vidal, Luciana Oliveira and Tremmel, Daniel and Knoppers, Bastiaan A. and Gwena{\"e}l Abril} } @article {8139, title = {High and rising economic costs of biological invasions worldwide}, journal = {Nature}, volume = {592}, year = {2021}, month = {Oct-04-2022}, pages = {571 - 576}, issn = {0028-0836}, doi = {10.1038/s41586-021-03405-6}, url = {http://www.nature.com/articles/s41586-021-03405-6}, author = {Diagne, Christophe and Leroy, Boris and Vaissi{\`e}re, Anne-Charlotte and Gozlan, Rodolphe E. and Roiz, David and Jari{\'c}, Ivan and Salles, Jean-Michel and Bradshaw, Corey J. A. and Courchamp, Franck} } @article {8098, title = {How many fish could be vocal? An estimation from a coral reef (Moorea Island)}, journal = {Belgian Journal of Zoology}, volume = {151}, year = {2021}, month = {02/2021}, doi = {10.26496/bjz.2021.82}, url = {https://www.belgianjournalofzoology.eu/BJZ/article/view/82}, author = {Parmentier, Eric and Fr{\'e}d{\'e}ric Bertucci and Bolgan, Marta and Lecchini, David} } @article {7987, title = {Identification of benthic egg masses and spawning grounds in commercial squid in the English Channel and Celtic Sea: Loligo vulgaris vs L. forbesii}, journal = {Fisheries Research}, volume = {241}, year = {2021}, month = {Jan-09-2021}, pages = {106004}, issn = {01657836}, doi = {10.1016/j.fishres.2021.106004}, url = {https://linkinghub.elsevier.com/retrieve/pii/S0165783621001326}, author = {Laptikhovsky, Vladimir and Cooke, Gavan and Barrett, Christopher and Lozach, Sophie and MacLeod, Eleanor and Oesterwind, Daniel and Sheerin, Edel and Petroni, Michael and Barnwall, Leigh and Jean-Paul Robin and Allcock, Louise and Power, Anne Marie} } @article {8147, title = {Impacts of climate change on the Bay of Seine ecosystem: Forcing a spatio-temporal trophic model with predictions from an ecological niche model}, journal = {Fisheries Oceanography}, volume = {30}, year = {2021}, month = {Jan-09-2021}, pages = {471 - 489}, issn = {1054-6006}, doi = {10.1111/fog.v30.510.1111/fog.12531}, url = {https://onlinelibrary.wiley.com/toc/13652419/30/5}, author = {Bourdaud, Pierre and Ben Rais Lasram, Frida and Araignous, Emma and Champagnat, Juliette and Grusd, Samantha and Halouani, Ghassen and Hattab, Tarek and Leroy, Boris and Nogues, Quentin and Raoux, Aurore and Safi, Georges and Nathalie Niquil} } @article {8452, title = {Influence des perturbations anthropiques sur les communaut{\'e}s de petits mammif{\`e}res des savanes gabonaises}, journal = {International Journal of Biological and Chemical Sciences}, volume = {15}, year = {2021}, month = {Jul-11-2022}, pages = {1355 - 1368}, issn = {1991-8631}, doi = {10.4314/ijbcs.v15i4.5}, url = {https://www.ajol.info/index.php/ijbcs/article/view/217478}, author = {Mboumba, Jean-Fran{\c c}ois and Momboua, Brice Roxan and Perin, Eline and Fr{\'e}d{\'e}ric Ysnel} } @article {7823, title = {Influence of environmental conditions on the distribution of burrows of the mud crab, Scylla serrata, in a fringing mangrove ecosystem}, journal = {Regional Studies in Marine Science}, volume = {43}, year = {2021}, month = {Jan-03-2021}, pages = {101684}, abstract = {Mud crab, Scylla serrata, is a common mangrove species in the Indian Ocean. Over the last decades, fishing pressure has greatly increased especially in Madagascar. Therefore, improving the knowledge of mud crab biology and ecology is crucial to guide conservation and restoration plans. This study aimed at describing the distribution of burrows of the mud crab in a mangrove in southwestern Madagascar. Burrows fulfill an essential functional role by limiting the exposure of crab to environmental stress, such as desiccation during low tide, and predation. A total of 140 burrows were observed and available conditions were described at 168 random sampling points at low tide in three different mangrove zones, during the dry season (July 2014). Twelve environmental factors were recorded to reflect the position within the mangrove, the substrate composition and the surrounding floristic structure. A multivariate ordination analysis highlighted an overall association between burrows and specific habitat conditions. Boosted regression trees then indicated that the burrows distribution was predominantly explained by the avoidance of hard substrates. The occurrence of burrows was positively related to the upper intertidal zone of the mangrove where the water level was below 100 cm. Although the tree density had a positive effect, the occurrence of burrows was higher for low percentage of shade (\<40\%). These results provide insight for identifying mangrove areas that have an essential functional role for the conservation of mud crab populations.}, keywords = {Crustacean, Floristic structure, Habitat conditions, Mangrove crab, Substratum composition}, issn = {23524855}, doi = {10.1016/j.rsma.2021.101684}, url = {https://linkinghub.elsevier.com/retrieve/pii/S2352485521000761}, author = {Leoville, Alexandre and Lagarde, Rapha{\"e}l and Grondin, Henri and Faivre, La{\"e}titia and Rasoanirina, Elisa and Teichert, Nils} } @article {8109, title = {Influence of infrastructure material composition and microtopography on marine biofilm growth and photobiology}, journal = {Biofouling}, year = {2021}, month = {Apr-08-2022}, pages = {1 - 17}, issn = {0892-7014}, doi = {10.1080/08927014.2021.1959918}, url = {https://www.tandfonline.com/doi/full/10.1080/08927014.2021.1959918}, author = {Vivier, Baptiste and Pascal Claquin and Lelong, Christophe and Lesage, Quentin and Peccate, Mathias and Hamel, Bastien and Georges, Marine and Bourguiba, Amel and Sebaibi, Nassim and Boutouil, Mohamed and Goux, Didier and Dauvin, Jean-Claude and Francis Orvain} } @article {9129, title = {Interactions between Filter-Feeding Bivalves and Toxic Diatoms: Influence on the Feeding Behavior of Crassostrea gigas and Pecten maximus and on Toxin Production by Pseudo-nitzschia}, journal = {Toxins}, volume = {13}, year = {2021}, month = {Jan-08-2021}, pages = {577}, doi = {10.3390/toxins13080577}, url = {https://www.mdpi.com/2072-6651/13/8/577}, author = {Sauvey, Aurore and Denis, Fran{\c c}oise and H{\'e}garet, H{\'e}l{\`e}ne and Le Roy, Bertrand and Lelong, Christophe and Jolly, Orianne and Pavie, Marie and Juliette Fauchot} } @article {8798, title = {Interdependence of thyroid and corticosteroid signalling in vertebrate developmental transitions}, journal = {Frontiers in Ecology and Evolution}, volume = {9}, year = {2021}, pages = {735487}, doi = {10.3389/fevo.2021.735487}, author = {Karine Rousseau and Sylvie Dufour and Sachs, Laurent M} } @article {9363, title = {Interstitial Annelida}, journal = {Diversity}, volume = {13}, year = {2021}, month = {Jan-02-2021}, pages = {77}, doi = {10.3390/d13020077}, url = {https://www.mdpi.com/1424-2818/13/2/77}, author = {Worsaae, Katrine and Kerbl, Alexandra and Domenico, Maikon Di and Gonzalez, Brett C. and Bekkouche, Nicolas and Mart{\'\i}nez, Alejandro} } @article {8446, title = {Involvement of RFamide neuropeptides in polyp contraction of the adult scleractinian corals Euphyllia ancora and Stylophora pistillata}, journal = {General and Comparative Endocrinology}, volume = {314}, year = {2021}, month = {Jan-12-2021}, pages = {113905}, issn = {00166480}, doi = {10.1016/j.ygcen.2021.113905}, url = {https://linkinghub.elsevier.com/retrieve/pii/S0016648021001982}, author = {Zhang, Yan and Shikina, Shinya and Ho, Yu-Ying and Chiu, Yi-Ling and I-Chen Yao, Jack and C{\'e}line Zatylny-Gaudin and Sylvie Dufour and Chang, Ching-Fong} } @article {8794, title = {Involvement of Transforming Growth Factor Beta family genes in gonadal differentiation in Japanese eel, Anguilla japonica, according to sex-related gene expressions}, journal = {Cells}, volume = {10}, year = {2021}, pages = {3007}, url = {https://doi.org/10.3390/cells10113007}, author = {Lin, Chien-Ju and Jeng, Shan-Ru and Lei, Zhen-Yuan and Yueh, When-Shiun and Sylvie Dufour and Wu, Guan-Chung and Chang, Ching-Fong} } @article {8454, title = {Isolation-by-distance and male-biased dispersal at a fine spatial scale: a study of the common European adder (Vipera berus) in a rural landscape}, journal = {Conservation Genetics}, volume = {22}, year = {2021}, month = {Jan-10-2021}, pages = {823 - 837}, issn = {1566-0621}, doi = {10.1007/s10592-021-01365-y}, url = {https://link.springer.com/10.1007/s10592-021-01365-y}, author = {Fran{\c c}ois, Donatien and Ursenbacher, Sylvain and Boissinot, Alexandre and Fr{\'e}d{\'e}ric Ysnel and Lourdais, Olivier} } @article {8741, title = {Kakila database: Towards a FAIR community approved database of cetacean presence in the waters of the Guadeloupe archipelago based on citizen science}, journal = {Biodiversity Data Journal}, volume = {9}, year = {2021}, month = {Oct-07-2022}, issn = {1314-2836}, doi = {10.3897/BDJ.9.e69022}, url = {https://bdj.pensoft.net/article/69022/}, author = {Coch{\'e}, Lorraine and Arnaud, Elie and Bouveret, Laurent and David, Romain and Foulquier, Eric and Gandilhon, Nad{\`e}ge and Jeannesson, Etienne and Le Bras, Yvan and Lerigoleur, Emilie and Pascal Jean Lopez and Madon, B{\'e}n{\'e}dicte and Sananikone, Julien and S{\`e}be, Maxime and Le Berre, Iwan and Jung, Jean-Luc and Jung, Jean-Luc and Coch{\'e}, Lorraine and Arnaud, Elie and Lerigoleur, Emilie and Pascal Jean Lopez and Madon, B{\'e}n{\'e}dicte and Sananikone, Julien and S{\`e}be, Maxime and Le Berre, Iwan and Jung, Jean-Luc and Sananikone, Julien and S{\`e}be, Maxime and Le Berre, Iwan and Jung, Jean-Luc and Coch{\'e}, Lorraine and Arnaud, Elie and Bouveret, Laurent and David, Romain and Foulquier, Eric and Gandilhon, Nad{\`e}ge and Jeannesson, Etienne and Le Bras, Yvan and Lerigoleur, Emilie and Pascal Jean Lopez and Madon, B{\'e}n{\'e}dicte and Sananikone, Julien and S{\`e}be, Maxime and Le Berre, Iwan and Jung, Jean-Luc and Coch{\'e}, Lorraine and Arnaud, Elie and Bouveret, Laurent and David, Romain and Foulquier, Eric and Gandilhon, Nad{\`e}ge and Jeannesson, Etienne and Le Bras, Yvan and Lerigoleur, Emilie and Pascal Jean Lopez and Madon, B{\'e}n{\'e}dicte and Sananikone, Julien and S{\`e}be, Maxime and Le Berre, Iwan and Jung, Jean-Luc and Coch{\'e}, Lorraine and Arnaud, Elie and Bouveret, Laurent and David, Romain and Foulquier, Eric and Gandilhon, Nad{\`e}ge and Jeannesson, Etienne and Le Bras, Yvan and Lerigoleur, Emilie and Pascal Jean Lopez and Madon, B{\'e}n{\'e}dicte and Sananikone, Julien and S{\`e}be, Maxime and Le Berre, Iwan and Jung, Jean-Luc and Coch{\'e}, Lorraine and Arnaud, Elie and Bouveret, Laurent and David, Romain and Foulquier, Eric and Gandilhon, Nad{\`e}ge and Jeannesson, Etienne} } @article {8754, title = {La protection des milieux aquatiques. Vuln{\'e}rabilit{\'e} et sensibilit{\'e} fonctionnelle des communaut{\'e}s de poissons}, journal = {Sciences Eaux \& Territoires}, volume = {N{\textdegree} 37}, year = {2021}, month = {Jan-12-2022}, pages = {76 - 81}, abstract = {Les approches en {\'e}cologie fonctionnelle ouvrent aujourd{\textquoteright}hui de nouvelles perspectives dans le domaine du diagnostic {\'e}cologique. C{\textquoteright}est le cas par exemple du crit{\`e}re de la redondance fonctionnelle que les auteurs de cet article ont appliqu{\'e} aux communaut{\'e}s de poissons pour {\'e}valuer leur sensibilit{\'e} fonctionnelle {\`a} la perte d{\textquoteright}esp{\`e}ces, et au-del{\`a}, mesurer l{\textquoteright}influence d{\textquoteright}un d{\'e}clin potentiel de diversit{\'e} sur le fonctionnement de l{\textquoteright}{\'e}cosyst{\`e}me. L{\textquoteright}int{\'e}gration de ce type d{\textquoteright}indice, en compl{\'e}ment des crit{\`e}res habituels, est utile pour d{\'e}finir des plans de gestion ou des sites prioritaires {\`a} prot{\'e}ger face {\`a} des perturbations environnementales, en se concentrant sur les processus {\'e}cosyst{\'e}miques.}, issn = {2109-3016}, doi = {10.3917/set.037.0076}, url = {https://www.cairn.info/revue-sciences-eaux-et-territoires-2021-3-page-76.htm?ref=doi}, author = {Teichert, Nils and Lepage, Mario and Hette-Tronquart, Nicolas and Argillier, Christine} } @article {8090, title = {Levels of genetic differentiation and gene flow between four populations of the Scaly-naped Pigeon, Patagioenas squamosa: implications for conservation}, journal = {Studies on Neotropical Fauna and Environment}, year = {2021}, month = {Feb-02-2022}, pages = {1 - 13}, issn = {0165-0521}, doi = {10.1080/01650521.2021.1878765}, url = {https://www.tandfonline.com/doi/full/10.1080/01650521.2021.1878765}, author = {Cambrone, Christopher and C{\'e}zilly, Frank and Wattier, R{\'e}mi and Eraud, Cyril and Bezault, Etienne} } @article {7211, title = {Links between introduced fish and zooplanktonic and zoobenthic food sources in the food webs of two reservoirs of a semi-arid zone in Algeria}, journal = {African Journal of Aquatic Science}, volume = {46}, year = {2021}, month = {09/2020}, pages = {33- 44}, abstract = {Few studies have focused on the trophic functioning of the reservoirs in Algeria. The study of the gut contents of fish species, as well as the analysis of the stable isotopes of 13C and 15N in the environment, were carried out on samples collected during spring 2010 in two reservoirs: Ghrib and Harreza of the upper Cheliff plain (Algeria) within a semi-arid climate zone. In each of the reservoirs, 13C and 15N were measured in sediments, particulate organic matter (POM), macrophytes, zooplankton, zoobenthos and fish. The isotopic analysis shows that the carbon values that supply both reservoirs, Ghrib and Harreza, were -31.16 {\textpm} 0.05 \< 13C \< -18.01 {\textpm} 0.21{\textperthousand} and -30.82 {\textpm} 0.07 \< 13C \< -17.24 {\textpm} 3.50{\textperthousand}, respectively. The carnivorous fish Sander lucioperca, and Abramis brama, an omnivorous fish, were allocated to the top of the food web in Ghrib and Harreza reservoirs, respectively. In the latter, a reservoir with low hydrodynamism and depth, the food web is simpler with a single fish species, which benefits from both benthic and pelagic sources. In Ghrib, a deeper dam with stronger hydrodynamics, only the riverine crab Potamon algeriense exploits the benthic sources, whereas fish mainly feed on zooplankton}, issn = {1608-5914}, doi = {10.2989/16085914.2020.1787124}, url = {https://www.tandfonline.com/doi/full/10.2989/16085914.2020.1787124}, author = {Djezzar, M and Mortillaro, JM and Doumandji, SE and Tarik Meziane} } @article {8093, title = {Local perceptions of socio-ecological drivers and effects of coastal armoring: the case of Moorea, French Polynesia}, journal = {Population and Environment}, year = {2021}, month = {08/2021}, doi = {10.1007/s11111-021-00391-9}, url = {https://doi.org/10.1007/s11111-021-00391-9}, author = {Calandra, Ma{\"e}lle and Wenc{\'e}lius, Jean and Madi Moussa, Rakamaly and Gache, Camille and Berthe, C{\'e}cile and Waqalevu, Viliame and Ung, Pascal and Lerouvreur, Franck and Bambridge, Tamatoa and Galzin, Ren{\'e} and Fr{\'e}d{\'e}ric Bertucci and Lecchini, David} } @article {8094, title = {Long term relationship between farming damselfish, predators, competitors and benthic habitat on coral reefs of Moorea Island}, journal = {Scientific Reports}, volume = {11}, year = {2021}, month = {07/2021}, pages = {14548}, doi = {10.1038/s41598-021-94010-0}, url = {http://www.nature.com/articles/s41598-021-94010-0}, author = {Feeney, William E. and Fr{\'e}d{\'e}ric Bertucci and Gairin, Emma and Siu, Gilles and Waqalevu, Viliame and Antoine, Morgan and Lison de Loma, Thierry and Planes, Serge and Galzin, Ren{\'e} and Lecchini, David} } @article {7854, title = {Marine artificial reefs, a meta-analysis of their design, objectives and effectiveness}, journal = {Global Ecology and Conservation}, year = {2021}, month = {Jan-03-2021}, pages = {e01538}, issn = {23519894}, doi = {10.1016/j.gecco.2021.e01538}, url = {https://linkinghub.elsevier.com/retrieve/pii/S2351989421000883}, author = {Vivier, Baptiste and Dauvin, Jean-Claude and Navon, Maxime and Anne-Marie Rusig and Isabelle Mussio and Francis Orvain and Boutouil, Mohamed and Pascal Claquin} } @article {8095, title = {Marine biodiversity of a pristine coral reef in French Polynesia}, journal = {Island Studies Journal}, volume = {16}, year = {2021}, month = {Jan-05-2021}, pages = {292 - 307}, doi = {10.24043/isj10.24043/isj.16.110.24043/isj.150}, url = {https://www.islandstudies.ca/}, author = {Lecchini, David and Fr{\'e}d{\'e}ric Bertucci and Fogg, Lily and Gache, Camille and Ung, Pascal and Lacube, Yann and Berthe, C{\'e}cile and Waqalevu, Viliame and Siu, Alain and Bambridge, Tamatoa} } @article {8445, title = {Marine Transcriptomic Analysis for the Identification of New Antimicrobial Peptides}, journal = {Marine Drugs}, volume = {19}, year = {2021}, month = {Jan-09-2021}, pages = {490}, doi = {10.3390/md19090490}, url = {https://www.mdpi.com/1660-3397/19/9/490}, author = {Houyvet, Baptiste and Bouchon-Navaro, Yolande and Bouchon, Claude and Corre, Erwan and C{\'e}line Zatylny-Gaudin} } @article {8203, title = {Maturity of a giant: age and size reaction norm for sexual maturity for Atlantic leatherback turtles}, journal = {Marine Ecology}, year = {2021}, month = {Jul-08-2023}, issn = {0173-9565}, doi = {10.1111/maec.12631}, url = {https://onlinelibrary.wiley.com/doi/10.1111/maec.12631}, author = {Girondot, Marc and Mourrain, Baptiste and Chevallier, Damien and Godfrey, Matthew H.} } @article {7884, title = {Melatonin and osmoregulation in fish: A focus on Atlantic salmon Salmo salar smoltification}, journal = {Journal of Neuroendocrinology}, volume = {33}, year = {2021}, month = {Jan-03-2021}, abstract = {Part of the life cycle of several fish species includes important salinity changes, as is the case for the sea bass (Dicentrarchus labrax) or the Atlantic salmon (Salmo salar).\ Salmo\ salar\ juveniles migrate downstream from their spawning sites to reach seawater, where they grow and become sexually mature. The process of preparation enabling juveniles to migrate downstream and physiologically adapt to seawater is called smoltification. Daily and seasonal variations of photoperiod and temperature play a role in defining the timing of smoltification, which may take weeks to months, depending on the river length and latitude. Smoltification is characterised by a series of biochemical, physiological and behavioural changes within the neuroendocrine axis. This review discusses the current knowledge and gaps related to the neuroendocrine mechanisms that mediate the effects of light and temperature on smoltification. Studies performed in\ S.\ salar\ and other salmonids, as well as in other species undergoing important salinity changes, are reviewed, and a particular emphasis is given to the pineal hormone melatonin and its possible role in osmoregulation. The daily and annual variations of plasma melatonin levels reflect corresponding changes in external photoperiod and temperature, which suggests that the hormonal time-keeper melatonin might contribute to controlling smoltification. Here, we review studies on (i) the impact of pinealectomy and/or melatonin administration on smoltification; (ii) melatonin interactions with hormones involved in osmoregulation (e.g., prolactin, growth hormone and cortisol); (iii) the presence of melatonin receptors in tissues involved in osmoregulation; and (iv) the impacts of salinity changes on melatonin receptors and circulating melatonin levels. Altogether, these studies show evidence indicating that melatonin interacts with the neuroendocrine pathways controlling smoltification, although more information is needed to clearly decipher its mechanisms of action.}, issn = {0953-8194}, doi = { https://doi.org/10.1111/jne.12955}, url = {https://onlinelibrary.wiley.com/toc/13652826/33/3}, author = {Nisembaum, Laura Gabriela and Martin, Patrick and Lecomte, Fr{\'e}d{\'e}ric and Falc{\'o}n, Jack} } @article {8837, title = {The Merits of Loop Analysis for the Qualitative Modeling of Social-Ecological Systems in Presence of Offshore Wind Farms}, journal = {Frontiers in Ecology and Evolution}, volume = {9}, year = {2021}, month = {May-02-2022}, doi = {10.3389/fevo.2021.635798}, url = {https://www.frontiersin.org/articles/10.3389/fevo.2021.635798/full}, author = {Nathalie Niquil and Scotti, Marco and Fofack-Garcia, Rhoda and Haraldsson, Matilda and Thermes, Maud and Raoux, Aurore and Le Loc{\textquoteright}h, Francois and Maz{\'e}, Camille} } @article {8085, title = {Molecular and cellular regulation on sex change in hermaphroditic fish, with a special focus on protandrous black porgy, Acanthopagrus schlegelii.}, journal = {Mol Cell Endocrinol}, volume = {520}, year = {2021}, month = {2021 01 15}, pages = {111069}, abstract = {In teleost fish, sex can be determined by genetic factors, environmental factors, or both. Unlike in gonochoristic fish, in which sex is fixed in adults, sex can change in adults of hermaphroditic fish species. Thus, sex is generated during the initial gonadal differentiation stage (primary sex differentiation) and later during sexual fate alternation (secondary sex differentiation) in hermaphroditic fish species. Depending on the species, sex phase alternation can be induced by endogenous cues (such as individual age and body size) or by social cues (such as sex ratio or relative body size within the population). In general, the fluctuation in plasma estradiol-17β (E2) levels is correlated with the sexual fate alternation in hermaphroditic fish. Hormonal treatments can artificially induce sexual phase alternation in sequential hermaphroditic fishes, but in a transient and reversible manner. This is the case for the E2-induced female phase in protandrous black porgy and the methyltestosterone (MT)- or aromatase inhibitor (AI)-induced male phase in protogynous grouper. Recent reviews have focused on the different forms of sex change in fish who undergo sequential sex change, especially in terms of gene expression and the role of hormones. In this review, we use the protandrous black porgy, a nonsocial cue-influenced hermaphroditic species, with digonic gonads (ovarian and testis separated by a connective tissue), as a model to describe our findings and discuss the molecular and cellular regulation of sexual fate determination in hermaphroditic fish.
}, issn = {1872-8057}, doi = {10.1016/j.mce.2020.111069}, author = {Wu, Guan-Chung and Sylvie Dufour and Chang, Ching-Fong} } @article {7996, title = {Molecular and physiological characterization of a crustacean cardioactive signaling system in a lophotrochozoan - the Pacific oyster (Crassostrea gigas): a role in reproduction and salinity acclimation.}, journal = {J Exp Biol}, volume = {224}, year = {2021}, month = {2021 May 15}, abstract = {The crustacean cardioactive peptide (CCAP) is an important neuropeptide involved in the regulation of a variety of physiological processes in arthropods. Although this family of peptides has an ancestral origin, its function remains poorly understood among protostome species - apart from arthropods. We functionally characterized three G protein-coupled receptors (GPCRs) in the oyster Crassostrea gigas, phylogenetically related to ecdysozoan CCAP receptors (CCAPRs) and to chordate neuropeptide S receptors (NPSRs). Cragi-CCAPR1 and Cragi-CCAPR2 were specifically activated by the Cragi-CCAP1 and Cragi-CCAP2 peptides, respectively, both derived from the same CCAP precursor. In contrast, Cragi-CCAPR3 was only partially activated by CCAP1 and CCAP2 at high concentrations. The Cragi-CCAPR1 and Cragi-CCAPR2 genes were expressed in various adult tissues. They are both most expressed in the gills, while Cragi-CCAPR3 is mainly expressed in the visceral ganglia (VG). Cragi-CCAP precursor transcripts are higher in the VG, the labial palps and the gills. Receptor and ligand-encoding transcripts are more abundantly expressed in the gonads in the first stages of gametogenesis, while the Cragi-CCAP precursor is upregulated in the VG in the last stages of gametogenesis. This suggests a role of the CCAP signaling system in the regulation of reproductive processes. A role in water and ionic regulation is also supported considering the differential expression of the CCAP signaling components in oysters exposed to brackish water.
}, issn = {1477-9145}, doi = {10.1242/jeb.241588}, author = {R{\'e}alis-Doyelle, Emilie and Julie Schwartz and Marie-Pierre Dubos and Pascal Favrel} } @article {9257, title = {Morphostructural data and phylogenetic relationships of a new cnidarian myxosporean infecting spleen of an economic and ecological important bryconid fish from Brazil}, journal = {Microbial Pathogenesis}, volume = {150}, year = {2021}, month = {Jan-01-2021}, pages = {104718}, issn = {08824010}, doi = {10.1016/j.micpath.2020.104718}, url = {https://linkinghub.elsevier.com/retrieve/pii/S0882401020310846}, author = {Milanin, Tiago and Mathews, Patrick D. and Morandini, Andr{\'e} C. and Mertins, Omar and Audebert, Fabienne and Pereira, Jose O.L. and Maia, Antonio A.M.} } @article {8347, title = {Multi-trophic markers illuminate the understanding of the functioning of a remote, low coral cover Marquesan coral reef food web}, journal = {Scientific Reports}, volume = {11}, year = {2021}, month = {Jan-12-2021}, abstract = {We studied the food web structure and functioning of a coral reef ecosystem in the Marquesas Islands, French Polynesia, characterized by low coral cover, high sea surface temperature and meso- to eutrophic waters. The Marquesas constitute a relevant ecosystem to understand the functioning of low diversity reefs that are also subject to global change. A multi-tracer assessment of organic matter pathways was run to delineate ecosystem functioning, using analysis of fatty acids, bulk and compound specific stable isotope analysis and stable isotopes mixing models. Macroalgae and phytoplankton were the two major food sources fueling this food web with, however, some marked seasonal variations. Specifically, zooplankton relied on phytoplankton-derived organic matter and herbivorous fishes on macroalgae-derived organic matter to a much higher extent in summer than in winter (~ 75\%\ vs. ~ 15\%, and ~ 70 to 75\%\ vs. ~ 5 to 15\%, respectively) . Despite remarkably high δ15N values for all trophic compartments, likely due to local dynamics in the nitrogen stock, trophic levels of consumers were similar to those of other coral reef ecosystems. These findings shed light on the functioning of low coral cover systems, which are expected to expand worldwide under global change.}, doi = {10.1038/s41598-021-00348-w}, url = {https://www.nature.com/articles/s41598-021-00348-w}, author = {Fey, Pauline and Parravicini, Valeriano and B{\u a}naru, Daniela and Dierking, Jan and Galzin, Ren{\'e} and Lebreton, Beno{\^\i}t and Tarik Meziane and Polunin, Nicholas V. C. and Zubia, Mayalen and Letourneur, Yves} } @article {7181, title = {Mytilus edulis and Styela clava assimilate picophytoplankton carbon through feces and pseudofeces ingestion}, journal = {Aquaculture}, volume = {531}, year = {2021}, month = {Jan-01-2021}, pages = {735868}, abstract = {Picophytoplankton (PPP) may contribute to the bulk of primary production in nutrient-rich marine ecosystems. In this study, we quantified the capacity of blue mussels (Mytilus edulis) and clubbed tunicates (Styela clava) to exploit PPP. In the water, we introduced PPP cells that were isotopically labelled with\ 13C and using the same enrichment approach, we measured the secondary transfer (recycling) of carbon via the assimilation of pseudofeces and feces. Results show that both\ M. edulis\ and\ S. clava\ assimilate PPP carbon by ingesting PPP cells directly from water. In addition, PPP assimilation rates were similar in both species. Most interesting was our observation that both species assimilated PPP carbon contained in pseudofeces and feces, including large fecal pellets produced by\ S. clava.\ We conclude that within cultured and invasive filter feeders, PPP carbon is recycled via ingestion of feces and pseudofeces among individuals growing in close proximity. In aquaculture settings, cultured bivalves and fouling tunicates may provide an ecological service by removing excess PPP in nutrient-rich systems via direct and secondary ingestion.Rafts of drifting pelagic that are circulating across the Atlantic Ocean are complex ecosystems composed of a large number of associated species. Upon massive stranding, they lead to various socio-environmental issues including the inflow of contaminants and human health concerns. In this study, we used metabarcoding approaches to examine the differences in both the eukaryotic- and prokaryotic-associated communities from present in two islands of the Lesser Antilles, namely Guadeloupe and Martinique. We detected significant differences in microbial community structure and composition between landing , the surrounding seawater, and from inland storage sites. In total we identified 22,214 prokaryotic and 17,679 eukaryotic OTUs. Among them, functional prediction analyses revealed a number of prokaryotes that might contribute to organic matter decomposition, nitrogen cycling and gas production, including sulfate-reducing bacteria at coastal landing sites, and methanogenic archaea at inland storage sites. We also found that Metazoan was the most abundant group in samples, with nematode clades that presented exclusive or specific richness and abundance patterns depending on their substrate. Together, these molecular inventories of the micro- and meiofauna communities provide baseline information for further characterization of trophic interactions, algal organic matter decomposition and nutrient transfers at coastal and inland storage sites.
}, issn = {1664-302X}, doi = {10.3389/fmicb.2021.701155}, author = {Herv{\'e}, Vincent and Josie Lambourdi{\`e}re and Ren{\'e}-Trouillefou, Malika and Devault, Damien Alain and Pascal Jean Lopez} } @article {8150, title = {Seasonal Variations in the Biodiversity, Ecological Strategy, and Specialization of Diatoms and Copepods in a Coastal System With Phaeocystis Blooms: The Key Role of Trait Trade-Offs}, journal = {Frontiers in Marine Science}, volume = {8}, year = {2021}, month = {09/2021}, pages = {1178}, abstract = {Although eutrophication induced by anthropogenic nutrient enrichment is a driver of shifts in community composition and eventually a threat to marine biodiversity, the causes and consequences on ecosystem functioning remain greatly unknown. In this study, by applying a trait-based approach and measuring niche breadth of diatoms and copepods, the drivers and underlying mechanisms of the seasonal species succession of these ecological communities in a coastal system dominated in spring by\ Phaeocystis\ blooms were explored. It is suggested that the seasonal succession of diatoms and copepods is the result of several trade-offs among functional traits that are controlled by the seasonal abiotic and biotic pressure encountered by the plankton communities. The results of this study highlight that a trade-off between competition and predator, i.e., weak competitors are better protected against predation, plays an important role in promoting plankton species richness and triggers the\ Phaeocystis\ bloom. As often observed in eutrophicated ecosystems, only the biotic homogenization of the copepod community and the shift in the diet of copepods toward\ Phaeocystis\ detrital materials have been detected during the\ Phaeocystis\ bloom. The diatom and copepod communities respond synchronously to fluctuating resources and biotic conditions by successively selecting species with specific traits. This study confirms the key role of competition and predation in controlling annual plankton succession.}, issn = {2296-7745}, url = {https://www.frontiersin.org/articles/10.3389/fmars.2021.656300/full}, author = {Breton, Elsa and Christaki, Urania and Benoit Sautour and Demonio, Oscar and Skouroliakou, Dimitra-Ioli and Gr{\'e}gory Beaugrand and Seuront, Laurent and Kl{\'e}parski, Lo{\"\i}ck and Poquet, Adrien and Nowaczyk, Antoine and Muriel Crouvoisier and Ferreira, Sophie and Pecqueur, David and Salmeron, Christophe and Brylinski, Jean-Michel and Lheureux, Arnaud and Goberville, Eric} } @article {9176, title = {Short communication: Amphidromous goby postlarvae (penja) migration seasons and fisheries in West Sulawesi, Indonesia}, journal = {Biodiversitas Journal of Biological Diversity}, volume = {23}, year = {2021}, month = {Jan-12-2022}, issn = {1412-033X}, doi = {10.13057/biodiv/d230138}, url = {https://smujo.id/biodiv/article/view/9789}, author = {Nurjirana, Nurjirana and Burhanuddin, Andi I and Philippe Keith and Haris, Abdul and Afrisal, Muhammad} } @article {7636, title = {Singular physiological behavior of the scleractinian coral Porites astreoides in the dark phase}, journal = {Coral Reefs}, volume = {doi.org/10.1007/s00338-020-02023-4}, year = {2021}, month = {12/2020}, pages = {139-150}, abstract = {Unlike most other corals that have been declining since the 1980s, the population of Porites astreoides, one of the dominant species of coral in Caribbean reefs, appears to be resilient. We investigated the physiological regulation of the electron transport chain of Symbiodiniaceae chloroplasts during the light / dark transition in P. astreoides compared to nine other common scleractinian corals. Protocols were applied to coral samples in seawater tanks and in situ. The maximum quantum yield (Fv/Fm) in the dark and the effective photochemical efficiency (Fq{\textquoteright}/Fm{\textquoteright}) in the light were measured during light-dark transitions, and alternative electron flow (AEF) mechanisms were evaluated using fluorescence variation in response to serial irradiation pulses (SIP-protocol). The variation in Fv/Fm (ΔYIImax) was calculated after 3 min or 2 h of dark acclimation (ΔYIImax(2h); ΔYIImax(3min)). The three species that belong to the genus Porites (P. astreoides, P. divaricata, P. furcata) showed plastoquinone reduction (PQ) in response to the SIP protocol, unlike all the other species tested. A marked decrease in Fv/Fm (ΔYIImax(2h) = 47.79\%) was observed in P. astreoides in the dark whereas the average ΔYIImax(2h) of the other species tested was 0.677\%. The decrease in ΔYIImax in P. astreoides was due to a significant increase in Fo (ΔFo(2h) = -108.64\% {\textpm} SD 21.48) whereas Fm remained relatively stable. The increase in Fo was attributed to reduction of the PQ pool through a chlororespiration-like mechanism known to reduce the production of reactive oxygen species (ROS). This mechanism was triggered immediately after exposure to the dark, while a brief and moderate light exposure reversed it. Given the ecological success of P. astreoides, we suggest that the high antioxidant capability of this species in the dark phase could be one of the factors favoring its survival in the face of various environmental and anthropogenic threats.The neuropeptides involved in the regulation of reproduction in the Pacific oyster () are quite diverse. To investigate this diversity, a transcriptomic survey of the visceral ganglia (VG) was carried out over an annual reproductive cycle. RNA-seq data from 26 samples corresponding to VG at different stages of reproduction were de novo assembled to generate a specific reference transcriptome of the oyster nervous system and used to identify differentially expressed transcripts. Transcriptome mining led to the identification of novel neuropeptide precursors (NPPs) related to the bilaterian Eclosion Hormone (EH), crustacean female sex hormone/Interleukin 17, Nesfatin, neuroparsin/IGFBP, prokineticins, and urotensin I; to the protostome GNQQN, pleurin, prohormones 3 and 4, prothoracotropic hormones (PTTH), and QSamide/PXXXamide; to the lophotrochozoan CCWamide, CLCCY, HFAamide, and LXRX; and to the mollusk-specific NPPs CCCGS, clionin, FYFY, GNamide, GRWRN, GSWN, GWE, IWMPxxGYxx, LXRYamide, RTLFamide, SLRFamide, and WGAGamide. Among the complete repertoire of NPPs, no sex-biased expression was observed. However, 25 NPPs displayed reproduction stage-specific expression, supporting their involvement in the control of gametogenesis or associated metabolisms.
}, issn = {1660-3397}, doi = {10.3390/md19080452}, author = {R{\'e}alis-Doyelle, Emilie and Schwartz, Julie and Cabau, C{\'e}dric and Le Franc, Lorane and Bernay, Beno{\^\i}t and Riviere, Guillaume and Klopp, Christophe and Favrel, Pascal} } @article {7215, title = {Trophic niche of the invasive gregarious species Crepidula fornicata, in relation to ontogenic changes}, journal = {bioRxiv}, year = {2021}, pages = {2020.07.30.229021}, type = {ver. 4 peer-reviewed and recommended by Peer Community In Ecology}, abstract = {Crepidula fornicata\ is a common and widespread invasive gregarious species along the European coast. Among its life-history traits, well documented ontogenic changes in behavior (i.e., motile male to sessile female) suggest a potential shift in feeding strategy across its life stages. Considering the ecological significance of this species in colonized areas, understanding how conspecifics share the trophic resource is crucial. Using fatty acids (FA) and stable isotopes (SI) as complementary trophic markers, we conducted a field survey between late winter and spring to investigate the trophic niche of three ontogenic stages of\ C. fornicata\ that bear different sexual (male/female) and motility (motile/sessile) traits. Potential trophic sources were characterized by their pigment, FA and SI compositions and showed well discriminated compositions over the studied period. We showed that the biofilm covering\ C. fornicata\ shells harbored a higher biomass of primary producers (i.e., chlorophytes and diatoms) than the surrounding sediment. Over the studied period, we observed a covariation between the three ontogenic stages for both FA and SI compositions which suggest that the trophic niche of\ C. fornicata\ does not change significantly across its benthic life. During periods of low food availability, slipper limpets displayed an opportunistic suspension-feeding behaviour, relying on both fresh and detrital organic matter, likely coming from superficial sedimentary organic matter. However, during high food availability (i.e., spring phytoplankton bloom), all ontogenic stages largely benefited from this fresh supply of organic matter (pelagic diatoms in this case). The three ontogenic stages showed consistent differences in FA composition, and to a lesser extent in SI composition. These differences persist over time, as they originate from ontogenic physiological changes (differential growth rates, metabolic rate or gametogenesis) rather than diet discrepancies. This study revealed that multiple trophic markers allow high complementary to characterize organic matter as well as food partitioning between conspecific organisms.Most molluscs possess shells, constructed from a vast array of microstructures and architectures. The fully formed shell is composed of calcite or aragonite. These CaCO crystals form complex biocomposites with proteins, which although typically less than 5\% of total shell mass, play significant roles in determining shell microstructure. Despite much research effort, large knowledge gaps remain in how molluscs construct and maintain their shells, and how they produce such a great diversity of forms. Here we synthesize results on how shell shape, microstructure, composition and organic content vary among, and within, species in response to numerous biotic and abiotic factors. At the local level, temperature, food supply and predation cues significantly affect shell morphology, whilst salinity has a much stronger influence across latitudes. Moreover, we emphasize how advances in genomic technologies [e.g. restriction site-associated DNA sequencing (RAD-Seq) and epigenetics] allow detailed examinations of whether morphological changes result from phenotypic plasticity or genetic adaptation, or a combination of these. RAD-Seq has already identified single nucleotide polymorphisms associated with temperature and aquaculture practices, whilst epigenetic processes have been shown significantly to modify shell construction to local conditions in, for example, Antarctica and New Zealand. We also synthesize results on the costs of shell construction and explore how these affect energetic trade-offs in animal metabolism. The cellular costs are still debated, with CaCO precipitation estimates ranging from 1-2 J/mg to 17-55 J/mg depending on experimental and environmental conditions. However, organic components are more expensive (~29 J/mg) and recent data indicate transmembrane calcium ion transporters can involve considerable costs. This review emphasizes the role that molecular analyses have played in demonstrating multiple evolutionary origins of biomineralization genes. Although these are characterized by lineage-specific proteins and unique combinations of co-opted genes, a small set of protein domains have been identified as a conserved biomineralization tool box. We further highlight the use of sequence data sets in providing candidate genes for in situ localization and protein function studies. The former has elucidated gene expression modularity in mantle tissue, improving understanding of the diversity of shell morphology synthesis. RNA interference (RNAi) and clustered regularly interspersed short palindromic repeats - CRISPR-associated protein 9 (CRISPR-Cas9) experiments have provided proof of concept for use in the functional investigation of mollusc gene sequences, showing for example that Pif (aragonite-binding) protein plays a significant role in structured nacre crystal growth and that the Lsdia1 gene sets shell chirality in Lymnaea stagnalis. Much research has focused on the impacts of ocean acidification on molluscs. Initial studies were predominantly pessimistic for future molluscan biodiversity. However, more sophisticated experiments incorporating selective breeding and multiple generations are identifying subtle effects and that variability within mollusc genomes has potential for adaption to future conditions. Furthermore, we highlight recent historical studies based on museum collections that demonstrate a greater resilience of molluscs to climate change compared with experimental data. The future of mollusc research lies not solely with ecological investigations into biodiversity, and this review synthesizes knowledge across disciplines to understand biomineralization. It spans research ranging from evolution and development, through predictions of biodiversity prospects and future-proofing of aquaculture to identifying new biomimetic opportunities and societal benefits from recycling shell products.
}, issn = {1469-185X}, doi = {10.1111/brv.12640}, author = {Clark, Melody S and Peck, Lloyd S and Arivalagan, Jaison and Backeljau, Thierry and Berland, Sophie and Cardoso, Joao C R and Caurcel, Carlos and Chapelle, Gauthier and De Noia, Michele and Dupont, Sam and Gharbi, Karim and Hoffman, Joseph I and Last, Kim S and Marie, Arul and Melzner, Frank and Michalek, Kati and Morris, James and Power, Deborah M and Ramesh, Kirti and Sanders, Trystan and Sillanp{\"a}{\"a}, Kirsikka and Sleight, Victoria A and Stewart-Sinclair, Phoebe J and Sundell, Kristina and Telesca, Luca and Vendrami, David L J and Ventura, Alexander and Wilding, Thomas A and Yarra, Tejaswi and Harper, Elizabeth M} } @article {8124, title = {Deciphering shell proteome within different Baltic populations of mytilid mussels illustrates important local variability and potential consequences in the context of changing marine conditions}, journal = {Science of The Total Environment}, volume = {745}, year = {2020}, month = {Jan-11-2020}, pages = {140878}, issn = {00489697}, doi = {10.1016/j.scitotenv.2020.140878}, url = {https://linkinghub.elsevier.com/retrieve/pii/S0048969720344077}, author = {Arivalagan, Jaison and Marie, Benjamin and Chiappetta, Giovanni and Vinh, Jo{\"e}lle and Gallet, Xavier and Lebon, Matthieu and M{\textquoteright}Zoudi, Saloua and Dubois, Philippe and Berland, Sophie and Marie, Arul} } @article {7204, title = {Denitrification and associated nitrous oxide and carbon dioxide emissions from the Amazonian wetlands}, journal = {Biogeosciences}, volume = {17}, year = {2020}, month = {Jan-01-2020}, pages = {4297 - 4311}, doi = {10.5194/bg-17-4297-2020}, url = {https://bg.copernicus.org/articles/17/4297/2020/}, author = {Guilhen, J{\'e}r{\'e}my and Al Bitar, Ahmad and Sauvage, Sabine and Parrens, Marie and Martinez, Jean-Michel and Gwena{\"e}l Abril and Moreira-Turcq, Patricia and S{\'a}nchez-P{\'e}rez, Jos{\'e}-Miguel} } @article {7116, title = {Development of an accurate model to predict the phenology of Atlantic salmon smolt spring migration}, journal = {Aquatic Conservation: Marine and Freshwater Ecosystems}, year = {2020}, month = {Apr-07-2021}, abstract = {Changes in migration timing, resulting from the alteration in river continuity or the effect of climate change, can have major consequences on the population dynamics of diadromous fish. Forecasting the phenology of fish migration is thus critically important to implement management actions aimed at protecting fish during their migration.Passive rewilding is increasingly seen as a promising tool to counterbalance biodiversity losses and recover native forest ecosystems. One key question, crucial to understanding assembly processes and conservation issues underlying land-use change, is the extent to which functional and phylogenetic diversity may recover in spontaneous recent woodlands. Here, we compared understorey plant communities of recent woodlands (which result from afforestation on agricultural lands during the 20th century) with those of ancient forests (uninterrupted for several centuries) in a hotspot of farmland abandonment in western Europe. We combined taxonomic, functional, and phylogenetic diversity metrics to detect potential differences in community composition, structure (richness, divergence), conservation importance (functional originality and specialization, evolutionary distinctiveness) and resilience (functional redundancy, response diversity). The recent and ancient forests harbored clearly distinct compositions, especially regarding the taxonomic and phylogenetic facets. Recent woodlands had higher taxonomic, functional and phylogenetic richness and a higher evolutionary distinctiveness, whereas functional divergence and phylogenetic divergence were higher in ancient forests. On another hand, we did not find any significant differences in functional specialization, originality, redundancy, or response diversity between recent and ancient forests. Our study constitutes one of the first empirical pieces of evidence that recent woodlands may spontaneously regain plant communities phylogenetically rich and functionally resilient, at least as much as those of ancient relict forests. As passive rewilding is the cheapest restoration method, we suggest that it should be a very useful tool to restore and conserve native forest biodiversity and functions, especially when forest areas are restricted and fragmented.
}, keywords = {Biodiversity, Ecosystem, Europe, Forests, Phylogeny}, issn = {1051-0761}, doi = {10.1002/eap.2007}, author = {Morel, Lo{\"\i}s and Barbe, Lou and Jung, Vincent and Cl{\'e}ment, Bernard and Schnitzler, Annik and Fr{\'e}d{\'e}ric Ysnel} } @article {7398, title = {Physical properties of epilithic river biofilm as a new lead to perform pollution bioassessments in overseas territories}, journal = {Scientific Reports}, volume = {10}, year = {2020}, month = {Jan-12-2020}, abstract = {Chlordecone (CLD) levels measured in the rivers of the French West Indies were among the highest values detected worldwide in freshwater ecosystems, and its contamination is recognised as a severe health, environmental, agricultural, economic, and social issue. In these tropical volcanic islands, rivers show strong originalities as simplified food webs, or numerous amphidromous migrating species, making the bioindication of contaminations a difficult issue. The objective of this study was to search for biological responses to CLD pollution in a spatially fixed and long-lasting component of the rivers in the West Indies: the epilithic biofilm. Physical properties were investigated through complementary analyses: friction, viscosity as well as surface adhesion were analyzed and coupled with measures of biofilm carbon content and exopolymeric substance (EPS) production. Our results have pointed out a mesoscale chemical and physical reactivity of the biofilm that can be correlated with CLD contamination. We were able to demonstrate that epilithic biofilm physical properties can effectively be used to infer freshwater environmental quality of French Antilles rivers. The friction coefficient is reactive to contamination and well correlated to carbon content and EPS production. Monitoring biofilm physical properties could offer many advantages to potential users in terms of effectiveness and ease of use, rather than more complex or time-consuming analyses.}, doi = {10.1038/s41598-020-73948-7}, url = {http://www.nature.com/articles/s41598-020-73948-7}, author = {Monti, Dominique and C{\'e}dric Hubas and Louren{\c c}o, Xavier and Begarin, Farid and Haouis{\'e}e, Alexandre and Romana, Laurence and Lefran{\c c}ois, Estelle and Jestin, Alexandra and Budzinski, H{\'e}l{\`e}ne and Tapie, Nathalie and Risser, Th{\'e}o and Mansot, Jean-Louis and Philippe Keith and Gros, Olivier and Pascal Jean Lopez and Lauga, B{\'e}atrice} } @article {7117, title = {Predicting species richness and abundance of tropical post-larval fish using machine learning}, journal = {Marine Ecology Progress Series}, volume = {645}, year = {2020}, month = {Sep-07-2020}, pages = {125 - 139}, abstract = {No previous studies predicted post-larval fish species richness and abundance combining molecular tools, machine learning, and past-days Remotely Sensed Oceanic Conditions (RSOCs) at different scales. Previous studies aimed at modeling species richness and abundance of marine fishes have mostly used environmental variables recorded locally during sampling. They have merely focused on juvenile and adult fishes due to the difficulty of obtaining accurate species richness estimates for post-larvae. The present work predicted post-larval species richness (identified using DNA barcoding) and abundance at two coastal sites in SW Madagascar using random forests (RF). RF models were fitted using combinations of local variables with RSOCs at a small-scale (eight days preceding fish sampling in a 50x120 km2\ area), mesoscale (sixteen past-days in 100x200 km2), and large-scale (twenty-four past-days in 200x300 km2). RF models combining local and small-scale RSOC variables predicted more accurately the species richness and abundance with around 70\% and 60\% accuracy, respectively. We observed a small variation of RF model performance in predicting species richness and abundance among all sites, highlighting the predictive RF model consistency. Moreover, partial dependence plots showed that high species richness and abundance were predicted for sea surface temperatures \<27.0{\textdegree}C and chlorophyll\ a\ concentrations \<0.22 mg m-3. Referring to temporal changes of these variables, these thresholds were solely observed from November to December. These results suggest that, in SW Madagascar, species richness and abundance of post-larval fish may only be predicted prior to the ecological impacts of tropical storms on larval settlement success.}, issn = {0171-8630}, doi = {10.3354/meps13385}, url = {https://www.int-res.com/abstracts/meps/v645/p125-139/}, author = {Jaonalison, H and Durand, JD and Mahafina, J and Demarcq, H and Teichert, Nils and Ponton, D} } @article {8391, title = {Premier signalement en France du Barbeau de Graells Luciobarbus graellsii (Steindachner, 1866) (Actinopterygii, Cypriniformes)}, journal = {Naturae}, year = {2020}, month = {Sep-12-2020}, doi = {10.5852/naturae2020a15}, url = {http://sciencepress.mnhn.fr/fr/periodiques/naturae/2020/15}, author = {MASSEBOEUF, Fabrice and Doadrio, Ignacio and Denys, Ga{\"e}l} } @article {7545, title = {Public Perceptions of Mangrove Forests Matter for Their Conservation}, journal = {Frontiers in Marine Science}, volume = {7}, year = {2020}, month = {Jul-11-2021}, abstract = {Iconic species and landscapes attract public attention to help reverse the degradation of ecosystems and their biodiversity (Thompson and Rog, 2019); sharing their images on social media can act as a powerful way to influence perceptions and drive positive actions by the public (Wu et al., 2018). Social media platforms such as Twitter, Facebook and Instagram have been used to great effect to communicate the urgency required to halt and reverse tropical forest loss (Lamb et al., 2005) and the plight of coral reefs (Curnock et al., 2019). Ecosystems such as seagrass meadows, mudflats, and mangrove forests receive substantially less media exposure (Duarte et al., 2008). Yet these under-recognized ecosystems are hugely important for local and global societies, providing benefits such as shoreline protection (Barbier, 2016), fisheries (Carrasquilla-Henao and Juanes, 2017), carbon capture and storage (Duarte et al., 2013), alongside supporting rich marine and terrestrial biodiversity (Sievers et al., 2019;\ Thompson and Rog, 2019) (Figure 1). Apart from these important ecosystem functions, goods and services, mangrove forests are home to a huge diversity of organisms with ecologically and evolutionarily unique adaptations to life in the intertidal zone, including vivipary and salt tolerance in trees, air-breathing in crabs and amphibious behavior in fish (mudskippers); this makes mangrove forests a dynamic and fascinating evolutionary laboratory.}, doi = {10.3389/fmars.2020.60365110.3389/fmars.2020.603651.s001}, url = {https://www.frontiersin.org/articles/10.3389/fmars.2020.603651/full}, author = {Dahdouh-Guebas, Farid and Ajonina, Gordon N. and Amir, A. Aldrie and Andradi-Brown, Dominic A. and Aziz, Irfan and Balke, Thorsten and Barbier, Edward B. and Cannicci, Stefano and Cragg, Simon M. and Cunha-Lignon, Mar{\'\i}lia and Curnick, David J. and Duarte, Carlos M. and Duke, Norman C. and Endsor, Charlie and Fratini, Sara and Feller, Ilka C. and Fromard, Fran{\c c}ois and Hug{\'e}, Jean and Huxham, Mark and Kairo, James G. and Kajita, Tadashi and Kathiresan, Kandasamy and Koedam, Nico and Lee, Shing Yip and Lin, Hsing-Juh and Mackenzie, Jock R. and Mangora, Mwita M. and Marchand, Cyril and Tarik Meziane and Minchinton, Todd E. and Pettorelli, Nathalie and Polan{\'\i}a, Jaime and Polgar, Gianluca and Poti, Meenakshi and Primavera, Jurgenne and Quarto, Alfredo and Rog, Stefanie M. and Satyanarayana, Behara and Schaeffer-Novelli, Yara and Spalding, Mark and Van der Stocken, Tom and Wodehouse, Dominic and Yong, Jean W. H. and Zimmer, Martin and Friess, Daniel A.} } @article {7088, title = {Quantitative food web modeling unravels the importance of the microphytobenthos-meiofauna pathway for a high trophic transfer by meiofauna in soft-bottom intertidal food webs.}, journal = {Ecological Modelling}, volume = {430}, year = {2020}, abstract = {Meiofauna are known to have an important role on many ecological processes, although, their role in food web dynamics is often poorly understood, partially as they have been an overlooked and under sampled organism group. Here, we used quantitative food web modeling to evaluate the trophic relationship between meiofauna and their food sources and how meiofauna can mediate the carbon flow to higher trophic levels in five contrasting soft-bottom intertidal habitats (including seagrass beds, mudflats and sandflats). Carbon flow networks were constructed using the linear inverse model-Markov chain Monte Carlo technique, with increased resolution of the meiofauna compartments (i.e. biomass and feeding ecology of the different trophic groups of meiofauna) compared to most previous modeling studies. These models highlighted that the flows between the highly productive microphytobenthos and the meiofauna compartments play an important role in transferring carbon to the higher trophic levels, typically more efficiently so than macrofauna. The pathway from microphytobenthos to meiofauna represented the largest flow in all habitats and resulted in high production of meiofauna independent of habitat. All trophic groups of meiofauna, except for selective deposit feeders, had a very high dependency on microphytobenthos. Selective deposit feeders relied instead on a wider range of food sources, with varying contributions of bacteria, microphytobenthos and sediment organic matter. Ecological network analyses (e.g. cycling, throughput and ascendency) of the modeled systems highlighted the close positive relationship between the food web efficiency and the assimilation of high-quality food sources by primary consumers, e.g. meiofauna and macrofauna. Large proportions of these flows can be attributed to trophic groups of meiofauna. The sensitivity of the network properties to the representation of meiofauna in the models leads to recommending a greater attention in ecological data monitoring and integrating meiofauna into food web models. {\textcopyright} 2020 Elsevier B.V.}, keywords = {Carbon, Carbon flow networks, deposit feeder, Deposits, Ecological network analysis, Ecological process, Ecosystems, Feeding, Feeding ecology, food web, Food web model, intertidal community, intertidal habitats, Inverse problems, linear inverse model, Linear inverse models, Markov chain Monte Carlo techniques, Markov chains, Meiofauna, Microphytobenthos, Monte Carlo methods, Phytobenthos, quantitative analysis, Sediment organic matters, soft-bottom environment, stable isotope mixing models, trophic level, Trophic relationships, Trophic structure}, issn = {03043800 (ISSN)}, doi = {10.1016/j.ecolmodel.2020.109129}, author = {van der Heijden, L.H. and Nathalie Niquil and Haraldsson, M. and Asmus, R.M. and Pacella, S.R. and Graeve, M. and Rzeznik-Orignac, J. and Asmus, H. and Saint-B{\'e}at, B. and Lebreton, B.} } @article {6469, title = {Realistic environmental exposure to microplastics does not induce biological effects in the Pacific oyster Crassostrea gigas}, journal = {Marine Pollution Bulletin}, volume = {150}, year = {2020}, month = {Jan-01-2020}, pages = {110627}, abstract = {The aim of the present study was to evaluate the presence and potential toxic effects of plastic fragments(\< 400μm) of polyethylene and polypropylene on the Pacific oysterCrassostrea gigas.Oysters were exposed toenvironmentally relevant concentrations (0, 0.008, 10, 100μg of particles/L) during 10 days, followed by adepuration period of 10 days in clean seawater. Effects of microplastics were evaluated on the clearance rate oforganisms, tissue alteration, antioxidant defense, immune alteration and DNA damage. Detection and quanti-fication of microplastics in oyster{\textquoteright}s tissues (digestive gland, gills and other tissues) and biodeposits using infraredmicroscopy were also conducted. Microplastics were detected in oyster{\textquoteright}s biodeposits following exposure to alltested concentrations: 0.003, 0.006 and 0.05 particles/mg of biodeposits in oysters exposed to 0.008, 10 and100μg of particles/L, respectively. No significant modulation of biological markers was measured in organismsexposed to microplastics in environmentally relevant conditions.}, keywords = {biodeposits, biomarkers, bivalves, Crassostrea gigas, microplastics}, issn = {0025326X}, doi = {10.1016/j.marpolbul.2019.110627}, url = {https://linkinghub.elsevier.com/retrieve/pii/S0025326X19307751}, author = {Revel, Messika and Ch{\^a}tel, Am{\'e}lie and Perrein-Ettajani, Hanane and Bruneau, M{\'e}lanie and Akcha, Farida and Sussarellu, Rossana and Rouxel, Julien and Katherine Costil and Decottignies, Priscilla and Cognie, Bruno and Lagarde, Fabienne and Mouneyrac, Catherine} } @article {6865, title = {Relationship between bacterial compartment and particulate organic matter (POM) in coastal systems: An assessment using fatty acids and stable isotopes}, journal = {Estuarine, Coastal and Shelf Science}, volume = {239}, year = {2020}, month = {Jan-07-2020}, pages = {106720}, issn = {02727714}, doi = {10.1016/j.ecss.2020.106720}, url = {https://linkinghub.elsevier.com/retrieve/pii/S0272771419301593}, author = {Li{\'e}nart, Camilla and Savoye, Nicolas and Conan, Pascal and David, Val{\'e}rie and Barbier, Pierrick and Bichon, Sabrina and Charlier, Karine and Costes, Laurence and Derriennic, Herv{\'e} and Ferreira, Sophie and Gueux, Aurore and C{\'e}dric Hubas and Maria, Eric and Tarik Meziane} } @article {6736, title = {Resolving the trade-off between silver eel escapement and hydropower generation with simple decision rules for turbine shutdown}, journal = {Journal of Environmental Management}, volume = {261}, year = {2020}, pages = {110212}, abstract = {Hydropower plants are commonly reported as a major cause of the worldwide decline of freshwater eels (Anguillidae), so that management solutions are urgently needed to mitigate their impacts. Where downstream passage solutions are complex to develop, turbine shutdown appears as an effective management solution to protect silver eels during their river migration toward spawning areas. However, the definition of operational decision rules for turbine shutdown is challenging due to the duality between the benefit for eel conservation and the concomitant cost in term of hydropower production. Here, we proposed a decision framework for turbine shutdown based on simple hydrological criteria to guide negotiations between stakeholders toward a trade-off between silver eel escapement and hydropower generation. Eel migration was assumed to be triggered by a minimum river flow associated with a minimum discharge pulse, so that threshold values can be directly implemented as decision rules for turbine shutdown. To estimate relevant thresholds, a generic methodological framework was developed to generate alternative decision rules from data collected at hydropower plants, which can include telemetry surveys and estimates of eel abundance. A multiple-criteria decision analysis was then conducted to rank alternatives and to determine the best compromise between promoting silver eel escapement and limiting turbine shutdown duration. Graphic outputs can help stakeholders to understand the competitive interests between eel conservation and hydropower production, while visually identifying a range of consensual alternatives to support negotiations in the choice of operational thresholds. The method was illustrated for three river systems in Europe featured by distinct hydrological conditions and can be applied in other areas, providing that eel monitoring surveys and flow data are available.}, keywords = {Conservation policy, Decision rules, Multiple-criteria decision, Turbine shutdown}, issn = {0301-4797}, doi = {https://doi.org/10.1016/j.jenvman.2020.110212}, url = {http://www.sciencedirect.com/science/article/pii/S030147972030147X}, author = {Teichert, Nils and St{\'e}phane T{\'e}tard and Thomas Trancart and Eric Feunteun and Anthony Acou and Eric de Oliveira} } @article {7777, title = {Resolving the trade-off between silver eel escapement and hydropower generation with simple decision rules for turbine shutdown}, journal = {Journal of Environmental Management}, volume = {261}, year = {2020}, month = {Jan-05-2020}, pages = {110212}, issn = {03014797}, doi = {10.1016/j.jenvman.2020.110212}, url = {https://linkinghub.elsevier.com/retrieve/pii/S030147972030147X}, author = {Teichert, Nils and T{\'e}tard, St{\'e}phane and Thomas Trancart and Eric Feunteun and Anthony Acou and de Oliveira, Eric} } @article {9389, title = {Respective contribution of urban wastewater and mangroves on nutrient dynamics in a tropical estuary during the monsoon season}, journal = {Marine Pollution Bulletin}, volume = {160}, year = {2020}, pages = {111652}, abstract = {Estuaries of Southeast Asia are increasingly impacted by land-cover changes and pollution. Here, our research objectives were to (1) determine the origins of nutrient loads along the Can Gio estuary (Vietnam) and (2) identify the processes that affect the nutrient pools during the monsoon. We constructed four 24-h time-series along the salinity gradient measuring nutrient concentrations and stable isotopes values. In the upper estuary, urban effluents from Ho Chi Minh City were the main input of nutrients, leading to dissolved oxygen satura- tion \< 20\%. In the lower estuary, ammonium and nitrite concentration peaks were explained by mangrove export. No contribution from aquaculture was detected, as it represents \< 0.01\% of the total river discharge. Along the salinity gradient, nutrient inputs were rapidly consumed, potentially by phytoplankton while nitrate dual-stable isotopes indicated that nitrification occurred. Thus, even in a large and productive estuary, urban wastewater can affect nutrient dynamics with potentially important ecological risks.}, issn = {0025326X}, doi = {10.1016/j.marpolbul.2020.111652}, url = {https://linkinghub.elsevier.com/retrieve/pii/S0025326X20307700}, author = {Taillardat, Pierre and Marchand, Cyril and Friess, Daniel A. and Widory, David and Frank David and Ohte, Nobuhito and Nakamura, Takashi and Van Vinh, Truong and Thanh-Nho, Nguyen and Ziegler, Alan D.} } @article {6959, title = {Response of phytoplankton traits to environmental variables in French lakes: New perspectives for bioindication}, journal = {Ecological Indicators}, volume = {108}, year = {2020}, month = {Jan-01-2020}, pages = {105659}, abstract = {The restoration and the preservation of aquatics ecosystems is a critical issue in our contemporary society. In lake ecosystems, phytoplankton taxonomic-based indicators have been developed to evaluate water quality, but suffer of limited ecosystem ecological value. The recent development of functional approaches may allow to evaluate other aspects of ecosystem quality, and to develop new trait-based indicators responding to different environmental conditions. Here, our aim was to analyze the response of phytoplankton traits to numerous environmental variables and to identify relevant traits for the development of future indicator metrics. We used a French national database of 469 lakes, consisting in phytoplankton biovolumes and physicochemical values. The response of 84 morpho-functional traits towards environmental variables was tested with Machine Learning models, taking into account lake typology.The Atlantic bluefin tuna (hereafter referred to as {\textquotedblleft}bluefin tuna{\textquotedblright}), one of the world{\textquoteright}s most valuable and exploited fish species, has been declining in abundance throughout the Atlantic from the 1960s until the mid-2000s. Following the establishment of drastic management measures, the stock has started to recover recently and, as a result, stakeholders have raised catch quotas by 50{\%} for the period 2017{\textendash}2020. However, stock assessments still omit the natural, long-term variability in the species distribution. Here, we explore the century-scale fluctuations in bluefin tuna abundance and distribution to demonstrate a prevailing influence of the Atlantic Multidecadal Oscillation (AMO) to provide new insights into both the collapse of the Nordic bluefin tuna fishery circa 1963 and the recent increase in bluefin tuna abundance in the Northeast Atlantic. Our results demonstrate how climatic variability can modulate the distribution of a large migrating species to generate rapid changes in its regional abundance, and we argue that climatic variability must not be overlooked in stock management plans for effective conservation.
}, issn = {23752548}, doi = {10.1126/sciadv.aar6993}, author = {Robin Faillettaz and Gr{\'e}gory Beaugrand and Goberville, Eric and Richard R Kirby} } @article {7110, title = {AVIS et RAPPORT de l{\textquoteright}Anses relatif aux effets sur la sant{\'e} humaine et sur l{\textquoteright}environnement (faune et flore) des syst{\`e}mes utilisant des diodes {\'e}lectroluninescentes (LED)}, year = {2019}, institution = {ANSES}, address = {Maisons-Alfort}, keywords = {Fauna, Flora, health, LED, Light-at-night, pollution}, issn = {Saisine n{\textdegree} {\guillemotleft} 2014-SA-0253 {\guillemotright}}, url = {https://www.anses.fr/fr/search/site/LED?iso1=fr\&iso2=en}, author = {Attia, Dina and Behard-Cohen Francine and Carr{\'e}, Samuel and Enouf, Olivier and Jack Falcon and Gronfier, Claude and Hicks, David and Martinsons, Christophe and Metlaine, Arnaud and Tahkamo, Leena and Torriglia, Alicia and Vi{\'e}not, Fran{\c c}oise} } @article {6077, title = {Bacterial{\textendash}Fungal Interactions in the Kelp Endomicrobiota Drive Autoinducer-2 Quorum Sensing}, journal = {Frontiers in Microbiology}, volume = {10}, year = {2019}, pages = {1693}, abstract = {Brown macroalgae are an essential component of temperate coastal ecosystems and a growing economic sector. They harbor diverse microbial communities that regulate algal development and health. This algal holobiont is dynamic and achieves equilibrium via a complex network of microbial and host interactions. We now report that bacterial and fungal endophytes associated with four brown algae (Ascophyllum nodosum, Pelvetia canaliculata, Laminaria digitata, and Saccharina latissima) produce metabolites that interfere with bacterial autoinducer-2 quorum sensing, a signaling system implicated in virulence and host colonization. Additionally, we performed co-culture experiments combined to a metabolomic approach and demonstrated that microbial interactions influence production of metabolites, including metabolites involved in quorum sensing. Collectively, the data highlight autoinducer-2 quorum sensing as a key metabolite in the complex network of interactions within the algal holobiont.
}, issn = {1664-302X}, doi = {10.3389/fmicb.2019.01693}, url = {https://www.frontiersin.org/article/10.3389/fmicb.2019.01693}, author = {Tourneroche, Anne and Lami, Rapha{\"e}l and C{\'e}dric Hubas and Blanchet, Elodie and Vallet, Marine and Escoubeyrou, Karine and Paris, Alain and Prado, Soizic} } @article {6045, title = {Barbatula leoparda (Actinopterygii, Nemacheilidae), a new endemic species of stone loach of French Catalonia}, journal = {Cybium}, volume = {43}, year = {2019}, pages = {169-177}, abstract = {This study described a new stone loach species in France, Barbatula leoparda, which is endemic to French Catalonia (T{\^e}t and Tech river drainages). Seven specimens were compared to 49 specimens of B. barbatula\ (Linnaeus, 1758) and 71 specimens of B. quignardi (B{\u a}cescu-Me{\c s}ter, 1967). This new species is characterized by the presence of blotches on the belly and the jugular area in individuals longer than 47 mm SL and by a greater interorbital distance (35.5 to 41.8\% of the head length). We brought moreover the sequence of two mitochondrial markers (COI and 12S, respectively 652 and 950 bp) of the holotype, which are well distinct from all other species, for molecular identifications. This discovery is important for conservation.
}, keywords = {Barbatula leopard, French Catalonia, Freshwater, Nemacheilidae, New species}, author = {Gauliard, Camille and Dettai, Agn{\`e}s and Persat, Henri and Philippe Keith and Denys, Ga{\"e}l} } @article {6859, title = {Beaches seasonal and paroxysmal morphosedimentary dynamics. results of 10 years Martinique coastal observation network. }, journal = {Journal of Coastal Research}, volume = {SI 88}, year = {2019}, pages = {172-184}, author = {Franck Dolique and Sedrati, M. and Charpentier, J. and Jeanson, Matthieu and Cohen, O. and Dupuy, L. and Alami, S.} } @article {5597, title = {Behavior of Antimicrobial Peptide K4 in a Marine Environment.}, journal = {Probiotics Antimicrob Proteins}, volume = {11}, year = {2019}, pages = {676-686.}, abstract = {K4 is a de novo peptide with antibacterial activity on human pathogens. It has a short sequence (14 amino acids), with a cationic N-terminal moiety and an amphipathic ɑ-helix structure. The present paper demonstrates its activity on Vibrio bacteria in a marine environment. It was found non-toxic on marine organisms including Artemia salina, Dicentrarchus labrax, and Magallana gigas at different developmental stages, but influenced the growth of unicellular organisms like microalgae, depending on the algal strain and on K4 concentration. Furthermore, an original approach coupling liquid chromatography (RP-HPLC) and mass spectrometry (MS/MS) allowed us to monitor the degradation time course of the peptide for the first time in conditions close to a hatchery environment, i.e., in the presence of oyster spat. We detected truncated forms over time, and the full K4 was gradually no longer found in these filter-feeder oysters. Finally, using an automated optical density meter, we monitored the growth of several aquatic bacteria identified as pathogenic on animals. K4 had a bactericidal effect on Aeromonas salmonicida and Vibrio splendidus LGP32 at concentrations below 45\ μg\ mL-1. Our results show that K4 could be an environment-friendly alternative to antibiotics, non-toxic to several marine organisms. The use of K4 would be particularly useful to decrease the bacterial load associated with food intake in the early developmental stages of marine animals reared in hatcheries
}, doi = {10.1007/s12602-018-9454-3}, author = {Houyvet, Baptiste and Leduc, Alexandre and Cornet, Val{\'e}rie and Pontin, Julien and Bernay, Beno{\^\i}t and Jo{\"e}l Henry and Vetois, Emilie and C{\'e}line Zatylny-Gaudin} } @article {6742, title = {Behaviour of endangered European eels in proximity to a dam during downstream migration: Novel insights using high accuracy 3D acoustic telemetry}, journal = {Ecology of Freshwater Fish}, volume = {29}, year = {2019}, pages = {266-279}, abstract = {River infrastructures such as weirs, hydropower stations or water reservoirs represent obstructions to migration for diadromous fish. Knowledge of accurate behaviour of fish in front of such structures is required to protect migrants from hazardous areas, guide them towards safe passage or adapt structure to improve the escapement. We developed and made available a method to process acoustic telemetry data based on Time Difference Of Arrival analysis to accurately locate tagged fish. Improved accuracy allows the detection of escape routes and description of dam-crossing tactics. Sixteen tagged eels were tracked with high accuracy (1{\textendash}2\ m) and 1 location min-1 frequency during their exploration period on reaching the dam. Two migration routes (spillways and bottom compensation flow pipe) were used by 77\% and 23\% of eels respectively. Spillways were the preferred route, but a median of 16\ days were required to pass the dam versus 1.1\ days via the compensation pipe. A minimal water crest of 40\ cm was required for passage via spillways. Eels passing through the compensation pipe were exclusively nocturnal and mainly explored the bottom of the dam. Eels passing through spillways explored the whole dam area by night and day, and were not attracted to the compensation pipe entrance. With global warming, more frequent drought periods are expected, potentially leading to decreased opportunities for eels to migrate across safer dams by spillways. To conserve this endangered species, dam management strategies that account for expected hydrologic conditions and distinct exploration behaviours are needed.}, keywords = {3D acoustic telemetry, dam, diadromous fish, downstream migration, European eel}, doi = {10.1111/eff.12512}, url = {https://onlinelibrary.wiley.com/doi/abs/10.1111/eff.12512}, author = {Thomas Trancart and Alexandre Carpentier and Anthony Acou and Danet, Valentin and Elliott, Sophie and Eric Feunteun} } @article {6933, title = {Biochemical composition and energy content of size-fractionated zooplankton east of the Kerguelen Islands}, journal = {Polar Biology}, volume = {42}, year = {2019}, month = {Jan-03-2019}, pages = {603 - 617}, issn = {0722-4060}, doi = {10.1007/s00300-019-02458-8}, url = {http://link.springer.com/10.1007/s00300-019-02458-8}, author = {Harmelin-Vivien, Mireille and Bӑnaru, Daniela and Charlotte R. Dromard and Ourgaud, M{\'e}lanie and Carlotti, Fran{\c c}ois} } @article {7174, title = {Can we generate robust species distribution models at the scale of the Southern Ocean?}, journal = {Diversity and Distributions}, volume = {25}, year = {2019}, month = {Jan-01-2019}, pages = {21 - 37}, doi = {10.1111/ddi.12835}, url = {http://doi.wiley.com/10.1111/ddi.12835}, author = {Fabri-Ruiz, Salom{\'e} and Danis, Bruno and David, Bruno and Sauc{\`e}de, Thomas}, editor = {Treml, Eric} } @article {9315, title = {Caridina malanda, a new species of freshwater shrimp (Crustacea: Decapoda: Atyidae) from the Wet Tropics World Heritage area, north{\textendash}eastern Queensland, Australia}, journal = {Zootaxa}, volume = {4652}, year = {2019}, month = {Jul-08-2019}, abstract = {Integrated molecular and morphological studies of newly collected and curated specimens of the genus\ Caridina\ from the Atherton Tablelands, Wet Tropics World Heritage Area in north{\textendash}eastern Queensland, Australia indicated the presence of an undescribed species belonging to the\ Caridina zebra\ Short 1993 complex. This species is somewhat intermediate, although distinct on the basis of molecular data and morphology, from two known sympatric species,\ Caridina zebra\ and\ C. confusa\ Choy \& Marshall 1997, and an allopatric species,\ C. spinula\ Choy \& Marshall 1997, from the Cape York Peninsula, about 500 km north. It is described here as a new species,\ C. malanda\ sp. nov., and compared with similar congeners. A key for the identification of the species, as well as notes on its distribution, ecology, and conservation, are provided.}, issn = {1175-5326}, doi = {10.11646/zootaxa.4652.110.11646/zootaxa.4652.1.5}, url = {https://www.mapress.com/zt/issue/view/zootaxa.4652.1}, author = {CHOY, SATISH and PAGE, TIMOTHY J. and de Mazancourt, Valentin and MOS, BENJAMIN} } @article {6741, title = {Changes in marine phytoplankton diversity: Assessment under the Marine Strategy Framework Directive}, journal = {Ecological Indicators}, volume = {102}, year = {2019}, pages = {265 - 277}, abstract = {The Marine Strategy Framework Directive requires EU Member States to assess the Good Environmental Status (GES) of their marine waters in a coherent and strategic manner. For the regional assessment of biodiversity, the OSPAR Intersessional Coordination Group of Biodiversity Assessment and Monitoring (ICG-COBAM) provides substantial advice. Through expert working groups, phytoplankton indicators are currently being developed to measure the state and the change in pelagic diversity, to quantify food web dynamics and to measure the extent of eutrophication impacts. We developed a multi-metric indicator that is compliant with the common OSPAR indicator {\textquotedblleft}Changes in plankton diversity{\textquotedblright} (PH3). The aim was to describe the structure of the phytoplankton community (alpha diversity) and to detect significant temporal changes (beta diversity) to evaluate the health of pelagic habitats. In this pilot study, we used three coastal time-series in the Western Channel and the north of the Bay of Biscay (North Atlantic, France) to test the efficiency and the performance of several existing diversity indices. We validated two alpha diversity indices, namely the Menhinick Index (D) and the Hulburt Index (δ), based on their complementary ecological information, their strong relationship with habitat characteristics, and their relative ease of interpretation for stakeholders. Temporal shifts or rate of change in community structure were detected by the Local Contributions to Beta Diversity index (LCBD; a beta diversity measure). For the years where significantly high LCBD values were found, the Importance Value Index (IVI) was calculated to potentially identify the taxa (genus) responsible for the {\textquotedblleft}unusual{\textquotedblright} community structure. For example, at the Ouest Loscolo site in 2008, an elevated LCBD (0.45) coincided with a high dominance value (Hulburt{\textquoteright}s Index) caused by the occurrence of a monospecific bloom of Leptocylindrus spp. (IVI = 73\%) in July (2.22 {\texttimes} 106 cells L-1) and October (8 {\texttimes} 106 cells L-1). In this way, PH3 informs on different aspects of phytoplankton diversity from a community to a genus level. At the current stage of development, however, PH3 acts as a {\textquotedblleft}surveillance{\textquotedblright} rather than an operational indicator since the relationship to GES is not directly tracked. In the future, by additional testing of PH3 and extending the geographical scope, the robustness of the assessment could be further determined across the OSPAR Maritime Area.}, keywords = {community composition, Good environmental status, Indicators, Marine policy, MSFD, OSPAR, Pelagic habitat, Plankton}, issn = {1470-160X}, doi = {https://doi.org/10.1016/j.ecolind.2019.02.009}, url = {http://www.sciencedirect.com/science/article/pii/S1470160X19301190}, author = {Rombouts, I. and Nathalie Simon and Anais Aubert and T. Cariou and Eric Feunteun and Laurent Guerin and M. Hoebeke and A. McQuatters-Gollop and F. Rigaut-Jalabert and Luis Felipe Artigas} } @article {6796, title = {Characterization of an evolutionarily conserved calcitonin signalling system in a lophotrochozoan, the Pacific oyster (Crassostrea gigas) }, journal = {The Journal of Experimental Biology}, volume = {222}, year = {2019}, month = {Jan-07-2019}, pages = {jeb201319}, issn = {0022-0949}, doi = {10.1242/jeb.201319}, url = {http://jeb.biologists.org/lookup/doi/10.1242/jeb.201319}, author = {Julie Schwartz and R{\'e}alis-Doyelle, Emilie and Marie-Pierre Dubos and Lefranc, Benjamin and Leprince, J{\'e}r{\^o}me and Pascal Favrel} } @article {6116, title = {Characterization of an evolutionarily conserved calcitonin signalling system in a lophotrochozoan, the Pacific oyster ().}, journal = {J Exp Biol}, volume = {222}, year = {2019}, month = {2019 Jul 05}, abstract = {In Protostoma, the diuretic hormone 31 (DH31) signalling system was long considered as the orthologue of the chordate calcitonin (CT) signalling system. Using the Pacific oyster () transcriptomic database GigaTON, we characterized seven G-protein-coupled receptors (GPCRs) named Cragi-CTR1-7 and phylogenetically related to chordate CT receptors (CTRs) and to protostome DH31 receptors. Two CT precursors (Cragi-CTP1 and Cragi-CTP2) containing two CT-type peptides and encoded by two distinct genes with a similar organization were also characterized. These oyster neuropeptides (Cragi-CT1/2) exhibit the two N-terminal paired cysteine residues and, except CTP2-derived peptide (Cragi-CTP2dp), show the C-terminal proline-amide motif typical of deuterostome CT-type peptides. All mature Cragi-CTs except Cragi-CTP2dp were detected in visceral ganglion extracts using mass spectrometry. Cell-based assays revealed that the previously characterized oyster receptors Cg-CT-R and Cragi-CTR2 were specifically activated by Cragi-CT1b and Cragi-CT2, respectively. This activation does not require the co-expression of receptor activity-modifying proteins (RAMPs). Thus, oyster CT signalling appears functionally more closely related to vertebrate CT/CTR signalling than to calcitonin gene-related peptide/calcitonin receptor-like receptor (CGRP/CLR) signalling. Gene expression profiles in different adult tissues and in oysters acclimated to brackish water suggest the potential implication of both Cg-CT-R/Cragi-CT1b and Cragi-CTR2/Cragi-CT2 in water and ionic regulations, although with apparently opposite effects. The present study represents the first comprehensive characterization of a functional CT-type signalling system in a protostome and provides evidence for its evolutionarily ancient origin and its early role in osmotic homeostasis.
}, issn = {1477-9145}, doi = {10.1242/jeb.201319}, author = {Julie Schwartz and R{\'e}alis-Doyelle, Emilie and Marie-Pierre Dubos and Lefranc, Benjamin and Leprince, J{\'e}r{\^o}me and Pascal Favrel} } @article {5830, title = {Coastal waters freshening and extreme seasonality affect organic matter sources, quality, and transfers in a High Arctic fjord (Young Sound, Greenland)}, journal = {Marine Ecology Progress Series}, volume = {610}, year = {2019}, pages = {15-31}, abstract = {Arctic benthic ecosystems are expected to experience strong modifications in the dynamics of primary producers and/or benthic-pelagic coupling under climate change. However, lack of knowledge about the influence of physical constraints (e.g. ice-melting associated gradients) on organic matter sources, quality, and transfers in systems such as fjords can impede predictions of the evolution of benthic-pelagic coupling in response to global warming. Here, sources and quality of particulate organic matter (POM) and sedimentary organic matter (SOM) were characterized along an inner-outer gradient in a High Artic fjord (Young Sound, NE Greenland) exposed to extreme seasonal and physical constraints (ice-melting associated gradients). The influence of the seasonal variability of food sources on 2 dominant filter-feeding bivalves (Astarte moerchi and Mya truncata) was also investigated. Results revealed the critical impact of long sea ice/snow cover conditions prevailing in Young Sound corresponding to a period of extremely poor and degraded POM and SOM. Freshwater inputs had a very local impact during summer, with relatively more degraded POM at the surface compared to bottom waters that were less nutritionally depleted but more heterogeneous among the sampled stations. Terrestrial inputs contributed to the SOM composition but showed a large variability along the fjord. Finally, diet analyses underlined the contrasted nutritional conditions, showing much higher lipid reserves in A. moerchi than in M. truncata during winter. Under a scenario with increased freshwater input, such results suggest a decline in organic matter quality and production in Young Sound, with subsequent impacts on benthic food webs.
}, doi = {10.3354/meps12857}, url = {https://www.int-res.com/abstracts/meps/v610/p15-31/}, author = {Bridier, Guillaume and Tarik Meziane and Grall, Jacques and Laurent Chauvaud and Sejr, Mikael K. and Menneteau, Sylvain and Fr{\'e}d{\'e}ric Olivier} } @article {7104, title = {Commercial traceability of Arapaima spp. fisheries in the Amazon basin: can biogeochemical tags be useful?}, year = {2019}, author = {Santos, Roberto and Hauser, Marilia and Duponchelle, Fabrice and Carvajal, Fernando and Pecheyran, Christophe and B{\'e}rail, Sylvain and Marc Pouilly and Pereira, Luciana} } @article {6579, title = {Comparing the efficiency of hypoxia mitigation strategies in an urban, turbid tidal river via a coupled hydro-sedimentary biogeochemical model}, journal = {Natural Hazards and Earth System Sciences}, volume = {19}, year = {2019}, month = {Jan-01-2019}, pages = {2551 - 2564}, doi = {10.5194/nhess-19-2551-2019}, url = {https://www.nat-hazards-earth-syst-sci.net/19/2551/2019/https://www.nat-hazards-earth-syst-sci.net/19/2551/2019/nhess-19-2551-2019.pdf}, author = {Lajaunie-Salla, Katixa and Sottolichio, Aldo and Schmidt, Sabine and Litrico, Xavier and Binet, Guillaume and Gwena{\"e}l Abril} } @article {5930, title = {The complex study of complexes: The first well-supported phylogeny of two species complexes within genus Caridina (Decapoda: Caridea: Atyidae) sheds light on evolution, biogeography, and habitat}, journal = {Molecular Phylogenetics and Evolution}, volume = {131}, year = {2019}, pages = {164-180}, abstract = {Atyid shrimps, a key component of tropical freshwater ecosystems, face multiple anthropogenic threats and thus
need special attention. With more than 300 described species, the genus Caridina is the most speciose of all the
Caridea infra-order. Caridina spp. occupy diverse habitats in tropical freshwaters of the Indo-West Pacific region.
Several species complexes have been recognized, based on common morphological features, but little is known
about how well these morphological characteristics align with phylogenetic characteristics. Furthermore, no
phylogeny of the genus Caridina published so far has provided well-resolved and supported relationships among
different species, thus impeding the possibility of proposing evolutionary hypotheses. In this study we used next
generation sequencing (NGS) to provide new insights into the phylogenetic relationships among the genus
Caridina, focusing on two complexes: {\textquoteleft}Caridina nilotica{\textquoteright} and {\textquoteleft}Caridina weberi{\textquoteright}. We collected 92 specimens belonging
to these two groups from most of their known geographical range, representing 50 species, for which we
sequenced seven mitochondrial genes and two nuclear markers using ion torrent NGS. We performed a phylogenetic
analysis, which yielded the first well-supported tree for the genus Caridina. On this tree were mapped the
geographic ranges and the habitats used by the different species, and a time calibration was tested. We found the
driving factors that most likely account for separation of clades are differences in habitat and to a lesser extent
geography. This work provides new insights into the taxonomy of this group and identifies opportunities for
further studies in order to fill knowledge gaps that currently impede the management and conservation of atyid
species.
1. Introduction
}, keywords = {amphidromy, freshwater shrimp, Indo-Pacific, Mitochondrial genome, Molecular systematics, taxonomy}, author = {de Mazancourt, Valentin and Klotz, Werner and Marquet, G{\'e}rard and Mos, B and Rogers, C and Philippe Keith} } @article {6014, title = {Contrasting biodiversity of eel larvae across the central Indian Ocean subtropical gyre}, journal = {Deep Sea Research Part II: Tropical Studies in Oceanography}, volume = {161}, year = {2019}, pages = {120{\textendash}131}, abstract = {The unique semi-enclosed Indian Ocean basin includes large Mascarene\ Plateau\ banks, offshore\ coral-reef\ islands, seasonal equatorial current jets, and cross-basin westward South Equatorial Current (SEC) flow, making it interesting for studying long larval-duration eel larvae (leptocephali) and regional eel biodiversity. Three surveys for\ leptocephali\ (in 2003, 2006, 2010) included sampling west of the Mascarene Plateau (west), a major survey and other stations off Sumatra and Java (east), and 2 cross-basin transects across the SEC. The highest numbers of leptocephali species were observed along Sumatra (2003: ~143 species; 2006: 72 species) and south of Java (2010: 69), with intermediate numbers being collected in the western Indian Ocean (2006: 71; 2010: 53) compared to low numbers in the hydrographically variable offshore zones (2006, 2010: 3{\textendash}27). The larger\ continental shelf\ areas along Sumatra including the Mentawai Islands provide more coral reef and other habitats for species such as congrid, muraenid, ophichthid, and chlopsid eels compared to the Mascarene Plateau banks. Some larvae in these areas get transported offshore, but the majority of offshore larvae were of Nemichthyidae and Serrivomeridae mesopelagic eels that were spawning across the basin. Habitat differences between the southern Mascarene Plateau and Sumatra and southern Indonesia along the edge of the high biodiversity Coral Triangle likely explain the higher biodiversity of eel larvae observed along the western side of the basin, which for the Congridae and Ophichthidae included more species than observed previously within the central Indonesian Seas. In addition to local spawning, seasonal currents likely transport larger larvae towards Sumatra from the north or west and larvae may enter the basin from the Indonesian\ Throughflow\ in the east, but it is unknown if equatorial jets or the SEC can transport larvae across the whole basin.}, doi = {doi.org/10.1016/j.dsr2.2018.02.012}, url = {https://www.sciencedirect.com/science/article/pii/S0967064517304393}, author = {Miller, Michael J and Wouthuyzen, Sam and Eric Feunteun and Aoyama, Jun and Watanabe, Shun and Syahailatua, Augy and Kuroki, Mari and Robinet, Tony and Hagihara, Seishi and Otake, Tsuguo and others} } @article {6688, title = {Correlations between broad-scale taxonomic and genetic differentiations suggest a dominant imprint of historical processes on beta diversities}, journal = {Journal of Biogeography}, volume = {46}, year = {2019}, month = {Jan-05-2020}, pages = {1083 - 1095}, issn = {0305-0270}, doi = {10.1111/jbi.2019.46.issue-510.1111/jbi.13559}, url = {https://onlinelibrary.wiley.com/doi/abs/10.1111/jbi.13559}, author = {Robuchon, Marine and Leroy, Boris and J{\'e}z{\'e}quel, C{\'e}line and Hugueny, Bernard} } @article {7106, title = {Correspondence: An appraisal of the effects on human health and the environment of using light-emitting diodes}, journal = {Lighting Research \& Technology}, volume = {51}, year = {2019}, month = {Jan-12-2019}, pages = {1275 - 1276}, issn = {1477-1535}, doi = {10.1177/1477153519891878}, url = {http://journals.sagepub.com/doi/10.1177/1477153519891878}, author = {Martinsons, Christophe and Attia, Dina and Behar-Cohen, Francine and Carr{\'e}, Samuel and Enouf, Olivier and Jack Falcon and Gronfier, Claude and Hicks, David and Metlaine, Arnaud and Tahkamo, Leena and Torriglia, Alicia and Vi{\'e}not, Fran{\c c}oise} } @article {8398, title = {Cottus petiti Bǎcescu \& Bǎcescu-Me{\c s}ter, 1964 (Cottidae)}, journal = {Cybium}, volume = {43}, year = {2019}, pages = {215-216}, author = {Lef{\`e}bvre, St{\'e}phane and Richard, Sylvain and Beaudou, Domninique and Denys, Ga{\"e}l} } @article {6693, title = {Current and future climatic regions favourable for a globally introduced wild carnivore, the raccoon Procyon lotor}, journal = {Scientific Reports}, volume = {9}, year = {2019}, month = {Jan-12-2019}, doi = {10.1038/s41598-019-45713-y}, url = {https://www.nature.com/articles/s41598-019-45713-y}, author = {Louppe, Vivien and Leroy, Boris and Herrel, Anthony and Veron, G{\'e}raldine} } @article {8155, title = {Data for evolutive analysis of insulin related peptides in bilaterian species}, journal = {Data in Brief}, volume = {22}, year = {2019}, month = {Jan-02-2019}, pages = {546 - 550}, issn = {23523409}, doi = {10.1016/j.dib.2018.12.050}, url = {https://linkinghub.elsevier.com/retrieve/pii/S2352340918315890}, author = {Cherif--Feildel, Ma{\"e}va and Clothilde Berthelin and Riviere, Guillaume and Favrel, Pascal and Kellner, Kristell} } @article {6858, title = {decadal scale dynamics and morphological evolution of mangroves and beaches in a reef-lagoon complex, Mayotte island.}, journal = {Journal of Coastal Research}, volume = {SI 88}, year = {2019}, author = {Jeanson, Matthieu and Franck Dolique and Anthony, Edward J.} } @article {6452, title = {Decreased thermal tolerance under recurrent heat stress conditions explains summer mass mortality of the blue mussel Mytilus edulis}, journal = {Scientific Reports}, volume = {9}, year = {2019}, pages = {17498}, abstract = {Extreme events such as heat waves have increased in frequency and duration over the last decades. Under future climate scenarios, these discrete climatic events are expected to become even more recurrent and severe. Heat waves are particularly important on rocky intertidal shores, one of the most thermally variable and stressful habitats on the planet. Intertidal mussels, such as the blue mussel Mytilus edulis, are ecosystem engineers of global ecological and economic importance, that occasionally suffer mass mortalities. This study investigates the potential causes and consequences of a mass mortality event of M. edulis that occurred along the French coast of the eastern English Channel in summer 2018. We used an integrative, climatological and ecophysiological methodology based on three complementary approaches. We first showed that the observed mass mortality (representing 49 to 59\% of the annual commercial value of local recreational and professional fisheries combined) occurred under relatively moderate heat wave conditions. This result indicates that M. edulis body temperature is controlled by non-climatic heat sources instead of climatic heat sources, as previously reported for intertidal gastropods. Using biomimetic loggers (i.e. {\textquoteright}robomussels{\textquoteright}), we identified four periods of 5 to 6 consecutive days when M. edulis body temperatures consistently reached more than 30 {\textdegree}C, and occasionally more than 35 {\textdegree}C and even more than 40 {\textdegree}C. We subsequently reproduced these body temperature patterns in the laboratory to infer M. edulis thermal tolerance under conditions of repeated heat stress. We found that thermal tolerance consistently decreased with the number of successive daily exposures. These results are discussed in the context of an era of global change where heat events are expected to increase in intensity and frequency, especially in the eastern English Channel where the low frequency of commercially exploitable mussels already questions both their ecological and commercial sustainability.
}, issn = {2045-2322}, doi = {10.1038/s41598-019-53580-w}, url = {https://doi.org/10.1038/s41598-019-53580-w}, author = {Seuront, Laurent and Nicastro, Katy R. and Zardi, Gerardo I. and Goberville, Eric} } @article {6690, title = {Detecting outliers in species distribution data: Some caveats and clarifications on a virtual species study}, journal = {Journal of Biogeography}, volume = {46}, year = {2019}, month = {Feb-09-2019}, pages = {2141 - 2144}, issn = {0305-0270}, doi = {10.1111/jbi.13626}, url = {https://onlinelibrary.wiley.com/doi/full/10.1111/jbi.13626}, author = {Meynard, Christine N. and Kaplan, David M. and Leroy, Boris}, editor = {Pearman, Peter B.} } @article {6935, title = {Detection of Adsorbed Chlordecone on Microplastics in Marine Sediments in Guadeloupe: A Preliminary Study}, journal = {Gulf and Caribbean Research}, volume = {30}, year = {2019}, month = {Jan-01-2019}, pages = {GCFI8 - GCFI14}, doi = {10.18785/gcr.3001.14}, url = {https://aquila.usm.edu/gcr/vol30/iss1/14/}, author = {Sandre, Fidji and Charlotte R. Dromard and Le Menach, Karyn and Bouchon-Navaro, Yolande and Cordonnier, S{\'e}bastien and Tapie, Nathalie and Budzinski, H{\'e}l{\`e}ne and Bouchon, Claude} } @article {8745, title = {Differential Influence of Life Cycle on Growth and Toxin Production of three Pseudo-nitzschia species (Bacillariophyceae)}, journal = {Journal of Phycology}, volume = {55}, year = {2019}, month = {Mar-10-2021}, pages = {1126 - 1139}, issn = {0022-3646}, doi = {10.1111/jpy.v55.510.1111/jpy.12898}, url = {https://onlinelibrary.wiley.com/toc/15298817/55/5}, author = {Aurore Sauvey and Pascal Claquin and Bertrand Le Roy and Le Gac, Mickael and Juliette Fauchot}, editor = {Kroth, P.} } @article {6656, title = {Differential Influence of Life Cycle on Growth and Toxin Production of three Pseudo-nitzschia Species (Bacillariophyceae)}, journal = {Journal of Phycology}, volume = {55}, year = {2019}, pages = {1126-1139}, abstract = {We used a multistrain approach to study the intra- and interspecific variability of the growth rates of three Pseudo-nitzschia species {\textendash} P. australis, P. fraudulenta, and P. pungens {\textendash} and of their domoic acid (DA) production. We carried out mating and batch experiments to investigate the respective effects of strain age and cell size, and thus the influence of their life cycle on the physiology of these species. The cell size {\textendash} life cycle relationship was characteristic of each species. The influence of age and cell size on the intraspecific variability of growth rates suggests that these characteristics should be considered cautiously for the strains used in physiological studies on Pseudo-nitzschia species. The results from all three species do not support the hypothesis of a decrease in DA production with time since isolation from natural populations. In P. australis, the cellular DA content was rather a function of cell size. More particularly, cells at the gametangia stage of their life cycle contained up to six times more DA than smaller or larger cells incapable of sexual reproduction. These findings reveal a link between P. australis life cycle and cell toxicity. This suggest that life cycle dynamics in Pseudo-nitzschia natural populations may influence bloom toxicity. {\textcopyright} 2019 Phycological Society of America}, issn = {00223646}, doi = {10.1111/jpy.12898}, url = {https://onlinelibrary.wiley.com/doi/abs/10.1111/jpy.12898}, author = {Aurore Sauvey and Pascal Claquin and Le Roy, Bertrand and Le Gac, Mickael and Juliette Fauchot} } @article {6734, title = {Distribution and life history trait models indicate vulnerability of skates}, journal = {Progress in Oceanography}, volume = {181}, year = {2019}, pages = {102256}, abstract = {Elasmobranchs are k-strategy species with low reproduction rate and slow growth lending to increased anthropogenic vulnerability. Specific management measures to improve the conservation of elasmobranchs can be problematic due to insufficient information on their biology and ecology. Here, three sympatric skates occupying north-eastern Atlantic waters, which have differing conservation status were studied within ICES divisions 4.c, 7.d{\textendash}e, 7.f{\textendash}h and 8a{\textendash}b and d. Fisheries-dependent data on skate bycatch and a series of environmental variables were used to model spatio-temporal differences in habitat use between the three species. Raja undulata, the undulate ray (IUCN red listed as {\textquoteleft}Endangered{\textquoteright}) was observed to have a coastal distribution within the English Channel and the Bay of Biscay (ICES division 7.d{\textendash}e and 8.a{\textendash}b). Raja clavata, the thornback ray ({\textquoteleft}Near threatened{\textquoteright}), had a broader distribution with higher presence in the eastern English Channel and the southern North Sea (ICES division 7.e and 4.c). Raja montagui, the spotted ray{\textquoteright}s probability of presence ({\textquoteleft}Least concerned{\textquoteright}) was higher off the coast of southern Ireland (ICES division 7.g). Seasonal and life-history trait differences were also observed. From the fisheries-dependent data, wider skate distributions than previously studied were modelled. Although the species do co-occur, spatio-temporal differences between these species were observed. This study contributes to a greater understanding of skate habitat during their different life history stages, and indicates reasons for R. undulata{\textquoteright}s increased vulnerability than R. clavata and R. montagui. Information from the distribution models could be used for specific spatio-temporal management measures. Better understanding of the distribution of species can also help reduce bycatch of protected species such as R. undulata.}, keywords = {Distribution modelling, Elasmobranchs, Fisheries management, Habitat, IUCN red list species, Life history traits}, issn = {0079-6611}, doi = {https://doi.org/10.1016/j.pocean.2019.102256}, url = {http://www.sciencedirect.com/science/article/pii/S0079661119304367}, author = {Sophie A.M. Elliott and Alexandre Carpentier and Eric Feunteun and Thomas Trancart} } @article {6737, title = {Distribution of anguillid leptocephali and possible spawning areas in the South Pacific Ocean}, journal = {Progress in Oceanography}, volume = {180}, year = {2019}, pages = {102234}, abstract = {Seven South Pacific anguillid eel species live from New Guinea to French Polynesia, but their spawning areas and life histories are mostly unknown despite previous sampling surveys. A July{\textendash}October 2016 research cruise was conducted to study the spawning areas and times, and larval distributions of South Pacific anguillid eels, which included a short 155{\textdegree}E station-line northeast of New Guinea and five long transects (5{\textendash}25{\textdegree}S, 160{\textdegree}E{\textendash}140{\textdegree}W) crossing the South Equatorial (SEC) and other currents. This survey collected nearly 4000 anguilliform leptocephali at 179 stations using an Isaacs-Kidd Midwater Trawl accompanied by 104 CTD casts. Based on morphometric observations and DNA sequencing, 74 anguillid leptocephali were collected, which in the southern areas included 29 larvae of six species: Anguilla bicolor pacifica, A. marmorata, A. australis, A. reinhardtii, A. megastoma,and A. obscura (all anguillid species of the region were caught except A. dieffenbachii). Small A. australis (9.0{\textendash}16.8\ mm) and A. reinhardtii (12.4, 12.5\ mm) leptocephali were collected south of the Solomon Islands, other A. australis (10.8{\textendash}12.0\ mm) larvae were caught northwest of Fiji along with an A. obscura (20.0\ mm) larva, and an A. marmorata (7.8\ mm) larva was collected near Samoa. Considering collection sites, larval ages from otolith analysis, and westward SEC drift, multiple spawning locations occurred from south of the Solomon Islands and the Fiji area (16{\textendash}20\ days old larvae) to near Samoa (19\ days old larva) during June and July in areas where high-salinity Subtropical Underwater (STUW, 150\ m depth) and the warm, low-salinity surface Fresh Pool were present. Five long hydrographic sections showed the strong Fresh Pool in the west and the STUW formation area in the east.}, keywords = {Early life history, Freshwater eels, Migration, otolith, South Pacific, Spawning}, issn = {0079-6611}, doi = {https://doi.org/10.1016/j.pocean.2019.102234}, url = {http://www.sciencedirect.com/science/article/pii/S0079661119304148}, author = {Mari Kuroki and Michael J. Miller and Eric Feunteun and Pierre Sasal and Timothy Pikering and Yu-San Han and Elisabeth Faliex and Anthony Acou and Aur{\'e}lie Dessier and Robert Schabetsberger and Shun Watanabe and Tatsuya Kawakami and Hiroaki Onda and Takatoshi Higuchi and Aya Takeuchi and Madoka Shimizu and Chinthaka A. Hewavitharane and Seishi Hagihara and Terumasa Taka and Shingo Kimura and Noritaka Mochioka and Tsuguo Otake and Katsumi Tsukamoto} } @article {6016, title = {Dmrt1 (doublesex and mab-3-related transcription factor 1) expression during gonadal development and spermatogenesis in the Japanese eel.}, journal = {General and Comparative Endocrinology}, volume = {279}, year = {2019}, pages = {154-163}, author = {Jeng, Shan-Ru and Wu, Guan-Chung and Wen-Shiun Yueh and Kuo, S-F and Sylvie Dufour and Chang, Ching-Fong} } @article {7898, title = {Does Addition of Perch Larvae as Prey Affect the Growth, Development and Cannibalism Rate of Pikeperch Larvae?}, journal = {Fishes}, volume = {4}, year = {2019}, month = {Jan-03-2019}, pages = {21}, abstract = {Cannibalism occurs in many cultured fish species, especially at the larval and juvenile stages of piscivorous taxa. In farmed percid species, such as pikeperch (Sander lucioperca), intra-cohort cannibalism is a major issue inducing significant losses of the initial stocking density during the first weeks of rearing. Therefore, the present study was designed to investigate the effects of perch larvae (Perca fluviatilis) as live prey on growth, survival and cannibalism in pikeperch larvae under experimental conditions. Additionally, zootechnical and behavioural variables linked to aggressiveness (S postures, attacks, bites and ingestion), and group structures were considered. The survival rate was not different between the two groups (72\% with prey vs. 69\% without prey), but the cannibalism rate was higher in the group with the prey (28\% vs. 10\%). The means of final weight and length of pikeperch larvae were higher in the group fed with perch larvae, but size heterogeneity measured by the coefficients of variation for these two parameters did not differ. The specific growth rate was higher in the group fed with perch larvae, but there was no difference between the two groups concerning Fulton{\textquoteright}s condition factor. Among all the behavioural variables (aggressiveness, group structure), none differed between the two groups.}, keywords = {aggressiveness, Cannibalism, forage prey, Growth, Sander lucioperca, size heterogeneity}, doi = {10.3390/fishes4010021}, url = {https://www.mdpi.com/2410-3888/4/1/21}, author = {Cortay, A and Tatiana Colchen and Fontaine, P and Pasquet, A} } @article {8403, title = {Does Loire grayling represent a distinct species ?}, journal = {Frontiers in Marine Science}, volume = {6}, year = {2019}, month = {Jan-01-2019}, doi = {10.3389/conf.fmars.2019.07.00070}, url = {http://www.frontiersin.org/Community/AbstractDetails.aspx?ABS_DOI=10.3389\%2fconf.fmars.2019.07.00070}, author = {Persat, Henri and Denys, Ga{\"e}l and Froufe, Elsa and Secci-Petretto, Giulia and Weiss, Steven Weiss} } @article {6044, title = {Does your lip stick? Evolutionary aspects of the mouth morphology of the Indo-Pacific clinging goby of the Sicyopterus genus (Teleostei: Gobioidei: Sicydiinae) based on mitogenome phylogeny.}, journal = {Journal of Zoological Systematics and Evolutionary Research}, year = {2019}, abstract = {Sicydiinae gobies have an amphidromous life cycle. Adults grow, feed, and reproduce in rivers, while larvae have a marine dispersal phase. Larvae recruit back to rivers and settle in upstream habitats. Within the Sicydiinae subfamily, the\ Sicyopterus genus, one of the most diverse (24 species), is distributed in the tropical islands of the Indo-Pacific. One of the characters used to determine Sicyopterus species is the upper lip morphology, which can be either smooth, crenulated, or with papillae, and with (2 or 3) or without clefts. The mouth is used as a secondary locomotor organ along with the pelvic sucker. It is thus strongly related to the climbing ability of species and is of major importance for the upstream migration and the colonization of insular freshwater systems. The mouth also has an important role in the feeding mechanism of these herbivorous species. In this paper, we have established a molecular phylogeny of the genus based on the 13 mitochondrial protein-coding genes to discuss the relationship between 18 Sicyopterus species. There is a well-supported dichotomy in the molecular phylogeny of the Sicyopterus genus and this separation into two clades is also morphologically visible, with the distinction of species with three clefts and species with 0 or 2 clefts on the upper lip. The mouth morphology can thus be separated with regard to the molecular phylogeny obtained. The evolution of the mouth morphology is discussed in terms of the adaptation of the Sicyopterus genus to settlement and life in tropical insular river systems.
}, keywords = {mitogenome, mouth morphology, Phylogeny, Sicydiinae, Sicyopterus}, doi = {DOI: 10.1111/jzs.12291}, author = {Clara Lord and Laure Bellec and Dettai, Agn{\`e}s and Bonillo, C{\'e}line and Philippe Keith} } @article {Fath20191, title = {Ecological network analysis metrics: The need for an entire ecosystem approach in management and policy}, journal = {Ocean and Coastal Management}, volume = {174}, year = {2019}, note = {cited By 8}, pages = {1-14}, publisher = {Elsevier Ltd}, abstract = {In this paper, we identified seven ecological network analysis (ENA) metrics that, in our opinion, have high potential to provide useful and practical information for environmental decision-makers and stakeholders. Measurement and quantification of the network indicators requires that an ecosystem level assessment is implemented. The ENA metrics convey the status of the ecological system state variables, and mostly, the flows and relations between the various nodes of the network. The seven metrics are: 1) Average Path Length (APL), 2) Finn Cycling Index (FCI), 3) Mean Trophic level (MTL), 4) Detritivory to Herbivory ratio (D:H), 5) Keystoneness, 6) Structural Information (SI), and 7) Flow-based Information indices. The procedure for calculating each metric is detailed along with a short evaluation of their potential assessment of environmental status. {\textcopyright} 2019 Elsevier Ltd}, keywords = {coastal zone, Cycling, Decision making, ecological approach, Ecological network analysis, ecosystem approach, ecosystem management, Ecosystems, environmental policy, food web, Food webs, Marine and coastal environments, Marine environment, network analysis, policy implementation, stakeholder, Trophic length}, issn = {09645691}, doi = {10.1016/j.ocecoaman.2019.03.007}, url = {https://www.sciencedirect.com/science/article/abs/pii/S0964569118305969}, author = {Fath, B.D. and H Asmus and R. Asmus and Baird, D. and Borrett, S.R. and de Jonge, V.N. and Ludovisi, A. and Nathalie Niquil and Scharler, U.M. and Sch{\"u}ckel, U. and Wolff, M.} } @proceedings {6079, title = {Ecoregionalisation and conservation of benthic communities in the French exclusive economic zone of Kerguelen}, volume = {1}, year = {2019}, month = {11/06/2019}, pages = {pp 413}, publisher = {Australian Antarctic Division}, edition = {Australian Antarctic Division, Kingston, Tasmania, Australia}, address = {Kingston, Tasmania, Australia}, abstract = {The deep-sea benthic ecosystems of the French Kerguelen exclusive economic zone remain poorly understood. To address benthic conservation issues, the authors recently contributed expert knowledge to guide the recent extension of the Marine Reserve of the {\textquoteleft}Terres australes fran{\c c}aises{\textquoteright}. In this new study, we propose a benthic ecoregionalisation of the northern Kerguelen Plateau based on a measurable and repeatable methodology that relies on the generalised dissimilarity modelling technique. Data of macro-epibenthic invertebrate species from the POKER 2 (2010) fish stock assessment survey have been used to compute the models. Our results allow us (i) to characterise and map benthic landscape units based on assemblages of marine invertebrates pooled by taxa and life-history traits, (ii) to highlight the environmental drivers of the spatial distribution of benthic assemblages, (iii) to assess the relevance of the CCAMLR{\textquoteright}s vulnerable marine ecosystems bioindicator taxa, and (iv) to assess the effectiveness of {\textquoteleft}strictly protected areas{\textquoteright} of the new Marine Reserve for the conservation of deep-sea benthic ecosystems.
}, keywords = {benthic ecosystems, benthos, deep-sea, ecoregionalisation, kerguelen, poker}, url = {http://heardisland.antarctica.gov.au/__data/assets/pdf_file/0009/229158/34-Martin-FullMS.pdf}, author = {Martin, Alexis}, editor = {Trouslard, Emmanuelle and Hautecoeur, M{\'e}lyne and Blettery, Jonathan and Moreau, Camille and Sauc{\`e}de, Thomas and Ameziane, Nadia and Guy Duhamel and Eleaume, Marc} } @article {6934, title = {Environmental fate of chlordecone in coastal habitats: recent studies conducted in Guadeloupe and Martinique (Lesser Antilles)}, journal = {Environmental Science and Pollution Research}, year = {2019}, month = {Feb-03-2019}, issn = {0944-1344}, doi = {10.1007/s11356-019-04661-w}, url = {http://link.springer.com/10.1007/s11356-019-04661-w}, author = {Charlotte R. Dromard and Devault, Damien A. and Bouchon-Navaro, Yolande and All{\'e}nou, Jean-Pierre and Budzinski, H{\'e}l{\`e}ne and Cordonnier, S{\'e}bastien and Tapie, Nathalie and Reynal, Lionel and Lemoine, Soazig and Thom{\'e}, Jean-Pierre and Thouard, Emmanuel and Monti, Dominique and Bouchon, Claude} } @book {Prouzet201969, title = {The European eel (Anguilla anguilla) in France: An example of close cooperation among researchers and fishers to study and manage an endangered species}, series = {Oceanography Challenges to Future Earth: Human and Natural Impacts on our Seas}, year = {2019}, note = {cited By 0}, pages = {69-93}, doi = {10.1007/978-3-030-00138-4_7}, url = {https://www.springerprofessional.de/en/the-european-eel-anguilla-anguilla-in-france-an-example-of-close/16484968}, author = {Prouzet, P. and Amilhat, E. and Boisneau, C. and Boisneau, P. and Eric Feunteun and Michelet, N.} } @article {6039, title = {Evolutionary aspects of cephalic sensory papillae of the Indo- Pacific species of Eleotris (Teleostei: Eleotridae)}, journal = {Zoologica Scripta}, year = {2019}, abstract = {\ Eleotris species (Teleostei: Eleotridae) are one of the most common fish in Indo-Pacific estuaries and insular freshwater streams. In these rivers, they are a sit-andwaitpredator. They have an amphidromous life cycle,\ that is adults grow, feed and reproduce in rivers, while larvae have a marine dispersal phase. Larvae recruit back to rivers and settle in stream habitats. Primary characters used to determine\ Eleotris species are the presence and the disposition of cephalic sensory papillae rows on the operculum and under the eyes as well as scale row numbers. The morphology of these cephalic sensory papillae is of particular importance in this predatory genus as it is generally correlated in fish to predation and feeding. In this paper, we have established a molecular phylogeny of the genus based on the 12 mitochondrial protein- coding genes to discuss the relationship between Indo-Pacific\ Eleotris species. There is a well-supported dichotomy in the molecular phylogeny, and this separation into two main clades is also morphologically visible, as it reveals a difference in the arrangement of cephalic sensory papillae. Indeed, the phylogeny distinguishes the species with the {\textquotedblleft}open{\textquotedblright} pattern of the operculum sensory papillae and the species with the {\textquotedblleft}closed{\textquotedblright} one. This phylogeny thus reflects the morphology of the opercular papillae. The evolution of this character is discussed in terms of the adaptation of the\ Eleotris genus to life in tropical insular river systems.
}, doi = {DOI: 10.1111/zsc.12366}, author = {Marion Mennesson and Maeda, Ken and Philippe Keith} } @article {8451, title = {Examples of Understory Plant Communities Observed in Post-Agricultural Recent Woodlands and Uninterrupted Ancient Forests}, journal = {Bulletin of the Ecological Society of America}, volume = {101}, year = {2019}, month = {01/2020}, pages = {e01634}, author = {Morel, Lo{\"\i}s and Barbe, Lou and Jung, Vincent and Cl{\'e}ment, Bernard and Schnitzler, Annik and Fr{\'e}d{\'e}ric Ysnel} } @article {6661, title = {Exploration during early life: distribution, habitat and orientation preferences in juvenile king penguins}, journal = {Movement Ecology}, volume = {7}, year = {2019}, month = {Jan-12-2019}, abstract = {BackgroundThe study of the ichthyofaunal corpus yielded by the archaeological site of Teouma, Efate Island, Vanuatu, has revealed the unexpected presence of a significant number of bones of Eleotridae (Sleepers) on the site, as early as 2920{\textendash}2870 cal. B.P. Out of the 8560 identified fish remains associated with the Lapita layers, which document the period of initial settlement of the archipelago, 1368 have been determined as belonging to eleotrids, including species of the genera Giuris, Ophiocara and Eleotris. They represent 16\% of the corpus and occupy second place among the dominant families in an assemblage composed otherwise of a wide-range of marine coastal and reef-associated taxa. Even though the Lapita economy is characterised by an intensive and broad-spectrum exploitation of all terrestrial and marine resources available and readily procurable, the eleotrids of Teouma are the first clear evidence thus far of the exploitation of freshwater environments by Lapita communities anywhere in their range. A river and a swamp are present in the vicinity of the site, and hooks and lines and/or multipronged spears could have been used. Passive gear such as weirs, fish-traps or nets might have been applied as well, enabling the capture of sleepers in larger quantities. The results presented here offer an original insight of an unknown facet of Lapita subsistence strategies and aim to highlight the antiquity of freshwater fishing at a regional scale.
}, keywords = {Ichthyoarchaeology, Melanesia, Pacific Islands, River fishing, Subsistence strategies}, doi = {https://doi.org/10.1016/j.jasrep.2019.101894}, author = {Bouffandeau, Laurie and Bearez, Philippe and Philippe Keith and Bedford, Stuart and Spriggs, Matthew} } @article {6018, title = {Functional divergence of thyrotropin beta-subunit paralogs gives new insights into salmon smoltification metamorphosis}, journal = {Scientific Reports}, volume = {9}, year = {2019}, pages = {4561}, author = {Fleming, Mitchell S and Maugars, Gersende and Lafont, Anne-Gaelle and Rancon, Jocelyn and Fontaine, Romain and Nourizadeh-Lillabadi, Rasoul and Weltzien, Finn-Arne and Santidrian Yebra-Pimentel, Elena and Dirks, Ron and McCormick, Stephen D and Rousseau, Karine and Martin, Patrick and Sylvie Dufour} } @article {5844, title = {Functional traits unravel temporal changes in fish biomass production on artificial reefs}, journal = {Marine Environmental Research}, volume = {145}, year = {2019}, pages = {137-146}, abstract = {Artificial reefs (ARs) are deployed worldwide as they are expected to support fisheries management. While the underlying mechanisms remain widely debated, production was recently determined as the most probable cause of increases in fish biomass. Changes in fish biomass in a temperate AR system were investigated from December 2008 to November 2015 by considering seven distinct functional groups, and isotopic functional indices were used to identify how these changes may have affected organic matter (OM) fluxes. Contrasting patterns of change were observed between functional trophic groups, highlighting that combining the biomass of all species present in a community is inappropriate for assessing AR-induced effects. Benthic sedentary species predominated (\>75\% of the total biomass) through massive production, with a 68-fold increase in mean biomass over the study period. Mobile species tended to vary seasonally, suggesting only a slight influence of AR. Zooplanktivores biomass decreased over the 6-year period, as a possible result of changes in environmental conditions. Isotopic indices helped to reveal both the community maturation and the importance of local OM sources not only in supporting fish biomass production but also in attracting pelagic species. Our results corroborate that production and attraction are two extremes of a range of contrasting patterns and highlight the importance of considering the specific responses of functional components of fish communities to accurately describe changes in AR functioning. Functional attributes such as trophic traits, habitat use and dispersal abilities must not be overlooked as they modulate fish species responses to the deployment of man-made rocky substrates.
}, keywords = {Artificial reefs, Fish biomass production, Isotopic functional indices, Mediterranean sea}, issn = {0141-1136}, doi = {https://doi.org/10.1016/j.marenvres.2019.02.018}, url = {http://www.sciencedirect.com/science/article/pii/S0141113618307979}, author = {Cresson, Pierre and Le Direach, Laurence and Rouanet, Elodie and Goberville, Eric and Astruch, Patrick and Ourgaud, M{\'e}lanie and Mireille Harmelin-Vivien} } @article {7095, title = {The Genomic Substrate for Adaptive Radiation: Copy Number Variation across 12 Tribes of African Cichlid Species}, journal = {Genome Biology and Evolution}, volume = {11}, year = {2019}, month = {Jan-10-2019}, pages = {2856 - 2874}, abstract = {The initial sequencing of five cichlid genomes revealed an accumulation of genetic variation, including extensive copy number variation in cichlid lineages particularly those that have undergone dramatic evolutionary radiation. Gene duplication has the potential to generate substantial molecular substrate for the origin of evolutionary novelty. We use array-based comparative heterologous genomic hybridization to identify copy number variation events (CNVEs) for 168 samples representing 53 cichlid species including the 5 species for which full genome sequence is available. We identify an average of 50-100 CNVEs per individual. For those species represented by multiple samples, we identify 150-200 total CNVEs suggesting a substantial amount of intraspecific variation. For these species, only \~{}10\% of the detected CNVEs are fixed. Hierarchical clustering of species according to CNVE data recapitulates phylogenetic relationships fairly well at both the tribe and radiation level. Although CNVEs are detected on all linkage groups, they tend to cluster in "hotspots" and are likely to contain and be flanked by transposable elements. Furthermore, we show that CNVEs impact functional categories of genes with potential roles in adaptive phenotypes that could reasonably promote divergence and speciation in the cichlid clade. These data contribute to a more complete understanding of the molecular basis for adaptive natural selection, speciation, and evolutionary radiation.}, keywords = {adaptive radiation, cichlid, copy number variation, gene duplication, genomic architecture}, doi = {10.1093/gbe/evz185}, url = {https://academic.oup.com/gbe/article/11/10/2856/5556293}, author = {Faber-Hammond, Joshua J and Bezault, Etienne and Lunt, David H and Joyce, Domino A and Renn, Suzy C P} } @article {6694, title = {Global biogeographical regions of freshwater fish species}, journal = {Journal of Biogeography}, volume = {46}, year = {2019}, month = {Jun-11-2019}, pages = {2407 - 2419}, issn = {0305-0270}, doi = {10.1111/jbi.13674}, url = {https://onlinelibrary.wiley.com/doi/abs/10.1111/jbi.13674}, author = {Leroy, Boris and Dias, Murilo S. and Giraud, Emilien and Hugueny, Bernard and J{\'e}z{\'e}quel, C{\'e}line and Leprieur, Fabien and Oberdorff, Thierry and Pablo Tedesco} } @article {Chevillot2019473, title = {Global Changes Jeopardize the Trophic Carrying Capacity and Functioning of Estuarine Ecosystems}, journal = {Ecosystems}, volume = {22}, number = {3}, year = {2019}, note = {cited By 2}, pages = {473-495}, publisher = {Springer New York LLC}, abstract = {At the interface between terrestrial and marine biomes, estuaries display high ecological productivity and provide goods and services to humans. Associated with many ecological functions, they are nursery, refuge, and growing areas for many species fish. These ecological functions and services depend on both their ecological production and trophic carrying capacity and the durability of food web functioning. These transitional key habitats undergo both strong anthropogenic pressures and climatic influences that impact the structure and dynamics of estuarine biodiversity. In this context, we explore, here, three decades of the Gironde estuary ecosystem history to detect the food web{\textquoteright}s response to global changes-induced effect on biodiversity. At least two Ecological Abrupt Shifts associated with deep modifications in the biodiversity at most trophic levels have been documented for this particular ecosystem. Three food web models were thus calibrated, one for each of the three periods discriminated by the two shifts that occurred at the end of the 1980s and the beginning of the 2000s. Results highlighted that the ecotrophic efficiency estimate for subtidal macrofauna and shrimps reached the maximum possible values during the last period. This could mean that the Gironde estuary fully reached its trophic carrying capacity due to a food limitation especially for benthos demersal fish. We also observed a significant decrease in some food web indicators (such as Average Mutual Information, System Omnivory Index, and Average Path Length) usually associated with ecosystem stress, suggesting a significant impact of global change on the Gironde estuary ecosystem health and questioning the sustainability of the ecological functions associated with this ecosystem. {\textcopyright} 2018, Springer Science+Business Media, LLC, part of Springer Nature.}, keywords = {benthos, carrying capacity, demersal fish, ecosystem function, ecosystem health, food limitation, food web, France, Gironde Estuary, Global change, network analysis, trophic environment}, issn = {14329840}, doi = {10.1007/s10021-018-0282-9}, url = {https://link.springer.com/article/10.1007/s10021-018-0282-9}, author = {Chevillot, X. and Tecchio, S. and Chaalali, A. and Lassalle, G. and Selleslagh, J. and Castelnaud, G. and David, V. and Guy Bachelet and Nathalie Niquil and Benoit Sautour and Lobry, J.} } @article {6047, title = {The global geography of fish diadromy modes}, journal = {Global Ecology and Biogeography}, year = {2019}, abstract = {Aim: Geographical gradients in resource production are likely to translate into macroecological patterns in the biodiversity of migratory organisms, but few studies have addressed this question at a global scale. Here, we tested a hypothesis based on uncoupled latitudinal gradients in marine and freshwater primary productivities aimed at explaining where (e.g., at which latitude) and at which stage of the life cycle (larvae, amphidromy; juvenile, catadromy; or adult, anadromy) migration from ocean to freshwater occurs (diadromy).
Location: Global.
Time period: Current.
Major taxa studied: Fishes.
Methods: We modelled, using multinomial regressions, the proportion of catadromous, anadromous and amphidromous species in 994 river basins as a function of freshwater and marine net primary productivities (NPP; in milligrams of carbon per square metre per day) and additional biotic and abiotic variables. Using data extracted from the Global Biodiversity Information Facility (GBIF) database, we tested whether diadromous, catadromous and amphidromous species differed with respect to the NPP of their marine and freshwater occurrences.
Results: Among diadromous species, anadromous species are present in higher proportions when conditions for growth are more favourable in the sea (higher productivity, higher temperature and lower number of competitors) than in freshwaters. The model reconstructs the latitudinal pattern observed in the proportion of anadromous species, including an asymmetry between the Northern and Southern Hemispheres. According to GBIF occurrences, the ratio of marine over freshwater productivity is higher for anadromous species compared with catadromous and amphidromous species.
Main conclusions: Our results support the hypothesis stating that migration between ocean and freshwater occurs by choosing the biome that optimizes pre-reproductive growth and is one more example of the importance of primary productivity in shaping large-scale community patterns. This result suggests that some diadromous fish populations and species may suffer from anticipated climate change if interbiome productivity gradients are affected.
}, keywords = {amphidromy, anadromy, Biogeography, catadromy, dispersal, GBIF database, Last Glacial Maximum, latitudinal gradient, Migration, Species richness}, doi = {DOI: 10.1111/geb.12931}, author = {Chalant, Ana{\"\i}s and J{\'e}z{\'e}quel, C{\'e}line and Philippe Keith and Bernard Hugueny} } @article {6745, title = {High genetic diversity and lack of pronounced population structure in five species of sympatric Pacific eels}, journal = {Fisheries Management and Ecology}, volume = {26}, year = {2019}, pages = {31-41}, abstract = {Understanding the population structure of tropical anguillids residing in the Pacific is vital for their conservation management. Here, the population genetic structure of five sympatric freshwater eels (Anguilla marmorata Quoy \& Gaimard, A.\ megastoma Kaup, A.\ obscura Steindachner, A.\ reinhardtii G{\"u}nther and A.\ australis Richardson) across 11 western South Pacific (WSP) islands was investigated based on partial nucleotide sequences of the mtDNA control region and the nuclear GTH2b genes of 288 newly collected samples jointly with existing sequences. WSP anguillids are characterised by overall high levels of genetic diversity. Both mtDNA and nuclear sequences provided no evidence for distinct geographic clines or barriers in any of the species across the WSP. The occurrence of admixed individuals between A.\ marmorata and A.\ megastoma was confirmed, and a new possible occurrence of a further species was revealed (A.\ interioris Whitley on Bougainville Island). All species showed evidence for demographic population growth in the Pleistocene, and a subsequent population reduction for A.\ megastoma. Common spawning grounds and mixing of larvae by ocean currents could promote the lack of pronounced isolation by distance, a finding that has significant implications for the future management of anguillids in the area.}, keywords = {genetic homogeneity, hybridisation, recruitment, Spawning, Sympatry, tropical eels}, doi = {10.1111/fme.12287}, url = {https://onlinelibrary.wiley.com/doi/abs/10.1111/fme.12287}, author = {Gubili, Chrysoula and Robert Schabetsberger and Poellabauer, Christine and Bates, Becky and Wagstaff, Rosa M. and Woodward, Lewis M. and Sichrowsky, Ursula and Scheck, Alexander and Boseto, David T. and Eric Feunteun and Anthony Acou and Jehle, Robert} } @article {6887, title = {High rates of apoptosis visualized in the symbiont-bearing gills of deep-sea Bathymodiolus mussels}, journal = {PLOS ONE}, volume = {14}, year = {2019}, month = {Apr-02-2019}, pages = {e0211499}, doi = {10.1371/journal.pone.021149910.1371}, url = {http://dx.plos.org/10.1371/journal.pone.0211499}, author = {Piquet, B{\'e}r{\'e}nice and Bruce Shillito and Lallier, Fran{\c c}ois H. and Duperron, S{\'e}bastien and Andersen, Ann C.}, editor = {Rodrigues, Clara F.} } @article {5953, title = {Histological data on bone and teeth in two dragonf{\`\i}shes (Stomiidae; Stomiiformes): Borostomiaspanamensis Regan \& Trewavas, 1929 and Stomias boa Reinhardt 1842}, journal = {Cybium}, volume = {43}, year = {2019}, pages = {103-107}, doi = {10.26028/cybium/2019-431-010}, url = {http://sfi-cybium.fr/fr/histological-data-bone-and-teeth-two-dragonfishes-stomiidae-stomiiformes-borostomias-panamensis}, author = {Germain, D and Schnell, NK and Fran{\c c}ois J Meunier} } @article {5957, title = {Histological study of the cutaneous bony scutes in the John dory, Zeus faber Linnaeus, 1758 (Teleostei: Zeiformes: Zeidae)}, journal = {Cahiers de Biologie Marine}, volume = {60}, year = {2019}, pages = {195-199}, doi = {10.21411/cbm.a.260f6487}, url = {http://application.sb-roscoff.fr/cbm/doi/10.21411/CBM.A.260F6487}, author = {Fran{\c c}ois J Meunier and Bearez, Philippe} } @article {6117, title = {Histone Methylation Participates in Gene Expression Control during the Early Development of the Pacific Oyster .}, journal = {Genes (Basel)}, volume = {10}, year = {2019}, month = {2019 09 10}, abstract = {Histone methylation patterns are important epigenetic regulators of mammalian development, notably through stem cell identity maintenance by chromatin remodeling and transcriptional control of pluripotency genes. But, the implications of histone marks are poorly understood in distant groups outside vertebrates and ecdysozoan models. However, the development of the Pacific oyster is under the strong epigenetic influence of DNA methylation, and histone-demethylase orthologues are highly expressed during . early life. This suggests a physiological relevance of histone methylation regulation in oyster development, raising the question of functional conservation of this epigenetic pathway in lophotrochozoan. Quantification of histone methylation using fluorescent ELISAs during oyster early life indicated significant variations in monomethyl histone H3 lysine 4 (H3K4me), an overall decrease in H3K9 mono- and tri-methylations, and in H3K36 methylations, respectively, whereas no significant modification could be detected in H3K27 methylation. Early in vivo treatment with the JmjC-specific inhibitor Methylstat induced hypermethylation of all the examined histone H3 lysines and developmental alterations as revealed by scanning electronic microscopy. Using microarrays, we identified 376 genes that were differentially expressed under methylstat treatment, which expression patterns could discriminate between samples as indicated by principal component analysis. Furthermore, Gene Ontology revealed that these genes were related to processes potentially important for embryonic stages such as binding, cell differentiation and development. These results suggest an important physiological significance of histone methylation in the oyster embryonic and larval life, providing, to our knowledge, the first insights into epigenetic regulation by histone methylation in lophotrochozoan development.
}, issn = {2073-4425}, doi = {10.3390/genes10090695}, author = {Alexandre Fellous and Lefranc, Lorane and Jouaux, Aude and Goux, Didier and Pascal Favrel and Riviere, Guillaume} } @article {6849, title = {Histone Methylation Participates in Gene Expression Control during the Early Development of the Pacific Oyster Crassostrea gigas}, journal = {Genes}, volume = {10}, year = {2019}, month = {Jan-09-2019}, pages = {695}, doi = {10.3390/genes10090695}, url = {https://www.mdpi.com/2073-4425/10/9/695}, author = {Fellous, Alexandre and Le Franc, Lorane and Jouaux, Aude and Goux, Didier and Pascal Favrel and Guillaume Rivi{\`e}re} } @article {5861, title = {Ideas and perspectives: Carbon leaks from flooded land: do we need to replumb the inland water active pipe?}, journal = {Biogeosciences}, volume = {16}, year = {2019}, month = {feb}, pages = {769{\textendash}784}, doi = {10.5194/bg-16-769-2019}, url = {https://doi.org/10.5194/bg-16-769-2019}, author = {Gwena{\"e}l Abril and Alberto V. Borges} } @article {6860, title = {Impacts des activit{\'e}s anthropiques sur les {\'e}cosyst{\`e}mes littoraux et marins : les mangroves du Parc National des Trois Baies {\'e}tudi{\'e}es {\`a} partir d{\textquoteright}images LANDSAT}, journal = {Les Cahiers d{\textquoteright}Outre-Mer}, year = {2019}, pages = {69-95}, author = {Joseph, C. and Franck Dolique and Saffache, P.} } @article {5858, title = {Importance of the vegetation-groundwater-stream continuum to understand transformation of biogenic carbon in aquatic systems {\textendash} A case study based on a pine-maize comparison in a lowland sandy watershed (Landes de Gascogne, {SW} France)}, journal = {Science of The Total Environment}, volume = {661}, year = {2019}, month = {apr}, pages = {613{\textendash}629}, doi = {10.1016/j.scitotenv.2019.01.152}, url = {https://doi.org/10.1016/j.scitotenv.2019.01.152}, author = {Loris Deirmendjian and Pierre Anschutz and Christian Morel and Alain Mollier and Laurent Augusto and Denis Loustau and Luiz Carlos Cotovicz and Damien Buquet and Katixa Lajaunie and Gwena{\"e}lle Chaillou and Baptiste Voltz and C{\'e}line Charbonnier and Dominique Poirier and Gwena{\"e}l Abril} } @conference {6682, title = {Important readjustments in the biomass and distribution of groundfish species in the northern part of the Kerguelen Plateau and Skiff Bank.}, booktitle = {The Kerguelen Plateau: marine ecosystem and fisheries}, year = {2019}, pages = {135-184}, publisher = {Australian Antarctic Division}, organization = {Australian Antarctic Division}, edition = {Welsford, D., J. Dell and G. Duhamel (Eds)}, address = { Kingston, Tasmania, Australia.}, isbn = {978-1-876934-30-9}, url = {http://heardisland.antarctica.gov.au}, author = {Guy Duhamel and Clara P{\'e}ron and Sin{\`e}gre, Romain and Charlotte Chazeau and Nicolas Gasco and M{\'e}lyne Hautecoeur and Martin, Alexis and Durand, Isabelle and Causse, Romain} } @article {5998, title = {In vitro simulation of oscillatory redox conditions in intertidal sediments: N, Mn, Fe, and P coupling}, journal = {Continental Shelf Research}, year = {2019}, author = {Pierre Anschutz and Bouchet, Sylvain and Gwena{\"e}l Abril and Bridou, Romain and Tessier, Emmanuel and Amouroux, David} } @article {Lema2019731, title = {Inter- and Intra-Specific Transcriptional and Phenotypic Responses of Pseudo-nitzschia under Different Nutrient Conditions}, journal = {Genome Biology and Evolution}, volume = {11}, number = {3}, year = {2019}, note = {cited By 1}, pages = {731-747}, publisher = {Oxford University Press}, abstract = {Untangling thefunctionalbasis of divergencebetweenclosely relatedspecies is a steptowardunderstanding speciesdynamicswithin communities at both the evolutionary and ecological scales. We investigated cellular (i.e., growth, domoic acid production, and nutrient consumption) and molecular (transcriptomic analyses) responses to varying nutrient concentrations across several strains belonging to three species of the toxic diatomgenus Pseudo-nitzschia. Threemain resultswere obtained. First, strains fromthe same species displayed similar transcriptomic, but not necessarily cellular, responses to the experimental conditions. It showed the importance of considering intraspecific diversity to investigate functional divergence between species. Second, a major exception to the first findingwas a strain recently isolated fromthe natural environment and displaying contrasting gene expression patterns related to cell motility and domoic acid production. This result illustrated the profound modifications thatmay occurwhen transferring a cell fromthe natural to the in vitro environment and asks for future studies to better understand the influence of culture duration and life cycleon expression patterns. Third, transcriptomic responsesweremore similarbetween the two speciesdisplaying similar ecology in situ, irrespective of the genetic distance. This was especially true formolecular responses related to TCA cycle, photosynthesis, and nitrogen metabolism. However, transcripts related to phosphate uptake were variable between species. It highlighted the importance of considering both overall genetic distance and ecological divergence to explain functional divergence between species. {\textcopyright} The Author(s) 2019. Published by Oxford University Press on behalf of the Society for Molecular Biology and Evolution.}, keywords = {analogs and derivatives, Biological Evolution, comparative study, Diatom, Diatoms, Domoic acid, evolution, kainic acid, Metabolism, Multigene Family, Nutrients, Phenotype, Physiology}, issn = {17596653}, doi = {10.1093/gbe/evz030}, url = {https://academic.oup.com/gbe/article/11/3/731/5332980}, author = {Lema, Kimberley A. and Metegnier, G. and Qu{\'e}r{\'e}, J. and Latimier, Marie and Agn{\`e}s Youenou and Lambert, Christophe and Juliette Fauchot and Le Gac, Mickael and Costantini, M.} } @article {7899, title = {Intra-cohort cannibalism in early life stages of pikeperch}, journal = {Aquaculture Research}, volume = {50}, year = {2019}, month = {Jan-03-2019}, pages = {915 - 924}, abstract = {Cannibalism has been described in 390 teleost fish species belonging to 104 families. In rearing conditions, intra-cohort cannibalism is one of the major bottlenecks during the early life stages of pikeperch (Sander lucioperca). This study aims to describe pre- cisely the occurrence and the onset of cannibalism of this species during the first two post-hatching months. In a first step, the cannibalistic behaviour was analysed through observations in three experiments. In each experiment, the number of can-\ nibalistic cases was similar. From 14 to 48 days post-hatching (dph), more than 60 \%\ of prey ingestions were realized by tail-first, but after 48 dph, the number of prey ingestions by head-first increased. In a second step, the behavioural sequence exhib- ited to attack and to capture a conspecific was analysed, taking into account the size ratio between the cannibal and its prey. The behavioural sequence to capture was always the same, similar to a predatory sequence and it seems that the cannibal chose its prey about 10 s before attacking. Moreover, prey choice by a cannibal was based more on the size ratio between the cannibal and its prey than the previous activity of the potential prey. These new results could lead to solutions to decrease cannibalism in pikeperch rearing.}, keywords = {cannibalistic behaviour, early development, intra-specific predation, prey selection, teleost}, doi = {10.1111/are.2019.50.issue-310.1111/are.13966}, url = {http://doi.wiley.com/10.1111/are.2019.50.issue-3}, author = {Tatiana Colchen and Fontaine, P. and Ledor{\'e}, Y. and Teletchea, F. and Pasquet, A.} } @article {7890, title = {Islet Creation Increases Nesting Opportunities of the Pied Avocet (Recurvirostra avosetta) in a Managed Salt Pan Area}, journal = {Waterbirds}, volume = {42}, year = {2019}, month = {Jan-03-2019}, pages = {22}, doi = {10.1675/063.042.0103}, url = {https://bioone.org/journals/waterbirds/volume-42/issue-1/063.042.0103/Islet-Creation-Increases-Nesting-Opportunities-of-the-Pied-Avocet-Recurvirostra/10.1675/063.042.0103.full}, author = {Chambon, R{\'e}mi and Dugravot, S{\'e}bastien and Fr{\'e}d{\'e}ric Ysnel and G{\'e}linaud, Guillaume} } @article {6888, title = {Is It First the Egg or the Shrimp? {\textendash} Diversity and Variation in Microbial Communities Colonizing Broods of the Vent Shrimp Rimicaris exoculata During Embryonic Development}, journal = {Frontiers in Microbiology}, volume = {10}, year = {2019}, month = {May-04-2020}, doi = {10.3389/fmicb.2019.00808}, url = {https://www.frontiersin.org/article/10.3389/fmicb.2019.00808/full}, author = {Methou, Pierre and Hern{\'a}ndez-{\'A}vila, Ivan and Aube, Johanne and Cueff-Gauchard, Val{\'e}rie and Gayet, Nicolas and Amand, Louis and Bruce Shillito and Pradillon, Florence and Cambon-Bonavita, Marie-Anne} } @article {6626, title = {K092A and K092B, Two Peptides Isolated from the Dogfish (Scyliorhinus canicula L.), with Potential Antineoplastic Activity Against Human Prostate and Breast Cancer Cells}, journal = {Marine Drugs}, volume = {17}, year = {2019}, month = {Jan-12-2019}, pages = {672}, doi = {10.3390/md17120672}, url = {https://www.mdpi.com/1660-3397/17/12/672}, author = {Bosseboeuf, Adrien and Baron, Amandine and Duval, Elise and Aude Gautier and Pascal Sourdaine and Auvray, Pierr{\"\i}ck} } @article {6085, title = {Local changes in copepod composition and diversity in two coastal systems of Western Europe}, journal = {Estuarine, Coastal and Shelf Science}, year = {2019}, pages = {106304}, author = {Richirt, Julien and Goberville, Eric and Ruiz-Gonzalez, Vania and Benoit Sautour} } @article {5971, title = {The long time adaptation of coelacanths to moderate deep water: reviewing the evidences}, journal = {Bulletin of Kitakyushu Museum of Natural History and Human History. Series A: Natural History}, volume = {17}, year = {2019}, pages = {29-35}, author = {Cupello, C and Cl{\'e}ment, Ga{\"e}l and Fran{\c c}ois J Meunier and Herbin, Marc and Yoshikata Yabumoto and Brito, Paulo M.} } @article {8114, title = {Low-diversity bacterial microbiota in Southern Ocean representatives of lanternfish genera Electrona, Protomyctophum and Gymnoscopelus (family Myctophidae)}, journal = {PLOS ONE}, volume = {14}, year = {2019}, month = {Nov-12-2019}, pages = {e0226159}, doi = {10.1371/journal.pone.0226159}, url = {https://dx.plos.org/10.1371/journal.pone.0226159}, author = {Gallet, Alison and Koubbi, Philippe and L{\'e}ger, Nelly and Scheifler, Mathilde and Ruiz-Rodriguez, Magdalena and Suzuki, Marcelino T. and Desdevises, Yves and Duperron, S{\'e}bastien}, editor = {Achal, Varenyam} } @article {6038, title = {Mastiglanis durantoni from French Guyana, a second species in the genus (Siluriformes: Heptapteridae), with a CT scan survey of phylogenetically-relevant characters}, journal = {Cybium}, volume = {43}, year = {2019}, pages = {125-135}, abstract = {A new species of the heptapterid genus Mastiglanis, M. durantoni, is described from three adjacent localities in the upper reaches of the Maroni River in French Guyana. The new species is distinguished from the only other known species in the genus, M. asopos, by several qualitative and quantitative characteristics, such as the slender caudal peduncle (caudal peduncle depth 4.3-5.3\% of SL vs. 5.6-6.3\%); the upper jaw protruding markedly beyond lower, resulting in long snout (36.5-42.0\% of HL vs. 23.4-33.6\%); the head depressed (head depth 34.0-44.4\% of HL vs. 44.4-53.0\%); the procurrent caudal fin rays 12 dorsally and ventrally (vs. 14-17); the dorsal margin of adipose fin concave (vs. variably convex, straight or gently sinusoidal); the occipital process deeply notched, distally V-shaped (vs. distal margin of occipital process variably-shaped, with notch, when present, not deep and forming an obtuse angle); the mesethmoid cornu widest at its midlength (vs. gradually narrower from base to tip). Characters of taxonomic and phylogenetic relevance are observed and illustrated with CT-scan imaging technique. The narrowly endemic and outlying geographical distribution of the new species contrasts with the extremely wide range of M. asopos and suggests a history of peripheral isolation and differentiation. In conformity with that interpretation, the new species has some autapomorphic specializations, while none is currently known for M. asopos.
}, keywords = {catfish, Heptapteridae, Metaspecies, Neotropical, New species, Systematics, taxonomy}, doi = {https://doi.org/10.26028/cybium/2019-423-002}, author = {Pinna de, M and Philippe Keith} } @article {Raoux2019728, title = {Measuring sensitivity of two OSPAR indicators for a coastal food web model under offshore wind farm construction}, journal = {Ecological Indicators}, volume = {96}, year = {2019}, note = {cited By 2}, pages = {728-738}, publisher = {Elsevier B.V.}, abstract = {A combination of modelling tools was applied to simulate the impacts of the future Courseulles-sur-mer offshore wind farm (OWF) construction (Bay of Seine, English Channel) on the ecosystem structure and functioning. To do so, food-web models of the ecosystem under three scenarios were constructed to investigate the effect caused by the OWF of added substrate (reef effect), fishing restriction (reserve effect), and their combined effect. Further, Ecological Network Analysis indices and Mean Trophic Level were derived to investigate their suitability for detecting changes in the ecosystem state. Our analysis suggests changes in the ecosystem structure and functioning after the OWF construction, the ecosystem maturity was predicted to increase, but no alterations in its overall resilience capacity. {\textcopyright} 2018 Elsevier Ltd}, keywords = {Barium compounds, Bay of Seine, coastal zone, Ecological network analysis, Ecopath with Ecosim, ecosystem function, ecosystem structure, Ecosystems, Electric utilities, English Channel, food web, France, in situ measurement, Marine environment, Marine renewable energy, measurement method, model, Offshore wind farms, Reefs, Reserve effect, sensitivity analysis, trophic level, wind farm}, issn = {1470160X}, doi = {10.1016/j.ecolind.2018.07.014}, url = {https://www.sciencedirect.com/science/article/abs/pii/S1470160X1830534X}, author = {Raoux, Aurore and G{\'e}raldine Lassalle and Pezy, Jean-Philippe and Samuele Tecchio and Safi, Georges and Ernande, Bruno and Maz{\'e}, C. and Le Loc{\textquoteright}h, Francois and Lequesne, Justine and Girardin, Valerie and Jean-Claude Dauvin and Nathalie Niquil} } @article {5865, title = {Microbial diversity involved in iron and cryptic sulfur cycling in the ferruginous, low-sulfate waters of Lake Pavin}, journal = {PLOS ONE}, volume = {14}, year = {2019}, month = {feb}, pages = {e0212787}, doi = {10.1371/journal.pone.0212787}, url = {https://doi.org/10.1371/journal.pone.0212787}, author = {Berg, Jasmine S. and J{\'e}z{\'e}quel, Didier and Duverger, Arnaud and Lamy, Dominique and Laberty-Robert, Christel and Miot, Jennyfer} } @article {8556, title = {Migratory flights and local wintering movements of Greylag Geese Anser anser in western Europe}, journal = {Bird Study}, volume = {66}, year = {2019}, month = {Mar-04-2019}, pages = {264 - 268}, issn = {0006-3657}, doi = {10.1080/00063657.2019.1620171}, url = {https://www.tandfonline.com/doi/full/10.1080/00063657.2019.1620171}, author = {Boos, Mathieu and Nesterova, Anna P. and Chevallier, Damien and Follestad, Arne} } @article {8402, title = {Minnow, Minnow, new and old, who is the fairest of them all: the taxonomical review of the French minnows Phoxinus spp. (Actinopterygii, Leuciscidae)}, journal = {Frontiers in Marine Science}, volume = {6}, year = {2019}, month = {Jan-01-2019}, doi = {10.3389/conf.fmars.2019.07.00102}, url = {http://www.frontiersin.org/Community/AbstractDetails.aspx?ABS_DOI=10.3389\%2fconf.fmars.2019.07.00102}, author = {Denys, Ga{\"e}l and Dettai, Agn{\`e}s and Persat, Henri and Hautecoeur, M{\'e}lyne and Philippe Keith} } @proceedings {8400, title = {Mitogenome Phylogeny of Thymallus (graylings) - Species delineation}, year = {2019}, publisher = {Frontiers in Marine Sciences}, address = {Lausanne}, abstract = {The genus Thymallus (grayling) is distributed over much of central and northern Europe, Asia and North America in generally cold lacustrine and riverine environments. Like all salmonid fishes, grayling have a tetraploid ancestry, which attracts research interest on the ongoing process of re-diploidiazation and its potential effects on lineage diversification. Grayling are also of increasing conservation concern, especially in Europe, as their habitats are the target of multiple anthropogenic pressures. Although in the past 15 years the recognized species diversity within the genus has increased, the genetic relationships among these species remain to a degree unexplored. The last comprehensive phylogeny of Thymallus was published prior the recognition of several new species and relies only on two mtDNA genes. At present, up to 18 species have been listed. Here we inferred the phylogeny of the genus Thymallus using complete newly sequenced mitogenomes, generated through NGS and non NGS-based techniques, as well as published sources. Using this mitogenome phylogeny as well as all available mtDNA sequences for several common genes, we applied several different species delineation methods to gain some insight into the genetic support for the current species spectrum. We combine these results with a brief overview of the systematic and taxonomic status of each species or lineage, and review as well what is known concerning their range and phenotypic variability. The results serve as an initial step in reviewing the taxonomy of the entire genus and will help point out the knowledge deficits that must be eliminated before a comprehensive picture of the grayling diversity throughout the world can be achieved.}, author = {Secci-Petretto, Giulia and Weiss, Steven J. and Gomes-Dos-Santos, Andr{\'e} and Persat, Henri and Denys, Ga{\"e}l P.J. and Froufe, Elsa} } @article {6668, title = {Modelling the functioning of a coupled microphytobenthic-EPS-bacterial system in intertidal mudflats}, journal = {Marine Environmental Research}, volume = {150}, year = {2019}, abstract = {A mechanistic and biogeochemical model was developed to analyze the interactions between microphytobenthos (MPB), bacteria and nutrients in a tidal system. Behavioral vertical migration was hypothesized as being controlled by exogenous factors (tide and light) but also by endogenous factors (carbon and nitrogen requirements). The secretion of Extracellular Polymeric Substances (EPS) during photosynthesis (overflow metabolism) and migration of diatoms was also formulated. Similarities in MPB dynamics between observations and simulations support the assumption that carbon and nitrogen ratios are additional key processes behind the vertical migration of diatoms in the sediment. The model satisfactorily reproduced the three growth phases of the MPB development observed in a mesocosm (the lag phase, the logarithmic growth, and the plateau). Besides, nutrient availability, which could be induced by faunal bioturbation, significantly determined the extent of MPB biomass and development. The plateau phase observed in the last days of simulations appeared to be attributed to a nutrient depletion in the system, emphasizing the importance of nutrient availability. The model, although improvable especially on the formulation of the EPS excretion and bacteria development, already updated understanding of several aspects of benthic-system functioning during experimental conditions. {\textcopyright} 2019 Elsevier Ltd}, keywords = {Bacillariophyta, bacteria, Bacteria (microorganisms), bacterial growth, bacterium, Biogeochemical modeling, biogeochemistry, Biomass, Carbon, Carbon and nitrogen, Carbon and nitrogen ratios, Diatom, diel vertical migration, exopolymer, Experimental conditions, Extracellular polymeric substances, intertidal environment, intertidal zone, light, mesocosm, microbial community, Microphytobenthos, Migration, modeling, mudflat, Nitrogen, nonhuman, Nutrient availability, Nutrients, nutritional requirement, organic carbon, organismal interaction, Photosynthesis, Phytobenthos, Phytoplankton, polymer, Review, simulation, tide, vertical migration}, issn = {01411136}, doi = {10.1016/j.marenvres.2019.104754}, url = {https://www.sciencedirect.com/science/article/abs/pii/S0141113619300704}, author = {Rakotomalala, C and Katell Guizien and Karine Granger{\'e} and S{\'e}bastien Lefebvre and Christine Dupuy and Francis Orvain} } @article {6805, title = {Modern drought conditions in western Sahel unprecedented in the past 1600~years}, journal = {Climate Dynamics}, volume = {52}, year = {2019}, month = {Jan-02-2019}, pages = {1949 - 1964}, abstract = {As climate model uncertainties remain very large for future rainfall in the Sahel, a multi-centennial perspective is required to assess the situation of current Sahel climate in the context of global warming. We present here the first record of hydroclimatic variability over the past 1600\ years in Senegal, obtained from stable oxygen isotope analyses (δ18O) in archaeological shell middens from the Saloum Delta. During the preindustrial period, the region was relatively humid, with maximum humidity reached during the period from AD 1500 to AD 1800, referred to as the Little Ice Age. A significant negative link is observed at the centennial scale between global temperature and humidity in the Sahel that is at odds with the expected effects of latitudinal shifts of the intertropical convergence zone during the last millennium. In the context of the past 1600\ years, the Western Sahel appears to be experiencing today unprecedented drought conditions. The rapid aridification that started ca. AD 1800 and the recent emergence of Sahel drought from the natural variability point to an anthropogenic forcing of Sahel drying trend. This new long-term perspective suggests that the recovery of Sahel rainfall in the last decade may only result from short-term internal variability, and supports climate models that predict an increase of Sahel drought under future greenhouse climate.}, issn = {0930-7575}, doi = {10.1007/s00382-018-4311-3}, url = {https://hal.archives-ouvertes.fr/hal-02349321}, author = {Carr{\'e}, Matthieu and Azzoug, Moufok and Zaharias, Paul and Camara, Abdoulaye and Cheddadi, Rachid and Chevalier, Manuel and Fiorillo, Denis and Gaye, Amadou T. and Janicot, Serge and Khodri, Myriam and Lazar, Alban and Claire E. Lazareth and Mignot, Juliette and Mitma Garc{\'\i}a, Nancy and Patris, Nicolas and Perrot, Oc{\'e}ane and Wade, Malick} } @article {8157, title = {Molecular evolution and functional characterisation of insulin relatedpeptides in molluscs: Contributions of Crassostrea giga sgenomic andtranscriptomic-wide screening}, journal = {General Comparative and Endocrinology}, volume = {271}, year = {2019}, pages = {15-29}, author = {Cherif Feildel Meva and Heude Berthelin Clothilde and Adeline Beatrice and Riviere Guillaume and Favrel Pascal and Kelnner Kristell} } @article {5782, title = {Molecular evolution and functional characterisation of insulin related peptides in molluscs: Contributions of Crassostrea gigas genomic and transcriptomic-wide screening}, journal = {Journal of Comparative Endocrinology}, volume = {271}, year = {2019}, pages = {15-29}, type = {research}, abstract = {Insulin Related Peptides (IRPs) belong to the insulin superfamily and possess a typical structure with two chains,
B and A, linked by disulphide bonds. As the sequence conservation is usually low between members, IRPs are
classified according to the number and position of their disulphide bonds. In molluscan species, the first IRPs
identified, named Molluscan Insulin-related Peptides (MIPs), exhibit four disulphide bonds. The genomic and
transcriptomic data screening in the Pacific oyster Crassostrea gigas (Mollusc, Bivalvia) allowed us to identify six
IRP sequences belonging to three structural groups. Cg-MIP1 to 4 have the typical structure of MIPs with four
disulphide bonds. Cg-ILP has three disulphide bonds like vertebrate Insulin-Like Peptides (ILPs). The last one,
Cg-MILP7 has a significant homology with Drosophila ILP7 (DILP7) associated with two additional cysteines
allowing the formation of a fourth disulphide bond. The phylogenetic analysis points out that ILPs may be the
most ancestral form. Moreover, it appears that ILP7 orthologs are probably anterior to lophotrochozoa and
ecdysozoa segregation. In order to investigate the diversity of physiological functions of the oyster IRPs, we
combine in silico expression data, qPCR measurements and in situ hybridization. The Cg-ilp transcript, mainly
detected in the digestive gland and in the gonadal area, is potentially involved in the control of digestion and
gametogenesis. The expression of Cg-mip4 is mainly associated with the larval development. The Cg-mip
transcript shared by the Cg-MIP1, 2 and 3, is mainly expressed in visceral ganglia but its expression was also
observed in the gonads of mature males. This pattern suggested the key roles of IRPs in the control of sexual
reproduction in molluscan species.
A new species of Sicyopus, a sicydiine goby, is described from specimens collected in streams of New Britain (Papua New Guinea). It differs from other species of this amphidromous genus by a combination of characters including a second dorsal fin with one spine and ten segmented rays, fewer scales in lateral series and transverse back series, and smaller predorsal and caudal peduncle lengths.
}, keywords = {Freshwater, Gobiidae, New Britain, New species, Papua New Guinea, Sicyopus}, author = {Philippe Keith and Pita Amick and Toko P. and Clara Lord} } @article {Meddeb201967, title = {A new type of plankton food web functioning in coastal waters revealed by coupling Monte Carlo Markov chain linear inverse method and ecological network analysis}, journal = {Ecological Indicators}, volume = {104}, year = {2019}, note = {cited By 0}, pages = {67-85}, publisher = {Elsevier B.V.}, abstract = {Plankton food webs (PFW) typology is based on different categories of functioning, according to the dominant processes and the role played by heterotrophic bacteria, small vs large phytoplankton, and small vs large zooplankton. Investigating the structure and the function of planktonic food webs in two SW Mediterranean waters (inshore and marine sites) at four seasons, using inverse (LIM-MCMC) and ecological network (ENA) analyses, we identified a new type of food web, called the {\textquotedblleft}bacterial multivorous food web{\textquotedblright}. This food web adds to the conventional trophic continuum as previously reported. The {\textquotedblleft}bacterial multivorous food web{\textquotedblright} present in winter showed the lowest primary production among seasons, but highest bacterial production. Several food web ratios characterized this new typology e.g. picophytoplankton net primary production to total primary production varied from 0.20 to 0.28; bacterial to primary production ratio is higher than values reported in global scale (≅1); bacterial net production to the potential protozoan prey net production was high (\>0.2). In this special food web, carbon was mostly recycled, with a moderate fraction channeled to deep waters, which lead to a higher retention of carbon inside the ecosystem. This winter PFW also seemed to be the most organized, specialized, stable and mature, as related to common interpretations of ENA. The spring was characterized by herbivorous food web, with highest activity coinciding with low stability. Although less usual, the herbivorous pathway was also observed during summer, in inshore waters. The autumn food webs, which functioned as multivorous or microbial food webs, appeared to be stable and mature. Finally, our study demonstrates the usefulness of food web models derived ratios combined with ecological network analysis indices to conduct evaluation of the structure and functioning of ecosystems and potentially to support management decisions in marine environment. {\textcopyright} 2019}, keywords = {Bacteria (microorganisms), bacterium, Carbon, Chemical contamination, coastal water, Coastal waters, ecological modeling, Ecology, ecosystem function, Ecosystems, Electric network analysis, Food microbiology, food web, Food web model, Food webs, inverse analysis, Inverse problems, Markov chain, Markov processes, Mediterranean sea, Monte Carlo analysis, Monte Carlo methods, net primary production, network analysis, Phytoplankton, picoplankton, Plankton, Protozoa, protozoan, Seasonal variation, trophic status, Trophic structure}, issn = {1470160X}, doi = {10.1016/j.ecolind.2019.04.077}, url = {https://www.sciencedirect.com/science/article/abs/pii/S1470160X19303243}, author = {Meddeb, M. and Nathalie Niquil and Grami, B. and Mejri, K. and Haraldsson, M. and Chaalali, A. and Pringault, O. and Hlaili, A.S.} } @inbook {6862, title = {Partie 2 - M{\'e}thodologie}, booktitle = {Les oiseaux nicheurs du Nord et du Pas-de-Calais}, year = {2019}, pages = {488}, publisher = {Biotope}, organization = {Biotope}, edition = {Beaudoin C., Boutrouille C., Camberlein P., Godin J., Luczak C., Pischiutta R. \& Sueur F.}, address = {M{\`e}ze}, abstract = {Six ann{\'e}es d{\textquoteright}enqu{\^e}te de terrain mobilisant les ornithologues du nord de la France, adh{\'e}rents du Groupe ornithologique et naturaliste du Nord - Pas-de-Calais et partenaires de l{\textquoteright}association, ont {\'e}t{\'e} n{\'e}cessaires pour r{\'e}aliser cet ouvrage naturaliste de r{\'e}f{\'e}rence. Les + de cet ouvrage : Toutes les esp{\`e}ces d{\textquoteright}oiseaux nicheurs r{\'e}guliers, occasionnels et exceptionnels dans le Nord et le Pas-de-Calais sont pr{\'e}sent{\'e}es, sois 200 esp{\`e}ces ; La synth{\`e}se des connaissances ornithologiques relatives aux oiseaux nicheurs du nord de la France : effectifs, r{\'e}partition et {\'e}volution des populations au cours du demi-si{\`e}cle {\'e}coul{\'e} ; Une somme d{\textquoteright}informations in{\'e}dites issues de la compilation de plus de 230 000 donn{\'e}es ; Un {\'e}tat des menaces pesant sur l{\textquoteright}avifaune du Nord {\textemdash} Pas-de-Calais ; Un atlas illustr{\'e} de plus de 380 photos de terrain.}, issn = {978-2-36662-231-7}, url = {https://leclub-biotope.com/fr/librairie-naturaliste/1286-oiseaux-nicheurs-du-nord-et-du-pas-de-calais}, author = {Beaudouin, C{\'e}dric and Blaise, Claire and Goberville, Eric and Christophe Luczak and Pischiutta, Rudy} } @article {6932, title = {Partitioning of food resources among three sympatric scorpionfish (Scorpaeniformes) in coastal waters of the northern Yellow Sea}, journal = {Hydrobiologia}, volume = {826}, year = {2019}, month = {Jan-01-2019}, pages = {331 - 351}, issn = {0018-8158}, doi = {10.1007/s10750-018-3747-0}, url = {http://link.springer.com/10.1007/s10750-018-3747-0}, author = {Wu, Zhongxin and Zhang, Xiumei and Charlotte R. Dromard and Tweedley, James R. and Loneragan, Neil R.} } @article {6664, title = {Patterns of at-sea behaviour at a hybrid zone between two threatened seabirds}, journal = {Scientific Reports}, volume = {9}, year = {2019}, month = {Jan-12-2019}, doi = {10.1038/s41598-019-51188-8}, url = {http://www.nature.com/articles/s41598-019-51188-8}, author = {Austin, Rhiannon E. and Wynn, Russell B. and Votier, Stephen C. and Trueman, Clive and McMinn, Miguel and Rodr{\'\i}guez, Ana and Suberg, Lavinia and Maurice, Louise and Newton, Jason and Genovart, Meritxell and Clara P{\'e}ron and Gr{\'e}millet, David and Guilford, Tim} } @article {5954, title = {The phylogenetic origin and evolution of acellular bone in teleost fishes: insights into osteocyte function in bone metabolism}, journal = {Biological Reviews}, year = {2019}, abstract = {ABSTRACT Vertebrate bone is composed of three main cell types: osteoblasts, osteoclasts and osteocytes, the latter being by far the most numerous. Osteocytes are thought to play a fundamental role in bone physiology and homeostasis, however they are entirely absent in most extant species of teleosts, a group that comprises the vast majority of bony {\textquoteleft}fishes{\textquoteright}, and approximately half of vertebrates. Understanding how this acellular (anosteocytic) bone appeared and was maintained in such an important vertebrate group has important implications for our understanding of the function and evolution of osteocytes. Nevertheless, although it is clear that cellular bone is ancestral for teleosts, it has not been clear in which specific subgroup the osteocytes were lost. This review aims to clarify the phylogenetic distribution of cellular and acellular bone in teleosts, to identify its precise origin, reversals to cellularity, and their implications. We surveyed the bone type for more than 600 fossil and extant ray-finned fish species and optimised the results on recent large-scale molecular phylogenetic trees, estimating ancestral states. We find that acellular bone is a probable synapomorphy of Euteleostei, a group uniting approximately two-thirds of teleost species. We also confirm homoplasy in these traits: acellular bone occurs in some non-euteleosts (although rarely), and cellular bone was reacquired several times independently within euteleosts, in salmons and relatives, tunas and the opah (Lampris sp.). The occurrence of peculiar ecological (e.g. anadromous migration) and physiological (e.g. red-muscle endothermy) strategies in these lineages might explain the reacquisition of osteocytes. Our review supports that the main contribution of osteocytes in teleost bone is to mineral homeostasis (via osteocytic osteolysis) and not to strain detection or bone remodelling, helping to clarify their role in bone physiology.
}, keywords = {acellular bone, Actinopterygii, ancestral state reconstruction, anosteocytic bone, bone remodelling, endothermy, osteocyte, Salmoniformes, Scombridae, teleostei}, doi = {10.1111/brv.12505}, url = {https://onlinelibrary.wiley.com/doi/abs/10.1111/brv.12505}, author = {Davesne, Donald and Fran{\c c}ois J Meunier and Schmitt, Armin D. and Friedman, Matt and Otero, Olga and Benson, Roger B. J.} } @article {6041, title = {Phylog{\'e}ographie de Neritina stumpffi Boettger, 1890 et Neritina canalis Sowerby, 1825 (Gastropoda, Cycloneritida, Neritidae)}, journal = {Zoosystema}, volume = {41}, year = {2019}, pages = {237-248}, abstract = {The population genetic structure of Neritina stumpffi Boettger, 1890 in the Indo-Pacific and Neritina canalis Sowerby, 1825 in the Pacific Ocean were investigated using a fragment of the mitochondrial COI gene. The haplotype network of N. stumpffi showed a genetic structuration between the two oceans, with shared haplotypes. Concerning N. canalis, western Pacific and central Pacific populations are genetically structured, without shared haplotypes. The Coral Triangle appears to have played a filtering barrier role for N. stumpffi, whose presence in both oceans could be explained by the flow of the south-equatorial current. A barrier to the dispersal of N. canalis between the western and the central Pacific may also exist.
}, keywords = {COI gene, Indian Ocean, larval dispersion, Pacific Ocean, Phylogeography}, author = {Ahmed Abdou and Clara Lord and Philippe Keith and Ren{\'e} Galzin} } @article {8555, title = {Population recovery changes population composition at a major southern Caribbean juvenile developmental habitat for the green turtle, Chelonia mydasAbstract}, journal = {Scientific Reports}, volume = {9}, year = {2019}, month = {Jan-12-2019}, doi = {10.1038/s41598-019-50753-5}, url = {http://www.nature.com/articles/s41598-019-50753-5}, author = {van der Zee, Jurjan P. and Christianen, Marjolijn J. A. and Nava, Mabel and Velez-Zuazo, Ximena and Hao, Wensi and B{\'e}rub{\'e}, Martine and van Lavieren, Hanneke and Hiwat, Michael and Berzins, Rachel and Chevalier, Johan and Chevallier, Damien and Lankester, Marie-Cl{\'e}lia and Bjorndal, Karen A. and Bolten, Alan B. and Becking, Leontine E. and Palsb{\o}ll, Per J.} } @article {6635, title = {A Potential Antineoplastic Peptide of Human Prostate Cancer Cells Derived from the Lesser Spotted Dogfish (Scyliorhinus canicula L.)}, journal = {Marine Drugs}, volume = {17}, year = {2019}, month = {Jan-10-2019}, pages = {585}, doi = {10.3390/md17100585}, url = {https://www.mdpi.com/1660-3397/17/10/585}, author = {Bosseboeuf, Adrien and Baron, Amandine and Duval, Elise and Aude Gautier and Pascal Sourdaine and Auvray, Pierr{\"\i}ck} } @article {5833, title = {{Prediction of unprecedented biological shifts in the global ocean}}, journal = {Nature Climate Change}, volume = {9}, year = {2019}, month = {mar}, pages = {237{\textendash}243}, abstract = {Impermanence is an ecological principle1 but there are times when changes occur nonlinearly as abrupt community shifts (ACSs) that transform the ecosystem state and the goods and services it provides2. Here, we present a model based on niche theory3 to explain and predict ACSs at the global scale. We test our model using 14 multi-decadal time series of marine metazoans from zooplankton to fish, spanning all latitudes and the shelf to the open ocean. Predicted and observed fluctuations correspond, with both identifying ACSs at the end of the 1980s4,5,6,7 and 1990s5,8. We show that these ACSs coincide with changes in climate that alter local thermal regimes, which in turn interact with the thermal niche of species to trigger long-term and sometimes abrupt shifts at the community level. A large-scale ACS is predicted after 2014{\textemdash}unprecedented in magnitude and extent{\textemdash}coinciding with a strong El Ni{\~n}o event and major shifts in Northern Hemisphere climate. Our results underline the sensitivity of the Arctic Ocean, where unprecedented melting may reorganize biological communities5,9, and suggest an increase in the size and consequences of ACS events in a warming world.
}, issn = {1758-678X}, doi = {10.1038/s41558-019-0420-1}, url = {http://www.nature.com/articles/s41558-019-0420-1}, author = {Gr{\'e}gory Beaugrand and Alessandra Conversi and Angus Atkinson and Jim E. Cloern and Sanae Chiba and Serena Fonda-Umani and Richard R Kirby and Greene, C. H. and Goberville, Eric and Otto, S. A. and Philip Chris Reid and Stemmann, L. and Martin Edwards} } @article {7043, title = {Preliminary note on the morphological characters of penja (amphidromous goby postlarvae) in West Sulawesi and Gorontalo Bay}, journal = {IOP Conference Series: Earth and Environmental Science}, volume = {370}, year = {2019}, month = {Jan-11-2019}, pages = {012007}, abstract = {Penjais the local name for the postlarvae of fish belonging to the Gobioidei, whose appearance at certain times is an amphidromous migration process from the sea to rivers. This group of fish is generally referred to as amphidromous gobies. This study aimed toreveal some facts related to the species diversity of penja based on morphological characteristics. The study was conducted from October 2017 to March 2019 in West Sulawesi and Gorontalo Bay, Indonesia. Amphidromous goby samples at the penja(postlarval) stage were obtained from fishermen{\textquoteright}s catches and from traditional markets in each location. The samples obtained were measured and described based on morphological differences. The total length of the sampled penja ranged from 18 mm to 58 mm. All penja were identified as belonging to one of two families, the Gobiidae and Eleotridae. Although the species obtained from the waters of West Sulawesi and Gorontalo Bay were similar, there were variations in species composition (relative abundance) based on observed morphology of penja postlarvae from these two locations.}, doi = {10.1088/1755-1315/370/1/012007}, url = {https://iopscience.iop.org/article/10.1088/1755-1315/370/1/012007}, author = {Nurjirana and Haris, A and Sahami, F M and Philippe Keith and Burhanuddin, A I} } @article {6884, title = {Protein expression profiles in Bathymodiolus azoricus exposed to cadmium}, journal = {Ecotoxicology and Environmental Safety}, volume = {171}, year = {2019}, month = {Jan-04-2019}, pages = {621 - 630}, issn = {01476513}, doi = {10.1016/j.ecoenv.2019.01.031}, url = {https://linkinghub.elsevier.com/retrieve/pii/S0147651319300399}, author = {Company, Rui and Ant{\'u}nez, Oreto and Cosson, Richard P. and Serafim, Angela and Bruce Shillito and Cajaraville, Miren and Bebianno, Maria Jo{\~a}o and Torreblanca, Amparo} } @article {5683, title = {Raman investigation of the pigment families in recent and fossil brachiopod shells}, journal = {Spectrochimica Acta Part A: Molecular and Biomolecular Spectroscopy}, volume = {208}, year = {2019}, month = {09/2018}, pages = {73-84}, abstract = {Shells of the three subphyla of extant and extinct representatives of the phylum Brachiopoda display coloured patterns with diverse shapes and at different degrees. These colourations are readily visible in natural light but are best revealed under UV light for the fossils concerned. To identify these pigments, Raman spectroscopy has been used for the first time on brachiopod shells. The widespread identified pigments belong to the carotenoid family, best represented in all the animal kingdom, the second one concerns themelanin/melanin-like pigments and, surprisingly, additional molecules of the cytochrome family are revealed for the first time in one of the brachiopod shells studied. The putative functions of shell pigmentation, still under debate, are discussed.
}, keywords = {Fossils Pigments, Raman spectroscopy, Recent brachiopods, Shell patterns, UV light}, author = {Gaspard, D and Paris, C and Loubry, P and Gilles Luquet} } @article {6960, title = {Reproductive biology of a small amphidromous shrimp Atyoida serrata on Reunion Island, south-west Indian Ocean}, journal = {Limnologica}, volume = {76}, year = {2019}, month = {Jan-05-2019}, pages = {41 - 47}, issn = {00759511}, doi = {10.1016/j.limno.2019.03.005}, url = {https://linkinghub.elsevier.com/retrieve/pii/S0075951118301579}, author = {Hoarau, Pierre E and Courtecuisse, Emilie and Treilhes, Camille RM and Lagarde, Rapha{\"e}l and Teichert, Nils and Valade, Pierre B} } @article {5929, title = {Resurrection of Caridina natalensis De Man, 1908 (Crustacea: Decapoda: Atyidae) in the South Western Indian Ocean}, journal = {Zootaxa}, volume = {4543}, year = {2019}, pages = {375-387}, abstract = {Numerous specimens of a freshwater shrimp with small eggs belonging to the Caridina nilotica complex collected in the South Western Indian Ocean were studied and compared with recent and old collection specimens genetically (16S mito-chondrial analysis for recent and type specimens) and morphologically. The results revealed that, in the Indian Ocean, what has been identified by several authors under various species names of the complex C. nilotica, was in fact C. natal-ensis De Man, 1908. This valid species is re-described and compared with closely related species, often confused with it in this area: C. brachydactyla De Man, 1908, C. brevidactyla Roux, 1920, C. gracilipes De Man, 1892 and C. longirostris H. Milne Edwards, 1837.
}, keywords = {16S, Caridina, Comoros, Integrative taxonomy, Madagascar, Mayotte, morphology, Seychelles, South Africa}, author = {de Mazancourt, Valentin and Mlambo, MC and Castelin, Magalie and Renneville, C and Marquet, G{\'e}rard and Philippe Keith} } @article {6040, title = {Revision of freshwater shrimps belonging to Caridina weberi complex (Crustacea: Decapoda: Atyidae) from Polynesia with discussion on their biogeography}, journal = {Journal of Natural History}, volume = {53}, year = {2019}, pages = {815{\textendash}847}, abstract = {Caridina weberi, an emblematic species of the {\textquoteleft}C. weberi complex{\textquoteright}, was described by De Man in 1892 from different localities in Indonesia. Until now, this species was thought to have a wide distribution in Polynesia. Numerous specimens identified as C. weberi were collected recently from various Polynesian islands. In the context of integrative taxonomy, they were morphologically and genetically studied. Three new species allied to C. weberi are here described: C. marquesensis n. sp., C. futunensis n. sp. and C. tupaia n. sp. The occurrence of C. rapaensis, another species part of the {\textquoteleft}C. weberi{\textquoteright} complex is confirmed. Descriptions or redescription of these species are given as well as their geographical and ecological distributions. The position of these species in the complex is clarified. A key is provided to facilitate identification.
}, keywords = {16S, freshwater shrimp, genetic, Integrative taxonomy, morphology}, doi = {https://doi.org/10.1080/00222933.2019.1612959}, author = {de Mazancourt, Valentin and Marquet, G{\'e}rard and Philippe Keith} } @article {7041, title = {Revisiting species boundaries and distribution ranges of Nemacheilus spp. (Cypriniformes: Nemacheilidae) and Rasbora spp. (Cypriniformes: Cyprinidae) in Java, Bali and Lombok through DNA barcodes: implications for conservation in a biodiversity hotspot}, journal = {Conservation Genetics}, volume = {20}, year = {2019}, month = {Jan-06-2019}, pages = {517 - 529}, abstract = {Biodiversity hotspots have provided useful geographic proxies for conservation efforts. Delineated from a few groups of animals and plants, biodiversity hotspots do not reflect the conservation status of freshwater fishes. With hundreds of new species described on a yearly basis, fishes constitute the most poorly known group of vertebrates. This situation urges for an acceleration of the fish species inventory through fast and reliable molecular tools such as DNA barcoding. The present study focuses on the freshwater fishes diversity in the Sundaland biodiversity hotspot in Southeast Asia. Recent studies evidenced large taxonomic gaps as well as unexpectedly high levels of cryptic diversity, particularly so in the islands of Java and Bali. The Cypriniformes genera Rasbora and Nemacheilus account for most of the endemic species in Java and Bali, however their taxonomy is plagued by confusion about species identity and distribution. This study examines the taxonomic status of the Rasbora and Nemacheilus species in Java, Bali and Lombok islands through DNA barcodes, with the objective to resolve taxonomic confusion and identify trends in genetic diversity that can be further used for conservation matters. Several species delimitation methods based on DNA sequences were used and confirmed the status of most species, however several cases of taxonomic confusion and two new taxa are detected. Mitochondrial sequences argue that most species range distributions currently reported in the literature are inflated due to erroneous population assignments to the species level, and further highlight the sensitive conservation status of most Rasbora and Nemacheilus species on the islands of Java, Bali and Lombok.}, keywords = {Conservation genetics, Cryptic diversity, Population fragmentation, Southeast Asia, taxonomy}, issn = {1566-0621}, doi = {10.1007/s10592-019-01152-w}, url = {http://link.springer.com/10.1007/s10592-019-01152-w}, author = {Hubert, Nicolas and Lumbantobing, Daniel and Sholihah, Arni and Dahruddin, Hadi and Delrieu-Trottin, Erwan and Busson, Frederic and Sauri, Sopian and Hadiaty, Renny and Philippe Keith} } @article {6107, title = {Seasonal oxygen isotope variations in freshwater bivalve shells as recorders of Amazonian rivers hydrogeochemistry}, journal = {Isotopes in Environmental and Health Studies}, year = {2019}, pages = {1-15}, type = {Journal Article}, abstract = {Freshwater bivalve shell oxygen isotope values (δ18OS) may act as a recorder of river δ18O variations that can then be interpreted in terms of hydrology (e.g. precipitation{\textendash}evaporation balance, precipitation and river discharge patterns). We investigated the potential of this proxy measured across the hinge of South American unionid shells: Anodontites elongatus collected in Peru and A. trapesialis in Brazil. The isotopic signatures were reproducible between individuals of the same species. A. trapesialis clearly showed a strong δ18OS cyclicity in accordance with its growth patterns while A. elongatus presented less clear δ18OS with lower amplitude. We confirm that the deposition of successive growth lines and increments is annual, with growth line corresponding to the wet season. Also, we suggest that low amplitude of δ18OS in the A. elongatus shells indicates a habitat close to the river while large amplitude of δ18OS cycles observed in A. trapesialis shells would reflect a floodplain lake habitat, seasonally disconnected from the river and thus subjected to higher seasonal fluctuations in water δ18O. Considering these promising first results, future studies could be directed towards the use of fossil shells to reconstruct the past and present hydrological and geochemical conditions of the Amazon.
}, keywords = {Amazon basin, freshwater bivalve shells, hydroclimate, isotope ecology, isotope hydrology, oxygen isotopes}, issn = {1025-6016 1477-2639}, doi = {10.1080/10256016.2019.1666120}, url = {https://hal.archives-ouvertes.fr/hal-02314885v1}, author = {Gaillard, Blandine and Claire E. Lazareth and Lestrelin, Hugo and Dufour, Elise and Santos, Roberto V. and Carlos E.C. Freitas and Marc Pouilly} } @proceedings {6684, title = {Shark bycatch observed in the bottom longline fishery off the Kerguelen islands in 2006-2016, with a focus on Etmopterus viator}, year = {2019}, month = {2019}, publisher = {Australian Antarctic Division}, edition = {Welsford, D., J. Dell and G. Duhamel (Eds)}, address = {Kingston, Tasmania, Australia}, author = {Charlotte Chazeau and S.P. Igl{\'e}sias and Clara P{\'e}ron and Nicolas Gasco and Martin, Alexis and Guy Duhamel} } @article {7103, title = {Shedding light on the migratory patterns of the Amazonian goliath catfish, Brachyplatystoma platynemum, using otolith 87Sr/86Sr analyses}, journal = {Aquatic Conservation: Marine and Freshwater Ecosystems}, volume = {29}, year = {2019}, pages = {397{\textendash}408}, doi = {doi.org/10.1002/aqc.3046}, url = {https://onlinelibrary.wiley.com/doi/full/10.1002/aqc.3046}, author = {Hauser, Marilia and Doria, Carolina RC and Santos, Roberto V and Garc{\'\i}a-Vasquez, Aurea and Marc Pouilly and Pecheyran, Christophe and Ponzevera, Emmanuel and Torrente-Vilara, Gislene and B{\'e}rail, Sylvain and Panfili, Jacques and others} } @article {7036, title = {Shedding light on the migratory patterns of the Amazonian goliath catfish, Brachyplatystoma platynemum , using otolith 87 Sr/ 86 Sr analyses}, journal = {Aquatic Conservation: Marine and Freshwater Ecosystems}, volume = {29}, year = {2019}, month = {Aug-03-2020}, pages = {397 - 408}, issn = {1052-7613}, doi = {10.1002/aqc.v29.310.1002/aqc.3046}, url = {https://onlinelibrary.wiley.com/toc/10990755/29/3}, author = {Hauser, Marilia and Doria, Carolina R.C. and Santos, Roberto V. and Garc{\'\i}a-Vasquez, Aurea and Marc Pouilly and Pecheyran, Christophe and Ponzevera, Emmanuel and Torrente-Vilara, Gislene and B{\'e}rail, Sylvain and Panfili, Jacques and Darnaude, Audrey and Renno, Jean-Fran{\c c}ois and Garc{\'\i}a-D{\'a}vila, Carmen and Jesus Nu{\~n}ez-Rodriguez and Ferraton, Franck and Vargas, Gladys and Duponchelle, Fabrice} } @article {5984, title = {Short-term changes in the quality of suspended particulate matter in a human impacted and mangrove dominated tropical estuary (Can Gio, Vietnam)}, journal = {Continental Shelf Research }, volume = {178}, year = {2019}, month = {01/05/2019}, pages = {59-67}, abstract = {Suspended particulate matter (SPM) is a key component of coastal food webs and a key variable of nutrient budgets. Understanding its variability across short time scales in estuaries may help ecologists understand seasonal and diurnal migration of estuarine organisms, and answer how their nutritional requirements are fulfilled. It may also inform biogeochemists regarding the factors that influence import and export of nutrients between terrestrial and coastal ecosystems. This study aimed to link the dynamics of fatty acids, stable isotopes (δ13C and δ15N) and C/N ratios of SPM, revealing organic matter quality, to rapidly varying factors (SPM concentration, salinity and presence of daylight) and comparing this variability to the seasonal variation induced by the alternation of dry and wet seasons in the studied region. Our results revealed that these rapidly varying factors had a strong influence on the bacterial and the phytoplanktonic compartments of SPM. They suggest that tidally resuspended particles are the site of intense heterotrophic activity and that estuarine phytoplankton store lipids during the daytime up to substantially modifying SPM quality. Our study also shows higher freshness of SPM during the wet season. We expect this study to raise the interest of both biologists and biogeochemists to introduce daily variability of SPM in food webs and nutrient budgets modelling.
}, doi = {10.1016/j.csr.2019.03.011}, author = {Frank David and Cyril Marchand and Najet Thiney and Tran-thi, N and Tarik Meziane} } @article {5972, title = {The skeleton and the mineralized tissues of the living coelacanths}, journal = {Bulletin of Kitakyushu Museum of Natural History and Human History. Series A: Natural History}, volume = {17}, year = {2019}, pages = {37-48}, author = {Fran{\c c}ois J Meunier and Cupello, C and Cl{\'e}ment, Ga{\"e}l} } @article {5972, title = {The skeleton and the mineralized tissues of the living coelacanths}, journal = {Bulletin of Kitakyushu Museum of Natural History and Human History. Series A: Natural History}, volume = {17}, year = {2019}, pages = {37-48}, author = {Fran{\c c}ois J Meunier and Cupello, C and Cl{\'e}ment, Ga{\"e}l} } @article {5868, title = {Sources and sinks of dissolved inorganic carbon in an urban tropical coastal bay revealed by δ13C-DIC signals}, journal = {Estuarine, Coastal and Shelf Science}, year = {2019}, author = {L.C. CotoviczJr and Knoppers, Bastiaan A and Deirmendjian, Loris and Gwena{\"e}l Abril} } @article {6689, title = {Species splitting increases estimates of evolutionary history at risk}, journal = {Biological Conservation}, volume = {235}, year = {2019}, month = {Jan-07-2019}, pages = {27 - 35}, issn = {00063207}, doi = {10.1016/j.biocon.2019.03.041}, url = {https://www.sciencedirect.com/science/article/pii/S0006320718312400}, author = {Robuchon, Marine and Faith, Daniel P. and Julliard, Romain and Leroy, Boris and Pellens, Roseli and Robert, Alexandre and Th{\'e}venin, Charles and V{\'e}ron, Simon and Pavoine, Sandrine} } @article {6687, title = {Spontaneous recovery of functional diversity and rarity of ground-living spiders shed light on the conservation importance of recent woodlands}, journal = {Biodiversity and Conservation}, volume = {28}, year = {2019}, month = {Jan-03-2019}, pages = {687 - 709}, issn = {0960-3115}, doi = {10.1007/s10531-018-01687-3}, url = {http://link.springer.com/10.1007/s10531-018-01687-3}, author = {Morel, Lo{\"\i}s and Dujol, Beno{\^\i}t and Courtial, Cyril and Vasseur, Manon and Leroy, Boris and Fr{\'e}d{\'e}ric Ysnel} } @article {5955, title = {Teeth of extant Polypteridae and Amiidae have plicidentine organization}, journal = {Acta Zoologica}, volume = {100}, year = {2019}, pages = {119-125}, abstract = {Abstract The study of teeth of the lower jaws of Amia calva and Polypterus senegalus, with non -destructive X-ray tomography, has revealed that there are dentine folds in the tooth pulp cavity in both species. These folds are simple and present only in the base of the pulp cavity where they strengthen the fixation of teeth on the jaw. So the teeth of these two basal actinopterygian taxa have a simplexodont type of plicidentine like the extinct {\textdagger}Cheirolepis and various extant teleostean predators, whereas the extant Lepisosteids, the sister group of Amiidae, have polyplocodont plicidentine. The phylogenetic/adaptive significance of this simplexodont plicidentine is discussed.
}, keywords = {3D tomography, Amia, plicidentine, Polypterus, tooth, virtual histology}, doi = {10.1111/azo.12237}, url = {https://onlinelibrary.wiley.com/doi/abs/10.1111/azo.12237}, author = {Germain, D and Fran{\c c}ois J Meunier} } @article {6662, title = {Temperature patterns and mechanisms influencing coral bleaching during the 2016 El Ni{\~n}o}, journal = {Nature Climate Change}, volume = {9}, year = {2019}, pages = {845-851}, abstract = {Under extreme heat stress, corals expel their symbiotic algae and colour (that is, {\textquoteleft}bleaching{\textquoteright}), which often leads to widespread mortality. Predicting the large-scale environmental conditions that reinforce or mitigate coral bleaching remains unresolved and limits strategic conservation actions1,2. Here we assessed coral bleaching at 226 sites and 26 environmental variables that represent different mechanisms of stress responses from East Africa to Fiji through a coordinated effort to evaluate the coral response to the 2014{\textendash}2016 El Ni{\~n}o/Southern Oscillation thermal anomaly. We applied common time-series methods to study the temporal patterning of acute thermal stress and evaluated the effectiveness of conventional and new sea surface temperature metrics and mechanisms in predicting bleaching severity. The best models indicated the importance of peak hot temperatures, the duration of cool temperatures and temperature bimodality, which explained 50\% of the variance, compared to the common degree-heating week temperature index that explained only 9\%. Our findings suggest that the threshold concept as a mechanism to explain bleaching alone was not as powerful as the multidimensional interactions of stresses, which include the duration and temporal patterning of hot and cold temperature extremes relative to average local conditions. {\textcopyright} 2019, The Author(s), under exclusive licence to Springer Nature Limited.}, keywords = {Algae, Anthozoa}, issn = {1758678X}, doi = {10.1038/s41558-019-0576-8}, url = {https://www.nature.com/articles/s41558-019-0576-8}, author = {McClanahan, T.R. and Darling, E.S. and Maina, J.M. and Muthiga, N.A. and D{\textquoteright}agata, S. and Jupiter, S.D. and Arthur, R. and Wilson, S.K. and Mangubhai, S. and Nand, Y. and Ussi, A.M. and Humphries, A.T. and Patankar, V.J. and Mireille M.M. Guillaume and Philippe Keith and Shedrawi, G. and Julius, P. and Grimsditch, G. and Ndagala, J. and Leblond, J.} } @article {6692, title = {Testing methods in species distribution modelling using virtual species: what have we learnt and what are we missing?}, journal = {Ecography}, volume = {42}, year = {2019}, month = {May-12-2020}, pages = {2021 - 2036}, issn = {0906-7590}, doi = {10.1111/ecog.04385}, url = {https://onlinelibrary.wiley.com/doi/10.1111/ecog.04385}, author = {Meynard, Christine N. and Leroy, Boris and Kaplan, David M.} } @article {8396, title = {A third European species of grayling (Actinopterygii, Salmonidae), endemic to the Loire River basin (France), Thymallus ligericus n. sp.}, journal = {Cybium}, volume = {43}, year = {2019}, pages = {233-238}, abstract = {Loire grayling was already known to belong to a distinct lineage, compared to other European population, according to molecular data (enzymatic polymorphism, mtDNA sequencing and microsatellites). In this paper, we consider this lineage as a new species, Thymallus ligericus n. sp., which is endemic to the Loire drainage (France). Compared with the other species, T. ligericus n. sp. is characterized by a more elongated body, the presence of a pointed snout and a strait or convex snout profile, a more inferior mouth with a transversal aperture and a fleshier upper lip, usually more than 50 to several hundreds black dots on the flanks, a shorter head (20.0-23.7\% SL), smaller occipital and orbital depths of the head (54.8-71.7\% HL and 43.5-53.4\% HL, respectively) and a shorter horizontal eye diameter (22.6-26.3\% HL).}, author = {Persat, Henri and Weiss, Steven J. and Froufe, Elsa and Secci-Petretto, Giulia and Denys, Ga{\"e}l} } @article {6042, title = {Threatened fish: Lentipes rubrofasciatus Maug{\'e}, Marquet and Laboute, 1992 (Gobiidae)}, journal = {Cybium}, volume = {43}, year = {2019}, pages = {123-124}, doi = {10.26028/cybium/2019-423-001}, url = {http://sfi-cybium.fr/fr/threatened-fish-lentipes-rubrofasciatus-maug\%C3\%A9-marquet-laboute-1992-gobiidae}, author = {Philippe Keith and Marion Mennesson} } @article {8985, title = {Three-dimensional structural evolution of the cuttlefish Sepia officinalis shell from embryo to adult stages}, journal = {Journal of the Royal Society Interface}, volume = {16}, year = {2019}, pages = {20190175}, doi = {10.1098/rsif.2019.0175}, url = {https://hal.archives-ouvertes.fr/hal-02318453}, author = {Le Pabic, Charles and Derr, Julien and Luquet, Gilles and Pascal Jean Lopez and Laure Bonnaud-Ponticelli} } @article {6470, title = {Tissue-Specific Biomarker Responses in the Blue Mussel Mytilus spp. Exposed to a Mixture of Microplastics at Environmentally Relevant Concentrations}, journal = {Frontiers in Environmental Science}, volume = {7}, year = {2019}, month = {Sep-03-2020}, abstract = {The impact of a microplastic (MP) mixture composed of polyethylene (PE) and polypropylene (PP) plastic particles, prepared from commercially available products, was evaluated in blue mussels Mytilus spp. exposed to three environmentally relevant concentrations: 0.008 μg L-1 (low), 10 μg L-1 (medium), and 100 μg L-1 (high). Organisms were exposed for 10 days followed by 10 days of depuration in clean seawater under controlled laboratory conditions. The evaluation of MP effects on mussel clearance rate, tissue structure, antioxidant defenses, immune and digestive parameters, and DNA integrity were investigated while the identification of plastic particles in mussel tissues (gills, digestive gland, and remaining tissues), and biodeposits (feces and pseudofaeces) was performed using infrared microscopy (μFT-IR). Results showed the presence of MPs only in the digestive gland of mussels exposed to the highest tested concentration of MPs with a mean of 0.75 particle/mussel (after the 10 days of exposure). In biodeposits, PE and PP particles were detected following exposure to all tested concentrations confirming the ingestion of MPs by the organisms. A differential response of antioxidant enzyme activities between digestive gland and gills was observed. Significant increases in superoxide dismutase (SOD) and catalase (CAT) activities were measured in the digestive gland of mussels exposed to the low (0.008 μg L-1) and medium (10 μg L-1) concentrations ofMPs and in the gills frommussels exposed to the highest concentration (100 μg L-1) of MPs that could be indicative of a change in the redox balance. Moreover, an increase in acid phosphatase activity was measured in hemolymph of mussels exposed to 0.008 and 10 μg L-1 concentrations. No significant difference was observed in the clearance rate, and histopathological parameters between control and exposed mussels. This study brings new insights on the potential sublethal impacts of MPs at environmentally relevant concentrations in marine bivalves.}, keywords = {biomarkers, microplastics, Mytilus, oxidative stress, polyethylene, polypropylene}, doi = {10.3389/fenvs.2019.00033}, url = {https://www.frontiersin.org/article/10.3389/fenvs.2019.00033}, author = {Revel, Messika and Lagarde, Fabienne and Perrein-Ettajani, Hanane and Bruneau, M{\'e}lanie and Akcha, Farida and Sussarellu, Rossana and Rouxel, Julien and Katherine Costil and Decottignies, Priscilla and Cognie, Bruno and Ch{\^a}tel, Am{\'e}lie and Mouneyrac, Catherine} } @article {Arroyo20191543, title = {Towards coherent GES assessments at sub-regional level: Signs of fisheries expansion processes in the Bay of Biscay using an OSPAR food web indicator, the mean trophic level}, journal = {ICES Journal of Marine Science}, volume = {76}, number = {6}, year = {2019}, note = {cited By 1}, pages = {1543-1553}, publisher = {Oxford University Press}, abstract = {Using the Bay of Biscay (BoB) as a case study, we conducted a transnational assessment of the mean trophic level (MTL, Ospar FW4) indicator at sub-regional level, over the last three decades. Our results confirm the apparent recovery of BoB{\textquoteright}s bentho-demersal system, as shown by trends in the MTL indicator based on survey data. However, they also point at a concomitant "fishing through" process where the apparent stability revealed by the MTL indicator based on landed catch data may be masking the expansion of demersal fisheries to deeper waters, and an over-exploitation of resources (particularly abundant pelagic species). Moreover, they show how the combined examination of independent surveys and fishery landings allows the identification of ecological trends in ecosystem studies. In addition, our results confirm that analysing MTL at various threshold levels helps discerning the causality of trends in this indicator, especially if analyses for pelagic and demersal species are run independently. Further studies, at smaller (i.e. local) spatial scales, need to be conducted to ascertain our results and suggest appropriate management strategies aimed at regulating fisheries expansions in the area. {\textcopyright} 2019 International Council for the Exploration of the Sea 2019. All rights reserved.}, keywords = {Atlantic Ocean, Bay of Biscay, catch statistics, demersal fishery, food web, pelagic fishery, range expansion, trophic level, trophic status}, issn = {10543139}, doi = {10.1093/icesjms/fsz023}, url = {https://academic.oup.com/icesjms/article-abstract/76/6/1543/5369193}, author = {Arroyo, N.-L. and Safi, Georges and Vouriot, P. and L{\'o}pez-L{\'o}pez, L. and Nathalie Niquil and Le Loc{\textquoteright}h, Francois and Hattab, Tarek and Preciado, I and Coll, M.} } @article {5860, title = {The transformation of macrophyte-derived organic matter to methane relates to plant water and nutrient contents}, journal = {Limnology and Oceanography}, year = {2019}, month = {mar}, doi = {10.1002/lno.11148}, url = {https://doi.org/10.1002/lno.11148}, author = {Charlotte Grasset and Gwena{\"e}l Abril and Raquel Mendon{\c c}a and Fabio Roland and Sebastian Sobek} } @article {vanderHeijden201950, title = {Trophic importance of microphytobenthos and bacteria to meiofauna in soft-bottom intertidal habitats: A combined trophic marker approach}, journal = {Marine Environmental Research}, volume = {149}, year = {2019}, note = {cited By 2}, pages = {50-66}, publisher = {Elsevier Ltd}, abstract = {Meiofauna can play an important role in the carbon fluxes of soft-bottom coastal habitats. Investigation of their feeding behavior and trophic position remains challenging due to their small size. In this study, we determine and compare the food sources used by nematodes and benthic copepods by using stable isotope compositions, fatty acid profiles and compound specific isotope analyses of fatty acids in the mudflats, seagrass beds and a sandflat of the Marennes-Ol{\'e}ron Bay, France, and the Sylt-R{\o}m{\o} Bight, Germany. Suspended particulate organic matter was much more 13C-depleted than other food sources and meiofauna, highlighting its poor role in the different studied habitats. The very low proportions of vascular plant fatty acid markers in meiofauna demonstrated that these consumers did not rely on this food source, either fresh or detrital, even in seagrass beds. The combined use of stable isotopes and fatty acids emphasized microphytobenthos and benthic bacteria as the major food sources of nematodes and benthic copepods. Compound specific analyses of a bacteria marker confirmed that bacteria mostly used microphytobenthos as a substrate. {\textcopyright} 2019 Elsevier Ltd}, keywords = {Article, Bacillariophyta, bacteria, bacterium, Benthic copepods, Benthic diatoms, Biological materials, biomarker, Biomass, carbon 13, coastal zone, controlled study, Copepoda, delta carbon 13, delta nitrogen 15, Diatom, Ecosystems, fatty acids, Feeding Behavior, food supply, France, Free livings, Freeze Drying, Frisian Islands, Germany, high performance liquid chromatography, intertidal environment, isotope analysis, Isotopes, lipid composition, Marennes-Oleron Bay, Meiofauna, microbial activity, Microphytobenthos, mudflat, Mudflats, Nematoda, nitrogen 15, nonhuman, North Frisian Islands, Nouvelle-Aquitaine, Organic matter, Phytobenthos, Plants (botany), Sandflats, seagrass, Seagrass beds, Sediment, soft-bottom environment, species habitat, substrate, suspended particulate organic matter, Sylt-Romo Bight, trophic environment, Trophic markers, Trophic structure, unclassified drug}, issn = {01411136}, doi = {10.1016/j.marenvres.2019.05.014}, url = {https://www.sciencedirect.com/science/article/abs/pii/S0141113618304744}, author = {van der Heijden, L.H. and Graeve, M. and R. Asmus and Rzeznik-Orignac, J. and Nathalie Niquil and Bernier, Q. and Guillou, G. and H Asmus and Lebreton, B.} } @article {5769, title = {Trophic relationships and basal resource utilisation in the Can Gio Mangrove Biosphere Reserve (Southern Vietnam)}, journal = {Journal of Sea Research}, year = {2019}, abstract = {Abstract Fatty acid biomarkers and dual stable isotopes (δ13C and δ15N) were used to identify the preferred food sources of consumers in a mangrove tidal creek and nearby unforested (mud bank) and forested areas located in the Can Gio Mangrove Biosphere Reserve (Southern Vietnam). We analysed 15 macro-invertebrates and 1 fish species representing primary consumers and their immediate predators in this area. Specific groups of fatty acids were used to trace the fate of various food sources (i.e., suspended particulate organic matter, mangrove litter and sedimentary organic matter). The δ13C and δ15N of consumers ranged from -26.9 to -18.8{\textperthousand} and from 1.1 to 9.9{\textperthousand}, respectively. The trophic pathway based on mangrove litter, characteristic of mangrove ecosystems, is nutritionally sustaining various crab and snail species. In contrast, it appears that the most mobile species (fish and shrimps), living in the water column and possibly migrating with tides, are mostly feeding on suspended particulate organic matter, suggesting that this trophic pathway is of great importance for connectivity among tropical coastal ecosystems. Our study suggests that snails and crabs mainly act as mineralisers, processing high quantities of detrital material to meet their nutritional needs and thus releasing nutrients through the production of faeces, that are further mineralised by microorganisms, while locally grown phytoplankton reintegrates these compounds into its biomass and feeds migrating species. We highlight here a possible link between mangrove litter and coastal food webs.
}, doi = {10.1016/j.seares.2018.12.006}, url = {https://www.sciencedirect.com/science/article/pii/S1385110118301679}, author = {Frank David and Cyril Marchand and Nguyen, Thanh-Nho and Pierre Taillardat and Tarik Meziane} } @article {8395, title = {Une nouvelle esp{\`e}ce de poisson en Bourgogne-Franche-Comt{\'e} : le goujon occitan (Gobio occitaniae)}, journal = {Revue scientifique Bourgogne-Franche-Comt{\'e} Nature}, volume = {30-2019}, year = {2019}, pages = {78-79}, author = {Denys, Ga{\"e}l and Besson, Sylvain} } @article {Safi2019116, title = {Vitamine ENA: A framework for the development of ecosystem-based indicators for decision makers}, journal = {Ocean and Coastal Management}, volume = {174}, year = {2019}, note = {cited By 5}, pages = {116-130}, publisher = {Elsevier Ltd}, abstract = {The Water Framework Directive (article 2, paragraph 21) as well as the Marine Strategy Framework Directive (MSFD, Descriptor 4) stress the need for assessing the quality of the structure and the functioning of ecosystems. The MSFD also underlines the urgent need for development, testing, and validation of ecosystem state indicators. Holistic function-based criteria and indicators as provided by Ecological Network Analysis (ENA) could be used to define and assess the {\textquoteleft}Good Environmental Status{\textquoteright} of marine ecosystems. This approach also feeds Ecosystem Based Management (EBM). ENA generally analyses the fluxes{\textquoteright} quality of a single medium such as here the carbon fluxes in a food web and produces a number of useful metrics that indicate, inter alia, the total carbon flow through the system, the quality of the functioning of the system or the trophic efficiency of system. A short list of indices [i.e. Detritivory over Herbivory ratio (D/H), Connectance Index (CI), Transfer Efficiency (TE) over trophic levels, System Omnivory Index (SOI), Finn{\textquoteright}s Cycling Index (FCI), relative Redundancy (R/DC), Average Mutual Information (AMI) and Interaction Strength (IS)] is proposed for practical use. This paper presents a first framework for OSPAR Regional Sea Convention food web indicators based on ENA. These are presented here focusing on their applicability and what is needed for implementation, illustrating their potential use by case studies. {\textcopyright} 2019 Elsevier Ltd}, keywords = {Average mutual information, Carbon, Carbon flux, Criteria and indicators, Decision making, Ecological network analysis, ecosystem function, ecosystem management, ecosystem structure, Ecosystem-based management, Ecosystems, Efficiency, environmental indicator, Environmental management, Environmental regulations, food web, Good environmental status, holistic approach, Interaction strength, marine ecosystem, Marine pollution, Marine strategy framework directives, Water conservation, Water Framework Directives}, issn = {09645691}, doi = {10.1016/j.ocecoaman.2019.03.005}, url = {https://www.sciencedirect.com/science/article/abs/pii/S096456911830591X}, author = {Safi, Georges and Giebels, D. and Arroyo, N.-L. and Heymans, J.J. and Preciado, I and Raoux, Aurore and Sch{\"u}ckel, U. and Samuele Tecchio and de Jonge, V.N. and Nathalie Niquil} } @article {5406, title = {Adhesive gland transcriptomics uncovers a diversity of genes involved in glue formation in marine tube-building polychaetes}, journal = {Acta Biomaterialia}, year = {2018}, abstract = {Tube-building sabellariid polychaetes are hermatypic organisms capable of forming vast reefs in highly turbulent marine habitats. Sabellariid worms assemble their tube by gluing together siliceous and calcareous clastic particles using a polyelectrolytic biocement. Here, we performed transcriptomic analyses to investigate the genes that are differentially expressed in the parathorax region, which contains the adhesive gland and tissues, from the rest of the body. We found a large number of candidate genes to be involved in the composition and formation of biocement in two species: Sabellaria alveolata and Phragmatopoma caudata. Our results indicate that the glue is likely to be composed by a large diversity of cement-related proteins, including Poly(S), GY-rich, H-repeat and miscellaneous categories. However, sequences divergence and differences in expression profiles between S. alveolata and P. caudata, of cement-related proteins may reflect adaptation to the type of substratum used to build their tube, and/or to their habitat (temperate vs tropical, amplitude of pH, salinity ...). Related to the L-DOPA metabolic pathways and linked with the genes that were differentially expressed in the parathorax region, we found that tyrosinase and peroxidase gene families may have undergone independent expansion in the two Sabellariidae species investigated. Our data also reinforce the importance of protein modifications in cement formation. Altogether these new genomic resources help to identify novel transcripts encoding for cement-related proteins, but also important enzymes putatively involved in the chemistry of the adhesion process, such as kinases, and may correspond to new targets to develop biomimetic approaches.
}, doi = {doi.org/10.1016/j.actbio.2018.03.037}, author = {Jean-Philippe Buffet and Erwan Corre and Evelyne Duvernois-Berthet and J{\'e}r{\^o}me Fournier and Pascal Jean Lopez} } @article {5630, title = {Age and growth of the Amazonian migratory catfish Brachyplatystoma rousseauxii in the Madeira River basin before the construction of dams}, journal = {Neotropical Ichthyology}, volume = {16}, year = {2018}, pages = {e170130, 2018}, abstract = {The goliath catfish Brachyplatystoma rousseauxii has crucial economical and ecological functions in the Amazon basin. Although its life history characteristics have been studied in the Amazon, there is little information in the Madeira River basin, which holds genetically distinct populations and where dams were recently built. Using fish collected in Bolivia, Brazil and Peru, this study provides a validation of growth rings deposition and details the growth patterns of B. rousseauxii in the Madeira before the dams{\textquoteright} construction. Age structure and growth parameters were determined from 497 otolith readings. The species exhibits two growth rings per year and sampled fish were between 0 and 16 years old. In the Brazilian portion of the basin, mainly young individuals below 5 years old were found, whereas older fish (\> 5 years) were caught only in the Bolivian and Peruvian stretches, indicating that after migrating upstream to reproduce, adults remain in the headwaters of the Madeira River. Comparing with previous publications, B. rousseauxii had a slower growth and 20 cm lower maximum standard length in the Madeira River than in the Amazon River. This study provides a baseline for future evaluation of changes in population dynamics of the species following dams closure.
Palabras clave:\ Amazon; Biannual rings; Goliath catfish; Life cycle; Otolith
}, doi = {10.1590/1982-0224-20170130}, author = {Hauser, Marilia and Doria, C R C and Melo, L and Santos, A and Ayala, D and Nogueira, L and Amadio, S. A. and Fabr{\'e}, N and Torrente-Vilara, Gislene and Garc{\'\i}a V{\'a}squez, A and Renno, Jean-Francois and Carvajal-Vallejos, F M and Alonso, J-C and N{\'u}{\~n}ez-Rodr{\'\i}guez, Jes{\'u}s and Fabrice Duponchelle} } @article {5754, title = {Algal Bloom Exacerbates Hydrogen Sulfide and Methylmercury Contamination in the Emblematic High-Altitude Lake Titicaca}, journal = {Geosciences}, volume = {8}, year = {2018}, abstract = {Algal blooms occurrence is increasing around the globe. However, algal blooms are uncommon in dominantly oligotrophic high-altitude lakes. Lake Titicaca, the largest freshwater lake in South America, located at 3809 m above the sea level, experienced its first recorded algal bloom covering a large fraction of its southern shallow basin in March{\textendash}April 2015. The dominant algae involved in the bloom was Carteria sp. Water geochemistry changed during the bloom with a simultaneous alkalinization in heterotrophic parts of the lake and acidification in eutrophic shallow areas. A decrease in oxygen saturation (from 105 to 51\%), and a dramatic increase in hydrogen sulfide (H2S) concentrations (from \<0.02 to up to 155 {\textmu}g.L-1) resulted in the massive death of pelagic organisms. Such changes were brought by the exacerbated activity of sulfate-reducing bacteria (SRB) in this sulfate-rich lake. Although levels in total mercury remained stable during the event, MMHg \% rose, highlighting higher conservation of produced MMHg in the water. Such an increase on MMHg \% has the potential to produce exponential changes on MMHg concentrations at the end food web due to the biomagnification process. Our physicochemical and climatological data suggest that unusually intense rain events released large amounts of nutrients from the watershed and triggered the bloom. The observed bloom offers a hint for possible scenarios for the lake if pollution and climate change continue to follow the same trend. Such a scenario may have significant impacts on the most valuable fish source in the Andean region and the largest freshwater Lake in South America. Furthermore, the event illustrates a possible fate of high altitude environments subjected to eutrophication.
}, issn = {2076-3263}, doi = {10.3390/geosciences8120438}, url = {http://www.mdpi.com/2076-3263/8/12/438}, author = {Dar{\'\i}o Ach{\'a} and Gu{\'e}dron, Stephane and Amouroux, David and Point, David and Lazzaro, Xavier and Fernandez, Pablo Edgar and Sarret, G{\'e}raldine} } @article {5428, title = {Annual Phytoplankton Primary Production Estimation in a Temperate Estuary by Coupling PAM and Carbon Incorporation Methods}, journal = {Estuaries and Coasts}, year = {2018}, month = {02/2018}, abstract = {Phytoplankton primary production varies considerably with environmental parameters especially in dynamic ecosystems like estuaries. The aimof this study was to investigate short-term primary production along the salinity gradient of a temperate estuary over the course of 1 year. The combination of carbon incorporation and fluorescence methods enabled primary production estimation at short spatial and temporal scales. The electron requirement for carbon fixation was investigated in relation with physical-chemical parameters to accurately estimate primary production at high frequency. These results combined with the variability of the photic layer allowed the annual estimation of primary production along the estuary. Phytoplankton dynamics was closely related to salinity and turbidity gradients, which strongly influenced cells physiology and photoacclimatation. The number of electrons required to fix 1 mol of carbon (C) was ranged between 1.6 and 25 mol electron mol C-1 with a mean annual value of 8 {\textpm} 5 mol electron mol C-1. This optimum value suggests that in nutrient replete conditions like estuaries, alternative electron flows are low, while electrons transfer from photosystem II to carbon fixation is highly efficient. A statistical model was used to improve the estimation of primary production from electron transport rate as a function of significant environmental parameters. Based on this model, daily carbon production in the Seine estuary (France) was estimated by considering light and photic zone variability. A mean annual daily primary production of 0.12 {\textpm} 0.18 g C m-2 day-1 with a maximum of 1.18 g C m-2 day-1 in summer was estimated which lead to an annual mean of 64.75 g C m-2 year-1. This approach should be applied more frequently in dynamic ecosystems such as estuaries or coastal waters to accurately estimate primary production in those valuable ecosystems.
}, keywords = {High frequency . Electron requirement for carbon fixation . Electron transport rate (ETR) . Seine estuary}, author = {Morelle, J{\'e}r{\^o}me and Mathilde Schapira and Francis Orvain and Riou, Philippe and Pascal Jean Lopez and Duplessix, Olivier and Rabiller, Emilie and Maheux, Franc and Simon, Benjamin and Pascal Claquin} } @article {5282, title = {Aquatic urban ecology at the scale of a capital: community structure and interactions in street gutters.}, journal = {ISME J.}, volume = {12}, year = {2018}, month = {09/2017}, pages = {253{\textendash}266}, abstract = {In most cities, streets are designed for collecting and transporting dirt, litter, debris, storm water and other wastes as a municipal sanitation system. Microbial mats can develop on street surfaces and form microbial communities that have never been described. Here, we performed the first molecular inventory of the street gutter-associated eukaryotes across the entire French capital of Paris and the non-potable waters sources. We found that the 5782 OTUs (operational taxonomic units) present in the street gutters which are dominated by diatoms (photoautotrophs), fungi (heterotrophs), Alveolata and Rhizaria, includes parasites, consumers of phototrophs and epibionts that may regulate the dynamics of gutter mat microbial communities. Network analyses demonstrated that street microbiome present many species restricted to gutters, and an overlapping composition between the water sources used for street cleaning (for example, intra-urban aquatic networks and the associated rivers) and the gutters. We propose that street gutters, which can cover a significant surface area of cities worldwide, potentially have important ecological roles in the remediation of pollutants or downstream wastewater treatments, might also be a niche for growth and dissemination of putative parasite and pathogens.The ISME Journal advance online publication, 13 October 2017; doi:10.1038/ismej.2017.166.
}, doi = {10.1038/ismej.2017.166}, url = {https://www.nature.com/articles/ismej2017166}, author = {Herv{\'e}, Vincent and Leroy, Boris and Da Silva Pires, Albert and Pascal Jean Lopez} } @article {5918, title = {Aragonite saturation state in a tropical coastal embayment dominated by phytoplankton blooms (Guanabara Bay - Brazil)}, journal = {Marine Pollution Bulletin}, volume = {129}, year = {2018}, pages = {729{\textendash}739}, doi = {10.1016/j.marpolbul.2017.10.064}, url = {https://doi.org/10.1016/j.marpolbul.2017.10.064}, author = {Luiz C. Cotovicz and Bastiaan A. Knoppers and Nilva Brandini and Dominique Poirier and Suzan J. Costa Santos and Gwena{\"e}l Abril} } @article {Raoux201811, title = {Assessing cumulative socio-ecological impacts of offshore wind farm development in the Bay of Seine (English Channel)}, journal = {Marine Policy}, volume = {89}, year = {2018}, note = {cited By 2}, pages = {11-20}, publisher = {Elsevier Ltd}, abstract = {As part of the energy transition, the French government is planning the construction of Offshore Wind Farms (OWFs) in Normandy. These OWFs will be integrated into an ecosystem already facing multiple anthropogenic disturbances. A holistic view of cumulated impacts (OWF construction, global warming and fisheries) were developed on the Courseulles-sur-Mer{\textquoteright} ecosystem through the use of a qualitative mathematical modelling approach. This modelling approach provides the mean to consider alternative hypotheses about how the ecosystem structure and function affects its dynamics. Alternative models were constructed to address the different hypotheses regarding the behaviour of top predator (whether the top predators will be scared away by the OWF or attracted by the reef effect), impacts of global warming and changes in fisheries activities. Key findings from these analyses are that the OWF construction could lead to an increase in benthos species and fish benthos feeders whatever the perturbation scenario, while the predicted response of top predators was ambiguous across all perturbation scenario. Qualitative modelling results can play a vital role in decision making by improving long term planning for the marine environment but also as a tool for communication with the public and so contribute to a better acceptability of the Marine Renewable Energy (MRE) project. {\textcopyright} 2017 Elsevier Ltd}, keywords = {alternative energy, Bay of Seine, development project, ecological impact, ecosystem management, English Channel, environmental impact assessment, environmental planning, France, Marine environment, offshore structure, qualitative analysis, social impact, wind farm}, issn = {0308597X}, doi = {10.1016/j.marpol.2017.12.007}, url = {https://www.sciencedirect.com/science/article/pii/S0308597X1730444X}, author = {Raoux, Aurore and Dambacher, J.M. and Pezy, Jean-Philippe and Maz{\'e}, C. and Jean-Claude Dauvin and Nathalie Niquil} } @article {6943, title = {Assessing the impacts of several algae-based diets on cultured European abalone ( Haliotis tuberculata )}, journal = {Aquatic Living Resources}, volume = {31}, year = {2018}, month = {Jan-01-2018}, pages = {28}, doi = {10.1051/alr/2018018}, url = {https://www.alr-journal.org/10.1051/alr/2018018}, author = {Basuyaux, Olivier and Blin, Jean-Louis and Katherine Costil and Richard, Olivier and Lebel, Jean-Marc and Antoine Serpentini} } @article {5811, title = {{Benthic foraminifera to assess Ecological Quality Statuses in Italian transitional waters}}, journal = {Ecological Indicators}, volume = {84}, year = {2018}, abstract = {Estuaries, lagoons and lakes, identified as transitional waters (TWs), are fragile ecotones at the interface between terrestrial and marine ecosystems. The assessment of their Ecological Quality status (EcoQ), required by marine legislations, is rather uncertain when based on traditional benthic macrofaunal indices. This study proposes to assess the EcoQ of marine waters using the diversity index Exp(H{\textquoteright}bc) based on living benthic foraminifera. By testing this method on datasets from five Italian TWs, we showed that EcoQ{\textquoteright}s assessment based on foraminifera reflected changes in environmental conditions. Benthic foraminifera highlighted the degradation of most, if not all, study sites, ranking most of the TWs in {\textquotedblleft}Moderate{\textquotedblright} to {\textquotedblleft}Bad{\textquotedblright} EcoQs. Although the assessment of EcoQs estimated from diversity indices was similar when based on benthic foraminifera or macrofauna, discrepancies occurred if diversity index calculated on foraminifera and sensitivity-based indices applied on macrofauna were compared. Our results demonstrated that the Exp(H{\textquoteright}bc) index based on living benthic foraminifera is a promising approach to assess EcoQs. Finally, we argue that benthic foraminifera, for their preservation potential as fossil within sediment, are a reliable option to define reference conditions and targets.
}, keywords = {Diversity index, Ecological quality status, Italian transitional waters, Living benthic foraminifera, Marine strategy framework directive, Water framework directive}, issn = {1470160X}, doi = {10.1016/j.ecolind.2017.07.055}, url = {https://www.sciencedirect.com/science/article/pii/S1470160X17304685}, author = {Vincent M.P. Bouchet and Goberville, Eric and Fabrizio Frontalini} } @article {7175, title = {Benthic species of the Kerguelen Plateau show contrasting distribution shifts in response to environmental changes}, journal = {Ecology and Evolution}, volume = {8}, year = {2018}, month = {Jan-06-2018}, pages = {6210 - 6225}, doi = {10.1002/ece3.2018.8.issue-1210.1002/ece3.4091}, url = {http://doi.wiley.com/10.1002/ece3.2018.8.issue-12}, author = {Guillaumot, Charl{\`e}ne and Fabri-Ruiz, Salom{\'e} and Martin, Alexis and Eleaume, Marc and Danis, Bruno and Feral, Jean-Pierre and Sauc{\`e}de, Thomas} } @article {5531, title = {Biofilm monitoring as a tool to assess the efficiency of artificial reefs as substrates: Toward 3D printed reefs}, journal = {Ecological Engineering}, volume = {120}, year = {2018}, pages = {230 - 237}, abstract = {Habitat destruction is one of the main causes of the decline of biodiversity and of fishery resources in the marine environment. An artificial reef (AR) could be a tool for protecting or restoring these habitats and their declining biodiversity, and also help to enhance sustainable fisheries. The goal is to design non-polluting structures that best mimic the complexity of natural habitats in order to improve their service to the community. To date, the assessment of reef performance has been mostly focused on fish assemblages and species of ecological and/or socio-economic interest, and has disregarded the biofilm communities that determine the first level of an AR{\textquoteright}s trophic network. In this work, we used biofilm formation to compare the quality of substrates used as building parts for an AR, in order to optimize an eco-friendly material that will be used to design a new generation of \{ARs\} produced by giant 3D printers. The structure of the photosynthetic communities has been identified using pigment biomarkers and their production of exudates has been analysed. These polymeric substances were quantified in terms of total sugar and protein concentrations. They were further analysed in terms of amino acid content. We found no significant differences between the micro-algae communities developed on the different substrates. These photosynthetic communities were mainly composed of diatoms, prasinophytes, haptophytes, and dinoflagellates. However, we showed that the material for \{ARs\} is crucial for biofilm development, especially with regard to its secretions of sugar. The choice of an appropriate substrate for \{AR\} construction is thus of particular importance since biofilm secretions determine the organic substrate on which sessile macro-organisms will settle.
}, keywords = {Artificial reef substrates}, issn = {0925-8574}, doi = {https://doi.org/10.1016/j.ecoleng.2018.06.005}, url = {https://www.sciencedirect.com/science/article/pii/S0925857418302167}, author = {Elisabeth Riera and Lamy, Dominique and Christophe Goulard and Francour, P and C{\'e}dric Hubas} } @article {5477, title = {Biomineralization in modern avian calcified eggshells: similarity versus diversity}, journal = {Connective Tissue Research}, volume = {59}, year = {2018}, month = {01/2018}, pages = {67-73}, type = {Journal article}, abstract = {Avian eggshells are composed of several layers made of organic compounds and a mineral phase (calcite), and the general structure is basically the same in all species. A comparison of the structure, crystallography, and chemical composition shows that despite an overall similarity, each species has its own structure, crystallinity, and composition. Eggshells are a perfect example of the crystallographic versus biological concept of the formation and growth mechanisms of calcareous biominerals: the spherulitic-columnar structure is described as "a typical case of competitive crystal growth", but it is also said that the eggshell matrix components regulate eggshell mineralization. Electron back scattered diffraction (EBSD) analyses show that the crystallinity differs between different species. Nevertheless, the three layers are composed of rounded granules, and neither facets nor angles are visible. In-situ analyses show the heterogeneous distribution of chemical elements throughout the thickness of single eggshell. The presence of organic matrices other than the outer and inner membranes in eggshells is confirmed by thermograms and infrared spectrometry, and the differences in quality and quantity depend on the species. Thus, as in other biocrystals, crystal growth competition is not enough to explain these differences, and there is a strong biological control of the eggshell secretion.}, author = {Dauphin, Y and Luquet, G and Perez-Huerta, A and Salom{\'e}, M} } @article {6818, title = {Blow Your Nose, Shrimp! Unexpectedly Dense Bacterial Communities Occur on the Antennae and Antennules of Hydrothermal Vent Shrimp}, journal = {Frontiers in Marine Science}, volume = {5}, year = {2018}, month = {Aug-10-2018}, abstract = {In crustaceans, as in other animals, perception of environmental cues is of key importance for a wide range of interactions with the environment and congeners. Chemoreception involves mainly the antennae and antennules, which carry sensilla that detect water-borne chemicals. The functional importance of these as exchange surfaces in the shrimp{\textquoteright}s sensory perception requires them to remain free of any microorganism and deposit that could impair the fixation of odorant molecules on sensory neurons. We report here the occurrence of an unexpected dense bacterial colonization on surface of the antennae and antennules of four hydrothermal vent shrimp species. Microscopic observation, qPCR and 16S rRNA barcoding reveal the abundance, diversity and taxonomic composition of these bacterial communities, that are compared with those found on a related coastal shrimp. Bacterial abundances vary among species. Bacteria are almost absent in coastal shrimp, meanwhile they fully cover the antennal flagella in some hydrothermal vent species. Epsilon- and Gammaproteobacteria dominate the hydrothermal shrimp-associated communities, whereas Alphaproteobacteria and Bacteroidetes are dominant in the coastal ones. Bacteria associated with vent shrimp species are most similar to known chemoautotrophic sulfur-oxidizers. Potential roles of these bacteria on the hydrothermal shrimp antennae and antennules and on sensory functions are discussed.}, doi = {10.3389/fmars.2018.00357}, url = {https://www.frontiersin.org/article/10.3389/fmars.2018.00357/full}, author = {Magali Zbinden and Gallet, Alison and Szafranski, Kamil M. and Machon, Julia and Juliette Ravaux and L{\'e}ger, Nelly and Duperron, S{\'e}bastien} } @article {5465, title = {Carbon biogeochemistry and CO2 emissions in a human impacted and mangrove dominated tropical estuary (Can Gio, Vietnam)}, journal = {Biogeochemistry}, year = {2018}, month = {27/04/2018}, pages = {1-15}, abstract = {The quantitative contribution of tropical estuaries to the atmospheric CO2\ budget has large uncertainties, both spatially and seasonally. We investigated the seasonal and spatial variations of carbon biogeochemistry downstream of Ho Chi Minh City (Southern Vietnam). We sampled four sites distributed from downstream of a highly urbanised watershed through mangroves to the South China Sea coast during the dry and wet seasons. Measured partial pressure of CO2(pCO2) ranged from 660 to 3000\ μatm during the dry season, and from 740 to 5000\ μatm during the wet season. High organic load, dissolved oxygen saturation down to 17\%, and pCO2up to 5000\ μatm at the freshwater endmember of the estuary reflected the intense human pressure on this ecosystem. We show that releases from mangrove soils affect the water column pCO2\ in this large tropical estuary (~600\ m wide and 10{\textendash}20\ m deep). This study is among the few to report direct measurements of both water pCO2\ and CO2\ emissions in a Southeast Asian tropical estuary located in a highly urbanised watershed. It shows that the contribution of such estuaries may have been previously underestimated, with CO2\ emissions ranging from 74 to 876\ mmol\ m-2\ day-1\ at low current velocity (\<\ 0.2\ m\ s-1). Corresponding gas transfer velocities k600,\ ranging from 1.7 to 11.0\ m\ day-1,\ were about 2 to 4 times of k600\ estimated using published literature equations.
}, doi = {https://doi.org/10.1007/s10533-018-0444-z}, author = {Frank David and Tarik Meziane and Tran-thi, N and Truong Van, V and Th{\`a}nh-Nho, N and Pierre Taillardat and Cyril Marchand} } @article {5920, title = {Carbon dioxide degassing at the groundwater-stream-atmosphere interface: isotopic equilibration and hydrological mass balance in a sandy watershed}, journal = {Journal of Hydrology}, volume = {558}, year = {2018}, pages = {129{\textendash}143}, doi = {10.1016/j.jhydrol.2018.01.003}, url = {https://doi.org/10.1016/j.jhydrol.2018.01.003}, author = {Loris Deirmendjian and Gwena{\"e}l Abril} } @article {5920, title = {Carbon dioxide degassing at the groundwater-stream-atmosphere interface: isotopic equilibration and hydrological mass balance in a sandy watershed}, journal = {Journal of Hydrology}, volume = {558}, year = {2018}, pages = {129{\textendash}143}, doi = {10.1016/j.jhydrol.2018.01.003}, url = {https://doi.org/10.1016/j.jhydrol.2018.01.003}, author = {Loris Deirmendjian and Gwena{\"e}l Abril} } @article {5917, title = {Carbon dynamics and CO2 and CH4 outgassing in the Mekong delta}, journal = {Biogeosciences}, volume = {15}, year = {2018}, pages = {1093{\textendash}1114}, doi = {10.5194/bg-15-1093-2018}, url = {https://doi.org/10.5194/bg-15-1093-2018}, author = {Alberto V. Borges and Gwena{\"e}l Abril and Steven Bouillon} } @article {9382, title = {Carbon dynamics and inconstant porewater input in a mangrove tidal creek over contrasting seasons and tidal amplitudes}, journal = {Geochimica et Cosmochimica Acta}, volume = {237}, year = {2018}, pages = {32{\textendash}48}, abstract = {Constraining the contribution of mangrove-derived carbon in tidal creeks is fundamental to understanding the fate of mangrove primary production and the role of mangroves as coastal carbon sinks. Porewater measurements and 24-h time series in a mangrove tidal creek were conducted during the dry and wet season, and over contrasting tidal ranges at the Can Gio Biosphere Reserve, Vietnam. Surface water carbon concentrations (dissolved organic carbon (DOC), dissolved inorganic carbon (DIC), partial pressure of carbon dioxide (pCO2)) and their respective d13C values were correlated with radon, suggesting that porewater input drives mangrove-derived carbon in the tidal creek. Based on three complementary mixing models, porewater input contributed to about 30\% of the water volume and 46\% to 100\% of DOC and DIC pools in the tidal creek at low tide, with variabilities between seasons and tidal amplitudes. The creek carbon pool was 88\% DIC, 6\% DOC, and 6\% particulate organic carbon (POC). The pCO2 values during the wet season (2973{\textendash}16,495 latm) were on average 5-fold higher than during the dry season (584{\textendash}2946 latm). This was explained by a potential greater mineralization attributed to higher organic matter availability and residual humidity that stimulate bacterial activity, and by a potential tidal dilution changing the pCO2/DIC ratio as suggested by the Revelle factor. Consequently, average CO2 evasion from the creek was estimated at 327{\textendash}427 mmolC m{\`A}2 d{\`A}1 during the wet season and 92{\textendash}213 mmolC m{\`A}2 d{\`A}1 during the dry season, using two independent approaches. Tidal amplitude seemed to influence porewater input and its carbon loads, with a higher contribution during frequent and high tidal amplitudes (symmetric). However, the highest input occurred in a tidal cycle which was preceded by tidal cycle of low amplitude (asymmetric). We explain this ambiguity by the influence of both, rapid water turnover intensifying porewater exchange, and long water residence time enhancing carbon load in porewater.}, issn = {00167037}, doi = {10.1016/j.gca.2018.06.012}, url = {https://linkinghub.elsevier.com/retrieve/pii/S0016703718303272}, author = {Taillardat, Pierre and Ziegler, Alan D. and Friess, Daniel A. and Widory, David and Truong Van, Vinh and Frank David and Thanh-Nho, Nguyen and Marchand, Cyril} } @article {5926, title = {Caridina variabilirostris (Crustacea: Decapoda: Atyidae), a new species of freshwater shrimp from Pohnpei (Micronesia)}, journal = {European Journal of Taxonomy}, volume = {453}, year = {2018}, pages = {1-16}, abstract = {Recently de Mazancourt\ et al.(2017) highligted the {\textquotedblleft}Pinocchio-shrimp effect{\textquotedblright} on a new species of Atyid shrimp from Pohnpei (Micronesia). In combinating morphological data with a genetical analysis, this species is described here with its ecological distribution.\ The status of this new species is clarified and finally, neither\ C. brachydactyla\ De Man 1908nor\ C. mertoniJ. Roux, 1911 occur in Pohnpei.
}, author = {de Mazancourt, Valentin and Marquet, G{\'e}rard and Philippe Keith} } @article {5564, title = {Characterization of a tachykinin signalling system in the bivalve mollusc Crassostrea gigas}, journal = {General and Comparative Endocrinology}, volume = {266}, year = {2018}, pages = {110-118}, type = {regular}, abstract = {Although tachykinin-like neuropeptides have been identified in molluscs more than two decades ago, knowledge on their function and signalling has so far remained largely elusive. We developed a cell-based assay to address the functionality of the tachykinin G-protein coupled receptor (Cragi-TKR) in the oyster Crassostrea gigas. The oyster tachykinin neuropeptides that are derived from the tachykinin precursor gene Cragi-TK activate the Cragi-TKR in nanomolar concentrations. Receptor activation is sensitive to Ala-substitution of critical Cragi-TK amino acid residues. The Cragi-TKR gene is expressed in a variety of tissues, albeit at higher levels in the visceral ganglia (VG) of the nervous system. Fluctuations of Cragi-TKR expression is in line with a role for TK signalling in C. gigas reproduction. The expression level of the Cragi-TK gene in the VG depends on the nutritional status of the oyster, suggesting a role for TK signalling in the complex regulation of feeding in C. gigas.
}, doi = {https://doi.org/10.1016/j.ygcen.2018.05.003}, author = {Marie-Pierre Dubos and Sven Zels and Julie Schwartz and Jeremy Pasquier and Liliane Schoofs and Pascal Favrel} } @article {5662, title = {Characterization of gonadotropin-releasing hormone (GnRH) genes from cartilaginous fish: evolutionary perspectives.}, journal = {Frontiers in Neuroscience}, volume = {12}, year = {2018}, pages = {607}, author = {Gaillard, A-L and Tay, Boon-Hui and Perez-Sirkin, Daniela and Anne-Gaelle Lafont and De Flori, C{\'e}line and Vissio, Paula G. and Mazan, Sylvie and Sylvie Dufour and Venkatesh, Byrappa and Tostivint, Herv{\'e}} } @article {6078, title = {Chemically-Mediated Interactions Between Macroalgae, Their Fungal Endophytes, and Protistan Pathogens}, journal = {Frontiers in Microbiology}, volume = {9}, year = {2018}, pages = {3161}, abstract = {Filamentous fungi asymptomatically colonise the inner tissues of macroalgae, yet their ecological roles remain largely underexplored. Here, we tested if metabolites produced by fungal endophytes might protect their host against a phylogenetically broad spectrum of protistan pathogens. Accordingly, the cultivable fungal endophytes of four brown algal species were isolated and identified based on LSU and SSU sequencing. The fungal metabolomes were tested for their ability to reduce the infection by protistan pathogens in the algal model Ectocarpus siliculosus. The most active metabolomes effective against the oomycetes Eurychasma dicksonii and Anisolpidium ectocarpii, and the phytomixid Maullinia ectocarpii were further characterized chemically. Several pyrenocines isolated from Phaeosphaeria sp. AN596H efficiently inhibited the infection by all abovementioned pathogens. Strikingly, these compounds also inhibited the infection of nori (Pyropia yezoensis) against its two most devastating oomycete pathogens, Olpidiopsis pyropiae and Pythium porphyrae. We thus demonstrate that fungal endophytes associated with brown algae produce bioactive metabolites which might confer protection against pathogen infection. These results highlight the potential of metabolites to finely-tune the outcome of molecular interactions between algae, their endophytes and protistan pathogens. This also provide proof-of-concept towards the applicability of such metabolites in marine aquaculture to control otherwise untreatable diseases.
}, issn = {1664-302X}, doi = {10.3389/fmicb.2018.03161}, url = {https://www.frontiersin.org/article/10.3389/fmicb.2018.03161}, author = {Vallet, Marine and Strittmatter, Martina and Mur{\'u}a, Pedro and Lacoste, Sandrine and Dupont, Jo{\"e}lle and C{\'e}dric Hubas and Genta-Jouve, Gregory and Claire M. M. Gachon and Kim, Gwang Hoon and Prado, Soizic} } @article {8568, title = {Combined use of two supervised learning algorithms to model sea turtle behaviours from tri-axial acceleration data}, journal = {Journal of Experimental Biology}, year = {2018}, month = {Jan-01-2018}, issn = {0022-0949}, doi = {10.1242/jeb.177378}, url = {https://journals.biologists.com/jeb/article/doi/10.1242/jeb.177378/262989/Combined-use-of-two-supervised-learning-algorithms}, author = {Jeantet, L. and Dell{\textquoteright}Amico, F. and Forin-Wiart, M. A. and Coutant, M. and Bonola, M. and Etienne, D. and Gresser, J. and Regis, S. and Lecerf, N. and Lefebvre, F. and de Thoisy, B. and Le Maho, Y. and Brucker, M. and Ch{\^a}telain, N. and Laesser, R. and Crenner, F. and Handrich, Y. and Wilson, R. and Chevallier, D.} } @article {5965, title = {Comparative histology of caniniform teeth in some predatory ichthyophagous teleosts}, journal = {Cybium}, volume = {42}, year = {2018}, pages = {075-081}, doi = {10.26028/cybium/2018-421-006}, url = {http://sfi-cybium.fr/fr/comparative-histology-caniniform-teeth-some-predatory-ichthyophagous-teleosts}, author = {Texereau, M and Germain, D and Meunier, Francois J.} } @article {6819, title = {Comparison of Chemoreceptive Abilities of the Hydrothermal Shrimp Mirocaris fortunata and the Coastal Shrimp Palaemon elegans}, journal = {Chemical Senses}, volume = {43}, year = {2018}, month = {06}, pages = {489-501}, abstract = {Chemoreception might play an important role for endemic shrimp that inhabit deep and dark hydrothermal vents to find food sources and to locate active edifices that release specific chemicals. We compared the chemosensory abilities of the hydrothermal shrimp Mirocaris fortunata and the coastal related species, Palaemon elegans. The detection of diverse ecologically relevant chemical stimuli by the antennal appendages was measured with electroantennography. The 2 species can detect food-related odor and sulfide, a short-distance stimulus, via both their antennae and antennules. Neither iron nor manganese, considered as long-distance stimuli, was detected by the antennal appendages. Investigation of the ultrastructure of aesthetasc sensilla revealed no specific features of the hydrothermal species regarding innervation by olfactory sensory neurons. Pore-like structures occurring in the aesthetasc cuticle and dense bacterial covering seem to be unique to hydrothermal species, but their potential link to chemoreception remains elusive.}, issn = {0379-864X}, doi = {10.1093/chemse/bjy041}, url = {https://doi.org/10.1093/chemse/bjy041}, author = {Machon, Julia and Lucas, Philippe and Juliette Ravaux and Magali Zbinden} } @article {8557, title = {Connecting paths between juvenile and adult habitats in the Atlantic green turtle using genetics and satellite tracking}, journal = {Ecology and Evolution}, volume = {8}, year = {2018}, month = {Jan-12-2018}, pages = {12790 - 12802}, issn = {2045-7758}, doi = {10.1002/ece3.2018.8.issue-2410.1002/ece3.4708}, url = {https://onlinelibrary.wiley.com/toc/20457758/8/24}, author = {Chambault, Philippine and de Thoisy, Beno{\^\i}t and Huguin, Ma{\"\i}lis and Martin, Jordan and Bonola, Marc and Etienne, Denis and Gresser, Julie and Hielard, Ga{\"e}lle and Mailles, Julien and Vedie, Fabien and Barnerias, Cyrille and Sutter, Emmanuel and Guillemot, Blandine and Dumont-Dayot, {\'E}milie and R{\'e}gis, Sidney and Lecerf, Nicolas and Lefebvre, Fabien and Frouin, C{\'e}dric and Aubert, Nathalie and Guimera, Christelle and Bordes, Robinson and Thieulle, Laurent and Duru, Matthieu and Bouaziz, Myriam and Pinson, Adrien and Flora, Fr{\'e}d{\'e}ric and Queneherve, Patrick and Woignier, Thierry and Allenou, Jean-Pierre and Cimiterra, Nicolas and Benhalilou, Abdelwahab and Murgale, C{\'e}line and Maillet, Thomas and Rangon, Luc and Chanteux, No{\'e}mie and Chanteur, B{\'e}n{\'e}dicte and B{\'e}ranger, Christelle and Le Maho, Yvon and Petit, Odile and Chevallier, Damien} } @article {6929, title = {Contamination of marine fauna by chlordecone in Guadeloupe: evidence of a seaward decreasing gradient}, journal = {Environmental Science and Pollution Research}, volume = {25}, year = {2018}, month = {Jan-05-2018}, pages = {14294 - 14301}, issn = {0944-1344}, doi = {10.1007/s11356-017-8924-6}, url = {http://link.springer.com/10.1007/s11356-017-8924-6}, author = {Charlotte R. Dromard and Gu{\'e}n{\'e}, Mathilde and Bouchon-Navaro, Yolande and Lemoine, Soazig and Cordonnier, S{\'e}bastien and Bouchon, Claude} } @article {5779, title = {Copper induces expression and methylation changes of early development genes in Crassostrea gigas embryos}, journal = {Aquat Toxicol}, volume = {196}, year = {2018}, pages = {70-78}, keywords = {Oyster Embryotoxicity Copper Gene expression DNA methylation}, doi = {doi: 10.1016/j.aquatox.2018.01.001}, url = {https://www.sciencedirect.com/science/article/pii/S0166445X18300018?via\%3Dihub}, author = {Sussarellu, Rossana and Lebreton Morgane and Rouxel Julien and Akcha Farida and Guillaume Rivi{\`e}re} } @article {5440, title = {Crustacean cardioactive peptides: Expression, localization, structure, and a possible involvement in regulation of egg-laying in the cuttlefish Sepia officinalis.}, journal = {Gen. Comp. Endocrinol.}, volume = {1}, year = {2018}, pages = {67-79}, abstract = {The cuttlefish (Sepia officinalis) is a cephalopod mollusk distributed on the western European coast, in the West African Ocean and in the Mediterranean Sea. On the Normandy coast (France), cuttlefish is a target species of professional fishermen, so its reproduction strategy is of particular interest in the context of stock management. Egg-laying, which is coastal, is controlled by several types of regulators among which neuropeptides. The cuttlefish neuropeptidome was recently identified by\ Zatylny-Gaudin\ et al. (2016). Among the 38 neuropeptide families identified, some were significantly overexpressed in egg-laying females as compared to mature males. This study is focused on crustacean cardioactive peptides (CCAPs), a highly expressed neuropeptide family strongly suspected of being involved in the control of egg-laying. We investigated the functional and structural characterization and tissue mapping of CCAPs, as well as the expression patterns of their receptors. CCAPs appeared to be involved in oocyte transport through the oviduct and in mechanical secretion of capsular products. Immunocytochemistry revealed that the neuropeptides were localized throughout the central nervous system (CNS) and in the nerve endings of the glands involved in egg-capsule synthesis and secretion, i.e. the oviduct gland and the main nidamental glands. The CCAP receptor was expressed in these glands and in the subesophageal mass of the CNS. Multiple sequence alignments revealed a high level of conservation of CCAP protein precursors in Sepia officinalis and Loligo pealei, two cephalopod decapods. Primary sequences of CCAPs from the two species were fully conserved, and cryptic peptides detected in the nerve endings were also partially conserved, suggesting biological activity that remains unknown for the time being.
}, doi = {10.1016/j.ygcen.2017.12.009}, author = {Endress, Maxime and C{\'e}line Zatylny-Gaudin and Corre, Erwan and Le Corguill{\'e}, Gildas and Benoist, Louis and Leprince, J{\'e}r{\^o}me and Lefranc, Benjamin and Bernay, Beno{\^\i}t and Leduc, Alexandre and Rangama, Jimmy and Anne-Gaelle Lafont and Bondon, Arnaud and Jo{\"e}l Henry} } @article {8113, title = {Cryptic frenulates are the dominant chemosymbiotrophic fauna at Arctic and high latitude Atlantic cold seeps}, journal = {PLOS ONE}, volume = {13}, year = {2018}, month = {Apr-12-2020}, pages = {e0209273}, doi = {10.1371/journal.pone.0209273}, url = {https://dx.plos.org/10.1371/journal.pone.0209273}, author = {Sen, Arunima and Duperron, S{\'e}bastien and Hourdez, St{\'e}phane and Piquet, B{\'e}r{\'e}nice and L{\'e}ger, Nelly and Gebruk, Andrey and Le Port, Anne-Sophie and Svenning, Mette Marianne and Andersen, Ann C.}, editor = {Kiel, Steffen} } @article {5315, title = {Cultured eastern oysters (Crassostrea virginica): retention and assimilation of picophytoplankton using a multi-biomarker approach}, journal = {Aquatic Living Resources}, volume = {30}, year = {2018}, month = {08/2018}, type = {Article}, abstract = {{In this study, we investigated the food sources of eastern oysters Crassostrea virginica cultivated in Atlantic Canada. Stable isotopes (C-13 and N-15) and fatty acid biomarkers were used to identify these sources under in situ conditions for suspended (similar to 0.5 m below surface) and bottom(similar to 2 m) culture stocks. It was found that particulate organic matter represented the main food source, with major contributions from live phytoplankton. Higher lipid contents were detected in the digestive glands of suspended oysters compared to bottom oysters (p \< 0.05). Bottom oysters did not show significant preference for detrital or bacterial organic matter. Near-surface waters contained an elevated picophytoplankton biomass (PPP, 0.2-2 mu m, 1.93 +/- 0.16mg l(-1), mean +/- SEM) compared to nanophytoplankton biomass (NPP, \> 2 mu m, 1.05 +/- 0.15 mu g l(-1), mean +/- SEM). To determine whether the small size PPP was captured and assimilated by C. virginica, feeding trials were conducted in the laboratory using three PPP/NPP diets (20\%, 50\%, and 80\% PPP), consisting of isotopically-labelled (delta C-13) PPP cells (Nannochloropsis oculata) and non-labelled NPP cells (Tisochrysis lutea). An isotopically-labelled fatty acids analysis indicated PPP assimilation in various tissues (digestive gland, gills, mantle, and abductor muscle), including from oysters fed the reduced (20\%) PPP diet. Isotopic enrichment (C-13) in the FA 22:2 (non-methylene-interrupted or NMI) showed that precursors of NMIs utilized PPP carbon in its biosynthesis process. In conclusion, C. virginica assimilated primarily particulate organic matter (POM), including PPP, which dominated the phytoplankton community in near surface waters. C. virginica can exploit PPP carbon during fatty acid production and further biosynthesis.}
}, keywords = {Aquaculture, fatty acids, Picophytoplankton, Shellfish}, Stable isotopes, {Crassostrea virginica}, issn = {{0990-7440}}, doi = {{10.1051/alr/2017031}}, author = {R{\'e}mi Sonier and R{\'e}jean Tremblay and Fr{\'e}d{\'e}ric Olivier and Tarik Meziane and Comeau, Luc Andre} } @inbook {5497, title = {De la nuisibilit{\'e} {\`a} la patrimonialit{\'e} en milieu marin. L{\textquoteright}histoire d{\textquoteright}une ambigu{\"\i}t{\'e} entretenue}, booktitle = {Sales b{\^e}tes, mauvaises herbes}, volume = {1}, year = {2018}, publisher = {Presses Universitaires de Rennes}, organization = {Presses Universitaires de Rennes}, address = {Rennes}, author = {Patrick, Le Mao and Nicolas Desroy and J{\'e}r{\^o}me Fournier and Laurent Godet and Eric Thi{\'e}baut} } @article {5344, title = {Description of a new species of Caridina (Crustacea: Decapoda: Atyidae) from two Micronesian islands (Guam and Babeldaob)}, journal = {Zootaxa}, volume = {4377}, year = {2018}, pages = {039{\textendash}050}, abstract = {During field trips to Guam and Babeldaob Islands in Micronesia, freshwater shrimps were sampled and assigned either to Caridina brachydactyla De Man, 1908 or C. mertoni J. Roux, 1911 (Decapoda: Atyidae), following previous inventories. In combining morphological data with a genetical analysis, it appeared that all the specimens belonged to a new species, Caridina variabilis sp. nov., here described with its distribution. The status of this new species is clarified and finally, neither C. brachydactyla, nor C. mertoni occur in these two islands. DNA sequences of 16S were obtained from the syntypes of C. mertoni.
}, author = {de Mazancourt, Valentin and Marquet, G{\'e}rard and Rogers, D Christopher and Philippe Keith} } @article {5596, title = {Design of antimicrobial peptides from a cuttlefish database.}, journal = {Amino acids}, year = {2018}, abstract = {No antimicrobial peptide has been identified in cephalopods to date. Annotation of transcriptomes or genomes using basic local alignment Search Tool failed to yield any from sequence identities. Therefore, we searched for antimicrobial sequences in the cuttlefish (Sepia officinalis) database by in silico analysis of a transcriptomic database. Using an original approach based on the analysis of cysteine-free antimicrobial peptides selected from our Antimicrobial Peptide Database (APD3), the online prediction tool of the Collection of Anti-Microbial Peptides (CAMPR3), and a homemade software program, we identified potential antibacterial sequences. Nine peptides less than 25 amino acids long were synthesized. The hydrophobic content of all nine of them ranged from 30 to 70\%, and they could form alpha-helices. Three peptides possessed similarities with piscidins, one with BMAP-27, and five were totally new. Their antibacterial activity was evaluated on eight bacteria including the aquatic pathogens Vibrio alginolyticus, Aeromonas salmonicida, or human pathogens such as Salmonella typhimurium, Listeria monocytogenes, or Staphylococcus aureus. Despite the prediction of an antimicrobial potential for eight of the peptides, only two-GR21\ and KT19-inhibited more than one bacterial strain with minimal inhibitory concentrations below 25\ {\textmu}M. Some sequences like VA20\ and FK19\ were hemolytic, while GR21\ induced less than 10\% of hemolysis on human blood cells at a concentration of 200\ {\textmu}M. GR21\ was the only peptide derived from a precursor with a signal peptide, suggesting a real role in cuttlefish immune defense.
}, doi = {10.1007/s00726-018-2633-4}, author = {Houyvet, Baptiste and Zanuttini, B and Corre, Erwan and Le Corguill{\'e}, Gildas and Jo{\"e}l Henry and C{\'e}line Zatylny-Gaudin} } @article {5025, title = {Diel Rhythm Does Not Shape the Vertical Distribution of Bacterial and Archaeal 16S rRNA Transcript Diversity in Intertidal Sediments: a Mesocosm Study}, journal = {Microbial Ecology}, volume = {75}, year = {2018}, month = {Aug}, pages = {364-374.}, abstract = {In intertidal sediments, circadian oscillations (i.e., tidal and diel rhythms) and/or depth may affect prokaryotic activity. However, it is difficult to distinguish the effect of each single force on active community changes in these natural and complex intertidal ecosystems. Therefore, we developed a tidal mesocosm to control the tidal rhythm and test whether diel fluctuation or sediment depth influence active prokaryotes in the top 10\ cm of sediment. Day- and nighttime emersions were compared as they are expected to display contrasting conditions through microphytobenthic activity in five different sediment layers. A multiple factor analysis revealed that bacterial and archaeal 16S ribosomal RNA (rRNA) transcript diversity assessed by pyrosequencing was similar between day and night emersions. Potentially active benthic Bacteria were highly diverse and influenced by chlorophyll a and phosphate concentrations. While in oxic and suboxic sediments, Thaumarchaeota Marine Group I (MGI) was the most active archaeal phylum, suggesting the importance of the nitrogen cycle in muddy sediments, in anoxic sediments, the mysterious archaeal C3 group dominated the community. This work highlighted that active prokaryotes organize themselves vertically within sediments independently of diel fluctuations suggesting adaptation to physicochemical-specific conditions associated with sediment depth.
}, issn = {1432-184X}, doi = {10.1007/s00248-017-1048-1}, url = {https://doi.org/10.1007/s00248-017-1048-1}, author = {Lavergne, C. and Hugoni, M. and C{\'e}dric Hubas and Debroas, D. and Christine Dupuy and Agogu{\'e}, H.} } @article {5961, title = {The diet of the Early Cretaceous coelacanth {\textdagger}Axelrodichthys araripensis Maisey, 1986 (Actinistia: Mawsoniidae)}, journal = {Cybium}, volume = {42}, year = {2018}, pages = {105-111}, doi = {10.26028/cybium/2018-421-011}, url = {http://sfi-cybium.fr/fr/diet-early-cretaceous-coelacanth-{\textdagger}axelrodichthys-araripensis-maisey-1986-actinistia-mawsoniidae}, author = {Meunier, Francois J. and Cupello, Camila and Yoshikata Yabumoto and Brito, Paulo M.} } @article {5499, title = {Dietary aquaculture by-product hydrolysates: impact on the transcriptomic response of the intestinal mucosa of European seabass (Dicentrarchus labrax) fed low fish meal diets}, journal = {BMC Genomics}, volume = {19}, year = {2018}, abstract = {Aquaculture production is expected to double by 2030, and demands for aquafeeds and raw materials are expected to increase accordingly. Sustainable growth of aquaculture will require the development of highly nutritive and functional raw materials to efficiently replace fish meal. Enzymatic hydrolysis of marine and aquaculture raw materials could bring new functionalities to finished products. The aim of this study was to determine the zootechnical and transcriptomic performances of protein hydrolysates of different origins (tilapia, shrimp, and a combination of the two) in European seabass (Dicentrarchux labrax) fed a low fish meal diet (5\%), for 65\ days.
Results
Results were compared to a positive control fed with 20\% of fish meal. Growth performances, anterior intestine histological organization and transcriptomic responses were monitored and analyzed. Dietary inclusion of protein hydrolysates in the low fish meal diet restored similar growth performances to those of the positive control. Inclusion of dietary shrimp hydrolysate resulted in larger villi and more goblet cells, even better than the positive control. Transcriptomic analysis of the anterior intestine showed that dietary hydrolysate inclusion restored a pattern of intestinal gene expression very close to the pattern of the positive control. However, as compared to the low fish meal diet and depending on their origin, the different hydrolysates did not modulate metabolic pathways in the same way. Dietary shrimp hydrolysate inclusion modulated more metabolic pathways related to immunity, while nutritional metabolism was more impacted by dietary tilapia hydrolysate. Interestingly, the combination of the two hydrolysates enhanced the benefits of hydrolysate inclusion in diets: more genes and metabolic pathways were regulated by the combined hydrolysates than by each hydrolysate tested independently.
Conclusions
Protein hydrolysates manufactured from aquaculture by-products are promising candidates to help replace fish meal in aquaculture feeds without disrupting animal metabolism and performances.
}, keywords = {Aquaculture, Aquafeed, By-products, European seabass, Fishmeal replacement, Hydrolysate, Illumina RNA-sequencing, Intestinal organization, Metabolic pathways}, doi = {doi.org/10.1186/s12864-018-4780-0}, author = {Leduc, Alexandre and C{\'e}line Zatylny-Gaudin and Robert, Marie and Corre, Erwan and Le Corguill{\'e}, Gildas and Castel, H{\'e}l{\`e}ne and Lefevre-Scelles, Antoine and Fournier, Vincent and Gisbert, Enric and Andree, Karl B. and Jo{\"e}l Henry} } @article {5363, title = {Differences in home-range sizes of a bird species in its original, refuge and substitution habitats: challenges to conservation in anthropogenic habitats}, journal = {Biodiversity and Conservation}, volume = {27}, year = {2018}, pages = {719-732}, abstract = {In the current context of the anthropocene, the original habitats of many species have been modified or destroyed. Animals may be forced to move from their original habitats, either to refuge habitats that are suboptimal natural habitats, or to substitution habitats that are anthropogenic. The quality of refuge habitats may be lower than that of the original ones, whereas substitution habitats may be of a similar or even better quality. Here, we test this hypothesis empirically, using the example of coastal populations of the bluethroat, Luscinina svecica namnetum. In a radio-tracking survey, we compared the home-range sizes (considered here a proxy of habitat quality) of the breeding males in their original (coastal saltmarshes), refuge (inland reedbeds) and substitution (coastal salinas) habitats. We found that home ranges are up to 15 times larger in the substitution habitat than in the original one, and intermediate in the refuge habitat, suggesting that substitution habitats have the lowest quality and original habitats the highest. To date, most studies and
conservation programs related to this species have focused on its substitution habitats. This result challenges the interest of focusing on anthropogenic habitats when studying and conserving such a species, because such habitats may only be low-quality substitutes.
Artificial structures in ports are commonly colonized by non-indigenous epifauna that tolerate high pollution levels. Bioconstructions built by alien species may offer sheltered microhabitats for motile (vagile) animals but biofouling often becomes detrimental to human activities. In this context, the present study provides an inventory of 1) the extent of biofouling related to the alien Polychaeta Ficopomatus enigmaticus on hard structures of marinas in Normandy, France, and 2) the biodiversity of sessile (attached) or vagile (motile) fauna associated with these {\textquotedblleft}reefs{\textquotedblright}, including both native and alien species. Reefs built by F. enigmaticus were found in 6 out of 12 marinas with oligohaline-mesohaline waters. Significant differences in the total volume of biofouling were found among sites, with maximum values observed in Honfleur{\textquoteright}s old basin (459.52 mL per 0.04 m2). Ficopomatus enigmaticus greatly dominated the sessile invertebrate community both in volume (74{\textendash}100\%) and weight (70{\textendash}100\%) in 5 out of 6 marinas. The fouling formed by 5 alien species was colonized by 15 motile invertebrate taxa, including 3 cryptogenic or alien species. The alien crab Rhithropanopeus harrisi displayed the highest frequency of occurrence (\>80\%) and mean density (\>300 ind m-2), and the global densities of sessile (except F. enigmaticus) and motile fauna were significantly correlated (r = 0.824; p \< 0.05). While motile fauna density was also significantly correlated with the biovolume of B. improvisus and M. leucophaeata, it was not with F. enigmaticus (r = 0.421; p \> 0.05). In line with previous studies, these results suggest that F. enigmaticus acts as an engineer offering shelter for reef-associated organisms. In addition, results suggest that at the regional scale, inter-site differences in motile fauna may reflect differences in environmental parameters such as salinity. The presence of F. enigmaticus at low salinity levels led to assess its potential distribution at the scale of the European coasts, suggesting that in the context of climate change, favorable conditions for spawning (\>18 {\textdegree}C) will likely expand towards the North, and particularly in the eastern and northern Baltic Sea.
}, keywords = {Alien species, Benthic communities, Biofouling, Ficopomatus enigmaticus, Marinas, Normandy}, doi = {https://doi.org/10.1016/j.ecss.2018.07.007}, author = {Maud Charles and Robin Faillettaz and Nicolas Desroy and J{\'e}r{\^o}me Fournier and Katherine Costil} } @article {5586, title = {Dynamics of exopolymeric carbon pools in relation with phytoplankton succession along the salinity gradient of a temperate estuary (France)}, journal = {Estuarine, Coastal and Shelf Science}, volume = {209}, year = {2018}, pages = {18-29}, abstract = {In parallel to phytoplankton community dynamics, transparent exopolymeric particles (TEP) and exopolymeric
substances (EPS) were investigated along the salinity gradient of a temperate estuary (Seine estuary, Normandy,
France) over the course of a year. The phytoplankton community was mainly dominated by marine diatom
species (especially Skeletonema sp., Nitzschia sp., and Paralia sulcata) associated with a spring bloom of picoeukaryotes
and the development of Cryptophyceae in summer. The decreases in species richness and salinity were
correlated along the estuary and a significant exponential relationship between species richness and primary
production was identified. Concentrations of TEP and EPS (soluble and bound carbohydrates) are highly dynamic
in this estuary and can reach respectively 69 mgC L-1, and 33 mgC L-1. TEP distribution was mainly
related to physical factors (hydrodynamics, maximum turbidity zone formation and sediment resuspension)
probably produced by stressed or dying phytoplankton, while EPS appeared to be excreted during the phytoplankton
spring bloom. Soluble and bound EPS appear to be related to Skeletonema sp. and Cryptophyceae occurrences.
This paper presents the dynamic pattern of these carbon pools, which play an important role in the
trophic network and influence the flocculation processes involved in the fate of both organic and inorganic
matter.
The European eel (Anguilla anguilla) presents a blockade of sexual maturation at a prepubertal stage due to a deficient production of gonadotropins. We previously initiated, in the eel, the investigation of the kisspeptin system, one of the major gatekeepers of puberty in mammals, and we predicted the sequence of two Kiss genes. In the present study, we cloned and sequenced Kiss1 and Kiss2 cDNAs from the eel brain. The tissue distributions of Kiss1 and Kiss2 transcripts, as investigated by quantitative real-time PCR, showed that both genes are primarily expressed in the eel brain and pituitary. The two 10-residue long sequences characteristic of kisspeptin, eel Kp1(10) and Kp2(10), as well as two longer sequences, predicted as mature peptides, eel Kp1(15) and Kp2(12), were synthesized and functionally analyzed. Using rat Kiss1 receptor-transfected Chinese hamster ovary cells, we found that the four synthesized eel peptides were able to induce [Ca2+]i responses, indicating their ability to bind mammalian KissR-1 and to activate second messenger pathways. In primary culture of eel pituitary cells, all four peptides were able to specifically and dose-dependently inhibit lhβ expression, without any effect on fshβ, confirming our previous data with heterologous kisspeptins. Furthermore, in this eel in vitro system, all four peptides inhibited the expression of the type 2 GnRH receptor (gnrh-r2). Our data revealed a dual inhibitory effect of homologous kisspeptins on both pituitary lhβ and gnrh-r2 expression in the European eel.
}, doi = {10.3389/fendo.2017.00353}, author = {Pasquier, J and Anne-Gaelle Lafont and Florian, D and Lefranc, B and Dubessy, C and Moreno-Herrera, A and Vaudry, H and Leprince, J and Sylvie Dufour and Karine Rousseau} } @article {5619, title = {Effect of CO2{\textendash}induced ocean acidification on the early development and shell mineralization of the European abalone (Haliotis tuberculata)}, journal = {Journal of Experimental Marine Biology and Ecology}, volume = {508}, year = {2018}, pages = {52 - 63}, abstract = {Ocean acidification is a major global stressor that leads to substantial changes in seawater carbonate chemistry, with potentially significant consequences for calcifying organisms. Marine shelled mollusks are ecologically and economically important species providing essential ecosystem services and food sources for other species. Because they use calcium carbonate (CaCO3) to produce their shells, mollusks are among the most vulnerable invertebrates to ocean acidification, with early developmental stages being particularly sensitive to pH changes. This study investigated the effects of CO2-induced ocean acidification on larval development of the European abalone Haliotis tuberculata, a commercially important gastropod species. Abalone larvae were exposed to a range of reduced pHs (8.0, 7.7 and 7.6) over the course of their development cycle, from early-hatched trochophore to pre-metamorphic veliger. Biological responses were evaluated by measuring the survival rate, morphology and development, growth rate and shell calcification. Larval survival was significantly lower in acidified conditions than in control conditions. Similarly, larval size was consistently smaller under low pH conditions. Larval development was also affected, with evidence of a developmental delay and an increase in the proportion of malformed or unshelled larvae. In shelled larvae, the intensity of birefringence decreased under low pH conditions, suggesting a reduction in shell mineralization. Since these biological effects were observed for pH values expected by 2100, ocean acidification may have potentially negative consequences for larval recruitment and persistence of abalone populations in the near future.
}, keywords = {Abalone, larval development, Ocean acidification, Shell mineralization}, issn = {0022-0981}, doi = {https://doi.org/10.1016/j.jembe.2018.08.005}, url = {http://www.sciencedirect.com/science/article/pii/S0022098117304070}, author = {Nathalie Wessel and Sophie Martin and Badou, Aicha and Philippe Dubois and Sylvain Huchette and Vivien Julia and Flavia Nunes and Ewan Harney and Christine Paillard and St{\'e}phanie Auzoux-Bordenave} } @article {7108, title = {The effect of dietary DHA and taurine on rotifer capture success, growth, survival and vision in the larvae of Atlantic bluefin tuna ( Thunnus thynnus )}, journal = {Aquaculture}, volume = {482}, year = {2018}, month = {Jan-01-2018}, pages = {137 - 145}, issn = {00448486}, doi = {10.1016/j.aquaculture.2017.09.039}, url = {https://linkinghub.elsevier.com/retrieve/pii/S0044848617303976}, author = {Koven, W. and Nixon, O. and Allon, G. and Gaon, A. and El Sadin, S. and Jack Falcon and Besseau, L. and Escande, M. and Vassallo Agius, R. and Gordin, H. and Tandler, A.} } @article {5559, title = {Effect of sediment, salinity, and velocity on the behavior of juvenile winter flounder (Pseudopleuronectes americanus)}, journal = {Environmental Biology of Fishes}, year = {2018}, month = {07/2018}, pages = {1-10}, abstract = {Winter flounder (Pseudopleuronectes americanus) is a benthic flatfish that is economically important for recreational and commercial fishing in North America. In the last twenty years, the species has undergone a drastic decline, mainly due to anthropic influence. The goal of this study was to gain knowledge on habitat preferences and behavior of juvenile winter flounder to improve the management of natural stocks and optimize release sites of juveniles produced for stock enhancement. Three abiotic factors (sediment, current, and salinity) potentially influencing the distribution of flatfish species were tested in a recircurlating flume with juvenile winter flounder. Time budgets of observed behaviors including swimming, orientation, and burying capacity were analyzed. Sediment texture was the only factor that significantly influenced the burying behavior of winter flounder juveniles; shear velocity, salinity, and sediment had no effect on the orientation of juveniles.
}, keywords = {Current, salinity, Sediment, Swimming behavior, Winter flounder}, issn = {0378-1909}, doi = {https://doi.org/10.1007/s10641-018-0793-4}, url = {https://link.springer.com/article/10.1007\%2Fs10641-018-0793-4}, author = {Provencher, T and Fr{\'e}d{\'e}ric Olivier and Audet, C and R{\'e}jean Tremblay} } @inbook {5441, title = {Egg-Laying in the cuttlefish Sepia officinalis}, booktitle = {Biological Resources of Water}, year = {2018}, issn = {978-1-78923-081-9}, doi = {DOI: 10.5772/intechopen.71915}, author = {C{\'e}line Zatylny-Gaudin and Jo{\"e}l Henry} } @article {5434, title = {Electron requirements for carbon incorporation along a diel light cycle in three marine diatom species}, journal = {Photosynthesis Research}, year = {2018}, pages = {1-14}, abstract = {Diatoms account for about 40\% of primary production in highly productive ecosystems. The development of a new generation of fluorometers has made it possible to improve estimation of the electron transport rate from photosystem II, which, when coupled with the carbon incorporation rate enables estimation of the electrons required for carbon fixation. The aim of this study was to investigate the daily dynamics of these electron requirements as a function of the diel light cycle in three relevant diatom species and to apprehend if the method of estimating the electron transport rate can lead to different pictures of the dynamics. The results confirmed the species-dependent capacity for photoacclimation under increasing light levels. Despite daily variations in the photosynthetic parameters, the results of this study underline the low daily variability of the electron requirements estimated using functional absorption of the photosystem II compared to an estimation based on a specific absorption cross section of chlorophyll a. The stability of the electron requirements throughout the day would suggest it is potentially possible to estimate high-frequency primary production by using autonomous variable fluorescence measurements from ships-of-opportunity or moorings, without taking potential daily variation in this parameter into consideration, but this result has to be confirmed on natural phytoplankton assemblages. The results obtained in this study confirm the low electron requirements of diatoms to perform photosynthesis, and suggest a potential additional source of energy for carbon fixation, as recently described in the literature for this class.
}, doi = {https://doi.org/10.1007/s11120-018-0491-2}, url = {https://link.springer.com/article/10.1007\%2Fs11120-018-0491-2}, author = {Morelle, J{\'e}r{\^o}me and Pascal Claquin} } @article {5707, title = {Emergence of a cholecystokinin/sulfakinin signalling system in Lophotrochozoa}, journal = {Scientific Reports}, volume = {8}, year = {2018}, month = {11/2018}, pages = {16424}, abstract = {Chordate gastrin/cholecystokinin (G/CCK) and ecdysozoan sulfakinin (SK) signalling systems represent divergent evolutionary scenarios of a common ancestral signalling system. The present article investigates for the first time the evolution of the CCK/SK signalling system in a member of the Lophotrochozoa, the second clade of protostome animals. We identified two G protein-coupled receptors (GPCR) in the oyster\ Crassostrea gigas\ (Mollusca), phylogenetically related to chordate CCK receptors (CCKR) and to ecdysozoan sulfakinin receptors (SKR). These receptors, Cragi-CCKR1 and Cragi-CCKR2, were characterised functionally using a cell-based assay. We identified di- and mono-sulphated forms of oyster Cragi-CCK1 (pEGAWDY(SO3H)DY(SO3H)GLGGGRF-NH2) as the potent endogenous agonists for these receptors. The Cragi-CCK genes were expressed in the visceral ganglia of the nervous system. The Cragi-CCKR1 gene was expressed in a variety of tissues, while Cragi-CCKR2 gene expression was more restricted to nervous tissues. An\ in vitro\ bioassay revealed that different forms of Cragi-CCK1 decreased the frequency of the spontaneous contractions of oyster hindgut. Expression analyses in oysters with contrasted nutritional statuses or in the course of their reproductive cycle highlighted the plausible role of Cragi-CCK signalling in the regulation of feeding and its possible involvement in the coordination of nutrition and energy storage in the gonad. This study confirms the early origin of the CCK/SK signalling system from the common bilaterian ancestor and delivers new insights into its structural and functional evolution in the lophotrochozoan lineage.}, doi = {doi.org/10.1038/s41598-018-34700-4}, url = {https://www.nature.com/articles/s41598-018-34700-4}, author = {Julie Schwartz and Marie-Pierre Dubos and Jeremy Pasquier and C{\'e}line Zatylny-Gaudin and Pascal Favrel} } @article {8709, title = {First demographic insights on historically harvested and poorly known male sperm whale populations off the Crozet and Kerguelen Islands (Southern Ocean)}, journal = {Marine Mammal Science}, volume = {34}, year = {2018}, month = {Jan-07-2018}, pages = {595 - 615}, doi = {10.1111/mms.12469}, url = {https://onlinelibrary.wiley.com/doi/10.1111/mms.12469}, author = {Labadie, Guillemette and Tixier, Paul and Barbraud, Christophe and Fay, R{\'e}mi and Nicolas Gasco and Guy Duhamel and Guinet, Christophe} } @article {8569, title = {First evaluation of the cookie-cutter sharks (Isistius sp.) predation pattern on different cetacean species in Martinique}, journal = {Environmental Biology of Fishes}, volume = {101}, year = {2018}, month = {Jan-05-2018}, pages = {749 - 759}, issn = {0378-1909}, doi = {10.1007/s10641-018-0735-1}, url = {http://link.springer.com/10.1007/s10641-018-0735-1}, author = {Feunteun, A. and de Schrevel, C. and Verhaegen, M. and Chevallier, D. and Duchemin, M. and Ziani, N. and de Montgolfier, B.} } @article {5960, title = {Fish fauna survey on the Upper Maroni (French Guyana) between 2000 and 2002 with some ecological considerations}, journal = {Cybium}, volume = {42}, year = {2018}, pages = {113-126}, doi = {10.26028/cybium/2018-421-012}, url = {http://sfi-cybium.fr/fr/fish-fauna-survey-upper-maroni-french-guyana-between-2000-and-2002-some-ecological-considerations}, author = {Fermon, Y and Fossati, O and Meunier, Francois J.} } @article {5350, title = {Freshwater acidification: an example of an endangered crayfish species sensitive to pH}, journal = {Hydrobiologia}, volume = {813}, year = {2018}, pages = {41-50}, abstract = {Carbon dioxide released in the atmosphere\ and dissolved in water leads to acidification. Relatively\ few studies have focused on fresh waters, where\ biocalcifying species are more readily impacted by\ changes in pH. Sensitivity to pH of an endangered\ calcium-demanding organism, the crayfish Austropotamobius\ pallipes, was investigated in the Pinail\ nature reserve, a natural system with 3000 permanent\ ponds, some inhabited by the crayfish and others not,\ originally due to human introduction. From the 14\ chemical parameters measured in this study, the main\ limiting factor preventing crayfish establishment\ appears to be water acidity (pH\ 6.8), which affects\ calcification, molting, growth and reproduction. We\ predict that 20\% of the Pinail populations will\ disappear by 2060 due to freshwater acidification\ with the present level of fossil fuel consumption.
}, issn = {Print ISSN 0018-8158 Online ISSN 1573-5117}, author = {David Beaune and Yann Sellier and Gilles Luquet and Fr{\'e}d{\'e}ric Grandjean} } @article {5863, title = {Future intensification of summer hypoxia in the tidal Garonne River ({SW} France) simulated by a coupled hydro sedimentary-biogeochemical model}, journal = {Environmental Science and Pollution Research}, volume = {25}, year = {2018}, month = {sep}, pages = {31957{\textendash}31970}, doi = {10.1007/s11356-018-3035-6}, url = {https://doi.org/10.1007/s11356-018-3035-6}, author = {Katixa Lajaunie-Salla and Aldo Sottolichio and Sabine Schmidt and Xavier Litrico and Guillaume Binet and Gwena{\"e}l Abril} } @article {5343, title = {Genetic and morphological discrimination of three species of ninespined stickleback Pungitius spp. (Teleostei, Gasterosteidae) in France with the revalidation of Pungitius vulgaris (Mauduyt, 1848)}, journal = {J Zool Syst Evol Res }, volume = {2017}, year = {2018}, pages = {1{\textendash}25}, abstract = {The taxonomy of French ninespined sticklebacks (Pungitius spp.) has long been controversial. To clarify the taxonomy in this group, we use mitochondrial (COI) and nuclear\ (RNF213) sequence markers, as well as morphological data. In France, both genetic markers discriminate three evolutionary lineages. Morphological analysis on fresh and type specimens supports the different lineages and the existence of three species in France. Pungitius pungitius, occurring in the North of France and Rhone basin, is characterized by specimens longer than 35 mm SL, by a flat head with a straight or slightly concave snout, typically 9{\textendash}10 dorsal spines, 10{\textendash}11 dorsal soft rays, 9{\textendash}10 anal soft rays, 0{\textendash}12 scutes on the caudal peduncle with a keel reaching the last anal-fin ray, longer pelvic fin, post-dorsal and caudal peduncle lengths, and a slim caudal peduncle (caudal peduncle depth/ length 11.8\%{\textendash}21.9\%). Pungitius laevis, occurring in France, in the English Channel basins and Loire drainage, differs from the other species by a head rounded with concave snout in specimens longer than 35 mm SL, accentuating the impression of fleshy lips, 0{\textendash}4 scutes on the caudal peduncle and a higher caudal peduncle depth/length ratio (15.7\%{\textendash} 34.5\%). Finally, Pungitius vulgaris, endemic to the Vienne River and rivers of south-western France as far north as the Garonne estuary, is differentiated by a rounded head with a straight or slightly convex snout, the absence of scutes on the caudal peduncle and by having 11 pectoral-fin rays. Our data confirm the existence of a hybridization zone in the North of France between P. pungitius and P. laevis. As a result, Pungitius lotharingus is invalid, as it was described based on hybrid specimens. A lectotype for P. laevis was designated because the syntypes included hybrids. This revision provides new perspectives for evolutionary biology studies and will have consequences for Pungitius conservation in France.
}, keywords = {France, Integrative taxonomy, mitochondrial DNA COI, Pungitius, RNF213}, author = {Denys, Ga{\"e}l and Persat, Henri and Dettai, Agn{\`e}s and Geiger Mathias and Freyhof, J and Fesquet, J and Philippe Keith} } @article {6817, title = {Gill chamber and gut microbial communities of the hydrothermal shrimp Rimicaris chacei Williams and Rona 1986: A possible symbiosis}, journal = {PLOS ONE}, volume = {13}, year = {2018}, month = {Feb-11-2018}, pages = {e0206084}, abstract = {Endothermy, production and retention of heat by the body, appeared convergently in mammals, birds and four spiny-rayed teleost fish lineages. Of these, red-muscle endothermy over most or all of the body has only appeared in two groups: tunas and the opah (Lampris). Hitherto, tunas have been the only spiny-rayed fishes known to have bones containing embedded osteocyte cells; others have acellular bone. We examined bone histology in Lampris for the first time, demonstrating the presence of cellular bone very similar to that of tunas. This contrasts with the acellular condition of its ectothermic close relatives. The distribution of this character suggests that it co-evolved with red-muscle endothermy, hinting at a common physiological mechanism that would link bone histology to endothermy in these distantly related teleost lineages.
}, doi = {10.1098/rsbl.2018.0270} URL = {https://royalsocietypublishing.org/doi/abs/10.1098/rsbl.2018.0270}, author = {Davesne, Donald and Meunier, Francois J. and Friedman, Matt and Benson, Roger B. J. and Otero, Olga} } @book {Egerton2018398, title = {History of ecology}, series = {Encyclopedia of Ecology}, year = {2018}, note = {cited By 0}, pages = {398-428}, publisher = {Elsevier}, organization = {Elsevier}, abstract = {Ernst Haeckel coined the word {\textquotedblleft}oecology{\textquotedblright} in 1866 for a new science, but relevant observations and ideas had already been accumulating since the ancient Greeks. The balance of nature was the first ecological idea; Carl Linnaeus expanded it beyond animals to include plants and named it Oeconomia Naturae. Specialized sciences began to emerge in the early 1800s; among the earliest was phytogeography, founded by Alexander von Humboldt. Evolutionary theories by Lamarck and Charles Darwin were relevant to ecological ideas, since Lamarck thought species evolve rather than become extinct; Darwin saw competition as a cause of extinction. The roots of the main ecological specializations-plant ecology, animal ecology, limnology, and marine ecology-emerged in the 1800s, and limnology and plant ecology became organized by the 1890s. These four specializations were developed throughout the 1900s, as were new ones-primarily population ecology and ecosystem ecology. Ecological societies and journals came to the fore in the 1900s, as did institutions and specialized schools in various universities. Biogeochemistry arose in Russia (the USSR) in the early 1900s, and the Gaia theory arose in 1972. After the Second World War, environmentalism became important in all countries, and ecologists were needed as consultants. The International Biological Program (1964-74) produced many publications on ecosystems throughout the world. {\textcopyright} 2019 Elsevier B.V. All rights reserved.}, isbn = {9780444641304}, doi = {10.1016/B978-0-12-409548-9.00864-2}, url = {https://www.scopus.com/inward/record.uri?eid=2-s2.0-85079265338\&doi=10.1016\%2fB978-0-12-409548-9.00864-2\&partnerID=40\&md5=e4457a4cb33bbad34af3f40ee6f384e6}, author = {Egerton, F.N. and Nathalie Niquil and Martins, I.} } @article {8704, title = {How do fishing practices influence sperm whale (Physeter macrocephalus) depredation on demersal longline fisheries?}, journal = {Fisheries Research}, volume = {206}, year = {2018}, month = {Jan-10-2018}, pages = {14 - 26}, issn = {01657836}, doi = {10.1016/j.fishres.2018.04.019}, url = {https://linkinghub.elsevier.com/retrieve/pii/S0165783618301255}, author = {Janc, Ana{\"\i}s and Richard, Ga{\"e}tan and Guinet, Christophe and Arnould, John P.Y. and Villanueva, Maria Ching and Guy Duhamel and Nicolas Gasco and Tixier, Paul} } @article {5921, title = {Hydro-ecological controls on dissolved carbon dynamics in groundwater and export to streams in a temperate pine forest}, journal = {Biogeosciences}, volume = {15}, year = {2018}, pages = {669{\textendash}691}, doi = {10.5194/bg-15-669-2018}, url = {https://doi.org/10.5194/bg-15-669-2018}, author = {Loris Deirmendjian and Denis Loustau and Laurent Augusto and S{\'e}bastien Lafont and Christophe Chipeaux and Dominique Poirier and Gwena{\"e}l Abril} } @article {5921, title = {Hydro-ecological controls on dissolved carbon dynamics in groundwater and export to streams in a temperate pine forest}, journal = {Biogeosciences}, volume = {15}, year = {2018}, pages = {669{\textendash}691}, doi = {10.5194/bg-15-669-2018}, url = {https://doi.org/10.5194/bg-15-669-2018}, author = {Loris Deirmendjian and Denis Loustau and Laurent Augusto and S{\'e}bastien Lafont and Christophe Chipeaux and Dominique Poirier and Gwena{\"e}l Abril} } @article {5439, title = {Identification of a moronecidin-like antimicrobial peptide in the venomous fish Pterois volitans: Functional and structural study of pteroicidin-α.}, journal = {Fish and shellfish Immunology}, year = {2018}, pages = {318-324}, abstract = {The present study characterizes for the first time an antimicrobial peptide in lionfish (Pterois volitans), a venomous fish. Using a peptidomic approach, we identified a mature piscidin in lionfish and called it pteroicidin-α. We detected an amidated form (pteroicidin-α- CONH2) and a non-amidated form (pteroicidin-α-COOH), and then performed their functional and structural study. Interestingly, the two peptides displayed different antibacterial and hemolytic activity levels. Pteroicidin-α-CONH2\ was bactericidal on human pathogens like Staphylococcus aureus or Escherichia coli, as well as on the fish pathogen Aeromonas salmonicida, while pteroicidin-α-COOH only inhibited their growth. Furthermore, the two peptides induced hemolysis of red blood cells from different vertebrates, namely humans, sea bass and lesser-spotted dogfish. Hemolysis occurred with low concentrations of pteroicidin-α-CONH2, indicating greater toxicity of the amidated form. Circular dichroism analysis showed that both peptides adopted a helical conformation, yet with a greater α-helix content in pteroicidin-α-CONH2. Overall, these results suggest that amidation strongly influences pteroicidin-α by modifying its structure and its physico-chemical characteristics and by increasing its hemolytic activity
}, author = {Houyvet, Baptiste and Yolande Bouchon-Navaro and Bouchon, Claude and Goux, Didier and Bernay, Beno{\^\i}t and Corre, Erwan and C{\'e}line Zatylny-Gaudin} } @article {8567, title = {Identification of marine key areas across the Caribbean to ensure the conservation of the critically endangered hawksbill turtle}, journal = {Biological Conservation}, volume = {223}, year = {2018}, month = {Jan-07-2018}, pages = {170 - 180}, issn = {00063207}, doi = {10.1016/j.biocon.2018.05.002}, url = {https://linkinghub.elsevier.com/retrieve/pii/S0006320718301423}, author = {Nivi{\`e}re, Manon and Chambault, Philippine and P{\'e}rez, Thierry and Etienne, Denis and Bonola, Marc and Martin, Jordan and Barnerias, Cyrille and Vedie, Fabien and Mailles, Julien and Dumont-Dayot, {\'E}milie and Gresser, Julie and Hielard, Ga{\"e}lle and R{\'e}gis, Sidney and Lecerf, Nicolas and Thieulle, Laurent and Duru, Matthieu and Lefebvre, Fabien and Milet, Guillaume and Guillemot, Blandine and Bildan, Bernard and de Montgolfier, Benjamin and Benhalilou, Abdelwahab and Murgale, C{\'e}line and Maillet, Thomas and Queneherve, Patrick and Woignier, Thierry and Safi, Morjane and Le Maho, Yvon and Petit, Odile and Chevallier, Damien} } @article {6901, title = {Immunohistochemical Approach to Understanding the Organization of the Olfactory System in the Cuttlefish, Sepia officinalis}, journal = {ACS Chemical Neuroscience}, volume = {9}, year = {2018}, month = {Mar-08-2019}, pages = {2074 - 2088}, issn = {1948-7193}, doi = {10.1021/acschemneuro.8b00021}, url = {https://pubs.acs.org/doi/10.1021/acschemneuro.8b00021}, author = {Scaros, Alexia T. and Croll, Roger P. and S{\'e}bastien Baratte} } @article {6691, title = {Insights from modeling studies on how climate change affects invasive alien species geography}, journal = {Ecology and Evolution}, volume = {8}, year = {2018}, month = {Jan-06-2018}, pages = {5688 - 5700}, doi = {10.1002/ece3.4098}, url = {https://onlinelibrary.wiley.com/doi/full/10.1002/ece3.4098}, author = {Bellard, C{\'e}line and Jeschke, Jonathan M. and Leroy, Boris and Mace, Georgina M.} } @article {5492, title = {Insights from modeling studies on how climate change affects invasive alien species geography}, journal = {Ecology and Evolution}, year = {2018}, month = {05/2018}, pages = {1-13}, abstract = {Climate change and biological invasions are threatening biodiversity and ecosystem services worldwide. It has now been widely acknowledged that climate change will affect biological invasions. A large number of studies have investigated predicted shifts and other changes in the geographic ranges of invasive alien species related to climate change using modeling approaches. Yet these studies have provided contradictory evidence, and no consensus has been reached. We conducted a systematic review of 423 modeling case studies included in 71 publications that have examined the predicted effects of climate change on those species. We differentiate the approaches used in these studies and synthesize their main results. Our results reaffirm the major role of climate change as a driver of invasive alien species distribution in the future. We found biases in the literature both regarding the taxa, toward plants and invertebrates, and the areas of the planet investigated. Despite these biases, we found for the plants and vertebrates studied that climate change will more frequently contribute to a decrease in species range size than an increase in the overall area occupied. This is largely due to oceans preventing terrestrial invaders from spreading poleward. In contrast, we found that the ranges of invertebrates and pathogens studied are more likely to increase following climate change. An important caveat to these findings is that researchers have rarely considered the effects of climate change on transport, introduction success, or the resulting impacts. We recommend closing these research gaps, and propose additional avenues for future investigations, as well as opportunities and challenges for managing invasions under climate change.}, doi = {https://doi.org/10.1002/ece3.4098}, url = {https://onlinelibrary.wiley.com/doi/abs/10.1002/ece3.4098}, author = {Bellard, C{\'e}line and Jeschke, Jonathan M and Leroy, Boris and Mace, Georgina M} } @article {5928, title = {Integrative taxonomy helps separate four species of freshwater shrimps commonly overlooked as Caridina longirostris (Crustacea: Decapoda: Atyidae) in Indo-West Pacific islands.}, journal = {Invertebrate systematics}, volume = {32}, year = {2018}, pages = {1422{\textendash}1447}, abstract = {Caridina longirostris H. Milne Edwards, 1837 described from specimens supposedly from La Macta River near Oran, Algeria, is an emblematic species of the {\textquoteleft}C. nilotica complex{\textquoteright}. Until now this species was thought to have a wide distribution in the Indo-Pacific region. Recently, numerous specimens identified as C. longirostris were collected from various Indo-West Pacific localities. In the context of integrative taxonomy, both old and newly collected specimens were morphologically and genetically studied. Four species allied to C. longirostris are here identified: C. appendiculata Jalihal \& Shenoy, 1998, C. brevidactyla Roux, 1920, C. gracilipes De Man, 1892 and C. meridionalis Roux, 1926. Detailed re-descriptions of these four species are given as well as their geographical and ecological distributions. Caridina nilotica var. brevidactyla is revalidated as the species C. brevidactyla, and C. coulaborensis Richard\&Clark, 2014, C. fritzi Richard \& Clark, 2014 and C. solamulieres Richard \& Clark, 2014 are considered junior synonyms of C. meridionalis. The position of these species in the troublesome {\textquoteleft}C. nilotica complex{\textquoteright} is clarified and some species are synonymised. A key is provided to facilitate identification.
}, keywords = {16S rRNA, Indo-Pacific region, morphology}, author = {de Mazancourt, Valentin and Marquet, G{\'e}rard and Klotz, Werner and Philippe Keith} } @article {5176, title = {Interplay between abiotic factors and species assemblages mediated by the ecosystem engineer Sabellaria alveolata (Annelida: Polychaeta)}, journal = {Estuarine, Coastal and Shelf Science}, volume = {200}, year = {2018}, abstract = {Sabellaria alveolata is a gregarious polychaete that uses sand particles to build three-dimensional structures known as reefs, fixed atop rocks or built on soft sediments. These structures are known to modify the local grain-size distribution and to host a highly diversified macrofauna, altered when the reef undergoes disturbances.
The goal of this study was to investigate the different sedimentary and biological changes associated with the presence of a S. alveolata reef over two contrasting seasons (late winter and late summer), and how these changes were linked. Three different sediments were considered: the engineered sediment (the actual reef), the associated sediment (the soft sediment surrounding the reef structures) and a control soft sediment (i.e. no reef structures in close proximity). Univariate and multivariate comparisons of grain-size distribution, soft sediment characteristics (organic matter content, chlorophyll a, pheopigments and carbohydrate concentrations) and macrofauna were conducted between the different sediment types at both seasons and between the two seasons for each sediment type. A distance-based redundancy analyses (dbRDA) was used to investigate the link between the different environmental parameters and the macrofauna assemblages. Finally, we focused on a disturbance continuum of the engineered sediments proxied by an increase in the mud present in these sediments. The effects of a continuous and increasing disturbance on the associated fauna were investigated using pairwise beta diversity indices (S{\o}rensen and Bray-Curtis dissimilarities and their decomposition into turnover and nestedness). Results showed a significant effect of the reef on the local sediment distribution (coarser sediments compared to the control) and on the benthic primary production (higher in the associated sediments). At both seasons, S. alveolata biomass and sediment principal mode were the environmental parameters which best differentiated the engineered, associated and control sediment assemblages. These two parameters are under the ecosystem engineer{\textquoteright}s influence stressing its importance in structuring benthic macrofauna. Furthermore, in late summer but not in late winter, presence/absence and abundance based beta diversity were positively correlated to our disturbance proxy (mud content) a tendency driven by a species replacement and a rise in the associated fauna density.
Our first set of results highlight the importance of S. alveolata reefs as benthic primary production enhancers via their physical structure and their biological activity. The results obtained using beta diversity indices emphasize the importance of recruitment in structuring the reef{\textquoteright}s macrofauna and {\textendash} paradoxically {\textendash} the ecological value of S. alveolata degraded forms as biodiversity and recruitment promoters.
Seagrass meadows form highly productive and valuable ecosystems in the marine environment. Throughout the year, seagrass meadows are exposed to abiotic and biotic variations linked to (i) seasonal fluctuations, (ii) short-term stress events such as, e.g., local nutrient enrichment, and (iii) small-scale disturbances such as, e.g., biomass removal by grazing. We hypothesized that short-term stress events and smallscale disturbances may affect seagrass chance for survival in temperate latitudes. To test this hypothesis we focused on seagrass carbon reserves in the form of starch stored seasonally in rhizomes, as these have been defined as a good indicator for winter survival. Twelve Zostera noltei meadows were monitored along a latitudinal
gradient in Western Europe to firstly assess the seasonal change of their rhizomal starch content. Secondly, we tested the effects of nutrient enrichment and/or biomass removal on the corresponding starch content by using a short-term manipulative field experiment at a single latitude in the Netherlands. At the end of the growing season, we observed a weak but significant linear increase of starch content along the latitudinal gradient from south to north. This agrees with the contention that such reserves are essential for regrowth after winter, which is more severe in the north. In addition, we also observed a weak but significant positive relationship between starch content at the beginning of the growing season and past winter temperatures. This implies a lower regrowth potential after severe winters, due to diminished starch content at the beginning of the growing season. Short-term stress and disturbances
may intensify these patterns, because our manipulative experiments show that when nutrient enrichment and biomass loss co-occurred at the end of the growing season, Z. noltei starch content declined. In temperate zones, the capacity of seagrasses to accumulate carbon reserves is expected to determine carbon-based regrowth after winter. Therefore, processes affecting those reserves might affect seagrass resilience. With increasing human pressure on coastal systems, short- and small-scale stress events are expected to become more frequent, threatening the resilience of seagrass ecosystems, particularly at higher latitudes, where populations tend to have an annual cycle highly dependent on their storage capacity.
{\textcopyright} 2018 Beaugrand et al. This is an open access article distributed under the terms of the Creative Commons Attribution License, which permits unrestricted use, distribution, and reproduction in any medium, provided the original author and source are credited. Species richness is greater in places where the number of potential niches is high. Consequently, the niche may be fundamental for understanding the arrangement of life and especially, the establishment and maintenance of the well-known Latitudinal Biodiversity Gradient (LBG). However, not all potential niches may be occupied fully in a habitat, as measured by niche vacancy/saturation. Here, we theoretically reconstruct oceanic biodiversity and analyse modeled and observed data together to examine patterns in niche saturation (i.e. the ratio between observed and theoretical biodiversity of a given taxon) for several taxonomic groups. Our results led us to hypothesize that the arrangement of marine life is constrained by the distribution of the maximal number of species{\textquoteright} niches available, which represents a fundamental mathematical limit to the number of species that can co-exist locally. We liken this arrangement to a type of chessboard where each square on the board is a geographic area, itself comprising a distinct number of sub-squares (species{\textquoteright} niches). Each sub-square on the chessboard can accept a unique species of a given ecological guild, whose occurrence is determined by speciation/extinction. Because of the interaction between the thermal niche and changes in temperature, our study shows that the chessboard has more sub-squares at mid-latitudes and we suggest that many clades should exhibit a LBG because their probability of emergence should be higher in the tropics where more niches are available. Our work reveals that each taxonomic group has its own unique chessboard and that global niche saturation increases when organismal complexity decreases. As a result, the mathematical influence of the chessboard is likely to be more prominent for taxonomic groups with low (e.g. plankton) than great (e.g. mammals) biocomplexity. Our study therefore reveals the complex interplay between a fundamental mathematical constraint on biodiversity resulting from the interaction between the species{\textquoteright} ecological niche and fluctuations in the environmental regime (here, temperature), which has a predictable component and a stochastic-like biological influence (diversification rates, origination and clade age) that may alter or blur the former.
}, issn = {19326203}, doi = {10.1371/journal.pone.0194006}, author = {Gr{\'e}gory Beaugrand and Christophe Luczak and Goberville, Eric and Richard R Kirby} } @article {5611, title = {Marine sublittoral benthos fails to track temperature in response to climate change in a biogeographical transition zone}, journal = {ICES Journal of Marine Science}, year = {2018}, abstract = {Species ranges are shifting globally to track temperature changes in response to climate warming, with substantial variability among taxa. In
the English Channel, a biogeographical transition zone between the cold temperate and warm temperate provinces of the North-East Atlantic, distribution shifts have been relatively well documented for plankton, fish and intertidal benthic organisms, but little information is available on sublittoral benthos. Following a description of the magnitude of the sea bottom temperature (SBT) rise, the changes in the distribution and occupancy of 65 benthic invertebrate species were analysed by comparing data collected throughout the English Channel at more
than 200 stations sampled during a cool period in the 1960s{\textendash}1970s and at present in 2012{\textendash}2014. A non-uniform rise in SBT for the last three
decades was observed at the regional scale, varying from 0.07 to 0.54C per decade. This rise differs from that reported for sea surface temperature
(SST) in stratified areas suggesting that SBT should be used rather than SST to analyse responses of subtidal organisms to climate change. Despite shifts in both minimum and maximum sea bottom isotherms (2.5 and 3.2 km.year1, respectively), the distribution centroid shift of most species remained \<1.0 km.year1, regardless of the average temperatures they usually experience. Conversely, decreases were observed in the occurrence of most cold-water species and increases were found in the occurrence of most warm-water species. These results suggest that ongoing climate change could lead to a decrease in benthic biodiversity at range limits, especially where connection routes are lacking for new migrants.
The ability to determine the composition and relative frequencies of fish species in large ichthyoplankton swarms could have extremely important ecological applications However, this task is currently hampered by methodological limitations. We proposed a new method for Amazonian species based on hybridization capture of the COI gene DNA from a distant species (Danio rerio), absent from our study area (the Amazon basin). The COI sequence of this species is approximately equidistant from all COI of Amazonian species available. By using this sequence as probe we successfully facilitated the simultaneous identification of fish larvae belonging to the order Siluriformes and to the Characiformes represented in our ichthyoplankton samples. Species relative frequencies, estimated by the number of reads, showed almost perfect correlations with true frequencies estimated by a Sanger approach, allowing the development of a quantitative approach. We also proposed a further improvement to a previous protocol, which enables lowering the sequencing effort by 40 times. This new Metabarcoding by Capture using a Single Probe (MCSP) methodology could have important implications for ecology, fisheries management and conservation in fish biodiversity hotspots worldwide. Our approach could easily be extended to other plant and animal taxa.
}, doi = {https://doi.org/10.1371/journal.pone.0202976}, url = {https://journals.plos.org/plosone/article?id=10.1371/journal.pone.0202976}, author = {Mariac, C{\'e}dric and Vigouroux, Y. and Fabrice Duponchelle and Garc{\'\i}a-D{\'a}vila, C and Nu{\~n}ez L. and Desmarais, E and Renno, Jean-Francois} } @article {5418, title = {Microbial parasites make cyanobacteria blooms less of a trophic dead-end than commonly assumed}, journal = {The ISME Journal}, volume = {12}, year = {2018}, pages = {1008-1020}, abstract = {Les parasites sont pr{\'e}sents dans tous les {\'e}cosyst{\`e}mes et peuvent {\^e}tre {\`a} l{\textquoteright}origine de changements dans la structure et le fonctionnement des r{\'e}seaux trophiques. Cependant, {\`a} ce jour, nos connaissances concernant les effets des parasites sur la dynamique des r{\'e}seaux trophiques restent limit{\'e}es. Dans cette {\'e}tude, nous analysons le r{\^o}le de parasites microbiens (virus de bact{\'e}ries, phytoplancton et cyanobact{\'e}ries, et des chitrides parasites des cyanobact{\'e}ries) sur le transfert d{\textquoteright}{\'e}nergie et le fonctionnement du r{\'e}seau trophique au cours d{\textquoteright}un bloom de cyanobact{\'e}rie {\`a} l{\textquoteright}aide d{\textquoteright}un mod{\`e}le d{\textquoteright}Analyse Inverse Lin{\'e}aire. Cette mod{\'e}lisation a permis de mettre en {\'e}vidence l{\textquoteright}importance du broutage sur les bact{\'e}ries h{\'e}t{\'e}rotrophes {\`a} travers la voie microbienne (DOC -\> bact{\'e}ries -\> consommateurs), ainsi que la d{\'e}pendance des consommateurs vis {\`a} vis des bact{\'e}ries notamment pendant les blooms de cyanobact{\'e}ries. Au fur et {\`a} mesure que les bact{\'e}ries deviennent la principale source d{\textquoteright}{\'e}nergie des consommateurs, le syst{\`e}me adopte une structure plus complexe, en r{\'e}seau, s{\textquoteright}accompagnant d{\textquoteright}une augmentation de l{\textquoteright}omnivorie du syst{\`e}me. Cette derni{\`e}re pourrait {\^e}tre {\`a} l{\textquoteright}origine d{\textquoteright}une augmentation de la capacit{\'e} du syst{\`e}me {\`a} r{\'e}sister {\`a} l{\textquoteright}efflorescence des cyanobact{\'e}ries. Finalement, nous avons {\'e}galement mis en {\'e}vidence les effets de la destruction des cellules h{\^o}tes des cyanobact{\'e}ries par les chitrides sur la dynamique du r{\'e}seau trophique. En effet, cette derni{\`e}re faciliterait le broutage des cyanobact{\'e}ries et offrirait des voies alternatives aux consommateurs, ce qui augmenteraient la stabilit{\'e} du syst{\`e}me.
\
Parasites exist in every ecosystem and can have large influence on food-web structure and function, yet, we know little about parasites{\textquoteright} effect on food-web dynamics. Here we investigate the role of microbial parasitism (viruses of bacteria, phytoplankton and cyanobacteria, and parasitic chytrids on cyanobacteria) on the dynamics of trophic pathways and food-web functioning during a cyanobacteria bloom, using linear inverse food-web modeling parameterized with a 2-month long dataset (biomasses, infection parameters, etc.). We show the importance of grazing on heterotrophic bacteria (the microbial pathway: DOC -\> bacteria -\> consumer) and how consumers depended on bacteria during peak-cyanobacteria bloom, which abundance was partly driven by the viral activity. As bacteria become the main energy pathway to the consumers, the system takes a more web-like structure through increased omnivory, and may thereby facilitate the system{\textquoteright}s persistence to the cyanobacteria outbreak. We also showed how the killing of cyanobacteria host-cells by chytrids had important impact on the food-web dynamics by facilitating grazing on the cyanobacteria, and by offering alternative pathways to the consumers. This seemed to increase the system{\textquoteright}s ability to return to a mix of trophic pathways, which theoretically increases the stability of the system.
}, doi = {10.1038/s41396-018-0045-9}, url = {https://doi.org/10.1038/s41396-018-0045-9}, author = {Haraldsson, Matilda and M{\'e}lanie Gerphagnon and Bazin, Pauline and Samuele Tecchio and T{\'e}l{\'e}sphore Sime-Ngando and Nathalie Niquil} } @article {6931, title = {Microhabitat characteristics of Stegastes planifrons and S. adustus territories}, journal = {Environmental Biology of Fishes}, volume = {101}, year = {2018}, month = {Jan-03-2018}, pages = {441 - 448}, issn = {0378-1909}, doi = {10.1007/s10641-017-0709-8}, url = {http://link.springer.com/10.1007/s10641-017-0709-8}, author = {Charlotte R. Dromard and Bouchon-Navaro, Yolande and Cordonnier, S{\'e}bastien and Harmelin-Vivien, Mireille and Bouchon, Claude} } @inbook {5882, title = {Microphytobenthic Biofilms: Composition and Interactions}, booktitle = {Mudflat Ecology}, year = {2018}, pages = {63{\textendash}90}, publisher = {Springer International Publishing}, organization = {Springer International Publishing}, address = {Cham}, abstract = {Microphytobenthic biofilms in mudflats are characterised by a wide variety of microorganisms and the production of large quantities of extracellular polymeric substances (EPS). In this chapter, the diversity of microphytobenthos (MPB) is reviewed and the complex interactions that take place in mudflat biofilms between microalgae and bacteria are discussed. Microbial interaction in natural biofilms is an emerging field of study in mudflat ecosystems. Although emphasis is placed on EPS and EPS-mediated interactions, because they have received most of the research attention, more direct interactions such as communication and defence are also discussed. Most studies to date have dealt with monospecific or multispecific laboratory biofilms, and environmental studies are still very rare. The development of this field of study in mudflat ecosystems is clearly a major requirement in our understanding of the functioning of mudflat biofilms.
}, isbn = {978-3-319-99194-8}, doi = {10.1007/978-3-319-99194-8_4}, url = {https://doi.org/10.1007/978-3-319-99194-8_4}, author = {C{\'e}dric Hubas and Passarelli, C and Paterson, David M}, editor = {Beninger, Peter G.} } @article {6751, title = {Migration behaviour and escapement of European silver eels from a large lake and wetland system subject to water level management (Grand-Lieu Lake, France): New insights from regulated acoustic telemetry data}, journal = {Ecology of Freshwater Fish}, volume = {27}, year = {2018}, pages = {570-579}, abstract = {Current knowledge about the downstream migration of sexually mature European eels (Anguilla\ anguilla) remains incomplete, particularly in still water habitats such as lakes and wetlands subject to water level management. However, for the management of this endangered species, it is important to understand migration dynamics, and contribution to the breeding stock. This study aimed to assess the parameters that trigger and guide the migration of silver eels in the largest floodplain lake and associated wetlands in France (the sluice regulated Grand-Lieu Lake). A telemetry survey of 50 acoustic and PIT-tagged female silver eels was performed during the 2015{\textendash}2016 migration period. We deployed a novel telemetric approach, using receivers to delimit several restricted virtual boxes to determine the instantaneous location of individuals and to transform simple discrete telemetric data into presence/absence data. The low numbers leaving the lake centre are probably explained by the lack of orienting water flows or other environmental clues, but whilst the fate of 34\% (17/50) of the tagged eels is unknown, 18\% (9/50) were caught by commercial fishermen. Modelling showed that detections were not clearly associated with environmental factors typically involved in riverine migrations (e.g. current velocity, atmospheric pressure and temperature) but they were particularly associated with higher and increasing water levels and, for eels exiting the lake, a sharp increase when sluice gates were opened to an effective gap of \>75\ cm. It is concluded that management of water levels and sluice gate opening during the migration period might aid escapement of silver eels.}, keywords = {Anguilla~anguilla, cues, silver eel migration, triggers}, doi = {10.1111/eff.12371}, url = {https://onlinelibrary.wiley.com/doi/abs/10.1111/eff.12371}, author = {Thomas Trancart and Eric Feunteun and Danet, Valentin and Alexandre Carpentier and Mazel, Virgile and Charrier, Fabien and Druet, Morgan and Anthony Acou} } @article {5431, title = {Mission POLARIS : Invert{\'e}br{\'e}s antarctiques et r{\'e}chauffement global}, volume = {278}, year = {2018}, month = {Juin}, pages = {82-83}, issn = {0990-0845}, author = {St{\'e}phane Hourdez and J{\'e}r{\^o}me Fournier and Pierre Chevaldonn{\'e}} } @inbook {5883, title = {Mudflat Ecosystem Engineers and Services}, booktitle = {Mudflat Ecology}, year = {2018}, pages = {243{\textendash}269}, publisher = {Springer International Publishing}, organization = {Springer International Publishing}, address = {Cham}, abstract = {Ecosystem engineers play a fundamental role in the creation, maintenance and transformation of habitats in tidal flats. Highly diverse in terms of size, phylogeny, and effect on their environment, they can facilitate or hinder a number of organisms, but generally have a positive influence on both the abundance and the diversity of mudflat organisms. The magnitude of the engineering effect is, however, largely dependent on the biotic and abiotic environment of the engineer. In particular, stressful habitats such as mudflats host a large number of ecosystem engineers; understanding interactions between them, and how they vary with abiotic variables, is therefore of crucial importance, to evaluate how ecosystem engineers affect benthic communities and ecosystem functioning. Such understanding will also help human populations which benefit from mudflat organisms and/or functioning (i.e. which derive ecosystem services from them), to maintain and manage the sustainably of tidal flats, in a way which maintains human health and well-being.
}, isbn = {978-3-319-99194-8}, doi = {10.1007/978-3-319-99194-8_10}, url = {https://doi.org/10.1007/978-3-319-99194-8_10}, author = {Passarelli, C and C{\'e}dric Hubas and Paterson, David M}, editor = {Beninger, Peter G.} } @article {6634, title = {The nanos1 gene was duplicated in early Vertebrates and the two paralogs show different gonadal expression profiles in a shark}, journal = {Scientific Reports}, volume = {8}, year = {2018}, month = {Jan-12-2018}, doi = {10.1038/s41598-018-24643-1}, url = {http://www.nature.com/articles/s41598-018-24643-1}, author = {Gribouval, Laura and Pascal Sourdaine and Lareyre, Jean-Jacques and Bellaiche, Johanna and Le Gac, Florence and Mazan, Sylvie and Guiardiere, C{\'e}cile and Auvray, Pierr{\"\i}ck and Aude Gautier} } @article {5924, title = {A new species of Schismatogobius (Teleostei: Gobiidae) from Halmahera (Indonesia)}, journal = {Cybium}, volume = {42}, year = {2018}, pages = {195-200}, abstract = {\
\ Anew species of Schismatogobius, a freshwater goby, is described from Halmahera (Indonesia). It differs from other species belonging to the genus by a high percentage of genetic divergence in partial COIgene (652 bp) and by several characters, including the number of pectoral fin rays, the pattern of the ventral surface of the head, the pectoral fin colour pattern and the jaw length/head length ratio of male and female.
}, keywords = {Gobiidae, Halmahera, Indonesia, New species, Schismatogobius}, author = {Philippe Keith and Darhuddin, H. and Limmon, G and Hubert, N} } @article {5310, title = {Nutritional composition of suspended particulate matter in a tropical mangrove creek during a tidal cycle (Can Gio, Vietnam)}, journal = {Estuarine, Coastal and Shelf Science}, volume = {200}, year = {2018}, pages = {126-130}, doi = {10.1016/j.ecss.2017.10.017}, url = {https://doi.org/10.1016/j.ecss.2017.10.017}, author = {Frank David and Cyril Marchand and Pierre Taillardat and Th{\`a}nh-Nho, N and Tarik Meziane} } @article {5427, title = {Optical Properties of Nanostructured Silica Structures From Marine Organisms}, journal = {Frontiers in marine Science}, year = {2018}, month = {04:2018}, abstract = {Light is important for the growth, behavior, and development of both phototrophic and autotrophic organisms. A large diversity of organisms used silica-based materials as internal and external structures. Nano-scaled well-organized silica biomaterials are characterized by a low refractive index and an extremely low absorption coefficient in the visible range, which make them interesting for optical studies. Recent studies on silica materials from glass sponges and diatoms, have pointed out very interesting optical properties, such as light waveguiding, diffraction, focusing, and photoluminescence. Light guiding and focusing have been shown to be coupled properties found in spicule of glass sponge or shells of diatoms. Moreover, most of these interesting studies have used purified biomaterials and the properties have addressed in non-aquatic environments, first in order to enhance the index contrast in the structure and second to enhance the spectral distribution. Although there is many evidences that silica biomaterials can present interesting optical properties that might be used for industrial purposes, it is important to emphases that the results were obtained from a few numbers of species. Due to the key roles of light for a large number of marine organisms, the development of experiments with living organisms along with field studies are require to better improve our understanding of the physiological and structural roles played by silica structures.
}, keywords = {biosilica, Diatoms, light-silica interaction, photonics materials, sponges}, author = {Mcheik, A and Cassaignon, S and Livage, J and Gibaud, A and Berthier, S and Pascal Jean Lopez} } @article {5864, title = {{OZCAR}: The French Network of Critical Zone Observatories}, journal = {Vadose Zone Journal}, volume = {17}, year = {2018}, doi = {10.2136/vzj2018.04.0067}, url = {https://doi.org/10.2136/vzj2018.04.0067}, author = {J. Gaillardet and I. Braud and F. Hankard and S. Anquetin and O. Bour and N. Dorfliger and J.R. de Dreuzy and S. Galle and C. Galy and S. Gogo and L. Gourcy and F. Habets and F. Laggoun and L. Longuevergne and T. Le Borgne and F. Naaim-Bouvet and G. Nord and V. Simonneaux and D. Six and T. Tallec and C. Valentin and Gwena{\"e}l Abril and P. Allemand and A. Ar{\`e}nes and B. Arfib and L. Arnaud and N. Arnaud and P. Arnaud and S. Audry and V. Bailly Comte and C. Batiot and A. Battais and H. Bellot and E. Bernard and C. Bertrand and H. Bessi{\`e}re and S. Binet and J. Bodin and X. Bodin and L. Boithias and J. Bouchez and B. Boudevillain and I. Bouzou Moussa and F. Branger and J. J. Braun and P. Brunet and B. Caceres and D. Calmels and B. Cappelaere and H. Celle-Jeanton and F. Chabaux and K. Chalikakis and C. Champollion and Y. Copard and C. Cotel and P. Davy and P. Deline and G. Delrieu and J. Demarty and C. Dessert and M. Dumont and C. Emblanch and J. Ezzahar and M. Est{\`e}ves and V. Favier and M. Faucheux and N. Filizola and P. Flammarion and P. Floury and O. Fovet and M. Fournier and A. J. Francez and L. Gandois and C. Gascuel and E. Gayer and C. Genthon and M. F. G{\'e}rard and D. Gilbert and I. Gouttevin and M. Grippa and G. Gruau and A. Jardani and L. Jeanneau and J. L. Join and H. Jourde and F. Karbou and D. Labat and Yvan Lagadeuc and E. Lajeunesse and R. Lastennet and W. Lavado and E. Lawin and T. Lebel and C. Le Bouteiller and C. Legout and Y. Lejeune and E. Le Meur and N. Le Moigne and J. Lions and A. Lucas and J. P. Malet and C. Marais-Sicre and J. C. Mar{\'e}chal and C. Marlin and P. Martin and J. Martins and J. M. Martinez and N. Massei and A. Mauclerc and N. Mazzilli and J. Mol{\'e}nat and P. Moreira-Turcq and E. Mougin and S. Morin and J. Ndam Ngoupayou and G. Panthou and C. Peugeot and G. Picard and M. C. Pierret and G. Porel and A. Probst and J. L. Probst and A. Rabatel and D. Raclot and L. Ravanel and F. Rejiba and P. Ren{\'e} and O. Ribolzi and J. Riotte and A. Rivi{\`e}re and H. Robain and L. Ruiz and J. M. Sanchez-Perez and W. Santini and S. Sauvage and P. Schoeneich and J. L. Seidel and M. Sekhar and O. Sengtaheuanghoung and N. Silvera and M. Steinmann and A. Soruco and G. Tallec and E. Thibert and D. Valdes Lao and C. Vincent and D. Viville and P. Wagnon and R. Zitouna} } @article {5620, title = {Paraglacial coasts responses to glacier retreat and associated shifts in river floodplains over decadal timescales (1966-2016), Kongsfjorden, Svalbard}, journal = {Land Degradation and Development}, year = {2018}, abstract = {The aim of this paper is to quantify and map the impact of the post-LIA climate change on the coastal evolution on three glacier catchments in the Kongsfjorden area in Svalbard. Climatic data of the meteorological station of Ny-{\r A}lesund indicate an increase in the annual mean air temperature of +4{\textdegree}C from 1969 to 2016 and an increase in precipitation. On the northern coast of the Br{\o}gger Peninsula, the Austre Lov{\'e}nbreen, Midtre Lov{\'e}nbreen and Vestre Lov{\'e}nbreen glaciers have experienced a net retreat in response to changing meteorological conditions. As a consequence of this retreat, the glaciers have disclosed a large area of 7 km{\texttwosuperior} composed of terrigenous sediments which is reworked by runoff and forms coastal sandur deltas. Channel network behavior has been studied using the computation of the active floodplain width by photo-interpretation, which decreased in average from 1966 to 2010. This demonstrated a contraction of the active braided belt and a decrease in the amount of braided channels. A photo-interpretation analysis combined with acquisition of dGPS data during field work shows a mean shoreline progradation of + 0.16 m/y from 1966 to 2016, with a maximal advance of + 82 m seaward. Since 1966 coastal progradation has decreased in time with higher mean values at the beginning of the studied period and an erosional trend from 1990. The sublittoral area was studied using analog side scan sonar in 2009, 2011 and 2012. Three pro-deltas were identified and underwent an extension of 30,000 m{\texttwosuperior} from 2009 to 2012. In the light of this knowledge, our main conclusion is that, by retreating, glaciers have an impact on the sediment availability and on the capacity of the fluvial system to effectively transport sediment to the shoreline. These two factors control the overall coastal evolution by regulating the sediment supply to the coastal area. The coastal zones that were fed with sediments by runoff have experienced a coastal progradation and those that lost this supply have undergone a coastal recession. Due to the contraction of proglacial floodplains, current progradation concerns restricted coastal areas.
}, doi = {10.1002/ldr.3149}, author = {Marine Bourriquen and Agn{\`e}s Baltzer and Denis Mercier and J{\'e}r{\^o}me Fournier and St{\'e}phane Costa and Erwan Roussel} } @article {7852, title = {Partial migration in inexperienced pied avocets Recurvirostra avosetta : distribution pattern and correlates}, journal = {Journal of Avian Biology}, volume = {49}, year = {2018}, month = {Jan-06-2018}, doi = {10.1111/jav.01549}, url = {http://doi.wiley.com/10.1111/jav.01549}, author = {Chambon, R{\'e}mi and Dugravot, S{\'e}bastien and Paillisson, Jean-Marc and Lemesle, Jean-Christophe and Fr{\'e}d{\'e}ric Ysnel and G{\'e}linaud, Guillaume} } @book {5650, title = {Peces de consumo de la Amazon{\'\i}a Peruana}, year = {2018}, pages = {218}, edition = {Instituto de Investigaciones de la Amazon{\'\i}a Peruana (IIAP), Iquitos, Per{\'u}}, author = {Garc{\'\i}a-D{\'a}vila, C and Sanchez, H. and Flores, M and Mejia, J. and Angulo, C. and Castro-Ruiz, D. and Estivals, G. and Garcia, Aurea and Vargas, G. and Nolorbe, C. and Jesus Nu{\~n}ez-Rodriguez and Mariac, C{\'e}dric and Fabrice Duponchelle and Renno, Jean-Francois} } @book {7107, title = {Photoperiodism in Fish}, series = {Encyclopedia of Reproduction}, year = {2018}, pages = {400 - 408}, publisher = {Elsevier}, organization = {Elsevier}, isbn = {9780128151457}, doi = {10.1016/B978-0-12-809633-8.20584-0}, url = {https://linkinghub.elsevier.com/retrieve/pii/B9780128096338205840}, author = {Jack Falcon and Zohar, Yonathan} } @article {5925, title = {Phylogeography of Eleotris fusca (Teleostei: Gobioidei: Eleotridae) in the Indo-Pacific area reveals a cryptic species in the Indian Ocean.}, journal = {Conservation genetics}, volume = {19}, year = {2018}, pages = {1025-1038}, abstract = {\ Indo-Pacific insular freshwater systems are mainly dominated by amphidromous species. Eleotris fusca\ is a widespread one, its life cycle is characterised by a marine pelagic larval phase allowing the species to disperse in the ocean and then to recruit to remote island rivers. In the present study, the population structure of E. fusca\ over its Indo-Pacific distribution range (Western Indian Ocean to French Polynesia, Pacific Ocean) was evaluated. We analysed a section of mitochondrial COI\ of 557 individuals sampled from 28 islands to visualise the population structure. Haplotypes diversity (Hd) was between 0.458 and 1 and, nucleotide diversity (π) was between 0.001 and 0.02. Two distinct genetic groups appeared, one in the Indian Ocean and the other in the Pacific Ocean (FST\ mean = 0.901; 5.2\% average divergence). Given these results, complete mitogenomes (mtDNA) were sequenced and combined with the nuclear Rhodopsin (Rh) gene for a subset of individuals. The two phylogenetic trees based on each analysis showed the same genetic pattern: two different groups belonging to the Indian and the Pacific oceans (6.6 and 1.6\% of divergence for mtDNA and Rh gene respectively), which supported species level differentiation. These analyses revealed the presence of two sister species confounded until present under the name of Eleotris fusca. One of them is cryptic and endemic of the Indian Ocean and the other one is the true E. fusca, which keeps, nevertheless, its status of widespread species.
}, keywords = {Amphidromous, Complete mitogenome, freshwater fish, Nuclear gene}, author = {Marion Mennesson and Bonillo, C{\'e}line and Eric Feunteun and Philippe Keith} } @article {Meddeb201866, title = {Plankton food-web functioning in anthropogenically impacted coastal waters (SW Mediterranean Sea): An ecological network analysis}, journal = {Progress in Oceanography}, volume = {162}, year = {2018}, note = {cited By 4}, pages = {66-82}, publisher = {Elsevier Ltd}, abstract = {The study is the first attempt to (i) model spring food webs in three SW Mediterranean ecosystems which are under different anthropogenic pressures and (ii) to project the consequence of this stress on their function. Linear inverse models were built using the Monte Carlo method coupled with Markov Chains to characterize the food-web status of the Lagoon, the Channel (inshore waters under high eutrophication and chemical contamination) and the Bay of Bizerte (offshore waters under less anthropogenic pressure). Ecological network analysis was used for the description of structural and functional properties of each food web and for inter-ecosystem comparisons. Our results showed that more carbon was produced by phytoplankton in the inshore waters (966{\textendash}1234 mg C m-2 d-1) compared to the Bay (727 mg C m-2 d-1). The total ecosystem carbon inputs into the three food webs was supported by high primary production, which was mainly due to \>10 {\textmu}m algae. However, the three carbon pathways were characterized by low detritivory and a high herbivory which was mainly assigned to protozooplankton. This latter was efficient in channelling biogenic carbon. In the Lagoon and the Channel, foods webs acted almost as a multivorous structure with a tendency towards herbivorous one, whereas in the Bay the herbivorous pathway was more dominant. Ecological indices revealed that the Lagoon and the Channel food webs/systems had high total system throughput and thus were more active than the Bay. The Bay food web, which had a high relative ascendency value, was more organized and specialized. This inter{\textendash}ecosystem difference could be due to the varying levels of anthropogenic impact among sites. Indeed, the low value of Finn{\textquoteright}s cycling index indicated that the three systems are disturbed, but the Lagoon and the Channel, with low average path lengths, appeared to be more stressed, as both sites have undergone higher chemical pollution and nutrient loading. This study shows that ecosystem models combined with ecological indices provide a powerful approach to detect change in environmental status and anthropogenic impacts. {\textcopyright} 2018}, keywords = {Algae, anthropogenic effect, Anthropogenic impacts, Anthropogenic pressures, Bizerte, Bizerte Bay, Chemical analysis, Chemical contamination, coastal water, community structure, Ecological network analysis, Ecology, ecosystem function, ecosystem modeling, Ecosystems, eutrophication, food web, Food webs, Functional properties, Inverse problems, Lakes, Linear inverse models, Markov processes, Mediterranean coastal waters, Mediterranean ecosystem, Mediterranean sea, Monte Carlo methods, network analysis, Phytoplankton, Plankton, primary production, Tunisia, Zooplankton}, issn = {00796611}, doi = {10.1016/j.pocean.2018.02.013}, url = {https://www.sciencedirect.com/science/article/abs/pii/S0079661117300782}, author = {Meddeb, M. and Grami, B. and Chaalali, A. and Haraldsson, M. and Nathalie Niquil and Pringault, O. and Sakka Hlaili, A.} } @article {8406, title = {Platichthys solemdali sp. nov. (Actinopterygii, Pleuronectiformes): A New Flounder Species From the Baltic SeaImage_1.tifTable_1.DOCX}, journal = {Frontiers in Marine Science}, volume = {5}, year = {2018}, month = {Nov-07-2018}, doi = {10.3389/fmars.2018.0022510.3389/fmars.2018.00225.s00110.3389/fmars.2018.00225.s002}, url = {https://www.frontiersin.org/article/10.3389/fmars.2018.00225/full}, author = {Momigliano, Paolo and DENYS, Ga{\"e}l P. J. and Jokinen, Henri and Meril{\"a}, Juha} } @article {5631, title = {Population dynamics of Prochilodus nigricans (Characiformes: Prochilodontidae) in the Putumayo River}, journal = {Neotropical Ichthyology}, volume = {16}, year = {2018}, pages = {e170139}, abstract = {The black prochilodus (Prochilodus nigricans) is one of the most landed scaled fish species of the middle and upper parts of the Putumayo River, in the tri-national area between Colombia, Ecuador and Peru. Despite its importance, biological information about this species is too scant to guide fisheries management in this portion of the Colombian Amazon. In this study, 10884 individuals were sampled in the fish markets of Puerto Legu{\'\i}zamo between 2009 and 2017. This sampling was used to document reproductive patterns, but also growth and mortality parameters from length frequency distributions. The size at which all fish were mature was 22 cm Ls, which should be the established as the minimum size of capture to ensure that all fish have had a chance to reproduce before being caught. Growth and mortality parameters indicated a slower growth in the Putumayo than in other Amazonian rivers and a relatively high exploitation rate.
Keywords:\ Black prochilodus; Colombia; Growth; Mortality; Reproduction
}, doi = {http://dx.doi.org/10.1590/1982-0224-20170139}, author = {Bonilla-Castillo, C S and Agudelo C{\'o}rdoba, E and G{\'o}mez, G and Fabrice Duponchelle} } @article {6799, title = {Predicting krill swarm characteristics important for marine predators foraging off East Antarctica}, journal = {Ecography}, volume = {41}, year = {2018}, pages = {996 - 1012}, issn = {0906-7590}, url = {https://onlinelibrary.wiley.com/doi/full/10.1111/ecog.03080}, author = {Bestley, Sophie and Raymond, Ben and Gales, NJ and Harcourt, RG and Hindell, Mark A and Jonsen, ID and Nicol, S and Clara P{\'e}ron and Sumner, MD and Weimerskirch, H. and Wotherspoon, S. and Cox, MJ} } @article {5919, title = {Predominance of phytoplankton-derived dissolved and particulate organic carbon in a highly eutrophic tropical coastal embayment (Guanabara Bay, Rio de Janeiro, Brazil)}, journal = {Biogeochemistry}, volume = {137}, year = {2018}, pages = {1{\textendash}14}, doi = {10.1007/s10533-017-0405-y}, url = {https://doi.org/10.1007/s10533-017-0405-y}, author = {Luiz C. Cotovicz and Bastiaan A. Knoppers and Nilva Brandini and Dominique Poirier and Suzan J. Costa Santos and Renato C. Cordeiro and Gwena{\"e}l Abril} } @article {8407, title = {Presence of larvae of lampreys, Lampetra sp. (Cephalaspidomorphi, Petromyzontiformes), in a French Catalan basin}, journal = {Cybium}, volume = {42}, year = {2018}, pages = {216-218}, abstract = {Des ammoc{\`e}tes de lamproies ont {\'e}t{\'e} r{\'e}cemment captur{\'e}es pour la premi{\`e}re fois dans un cours d{\textquoteright}eau de Catalogne fran{\c c}aise, la T{\^e}t. Les identifications morphologique et mol{\'e}culaire ont d{\'e}montr{\'e} que ces ammoc{\`e}tes appartiennent au complexe [Lampetra fluviatilis / Lampetra planeri]. Les lamproies et leurs fray{\`e}res {\'e}tant prot{\'e}g{\'e}es en France, cette {\'e}tude aura une incidence sur la gestion du cours d{\textquoteright}eau de la T{\^e}t.}, author = {Arsento, R{\'e}my and Richarte, K{\'e}vin and Fonteneau, Andr{\'e} and Denys, Ga{\"e}l} } @article {6857, title = {Processus morphodynamiques et s{\'e}dimentaires dans les mangroves en {\'e}rosion de Mayotte, oc{\'e}an Indien}, journal = {VertigO}, year = {2018}, month = {May-09-2018}, doi = {10.4000/vertigo10.4000/vertigo.2039110.4000/vertigo.20531}, url = {http://journals.openedition.org/vertigo}, author = {Jeanson, Matthieu and Franck Dolique and Anthony, Edward~J.} } @article {6940, title = {Regulation of Extracellular Matrix Synthesis by Shell Extracts from the Marine Bivalve Pecten maximus in Human Articular Chondrocytes- Application for Cartilage Engineering.}, journal = {Mar Biotechnol (NY)}, volume = {20}, year = {2018}, month = {2018 Aug}, pages = {436-450}, abstract = {The shells of the bivalve mollusks are organo-mineral structures predominantly composed of calcium carbonate, but also of a minor organic matrix, a mixture of proteins, glycoproteins, and polysaccharides. These proteins are involved in mineral deposition and, more generally, in the spatial organization of the shell crystallites in well-defined microstructures. In this work, we extracted different organic shell extracts (acid-soluble matrix, acid-insoluble matrix, water-soluble matrix, guanidine HCl/EDTA-extracted matrix, referred as ASM, AIM, WSM, and EDTAM, respectively) from the shell of the scallop Pecten maximus and studied their biological activities on human articular chondrocytes (HACs). We found that these extracts differentially modulate the biological activities of HACs, depending on the type of extraction and the concentration used. Furthermore, we showed that, unlike ASM and AIM, WSM promotes maintenance of the chondrocyte phenotype in monolayer culture. WSM increased the expression of chondrocyte-specific markers (aggrecan and type II collagen), without enhancing that of the main chondrocyte dedifferentiation marker (type I collagen). We also demonstrated that WSM could favor redifferentiation of chondrocyte in collagen sponge scaffold in hypoxia. Thus, this study suggests that the organic matrix of Pecten maximus, particularly WSM, may contain interesting molecules with chondrogenic effects. Our research emphasizes the potential use of WSM of Pecten maximus for cell therapy of cartilage.
}, keywords = {Aged, Aged, 80 and over, Aggrecans, Animal Shells, Animals, Cell Differentiation, Cells, Cultured, Chondrocytes, Collagen Type II, Extracellular Matrix, Gene Expression Profiling, Humans, Middle Aged, Pecten, Phenotype}, issn = {1436-2236}, doi = {10.1007/s10126-018-9807-7}, author = {Bouyoucef, Mouloud and Rakic, Rodolphe and G{\'o}mez-Leduc, Tangni and Latire, Thomas and Marin, Fr{\'e}d{\'e}ric and Leclercq, Sylvain and Carreiras, Franck and Antoine Serpentini and Lebel, Jean-Marc and Gal{\'e}ra, Philippe and Legendre, Florence} } @article {8720, title = {Regulation of Extracellular Matrix Synthesis by Shell Extracts from the Marine Bivalve Pecten maximus in Human Articular Chondrocytes{\textemdash} Application for Cartilage Engineering}, journal = {Marine Biotechnology}, volume = {20}, year = {2018}, month = {Jan-08-2018}, pages = {436 - 450}, issn = {1436-2228}, doi = {10.1007/s10126-018-9807-7}, url = {http://link.springer.com/10.1007/s10126-018-9807-7}, author = {Bouyoucef, Mouloud and Rakic, Rodolphe and G{\'o}mez-Leduc, Tangni and Latire, Thomas and Marin, Fr{\'e}d{\'e}ric and Leclercq, Sylvain and Carreiras, Franck and Serpentini, Antoine and Lebel, Jean-Marc and Gal{\'e}ra, Philippe and Legendre, Florence} } @article {5629, title = {Review of fisheries resource use and status in the Madeira River basin (Brazil, Bolivia and Peru) before the hydroelectric dam{\textquoteright}s completion}, journal = {Reviews in Fisheries Science \& Aquaculture }, volume = {26}, year = {2018}, pages = {494-514}, abstract = {The Madeira River, which drains one of the major tributary river basins of the upper Amazon, contributes to small-scale fisheries in Peru, Bolivia, and Brazil. This paper provides a base-line of fisheries resources and their status in six sub-basins of the Madeira River: upper Madre de Dios River basin (Peru), Beni and Mamor{\'e} River basins (Bolivia), It{\'e}nez or Guapor{\'e} River basin (Bolivia and Brazil), middle Madeira, and (two sections of the) lower Madeira River (Brazil). Data were collected between 2009 and 2011, before the completion of two hydroelectric dams in the Brazilian portion of the basin. Biophysical, social, and biological indicators were used to characterize the fisheries. The results show an overall small-scale multispecies fisheries pattern but with notorious differences between the Madeira sub-basins. The Beni and Mamor{\'e} sub-basin shows the largest flooded area, with associated higher total fisheries yields. Trophic level of the catch, diversity, and mean weight of fish caught were shown to be very sensitive to exploitation level, river water type (white or clear water), flooded area, and the introduction of\ Arapaima gigas in Bolivia. The Bolivian fisheries are characterized by less exploited stocks, whereas stocks in Peru and Brazil show signs of intensive exploitation, resulting in fisheries of smaller bodied, lower trophic-level species. Landing data in the upper basin show a predominant reliance on migrating fish resources, which might be vulnerable to the construction of dams. These data serve as a baseline to evaluate anthropogenic impacts on the Madeira River basin fisheries in the future.
KEYWORDS:\ Amazon,\ freshwater ecosystem,\ trophic level,\ diversity,\ fish catch
}, doi = {The goliath catfish Brachyplatystoma rousseauxii has crucial economical and ecological functions in the Amazon basin. Although its life history characteristics have been studied in the Amazon, there is little information in the Madeira River basin, which }, author = {Doria, C R C and Fabrice Duponchelle and Lima, M A L and Garc{\'\i}a V{\'a}squez, A and Carvajal-Vallejos, F and Coca M{\'e}ndez, C and Catarino, M F and Carlos E.C. Freitas and Vega, B and Van Damme, P A} } @article {5615, title = {Revisiting the Organic Template Model through the Microstructural Study of Shell Development in Pinctada margaritifera, the Polynesian Pearl Oyster}, journal = {Minerals}, volume = {8}, year = {2018}, month = {09/2018}, pages = {370}, abstract = {A top-down approach to the mineralized structures and developmental steps that can be separated in the shells of Pinctada margaritifera was carried out. Detailed characterizations show that each of the two major layers usually taken into account (the outer prismatic layer and the inner nacreous layer) is actually the result of a complex process during which the microstructural patterns were progressively established. From its early growing stages in the deeper part of the periostracal grove up to the formation of the most inner nacreous layers, this species provides a demonstrative case study illustrating the leading role of specifically secreted organic structures as determinants of the crystallographic properties of the shell-building units. Gathering data established at various observational scales ranging from morphology to the nanometer level, this study allows for a reexamination of the recent and current biomineralization models.}, keywords = {biocrystallization model, biomineralization, Mollusca, shell development}, doi = {https://doi.org/10.3390/min8090370}, author = {Jean-Pierre Cuif and Yannicke Dauphin and Gilles Luquet and Kadda Medjoubi and Andrea Somogyi and Alberto Perez-Huerta} } @article {8405, title = {S7 characterization of Western European pikes Esox spp. (Actinopterygii, Esociformes)}, journal = {Cybium}, volume = {42}, year = {2018}, pages = {221-228}, abstract = {The comparison of a 1635 bp fragment of the first intron of the S7 ribosomal protein coding gene, a commonly used phylogenetic marker, for specimens from the three European pike species Esox aquitanicus, Esox cisalpinus and Esox lucius highlights diagnostic sites and indels constituting molecular synapomorphies. Both the sequence alignment and the phylogenetic tree discriminate these three species, even with a short sequence fragment. Three Esox lucius haplogroups can be separated. These haplogroups might correspond to the evolutionary lineages highlighted by previous mitochondrial studies. Finally this study confirms hybridization between Esox aquitanicus and Esox lucius, but also the absence of geographical structure between Esox lucius haplogroups in France following restocking from East European piscicultures. The S7 marker is excellent for molecular identification, and could be used for environmental DNA.}, author = {Denys, Ga{\"e}l P.J. and Lauga, Th{\'e}o and Delmastro, Giovanni B. and Dettai, Agn{\`e}s} } @article {5927, title = {Selectivity on epilithic diatom consumption for two tropical sympatric gobies: Sicydium punctatum (Perugia 1986) and Sicydium plumieri (Bloch 1786)}, journal = {Cybium }, volume = {42 }, year = {2018}, pages = {365-373}, abstract = {\
\ Rivers of the Caribbean islands harbour a freshwater fauna mainly constituted of migrant diadromous species. In these hyperturbulent ecosystems, the primary producers are mostly represented by a thin epilithic biofilm, mainly composed of diatoms. Comparison of the diatoms available from the environment with the ones consumed and located in the digestive tracts of two gobiid fish, Sicydium punctatum Perugia, 1896 and Sicydium plumieri (Bloch, 1786) were made at twelve sampling locations, located upstream or downstream of six rivers, in Guadeloupe. One hundred and ninety-one epilithic diatom species were identified. A statistical approach was used to determine diatoms that best characterize the two species digestive tracts content (i.e. {\textquotedblleft}diagnostic species{\textquotedblright}) and to evaluate the statistical relationship between species abundances and groups of sites or conditions. Eight taxa belonging to five families were considered as significant diagnostic species of digestive tracts from fish collected upstream (Achnanthidium subhudsonis, Achnanthes rupestoides, Diadesmis contenta, Diadesmis sp., Eolimna sp., Navicula (dicta) seminulum, Navicula difficillima and Nupela sp.), and five taxa belonging to three families were considered as significant diagnostic species for fish collected downstream (Gomphonema parvulum, Navicula arvensis, Navicula cruxmeridionalis, Nitzschia frustulum and Navicula incarum). Results indicate selective consumption of epilithic diatoms by the two major fish observed in the mid and upper stream of Caribbean rivers
}, keywords = {Biofilm, Bioindication, Caribbean Islands, Gobiidae, Tropical rivers}, author = {Monti, Dominique and Lefran{\c c}ois, F and Clara Lord and Jean-Michel Mortillaro and Pascal Jean Lopez and Philippe Keith} } @article {6798, title = {Short-term prey field lability constrains individual specialisation in resource selection and foraging site fidelity in a marine predator}, journal = {Ecology Letters}, volume = {21}, year = {2018}, month = {07-2018}, pages = {1043 - 1054}, abstract = {Spatio-temporally stable prey distributions coupled with individual foraging site fidelity are predicted to favour individual resource specialisation. Conversely, predators coping with dynamic prey distributions should diversify their individual diet and/or shift foraging areas to increase net intake. We studied individual specialisation in Scopoli{\textquoteright}s shearwaters (Calonectris diomedea) from the highly dynamic Western Mediterranean, using daily prey distributions together with resource selection, site fidelity and trophic-level analyses. As hypothesised, we found dietary diversification, low foraging site fidelity and almost no individual specialisation in resource selection. Crucially, shearwaters switched daily foraging tactics, selecting areas with contrasting prey of varying trophic levels. Overall, information use and plastic resource selection of individuals with reduced short-term foraging site fidelity allow predators to overcome prey field lability. Our study is an essential step towards a better understanding of individual responses to enhanced environmental stochasticity driven by global changes, and of pathways favouring population persistence.}, doi = {10.1111/ele.2018.21.issue-710.1111/ele.12970}, url = {http://onlinelibrary.wiley.com/wol1/doi/10.1111/ele.12970}, author = {Courbin, Nicolas and Besnard, Aur{\'e}lien and Clara P{\'e}ron and Saraux, Claire and Fort, J{\'e}r{\^o}me and Perret, Samuel and Tornos, J{\'e}r{\'e}my and Gr{\'e}millet, David} } @article {6752, title = {Silver eel downstream migration in the River Rhine, route choice, and its impacts on escapement: A 6-year telemetry study in a highly anthropized system}, journal = {Ecological Engineering}, volume = {123}, year = {2018}, pages = {202 - 211}, abstract = {Several routes are available for the downstream migration of silver eels in the river Rhine system. Very different effects on migration success can result from this choice, such as speed and migration duration or escapement rate. We studied the downstream migration of silver eels in a river section with two different routes. The first route is the initial and old riverbed, with two dams equipped with two rather small or medium sized hydropower plants (HPPs) located at the beginning and at the exit of the bypass stretch. Both HPPs have small bar spacing (10 mm and 20 mm, respectively) and the second HPP has two downstream bypasses. The second route is a power canal, supplying four major HPPs (maximum discharge capacity = 1400 m3 s-1) and a nuclear power plant with cooling water. Firstly, this study focused on highlighting the factors influencing route choice. Secondly, we focused on the consequences of this choice. We demonstrate that water current management in the old riverbed at the study site had a 40\% higher negative effect on eel survival than that by a consecutive passage in four turbines.}, keywords = {Escapement, Migration, Path selection, Rhine river, Silver-eel, Telemetry}, issn = {0925-8574}, doi = {https://doi.org/10.1016/j.ecoleng.2018.09.002}, url = {http://www.sciencedirect.com/science/article/pii/S0925857418303318}, author = {Thomas Trancart and St{\'e}phane T{\'e}tard and Anthony Acou and Eric Feunteun and Fr{\'e}d{\'e}ric Schaeffer and Eric de Oliveira} } @article {5435, title = {A simple, user friendly tool to readjust raw PAM data from field measurements to avoid over- or underestimating of microphytobenthos photosynthetic parameters}, journal = {Journal of Experimental Marine Biology and Ecology}, volume = {503}, year = {2018}, pages = {136-146}, abstract = {Intertidal mudflats are among the most productive ecosystems and microphytobenthic (MPB) biofilms play a key role in primary production. MPB primary production varies at short spatial and temporal scales. Accurate measurements thus require rapid non-intrusive methods like pulse amplitude modulate (PAM) fluorescence. However, the effect of granulometry and chl a concentration profile in light attenuation on irradiance and on fluorescence signal in the photic layer need to be taken into account when primary production is estimated using PAM. We propose a tool to readjust raw photosynthetic parameters (rETRmax, α, Ik) estimated from PAM measurements on the field, to avoid over- or underestimation. To develop the tool, we used models previously designed by K{\"u}hl and J{\o}rgensen (1992), Ser{\^o}dio (2004) and Forster and Kromkamp (2004) by integrating the chl a distribution profiles and sediment granulometry from pure sand to pure mud. The sensitivity of the correction to sediment granulometry and the shape of chl a profile were evaluated theoretically using a typical fluorescence data set obtained using PAM measurements. Our results confirm the importance of accounting for both the chl a profile and sediment granulometry when estimating a light attenuation coefficient. We show that, with the same chl a profile, the photosynthetic parameters are more underestimated in mud than in a sandy environment. Thus, granulometry and the chl a profile need to be systematically quantified and used to correct raw data measured in field studies using PAM before estimating photosynthetic parameters. The numerical tool is available as an e-document that is simple and easy to apply to any PAM data.
}, doi = {https://doi.org/10.1016/j.jembe.2018.02.007}, url = {https://www.sciencedirect.com/science/article/pii/S0022098117303325}, author = {Morelle, J{\'e}r{\^o}me and Francis Orvain and Pascal Claquin} } @article {8138, title = {Small and large spatial scale coexistence of ctenid spiders in a neotropical forest (French Guiana)}, journal = {Tropical Zoology}, volume = {31}, year = {2018}, month = {Mar-04-2018}, pages = {85 - 98}, issn = {0394-6975}, doi = {10.1080/03946975.2018.1448531}, url = {https://www.tandfonline.com/doi/full/10.1080/03946975.2018.1448531}, author = {P{\'e}tillon, Julien and Leroy, Boris and Djoudi, El Aziz and VEDEL, Vincent} } @article {5491, title = {Small and large spatial scale coexistence of ctenid spiders in a neotropical forest (French Guiana)}, journal = {Tropical Zoology}, volume = {31}, year = {2018}, month = {04/2018}, pages = {85-98}, abstract = {While spiders constitute the most abundant and diverse arthropods in many habitats, they remained under-studied, especially in tropical rainforests. The goal of this study is to assess the spatial distribution of the spider family Ctenidae by assessing associations of species diversity and population traits among different habitat conditions. Fieldwork was carried out during 2013 in habitats varying in flooding frequency (plateau vs. flooded forest) and elevation (inselberg vs. lowland) in the Nouragues National Natural Reserve, French Guiana. Assemblage composition, population structure, and trait measurements of one dominant species were assessed using hand collection in replicated quadrats. We found strong effects on ctenid assemblages attributable to both elevation and flooding, with changes in relative abundance of species among habitats, but few correlated densities between species. At the population level, main differences in species distribution between and within habitats were detected only when juveniles were taken into account. No effect of elevation was found on the measurements of traits of the dominant species, but legs were proportionally shorter in flooded habitats, suggesting reduced active dispersal in these habitats. Our study highlights the value of complementary of measures of diversity and traits at different biological scales in Ctenidae.}, keywords = {Araneae, flooding, Guianese shield, inselberg, juveniles}, doi = {https://doi.org/10.1080/03946975.2018.1448531}, url = {https://www.tandfonline.com/doi/full/10.1080/03946975.2018.1448531}, author = {Petillon, J and Leroy, Boris and Djoudi, EA and Vedel, V} } @article {5964, title = {Some histological data of bone and teeth in the Rift Eelpout, Thermarces cerberus (Zoarcidae)}, journal = {Cybium}, volume = {42}, year = {2018}, pages = {083-086}, doi = {10.26028/cybium/2018-421-007}, url = {http://sfi-cybium.fr/fr/some-histological-data-bone-and-teeth-rift-eelpout-thermarces-cerberus-zoarcidae}, author = {Meunier, Francois J. and Arnulf, Isabelle} } @article {5962, title = {Some histological data on bone and teeth in the grey notothen (Lepidonotothen squamifrons) and in the mackerel icefish (Champsocephalus gunnari) (Notothenioidei; Perciformes; Teleostei)}, journal = {Cybium}, volume = {42}, year = {2018}, pages = {091-097}, doi = {10.26028/cybium/2018-421-009}, url = {http://sfi-cybium.fr/fr/some-histological-data-bone-and-teeth-grey-notothen-lepidonotothen-squamifrons-and-mackerel-icefish}, author = {Meunier, Francois J. and Lecomte, Fr{\'e}d{\'e}rique and Guy Duhamel} } @article {6951, title = {Spatial variability in post-larval traits of Sicyopterus lagocephalus Pallas 1770 around Reunion Island}, journal = {Environmental Biology of Fishes}, volume = {101}, year = {2018}, month = {Jan-05-2018}, pages = {813 - 827}, issn = {0378-1909}, doi = {10.1007/s10641-018-0740-4}, url = {http://link.springer.com/10.1007/s10641-018-0740-4}, author = {Thomas, Carole and Becheler, Enora and Trinh, Anne-Marie and Ellien, C{\'e}line} } @inbook {8115, title = {Spermatogenesis and Spermiogenesis in Elasmobranchs, a Short Overview. In M. K. SKINNER (Ed.), Encyclopedia of Reproduction. }, year = {2018}, pages = {305 - 312}, publisher = {Elsevier}, organization = {Elsevier}, isbn = {9780128151457}, doi = {10.1016/B978-0-12-809633-8.20572-4}, url = {https://linkinghub.elsevier.com/retrieve/pii/B9780128096338205724}, author = {Sourdaine, Pascal and Gautier, Aude and Gribouval, Laura} } @inbook {6630, title = {Spermatogenesis and Spermiogenesis in Elasmobranchs, a Short Overview}, booktitle = {Encyclopedia of Reproduction, Second Edition}, volume = {6}, year = {2018}, pages = {305 - 312}, publisher = {Elsevier}, organization = {Elsevier}, isbn = {9780128151457}, doi = {10.1016/B978-0-12-809633-8.20572-4}, url = {https://linkinghub.elsevier.com/retrieve/pii/B9780128096338205724}, author = {Pascal Sourdaine and Aude Gautier and Gribouval, Laura} } @article {7891, title = {Spider assemblage structure in a neotropical rainforest-inselberg complex: ecological and methodological insights from a small-scale intensive survey}, journal = {Journal of Tropical Ecology}, volume = {59}, year = {2018}, pages = {21-34}, keywords = {Araneae, composition, day-time, French Guiana, non-parametric estimators, richness, sampling method}, url = {https://hal.inrae.fr/hal-02629375}, author = {Privet, Ka{\"\i}na and Courtial, Cyril and Decaens, Thibaud and Djoudi, El Aziz and VEDEL, Vincent and Fr{\'e}d{\'e}ric Ysnel and P{\'e}tillon, Julien} } @article {6746, title = {Stable isotopes as tracers can reveal resource allocation in juvenile golden gray mullets (Liza aurata, Risso, 1810)}, journal = {Journal of Experimental Marine Biology and Ecology}, volume = {503}, year = {2018}, month = {Jan-06-2018}, pages = {72 - 79}, abstract = {Studies on the nutritional physiology of predator fish in the marine environment have contributed to our understanding of how they adapt to the environment and how they have evolved. Despite the fact that herbivorous and omnivorous fish species are numerous and play a significant role in the ecosystem, there is little information on how they process nutrients and how these are allocated to different tissues. This information could be particularly important for the juvenile stages, when small-sized fish are under high predation pressure and have a limited capability to intake and digest large quantities of food. The mullet Liza aurata ingests surface sediment and obtains its nutritional requirements from the organisms associated with the sediment, including microalgae and bacteria or small invertebrates. This paper examines how the carbon and nitrogen derived from benthic micro-organisms are allocated to the liver and muscle tissues of newborn (young-of-the-year, YOY) and one-year-old (OYO) individuals. After the animals were left feeding on 13C-enriched microalgae and 15N-enriched bacteria for 1 h, we traced the 13C and 15N in the liver and muscle tissues as well as in the blood and the gut. The YOY allocated 99\% of the 13C and 88\% of the 15N to the muscles, while the liver had a negligible amount of tracers (0.4\% and 11\% for 13C and 15N). Conversely, in the OYO experiment, the tracers were uniformly distributed throughout the muscle and liver (57\% of 13C and 45\% of 15N were found in the muscle, whereas 43\% of 13C and 55\% of 15N were in the liver). Negligible amounts were traced in the blood (\<0.1\%), while a part of the tracers was not assimilated and remained in the gut of both YOY and OYO fish. These results indicated a size-related shift in resource allocation during first year of growth of L. aurata, probably related to changes in the survival strategies among juveniles. Our results also indicated that stable isotope enrichment can be a helpful tool for studying resource allocation in fish.}, issn = {00220981}, doi = {10.1016/j.jembe.2018.01.009}, url = {https://www.sciencedirect.com/science/article/pii/S0022098117301971}, author = {Como, S. and Alexandre Carpentier and Rossi, F. and Christine Dupuy and Richard, P. and Eric Feunteun and Lefran{\c c}ois, C.} } @article {5515, title = {Strengths, weaknesses, and opportunities of French research in trophic ecology}, journal = {Comptes Rendus Biologies}, year = {2018}, pages = {-}, abstract = {The French National Institute of Ecology and Environment (INEE) aims at fostering pluridisciplinarity in Environmental Science and, for that purpose, funds ex muros research groups (GDR) on thematic topics. Trophic ecology has been identified as a scientific field in ecology that would greatly benefit from such networking activity, as being profoundly scattered. This has motivated the seeding of a GDR, entitled {\^a}GRET{\^a}. The contours of the GRET{\textquoteright}s action, and its ability to fill these gaps within trophic ecology at the French national scale, will depend on the causes of this relative scattering. This study relied on a nationally broadcasted poll aiming at characterizing the field of trophic ecology in France. Amongst all the unique individuals that fulfilled the poll, over 300 belonged at least partly to the field of trophic ecology. The sample included all French public research institutes and career stages. Three main disruptions within the community of scientist in trophic ecology were identified. The first highlighted the lack of interfaces between microbial and trophic ecology. The second evidenced that research questions were strongly linked to single study fields or ecosystem type. Last, research activities are still quite restricted to the ecosystem boundaries. All three rupture points limit the conceptual and applied progression in the field of trophic ecology. Here we show that most of the disruptions within French Trophic Ecology are culturally inherited, rather than motivated by scientific reasons or justified by socio-economic stakes. Comparison with the current literature confirms that these disruptions are not necessarily typical of the French research landscape, but instead echo the general weaknesses of the international research in ecology. Thereby, communication and networking actions within and toward the community of trophic ecologists, as planned within the GRET{\textquoteright}s objectives, should contribute to fill these gaps, by reintegrating microbes within trophic concepts and setting the seeds for trans- and meta-ecosystemic research opportunities. Once the community of trophic ecologists is aware of the scientific benefit in pushing its boundaries forwards, turning words and good intentions into concrete research projects will depend on the opportunities to obtain research funding.
}, keywords = {Community}, issn = {1631-0691}, doi = {https://doi.org/10.1016/j.crvi.2018.05.001}, url = {https://www.sciencedirect.com/science/article/pii/S1631069118300830}, author = {Marie-Elodie Perga and Michael Danger and Dubois, Stanislas and Cl{\'e}mentine Fritch and C{\'e}dric Gaucherel and C{\'e}dric Hubas and Franck Jabot and Lacroix, G{\'e}rard and S{\'e}bastien Lefebvre and P. Marmonier and Alexandre Bec} } @article {5476, title = {Structure and composition of Unio pictorum shell: arguments for the diversity of the nacroprismatic arrangement in molluscs.}, journal = {Journal of Microscopy}, volume = {270}, year = {2018}, month = {05/2018}, pages = {156-169}, type = {Journal article}, abstract = {Mollusc shells are complex organomineral structures, the arrangement and composition depending on the species. Most studies are dedicated to shells composed of an aragonite nacreous and a calcite prismatic layer, so the nacreous prismatic model based on Pinctada and Atrina-Pinna. Here, we studied the micro- and nanostructure, the mineralogy and composition of a nacroprismatic bivalve species: Unio pictorum. The prismatic layer of Unio is aragonite, and the inner structure of the prismatic units strongly differs from those of the calcitic layers. The shape of the prisms varies depending on their growth stage. The first layers of nacre are similar to those of gastropods (columnar nacre), then evolve towards the typical bivalve arrangement (sheet nacre). Na, Sr, Mg, P and S are present in both prisms and nacre. The organic prismatic envelopes are rich in sulphur amino acids, whereas organic sulphate is present within the prisms and the nacreous tablets. P is present as phosphate, probably a mixture of organic and mineral complex. Chemical distribution maps confirm the absence of an organic membrane between the nacre and the prisms. The comparison of the structure, mineralogy and composition of Unio pictorum and different species show the diversity of nacroprismatic shells, and that these features are taxonomically dependent.}, author = {Dauphin, Y and Luquet, G and Salom{\'e}, M and Bellot-Gurlet, L and Cuif, JP} } @article {7180, title = {Subtidal Microphytobenthos: A Secret Garden Stimulated by the Engineer Species Crepidula fornicata}, journal = {Frontiers in Marine Science}, volume = {5}, year = {2018}, month = {Jun-12-2019}, doi = {10.3389/fmars.2018.00475}, url = {https://www.frontiersin.org/article/10.3389/fmars.2018.00475/full}, author = {Androuin, Thibault and Polerecky, Lubos and Decottignies, Priscilla and Dubois, Stanislas F. and Dupuy, Christine and C{\'e}dric Hubas and Jesus, Bruno and Le Gall, Erwan and Marzloff, Martin P. and Carlier, Antoine} } @article {6806, title = {Surface ocean pH variations since 1689 CE and recent ocean acidification in the tropical South Pacific}, journal = {Nature Communications}, volume = {9}, year = {2018}, month = {Jan-12-2018}, abstract = {Increasing atmospheric CO2 from man-made climate change is reducing surface ocean pH. Due to limited instrumental measurements and historical pH records in the world{\textquoteright}s oceans, seawater pH variability at the decadal and centennial scale remains largely unknown and requires documentation. Here we present evidence of striking secular trends of decreasing pH since the late nineteenth century with pronounced interannual to decadal{\textendash}interdecadal pH variability in the South Pacific Ocean from 1689 to 2011 CE. High-amplitude oceanic pH changes, likely related to atmospheric CO2 uptake and seawater dissolved inorganic carbon fluctuations, reveal a coupled relationship to sea surface temperature variations and highlight the marked influence of El Ni{\~n}o/Southern Oscillation and Interdecadal Pacific Oscillation. We suggest changing surface winds strength and zonal advection processes as the main drivers responsible for regional pH variability up to 1881 CE, followed by the prominent role of anthropogenic CO2 in accelerating the process of ocean acidification.}, doi = {10.1038/s41467-018-04922-1}, url = {https://hal.archives-ouvertes.fr/hal-01839951}, author = {Wu, Henry C. and Dissard, Delphine and Douville, Eric and Blamart, Dominique and Bordier, Louise and Tribollet, Aline and Le Cornec, Florence and Pons-Branchu, Edwige and Dapoigny, Arnaud and Claire E. Lazareth} } @article {5583, title = {Tachykinin-3 Genes and Peptides Characterized in a Basal Teleost, the European Eel: Evolutionary Perspective and Pituitary Role.}, journal = {Frontiers in Endocrinology}, volume = {9}, year = {2018}, pages = {304}, author = {Campo, Aurora and Anne-Gaelle Lafont and Lefranc, Benjamin and Leprince, J{\'e}r{\^o}me and Tostivint, Herv{\'e} and Kamech, Nedia and Sylvie Dufour and Karine Rousseau} } @article {5607, title = {Temporal variation of secondary migrations potential: concept of temporal windows in four commercial bivalve species}, journal = {Aquatic Living Resources}, volume = {31}, year = {2018}, month = {08/2018}, pages = {1-9}, abstract = {Post-settlement dispersal potential of four commercial bivalve species (Mytilus edulis, Pecten maximus, Venus verrucosa and Ruditapes philippinarum) were studied through the assessment of recruits{\textquoteright} sinking velocities by using a sinking velocity tube of five meters height. In parallel, dynamics of shear stress were monitored for five months on a tidal habitat characterized by the presence and the dispersal of the four species. By coupling both datasets we propose first theoretical estimates of temporal windows of secondary migrations. These experiments revealed interspecific differences in migration potential relate to shell shapes and behaviour, especially to secretion of byssal threads. The sensitivity to passive and active post-settlement migrations seems to rely on the\ synchronisation between the arrival on the sediment, the tidal regime (spring tide, neap tide), but also the rate of growth of the recruits. The present study confirms that patterns of secondary migrations of bivalve recruits result from a close physical-biological coupling involving benthic boundary layer (BBL) hydrodynamics and shell morphology as well as eco-ethological responses to environmental conditions but clearly modulated by the growth dynamics until a threshold size when drifting is no longer possible.
}, keywords = {Bivalves recruits, drifting, secondary migrations, temporal windows}, doi = { https://doi.org/10.1051/alr/2018007 }, url = {https://www.alr-journal.org/articles/alr/abs/2018/01/alr170158/alr170158.html}, author = {Martin For{\^e}t and R{\'e}jean Tremblay and Urs Neumeier and Fr{\'e}d{\'e}ric Olivier} } @article {6797, title = {Testing the transferability of track-based habitat models for sound marine spatial planning}, journal = {Diversity and Distribution}, volume = {24}, year = {2018}, month = {12/2018}, pages = {1772-1787}, abstract = {AimAs\ Arapaima gigas\ is one of the most valuable species for the growing production of Amazonian aquaculture, knowledge of its reproductive behaviour and its application to increase reproduction success in captivity is of great importance as no hormonal spawning induction technique exists for this species. An acoustic positioning system (LOTEK Inc.) was used to observe the interactions of adult fish to better understand the formation of mating pairs. Fish were placed in a 4,500\ m2\ aquaculture pond over a 6-month period in the IIAP field station of Pucallpa, Per{\'u}. This paper describes the methodological protocols used to set up and test the hydrophone array and presents the methodology used for the analysis of the huge amount of collected data. This methodology is illustrated by the analysis of a 6-day period for a mating pair that showed a spawning event. The results indicated that male and female occupied mostly one preferential area in one pond edge where the nesting area is located. Different activity patterns were observed during the spawning event, with male and female being closer during the spawning day. The results also showed that male travelled less distance than female during the studied period. Finally these results demonstrated the suitability of such equipment to monitor fish interactions at fine spatial (sub meter) and temporal (5\ s) scales in confined environments like aquaculture ponds.
}, doi = {doi.org/10.1111/are.13692}, url = {https://onlinelibrary.wiley.com/doi/abs/10.1111/are.13692}, author = {Jesus Nu{\~n}ez-Rodriguez and Vela Diaz, A. and Bazan-Albitez, R and Koua, D and Nu{\~n}ez L. and Testi, B. and Renno, Jean-Francois and Duponchelle, F and Pella, H} } @article {7034, title = {Use of an acoustic telemetry array for fine scale fish behaviour assessment of captive Paiche, Arapaima gigas, breeders}, journal = {Aquaculture Research}, volume = {49}, year = {2018}, month = {Jan-06-2018}, pages = {2296 - 2304}, doi = {10.1111/are.2018.49.issue-610.1111/are.13692}, url = {http://doi.wiley.com/10.1111/are.2018.49.issue-6}, author = {Jesus Nu{\~n}ez-Rodriguez and Vela D{\'\i}az, Antonia and Bazan-Albitez, Roger and Rebaza Alfaro, Carmela and Koua, Daniel and N{\'u}{\~n}ez, Lucie and Testi, Baptiste and Renno, Jean-Francois and Duponchelle, Fabrice and Pella, Herv{\'e}} } @article {5916, title = {Variation of the isotopic composition of dissolved organic carbon during the runoff cycle in the Amazon River and the floodplains}, journal = {Comptes Rendus Geoscience}, volume = {350}, year = {2018}, pages = {65{\textendash}75}, doi = {10.1016/j.crte.2017.11.001}, url = {https://doi.org/10.1016/j.crte.2017.11.001}, author = {Patrick Alb{\'e}ric and Marcela A.P. P{\'e}rez and Patricia Moreira-Turcq and Marc F Benedetti and Steven Bouillon and Gwena{\"e}l Abril} } @article {6686, title = {Without quality presence-absence data, discrimination metrics such as TSS can be misleading measures of model performance}, journal = {Journal of Biogeography}, volume = {45}, year = {2018}, month = {Jan-09-2018}, pages = {1994 - 2002}, doi = {10.1111/jbi.2018.45.issue-910.1111/jbi.13402}, url = {http://doi.wiley.com/10.1111/jbi.2018.45.issue-9http://doi.wiley.com/10.1111/jbi.13402http://onlinelibrary.wiley.com/wol1/doi/10.1111/jbi.13402/fullpdfhttps://api.wiley.com/onlinelibrary/tdm/v1/articles/10.1111\%2Fjbi.13402}, author = {Leroy, Boris and Delsol, Robin and Hugueny, Bernard and Meynard, Christine N. and Barhoumi, Ch{\'e}{\"\i}ma and Barbet-Massin, Morgane and Bellard, C{\'e}line} } @article {5284, title = {Applying species distribution models to caves and other subterranean habitats}, journal = {Ecography}, volume = {40}, year = {2017}, month = {10/2017}, pages = {1-14}, abstract = {Over the last two decades there has been an exponential increase in the use of correlative species distribution models (SDMs) to address a variety of topics in ecology, biogeography, evolution, and conservation biology. Conversely, the use of these statistical methods to study the potential distribution of subterranean organisms has lagged behind, relative to their above-ground (epigean) counterparts. The reason for this is possibly related to a number of peculiarities of subterranean systems, which pose important limits, but also opportunities, for these correlative models. The aim of this forum is to explore the caveats that need to be made when generalizing these statistical techniques to caves and other subterranean habitats. We focus on the typical bias in spatial datasets of cave-dwelling species, and provide advice for selecting the model calibration area. In parallel, we discuss the potential use of different large scale surface variables to represent the subterranean condition. A more widespread adoption of these statistical techniques in subterranean biology is highly attractive and has great potential in broadening our knowledge on a variety of ecological topics, especially in the fields of climate change and biodiversity conservation. Their use would especially benefit the study of the biogeographic patterns of subterranean fauna and the impact of past and future climate change on subterranean ecosystems.
}, doi = {10.1111/ecog.03464}, url = {http://onlinelibrary.wiley.com/doi/10.1111/ecog.03464/full}, author = {Mammola, Stefano and Leroy, Boris} } @article {6666, title = {A Bayesian two-stage biomass model for stock assessment of data-limited species: An application to cuttlefish (Sepia officinalis) in the English Channel}, journal = {Fisheries Research}, volume = {191}, year = {2017}, pages = {131-143}, abstract = {Cuttlefish is a key commercial species in the English Channel fishery in terms of landings and value. Age-based assessment methods are limited by time-consuming age determination with statoliths and the lack of stock assessment models tailored to this data-limited species. A two-stage biomass model is developed in the Bayesian state-space modelling framework that allows inferences to be made on the stock biomass at the start, middle and end of each fishing seasons between 1992 and 2014, while accounting for both process and measurement errors and to assimilate various sources of information. A method that uses ancillary length-frequency data is developed to provide an informative prior distribution for the biomass growth rate parameter g (E\ =\ 0.89) and its annual variability (CV\ =\ 0.1). The new model is a substantial improvement on the existing stock assessment method used by the International Council for the Exploration of the Seas. Taking into consideration a time-varying g parameter provides a more ecologically meaningful model with regard to the sensitivity of the cuttlefish population dynamics to environmental fluctuations and improves model fit. The model also provides predictions of the unexploited biomass in winter, which is based on survey data, and helps manage the stock in the event of strong depletion. {\textcopyright} 2017 Elsevier B.V.}, issn = {01657836}, doi = {10.1016/j.fishres.2017.03.010}, url = {http://www.sciencedirect.com/science/article/pii/S0165783617300772}, author = {Juliette Alemany and Etienne Rivot and Foucher, Eric and Jo{\"e}l Vigneau and Jean-Paul Robin} } @article {5036, title = {Before-After analysis of the trophic network of an experimental dumping site in the eastern part of the Bay of Seine (English Channel)}, journal = {Marine Pollution Bulletin}, volume = {118}, year = {2017}, month = {05/2017}, pages = {101-111}, abstract = {An experimental study was conducted to assess the physical and biological impacts of muddy fine sand dredged material dumped on a medium sand site Machu offshore the Seine Estuary. Complementary trophic web modelling tools were applied to the Machu ecosystem to analyse the effects of dumping operations. Results show that, after the dumping operations, the biomass of fish increased while invertebrate biomass remained relatively stable through time. Nevertheless, the biomasses of benthic invertebrates, omnivores/scavengers and predators showed some increases, while non-selective deposit feeders and filter feeders decreased. At the ecosystem level, results show that the total ecosystem activity, the ascendency and the overall omnivorous character of the food-web structure increased after dumping operations, whereas recycling subsequently decreased. Finally, the fine and medium sand habitat offshore from the Seine estuary, which undergoes regular natural physical perturbations, shows a high resilience after a short dumping phase. (C) 2017 Elsevier Ltd. All rights reserved.
}, issn = {{0025-326X}}, doi = {{10.1016/j.marpolbul.2017.02.042}}, author = {Pezy, Jean-Philippe and Raoux, Aurore and Marmin, Stella and Balay, Pierre and Nathalie Niquil and Jean-Claude Dauvin} } @article {5037, title = {Benthic and fish aggregation inside an offshore wind farm: Which effects on the trophic web functioning?}, journal = {Ecological indicators}, volume = {72}, year = {2017}, month = {01/2017}, pages = {33-46}, abstract = {As part of the energy transition, the French government is planning the construction of three offshore wind farms in Normandy (Bay of Seine and eastern part of the English Channel, north-western France) in the next years. These offshore wind farms will be integrated into an ecosystem already facing multiple anthropogenic disturbances such as maritime transport, fisheries, oyster and mussel farming, and sediment dredging. Currently no integrated, ecosystem-based study on the effects of the construction and exploitation of offshore wind farms exists, where biological approaches generally focused on the conservation of some valuable species or groups of species. Complementary trophic web modelling tools were applied to the Bay of Seine ecosystem (to the 50 km(2) area covered by the wind farm) to analyse the potential impacts of benthos and fish aggregation caused by the introduction of additional hard substrates from the piles and the turbine scour protections. An Ecopath ecosystem model composed of 37 compartments, from phytoplankton to seabirds, was built to describe the situation {\textquoteleft}{\textquoteleft}before{{\textquoteright}{\textquoteright}} the construction of the wind farm. Then, an Ecosim projection over 30 years was performed after increasing the biomass of targeted benthic and fish compartments. Ecological Network Analysis (ENA) indices were calculated for the two periods, {\textquoteleft}{\textquoteleft}before{{\textquoteright}{\textquoteright}} and {\textquoteleft}{\textquoteleft}after{{\textquoteright}{\textquoteright}}, to compare network functioning and the overall structural properties of the food web. Our main results showed (1) that the total ecosystem activity, the overall system omnivory (proportion of generalist feeders), and the recycling increased after the construction of the wind farm; (2) that higher trophic levels such as piscivorous fish species, marine mammals, and seabirds responded positively to the aggregation of biomass on piles and turbine scour protections; and (3) a change in keystone groups after the construction towards more structuring and dominant compartments. Nonetheless, these changes could be considered as limited impacts of the wind farm installation on this coastal trophic web structure and functioning. (C) 2016 Elsevier Ltd. All rights reserved.
}, issn = {{1470-160X}}, doi = {10.1016/j.ecolind.2016.07.037}, author = {Raoux, Aurore and Samuele Tecchio and Pezy, Jean-Philippe and G{\'e}raldine Lassalle and Degraer, Steven and Wilhelmsson, Dan and Cachera, Marie and Ernande, Bruno and Le Guen, Camille and Haraldsson, Matilda and Karine Granger{\'e} and Le Loc{\textquoteright}h, Francois and Dauvin, Jean-Claude and Nathalie Niquil} } @article {5166, title = {Bioaccumulation, distribution and elimination of chlordecone in the giant freshwater prawn Macrobrachium rosenbergii: Field and laboratory studies}, journal = {Chemosphere}, volume = {185}, year = {2017}, pages = {888 - 898}, abstract = {Abstract Chlordecone is a persistent organochlorine pesticide that has been widely used in Guadeloupe (French West Indies) to control the banana weevil Cosmopolites sordidus from 1972 to 1993. A few years after its introduction, widespread contamination of soils, rivers, wild animals and aquatic organisms was reported. Although high chlordecone concentrations have been reported in several crustacean species, its uptake, internal distribution, and elimination in aquatic species have never been described. This study aimed at investigating the accumulation and tissue distribution of chlordecone in the giant freshwater prawn Macrobrachium rosenbergii, using both laboratory (30 days exposure) and field (8 months exposure) approaches. In addition, depuration in chlordecone-free water was studied. Results showed that chlordecone bioconcentration in prawns was dose-dependent and time-dependent. Moreover, females appeared to be less contaminated than males after 5 and 7 months of exposure, probably due to successive spawning leading in the elimination of chlordecone through the eggs. Chlordecone distribution in tissues of exposed prawns showed that cephalothorax organs, mainly represented by the hepatopancreas, was the most contaminated. Results also showed that chlordecone was accumulated in cuticle, up to levels of 40\% of the chlordecone body burden, which could be considered as a depuration mechanism since chlordecone is eliminated with the exuviae during successive moults. Finally, this study underlined the similarity of results obtained in laboratory and field approaches, which highlights their complementarities in the chlordecone behaviour understanding in M.\ rosenbergii.
}, keywords = {Bioaccumulation factor}, issn = {0045-6535}, doi = {https://doi.org/10.1016/j.chemosphere.2017.07.099}, url = {http://www.sciencedirect.com/science/article/pii/S0045653517311529}, author = {Anne Lafontaine and Eric Gismondi and Nathalie Dodet and C{\'e}lia Joaquim-Justo and C{\'e}line Boulang{\'e}-Lecomte and Fanny Caupos and Lemoine, Soazig and Laurent Lagadic and Jo{\"e}lle Forget-Leray and Jean-Pierre Thom{\'e}} } @article {5907, title = {Checklist of the marine fishes from metropolitan {France}}, journal = {Cybium}, year = {2017}, doi = {10.26028/cybium/2017-414-006}, url = {http://sfi-cybium.fr/fr/checklist-marine-fishes-metropolitan-france}, author = {Philippe B{\'e}arez and Patrice Pruvost and Eric Feunteun and S.P. Igl{\'e}sias and Patrice Francour and Causse, Romain and De Mazieres J. and Tercerie, S and Bailly, Nicolas} } @article {4931, title = {Comparative Study of Chemosensory Organs of Shrimp From Hydrothermal Vent and Coastal Environments}, journal = {Chemical Senses}, volume = {doi:10.1093/chemse/bjx007}, year = {2017}, pages = {1-13}, abstract = {The detection of chemical signals is involved in a variety of crustacean behaviors, such as social
interactions, search and evaluation of food and navigation in the environment. At hydrothermal
vents, endemic shrimp may use the chemical signature of vent fluids to locate active edifices,
however little is known on their sensory perception in these remote deep-sea habitats. Here,
we present the first comparative description of the sensilla on the antennules and antennae
of 4 hydrothermal vent shrimp (Rimicaris exoculata, Mirocaris fortunata, Chorocaris chacei,
and Alvinocaris markensis) and of a closely related coastal shrimp (Palaemon elegans). These
observations revealed no specific adaptation regarding the size or number of aesthetascs
(specialized unimodal olfactory sensilla) between hydrothermal and coastal species. We also
identified partial sequences of the ionotropic receptor IR25a, a co-receptor putatively involved in
olfaction, in 3 coastal and 4 hydrothermal shrimp species, and showed that it is mainly expressed
in the lateral flagella of the antennules that bear the unimodal chemosensilla aesthetascs.
GnRH associated peptide (GAP) is the C-terminal portion of the GnRH preprohormone. Although it was reported in mammals that GAP may act as a prolactin-inhibiting factor and can be co-secreted with GnRH into the hypophyseal portal blood, GAP has been practically out of the research circuit for about 20 years. Comparative studies highlighted the low conservation of GAP primary amino acid sequences among vertebrates, contributing to consider that this peptide only participates in the folding or carrying process of GnRH. Considering that the tridimensional (3D) structure of a protein may define its function, the aim of this study was to evaluate if GAP sequences and 3D structures are conserved in the vertebrate lineage. GAP sequences from various vertebrates were retrieved from databases. Analysis of primary amino acid sequence identity and similarity, molecular phylogeny, and prediction of 3D structures were performed. Amino acid sequence comparison and phylogeny analyses confirmed the large variation of GAP sequences throughout vertebrate radiation. In contrast, prediction of the 3D structure revealed a striking conservation of the 3D structure of GAP1 (GAP associated with the hypophysiotropic type 1 GnRH), despite low amino acid sequence conservation. This GAP1 peptide presented a typical helix-loop-helix (HLH) structure in all the vertebrate species analyzed. This HLH structure could also be predicted for GAP2 in some but not all vertebrate species, and in none of the GAP3 analyzed. These results allowed us to infer that selective pressures have maintained GAP1 HLH structure throughout the vertebrate lineage. The conservation of the HLH motif, known to confer biological activity to various proteins, suggests that GAP1 peptides may exert some hypophysiotropic biological functions across vertebrate radiation.
}, issn = {1664-2392}, doi = {10.3389/fendo.2017.00207}, url = {https://www.frontiersin.org/article/10.3389/fendo.2017.00207}, author = {P{\'e}rez Sirkin, Daniela I. and Anne-Gaelle Lafont and Kamech, Nedia and Somoza, Gustavo M. and Vissio, Paula G. and Sylvie Dufour} } @article {8152, title = {Contamination and depuration of Paralytic Shellfish Poisoning by Acanthocardia tuberculata cockles and Callista chione clams in Moroccan waters}, journal = {Journal of Materials and Environmental Sciences}, volume = {8}, year = {2017}, pages = {4634-4641}, abstract = {This study of\ Gymnodinium catenatum\ was conducted across two sampling stations; M{\textquoteright}diq bay and Oued Laou estuary during the period from July 2007 to May 2009.\ Gymnodinium catenatum\ blooms occurred after a rainfall event in autumn and early winter. Statically analyses showed a positive correlation with rainfall. During January 2008, the\ G. catenatum\ bloom resulted in contamination of tuberculate cockles and sweet clam by Paralytic Shellfish Poisoning (PSP) toxins. In the Oued Laou estuary, the levels of these toxins in shellfish went beyond the normative threshold for consumption of shellfish, (80\ μg SXTeq. /100g of meat) and reached (710 {\textpm} 82.07) and (198 {\textpm} 6.56)\ μg SXTeq. /100g of meat in cockles and sweet clam respectively. In M{\textquoteright}diq bay, concentrations of PSP toxins in the meat of these two shellfish were lower (256.57 {\textpm} 12.22\ μg SXTeq. /100g and 80.66 {\textpm} 8.14\ μg SXTeq. /100g of meat in tuberculate cockles and sweet clam respectively. An experimental test of depuration of tuberculate cockles and sweet clam contaminated by the PSP toxins was conducted in laboratory conditions in the first week of January 2008. The results showed partial and progressive elimination of PSP toxins in two shellfish species over time. In the tuberculate cockle, the elimination of PSP appears to be slower compared with the sweet clam; it took 120 days to reach levels of 80\ μg SXTeq. /100g of meat, on the other hand only 3 days were needed to reach this safe concentration in the sweet clam.}, author = {B. Rijal Leblad and H. Nhhala and M. Daoudi and M. Marhraoui and M. K. Ouelad Abdellah and Beno{\^\i}t V{\'e}ron and H. Er-Raioui} } @article {6894, title = {Cross-linking plankton indicators to better define GES of pelagic habitats - EcApRHA Deliverable WP1.4}, year = {2017}, abstract = {The multimetric approach is a methodological tool which can be used to study a range of systems, including GES assessment of marine waters. Three indicators (PH1, PH2 and PH3) are currently being developed in the frame of the OSPAR convention for the pelagic habitat component. The three PH indicators provide information on different and complementary aspects of the plankton community that, only when considered altogether, provide a holistic vision of the ecosystem which is central to GES assessment. The present document aims at combining their information for the first time, following a multimetric approach. For this purpose, it was decided that the Plymouth Marine Laboratory L4 station would be the focus of this deliverable for the period 2000-2014.The formation of the molluscan shell nacre is regulated to a large extent by a matrix of extracellular macromolecules that are secreted by the shell-forming tissue, the mantle. This so-called {\textquoteleft}calcifying matrix{\textquoteright} is a complex mixture of proteins, glycoproteins and polysaccharides that is assembled and occluded within the mineral phase during the calcification process. Better molecular-level characterization of the substances that regulate nacre formation is still required. Notable advances in expressed tag sequencing of freshwater mussels, such as Elliptio complanata and Villosa lienosa, provide a pre-requisite to further characterize bivalve nacre proteins by a proteomic approach. In this study, we have identified a total of 48 different proteins from the insoluble matrices of the nacre, 31 of which are common to both E. complanata and V. lienosa. A few of these proteins, such as PIF, MSI60, CA, shematrin-like, Kunitz-like, LamG, chitin-binding-containing proteins, together with A-, D-, G-, M- and Q-rich proteins, appear to be analogues, if not true homologues, of proteins previously described from the pearl oyster or the edible mussel nacre matrices, thus forming a remarkable list of deeply conserved nacre proteins. This work constitutes a comprehensive nacre proteomic study of non-pteriomorphid bivalves that has enabled us to describe the molecular basis of a deeply conserved biomineralization toolkit among nacreous shell-bearing bivalves, with regard to proteins associated with other shell microstructures, with those of other mollusc classes (gastropods, cephalopods) and, finally, with other lophotrochozoans (brachiopods).
}, issn = {1742-5689}, doi = {10.1098/rsif.2016.0846}, url = {http://rsif.royalsocietypublishing.org/content/14/126/20160846}, author = {Marie, Benjamin and Arivalagan, Jaison and Math{\'e}ron, Lucr{\`e}ce and Bolbach, G{\'e}rard and Berland, Sophie and Marie, Arul and Marin, Fr{\'e}d{\'e}ric} } @article {5005, title = {Description of a new maternal larvophilic mouth-brooding cichlid species, Apistogramma megastoma sp. n. (Teleostei: Perciformes: Geophaginae), from Loreto, Peru}, journal = {Vertebrate Zoology }, volume = {67}, year = {2017}, author = {R{\"o}mer, CI and Estivals, G and Vela Diaz, A and Fabrice Duponchelle and Garcia Davila, C and Hahn, I and Renno, J-F}, editor = {R{\"o}mer, U} } @article {5033, title = {Description of a new maternal larvophilic mouth-brooding cichlid species, Apistogramma megastoma sp. n. (Teleostei: Perciformes: Geophaginae), from Loreto, Peru}, journal = {Vertebrate Zoology }, volume = {67}, year = {2017}, author = {R{\"o}mer, Uwe and R{\"o}mer, CI and Estivals, G and Vela Diaz, A. and Fabrice Duponchelle and Garcia Davila, C and Hahn, I and Renno, Jean-Francois} } @article {4801, title = {Dietary plasticity in the bivalve Astarte moerchi revealed by a multimarker study in two Arctic fjords}, journal = {Marine Ecology Progress Series}, volume = {567}, year = {2017}, pages = {157-172}, abstract = {ABSTRACT: Arctic coastal ecosystems are likely to be strongly affected by predicted environmental changes such as sea-ice decline and increase in freshwater input and turbidity. These changes are expected to impact primary production dynamics and consequently benthic consumers. The trophic relationship between primary producers and benthic primary consumers were compared in 2 Arctic fjords with different seasonal ice-cover: Young Sound (NE Greenland, a high-Arctic fjord) and Kongsfjorden (Svalbard Archipelago, a sub-Arctic fjord). For comparison, we selected the filter-feeding bivalve Astarte moerchi (belonging to the complex A. borealis), which has a broad geographical distribution in the Arctic. The bivalve digestive glands and food sources were characterized with fatty acids (FAs), bulk stable isotopes, and compound-specific stable isotopes of individual FAs. Our results suggest that diatoms of pelagic and/or benthic origin are the main contributors to the A. moerchi diet in Young Sound and make up a less important fraction of the diet in the Kongsfjorden population. A contribution by sympagic diatoms is clearly excluded in the sub-Arctic fjord and needs to be further assessed in the Arctic fjord. The A. moerchi diet in sub-Arctic Kongsfjorden is more diversified, varies with season, and has contributions from dinoflagellates and macroalgal detritus. These results, together with higher concentrations of total FAs in the Young Sound population, demonstrated and characterized the trophic plasticity of this bivalve species. Based on these results, we discuss potential effects of environmental factors (shifts in trophic resources, increase in turbidity) for A. moerchi populations in changing Arctic ecosystems.
}, author = {De Cesare, S and Tarik Meziane and Laurent Chauvaud and Richard, J and Sejr, M K and Th{\'e}bault, J and Winkler, G and Fr{\'e}d{\'e}ric Olivier} } @article {5906, title = {Distribution and abundance of skates ({Bathyraja} spp.) on the {Kerguelen} {Plateau} through the lens of the toothfish fisheries}, journal = {Fisheries Research}, volume = {186}, year = {2017}, pages = {65{\textendash}81}, abstract = {Three species of skate, Bathyraja eatonii, B. irrasa and B. murrayi, are commonly taken as incidental by-catch in Patagonian toothfish (Dissostichus eleginoides) longline and trawl fisheries, and the mackerelicefish (Champsocephalus gunnari) trawl fishery on the Kerguelen Plateau (KP) in the southern IndianOcean. Data from fishery observations for 1997{\textendash}2014 shows that the three skates were widely distributedacross the Kerguelen Plateau, showing different spatial distributions, linked mainly with depth. Off HeardIsland and McDonald Islands (HIMI), in the southern part of the KP, B. eatonii and B. irrasa were mostabundant to the north and northwest of Heard Island, out to the edge of the Australian Exclusive EconomicZone (EEZ), and were caught down to depths of 1790 m and 2059 m respectively. The smallest species, B.murrayi, occurred mainly in the shallower waters down to 550 m, and was most abundant to the northand northeast, close to Heard Island. Around Kerguelen Islands, in the northern part of the KP, skateswere most abundant between the 500 m and 1000 m contours circling and extending from the islands.Catch rates were modelled using zero-inflated GAMs and GLMs. The catch rates of skates from thetrawl fisheries in the Australian EEZ surrounding Heard Island and McDonald Islands have shown littleevidence of depletion on the main trawl fishing grounds, although there is evidence of a decrease inthe average total length of B. eatonii. The marine reserves and the conservation measures employed bythe Commission for the Conservation of Antarctic Marine Living Resources in the HIMI fisheries, appearto provide effective protection for the skates, at least in the shallower waters where the trawl fisheriesoperate. B. irrasa taken in the deeper waters where longline fishing occurs have shown a slight declinein catch rate over the years of the HIMI fishery. Although all skates are returned to the water from thisfishery, survival rates are unknown and careful monitoring should continue to assess the status of thesestocks. There appears to be little change in the abundance of the skate species at Kerguelen in the timeperiod.This study provides the first review of skate by-catch across both the HIMI and Kerguelen fisheries.Ongoing monitoring of species specific by-catch levels and further research to determine the importantlife history parameters of these species are required, particularly for B. irrasa which is taken in both trawland longline fisheries.
}, issn = {01657836}, doi = {10.1016/j.fishres.2016.07.022}, url = {http://linkinghub.elsevier.com/retrieve/pii/S016578361630234X}, author = {Nowara, G.B. and Burch, P. and Nicolas Gasco and Welsford, D.C. and Lamb, T.D. and Charlotte Chazeau and Guy Duhamel and Patrice Pruvost and Wotherspoon, S. and Candy, S.G.} } @article {4796, title = {DNA Metabarcoding of Amazonian Ichthyoplankton Swarms}, journal = {PLoSOne}, volume = {Jan 17;12}, year = {2017}, month = {01/2017}, pages = {:e0170009}, abstract = {Tropical rainforests harbor extraordinary biodiversity. The Amazon basin is thought to hold 30\% of all river fish species in the world. Information about the ecology, reproduction, and recruitment of most species is still lacking, thus hampering fisheries management and successful conservation strategies. One of the key understudied issues in the study of population dynamics is recruitment. Fish larval ecology in tropical biomes is still in its infancy owing to identification difficulties. Molecular techniques are very promising tools for the identification of larvae at the species level. However, one of their limits is obtaining individual sequences with large samples of larvae. To facilitate this task, we developed a new method based on the massive parallel sequencing capability of next generation sequencing (NGS) coupled with hybridization capture. We focused on the mitochondrial marker cytochrome oxidase I (COI). The results obtained using the new method were compared with individual larval sequencing. We validated the ability of the method to identify Amazonian catfish larvae at the species level and to estimate the relative abundance of species in batches of larvae. Finally, we applied the method and provided evidence for strong temporal variation in reproductive activity of catfish species in the Ucayal{\'\i} River in the Peruvian Amazon. This new time and cost effective method enables the acquisition of large datasets, paving the way for a finer understanding of reproductive dynamics and recruitment patterns of tropical fish species, with major implications for fisheries management and conservation.
}, author = {Maggia, M. E. and Vigouroux, Y. and Renno, Jean-Francois and Fabrice Duponchelle and Desmarais, E and Jesus Nu{\~n}ez-Rodriguez and Garc{\'\i}a-D{\'a}vila, C and Carvajal-Vallejos, F M and Paradis, Emmanuel and Martin, Jean-Fran{\c c}ois and Mariac, C{\'e}dric} } @article {5031, title = {Dynamics of DNA methylomes underlie oyster development}, journal = {PLoS Genetics}, volume = {13}, year = {2017}, month = {06/2017}, pages = {e1006807}, type = {Research Paper}, url = {https:// doi.org/10.13 71/journal.p gen.1006807}, author = {Guillaume Rivi{\`e}re and Yan He and Samuele Tecchio and Elizabeth Crowell and Micha{\"e}l Gras and Pascal Sourdaine and Guo, Ximing and Pascal Favrel} } @article {6667, title = {Dynamics of particulate organic matter composition in coastal systems: A spatio-temporal study at multi-systems scale}, journal = {Progress in Oceanography}, volume = {156}, year = {2017}, pages = {221-239}, abstract = {In coastal systems, the multiplicity of sources fueling the pool of particulate organic matter (POM) leads to divergent estimations of POM composition. Eleven systems (two littoral systems, eight embayments and semi-enclosed systems and one estuary) distributed along the three maritime fa{\c c}ades of France were studied for two to eight years in order to quantify the relative contribution of organic matter sources to the surface-water POM pool in coastal systems. This study was based on carbon and nitrogen elemental and isotopic ratios, used for running mixing models. The POM of the estuary is dominated by terrestrial material (93\% on average), whereas the POM of the other systems is dominated by phytoplankton (84\% on average). Nevertheless, for the latter systems, the POM composition varies in space, with (1) systems where POM is highly composed of phytoplankton (>=93\%), (2) systems characterized by a non-negligible contribution of benthic (8{\textendash}19\%) and/or river (7{\textendash}19\%) POM sources, and (3) the Mediterranean systems characterized by the contribution of diazotroph organisms (ca. 14\%). A continent-to-ocean gradient of river and/or benthic POM contribution is observed. Finally, time series reveal (1) seasonal variations of POM composition, (2) differences in seasonality between systems, and (3) an inshore-offshore gradient of seasonality within each system that were sampled at several stations. Spatial and seasonal patterns of POM composition are mainly due to local to regional processes such as hydrodynamics and sedimentary hydrodynamic (e.g. resuspension processes, changes in river flows, wind patterns influencing along-shore currents) but also due to the geomorphology of the systems (depth of the water column, distance to the shore). Future studies investigating the link between these forcings and POM composition would help to better understand the dynamics of POM composition in coastal systems. {\textcopyright} 2017 Elsevier Ltd}, keywords = {bacterium, benthos, biogeochemistry, Biological materials, C and n stable isotopes, C:N ratio, Carbon, carbon isotope, Coastal systems, coastal zone, Fluid dynamics, France, geomorphology, Hydrodynamics, Isotopes, isotopic ratio, Mediterranean sea, Meta analysis, meta-analysis, Mixing, Mixing models, nitrogen isotope, Organic compounds, particulate organic matter, Particulate organic matters, Phytoplankton, prokaryote, Rivers, seasonality, spatiotemporal analysis, stable isotope, Surface water, Surface waters, terrestrial deposit, Time series}, issn = {00796611}, doi = {10.1016/j.pocean.2017.03.001}, url = {https://www.sciencedirect.com/science/article/abs/pii/S0079661116301914}, author = {Li{\'e}nart, Camilla and Savoye, Nicolas and Bozec, Yann and Elsa Breton and Conan, Pascal and David, Val{\'e}rie and Eric Feunteun and Karine Granger{\'e} and Kerherv{\'e}, P. and Lebreton, B. and S{\'e}bastien Lefebvre and St{\'e}phane L{\textquoteright}Helguen and Mousseau, Laure and Raimbault, P and Richard, P. and Riera, P. and Sauriau, P.-G. and Gauthier Schaal and Aubert, F. and Aubin, S. and Bichon, S. and Boinet, C. and Bourasseau, L. and Br{\'e}ret, M. and Caparros, J. and Cariou, T. and Charlier, K. and Claquin, P. and Vincent Cornille and Corre, A.-M. and Costes, L. and Crispi, O. and Muriel Crouvoisier and Czamanski, M. and Del Amo, Y. and Derriennic, H. and Dindinaud, F. and Durozier, M. and Hanquiez, V. and Antoine Nowaczyk and Devesa, J. and Ferreira, S. and Fornier, M. and Garcia, F. and Garcia, N. and Geslin, S. and Emilie Grossteffan and Gueux, A. and Guillaudeau, J. and Guillou, G. and Joly, O. and Lachauss{\'e}e, N. and Lafont, M. and Lamoureux, J. and Lecuyer, E. and Lehodey, J.-P. and Lemeille, D. and Leroux, C. and Mac{\'e}, E. and Maria, E. and Pineau, P. and Petit, F. and Pujo-Pay, M. and Rimelin-Maury, P. and Sultan, E.} } @article {5136, title = {Dynamics of phytoplankton productivity and exopolysaccharides (EPS and TEP) pools in the Seine Estuary (France, Normandy) over tidal cycles and over two contrasting seasons}, journal = {Marine Environmental Research}, year = {2017}, month = {09/2017}, author = {Morelle, J{\'e}r{\^o}me and Mathilde Schapira and Pascal Claquin} } @article {5967, title = {Earliest known lepisosteoid extends the range of anatomically modern gars to the Late Jurassic}, journal = {Scientific reports}, volume = {7}, year = {2017}, pages = {17830}, author = {Brito, Paulo M. and Alvarado-Ortega, J and Meunier, Francois J.} } @article {5021, title = {Evidence of two species currently under the name of Eleotris fusca (Gobioidei: Eleotridae) in the Indian Ocean}, journal = {Cybium}, volume = {41}, year = {2017}, month = {06/2017}, pages = {213-220}, abstract = {The observation of the cephalic free neuromast pattern of the genus Eleotris allows to classify the specimens in different groups of species but, as diagnostic characters without overlap are scarce, the morphological identification of the species is difficult. However, genetic analyses, particularly with barcoding (COI), facilitate the discrimination between species. In a recent study on the phylogeography of Eleotris fusca Bloch \& Schneider, 1801 in the Indo-Pacific area, two species have been revealed although they present the same cephalic free neuromast pattern. The first one included specimens mainly from the Pacific Ocean and the second one, specimens from the Indian Ocean. They are separated with a mean pairwise divergence of 5.6\% and present 32 diagnostic nucleotide substitutions in the 585 bp of COI sequenced. After the examination of all the available types of the synonym of E. fusca from the Indian Ocean, we revalidated the name of Eleotris klunzingerii Pfeffer, 1893.
}, author = {Marion Mennesson and Philippe Keith} } @article {4755, title = {The expression of nuclear and membrane estradiol receptors in the European eel throughout spermatogenesis.}, journal = {Comparative Biochemistry and Physiology, Part A}, volume = {203}, year = {2017}, pages = {91-99}, author = {Morini, Marina and Penaranda, David S and V{\'\i}lchez, M C and Tveiten, Helge and Anne-Gaelle Lafont and Sylvie Dufour and P{\'e}rez, L and Asturiano, J F} } @article {5103, title = {Eye Development in Sepia officinalis Embryo: What the Uncommon Gene Expression Profiles Tell Us about Eye Evolution}, journal = {Front. Physiol.}, year = {2017}, month = {08/2017}, abstract = {In metazoans, there is a remarkable diversity of photosensitive structures; their shapes, physiology, optical properties, and development are different. To approach the evolution of photosensitive structures and visual function, cephalopods are particularly interesting organisms due to their most highly centralized nervous system and their camerular eyes which constitute a convergence with those of vertebrates. The eye morphogenesis in numerous metazoans is controlled mainly by a conserved Retinal Determination Gene Network (RDGN) including pax, six, eya, and dac playing also key developmental roles in non-retinal structures and tissues of vertebrates and Drosophila. Here we have identified and explored the role of Sof-dac, Sof-six1/2, Sof-eya in eye morphogenesis, and nervous structures controlling the visual function in Sepia officinalis. We compare that with the already shown expressions in eye development of Sof-otx and Sof-pax genes. Rhodopsin is the pigment responsible for light sensitivity in metazoan, which correlate to correlate visual function and eye development. We studied Sof-rhodopsin expression during retina differentiation. By in situ hybridization, we show that (1) all of the RDGN genes, including Sof-pax6, are expressed in the eye area during the early developmental stages but they are not expressed in the retina, unlike Sof-otx, which could have a role in retina differentiation; (2) Sof-rhodopsin is expressed in the retina just before vision gets functional, from stage 23 to hatching. Our results evidence a role of Sof-six1/2, Sof-eya, and Sof-dac in eye development. However, the gene network involved in the retinal photoreceptor differentiation remains to be determined. Moreover, for the first time, Sof-rhodopsin expression is shown in the embryonic retina of cuttlefish suggesting the evolutionary conservation of the role of rhodopsin in visual phototransduction within metazoans. These findings are correlated with the physiological and behavioral observations suggesting that S. officinalis is able to react to light stimuli from stage 25 of organogenesis on, as soon as the first retinal pigments appear.
}, keywords = {dac, eya, eye development, rhodopsin, Sepia officinalis, six}, doi = {10.3389/fphys.2017.00613}, author = {Imarazen, Boudjema and Aude Andouche and Yann Bassaglia and Pascal Jean Lopez and Laure Bonnaud-Ponticelli} } @article {4526, title = {First proteomic analyses of the dorsal and ventral parts of the Sepia officinalis cuttlebone.}, journal = {J Proteomics}, volume = {150}, year = {2017}, month = {2016 Aug 26}, pages = {63-73}, abstract = {Protein compounds constituting mollusk shells are known for their major roles in the biomineralization processes. These last years, a great diversity of shell proteins have been described in bivalves and gastropods allowing a better understanding of the calcification control by organic compounds and given promising applications in biotechnology. Here, we analyzed for the first time the organic matrix of the aragonitic Sepia officinalis shell, with an emphasis on protein composition of two different structures: the dorsal shield and the chambered part. Our results highlight an organic matrix mainly composed of polysaccharide, glycoprotein and protein compounds as previously described in other mollusk shells, with quantitative and qualitative differences between the dorsal shield and the chamber part. Proteomic analysis resulted in identification of only a few protein compounds underlining the lack of reference databases for Sepiidae. However, most of them contain domains previously characterized in matrix proteins of aragonitic shell-builder mollusks, suggesting ancient and conserved mechanisms of the aragonite biomineralization processes within mollusks.
BIOLOGICAL SIGNIFICANCE: The cuttlefish{\textquoteright}s inner shell, better known under the name "cuttlebone", is a complex mineral structure unique in mollusks and involved in tissue support and buoyancy regulation. Although it combines useful properties as high compressive strength, high porosity and high permeability, knowledge about organic compounds involved in its building remains limited. Moreover, several cuttlebone organic matrix studies reported data very different from each other or from other mollusk shells. Thus, this study provides 1) an overview of the organization of the main mineral structures found in the S. officinalis shell, 2) a reliable baseline about its organic composition, and 3) a first descriptive proteomic approach of organic matrices found in the two main parts of this shell. These data will contribute to the general knowledge about mollusk biomineralization as well as in the identification of protein compounds involved in the Sepiidae shell calcification.
}, issn = {1876-7737}, doi = {10.1016/j.jprot.2016.08.015}, author = {Le Pabic, Charles and Marie, Arul and Marie, Benjamin and Percot, Aline and Laure Bonnaud-Ponticelli and Pascal Jean Lopez and Gilles Luquet} } @article {4800, title = {Food resources of the bivalve Astarte elliptica in a sub-Arctic fjord: a multi-biomarker approach}, journal = {Marine Ecology Progress Series}, volume = {567}, year = {2017}, pages = {139-156}, abstract = {ABSTRACT: It is generally agreed that pelagic-benthic coupling is tight on Arctic shelves, i.e. that organic matter produced in the surface layers supports the seafloor and benthos. However, this paradigm is mainly based on the assumption that phytoplankton and ice algae are the main sources of carbon for the benthic communities. Climate change is expected to alter the relative contribution of food sources for benthic organisms. Macroalgal biomass is predicted to increase in near-shore systems in response to increased temperature and reduced sea ice cover. Thus, a better understanding of the relative contribution of benthic and pelagic components in benthic food webs in the Arctic is needed. In this study, a multi-biomarker approach (stable isotopes, fatty acid trophic markers, and compound-specific stable isotope analysis) was applied to link potential sources of carbon, including particulate organic matter from subsurface and bottom waters, sediment organic matter, and 6 macroalgal species to the diet of the bivalve Astarte elliptica collected below the euphotic zone in a sub-Arctic fjord (Kobbefjord, Greenland). Results showed that A. elliptica feeds on particulate and sediment organic matter and that brown macroalgae significantly support the Arctic benthic food web. Multi-biomarker approaches can be used to determine the diet of benthic organisms and track temporal variability in sources of food. It therefore appears to be an interesting method to study food regime strategies in response to changing primary production dynamics.
}, author = {Gaillard, B and Tarik Meziane and R{\'e}jean Tremblay and P Archambault and Blicher, M E and Laurent Chauvaud and Rysgaard, S and Fr{\'e}d{\'e}ric Olivier} } @article {5018, title = {Genetic and morphological evidence for cryptic species in Macrobrachium australe and resurrection of M. ustulatum (Crustacea, Palaemonidae)}, journal = {European Journal of Taxonomy}, volume = {289}, year = {2017}, month = {03/2017}, pages = {1{\textendash}27}, abstract = {\
\ Macrobrachium australe is an amphidromous prawn living in the insular freshwater systems of the Indo-Pacific. Because it possesses few informative morphological characters, that often vary from one habitat to another, M. australe has produced much taxonomic confusion and has historically been described under eight synonyms. Here, 53 specimens collected throughout the Indo-Pacific under the name M. australe were phylogenetically and morphologically examined. Results revealed that what has been called M. australe belongs to at least two distinct species: M. australe, distributed from the Southwest Indian Ocean to the Central Pacific Ocean, and a cryptic species potentially restricted to the Northwest Pacific Ocean, here identified as M. ustulatum, which until now was considered as a junior synonym. Although they are not quite found in the same habitat (lentic-lotic), the presence of these distinct, and reciprocally monophyletic entities in the same rivers on the islands of Palau and Santo strongly favors the hypothesis of two reproductively isolated entities. Six morphological characters, including the proportions of the joints of the male second pereiopod, the shape of the epistome lobe and the armature of the fourth thoracic sternite, are evidenced as diagnostic. A neotype of M. australe is designated and deposited in the Mus{\'e}um national d{\textquoteright}Histoire naturelle in Paris.
} } @article {5019, title = {Genetic and morphological evidence for cryptic species in Macrobrachium australe and resurrection of M. ustulatum (Crustacea, Palaemonidae)}, journal = {European Journal of Taxonomy}, volume = {289}, year = {2017}, month = {03/2017}, pages = {1{\textendash}27}, abstract = {\
\ Macrobrachium australe is an amphidromous prawn living in the insular freshwater systems of the Indo-Pacific. Because it possesses few informative morphological characters, that often vary from one habitat to another, M. australe has produced much taxonomic confusion and has historically been described under eight synonyms. Here, 53 specimens collected throughout the Indo-Pacific under the name M. australe were phylogenetically and morphologically examined. Results revealed that what has been called M. australe belongs to at least two distinct species: M. australe, distributed from the Southwest Indian Ocean to the Central Pacific Ocean, and a cryptic species potentially restricted to the Northwest Pacific Ocean, here identified as M. ustulatum, which until now was considered as a junior synonym. Although they are not quite found in the same habitat (lentic-lotic), the presence of these distinct, and reciprocally monophyletic entities in the same rivers on the islands of Palau and Santo strongly favors the hypothesis of two reproductively isolated entities. Six morphological characters, including the proportions of the joints of the male second pereiopod, the shape of the epistome lobe and the armature of the fourth thoracic sternite, are evidenced as diagnostic. A neotype of M. australe is designated and deposited in the Mus{\'e}um national d{\textquoteright}Histoire naturelle in Paris.
}, keywords = {Amphidromous prawn, Indo-West Pacific, morphology, multi-locus phylogeny}, author = {Castelin, Magalie and de Mazancourt, Valentin and Marquet, G{\'e}rard and Zimmermann, Gabrielle and Philippe Keith} } @article {5908, title = {Geography and life history traits account for the accumulation of cryptic diversity among {Indo}-{West} {Pacific} coral reef fishes}, journal = {Marine Ecology Progress Series}, volume = {583}, year = {2017}, pages = {179{\textendash}193}, author = {Hubert, Nicolas and Dettai, Agn{\`e}s and Patrice Pruvost and Cruaud, Corinne and Kulbicki, Michel and Myers, Robert F. and Borsa, Philippe} } @article {5283, title = {A global picture of biological invasion threat on islands.}, journal = {Nature Ecology \& Evolution}, volume = {1}, year = {2017}, month = {11/2017}, pages = {1862-1869}, abstract = {Biological invasions are among the main drivers of biodiversity losses. As threats from biological invasions increase, one of the most urgent tasks is to identify areas of high vulnerability. However, the lack of comprehensive information on the impacts of invasive alien species (IAS) is a problem especially on islands, where most of the recorded extinctions associated with IAS have occurred. Here we provide a global, network-oriented analysis of IAS on islands. Using network analysis, we structured 27,081 islands and 437 threatened vertebrates into 21 clusters, based on their profiles in term of invasiveness and shared vulnerabilities. These islands are mainly located in the Southern Hemisphere and many are in biodiversity hotspots. Some of the islands share similar characteristics regarding their connectivity that could be useful for understanding their response to invasive species. The major invaders found in these clusters of islands are feral cats, feral dogs, pigs and rats. Our analyses reveal those IAS that systematically act alone or in combination, and the pattern of shared IAS among threatened species, providing new information to implement effective eradication strategies. Combined with further local, contextual information this can contribute to global strategies to deal with IAS.
}, doi = {10.1038/s41559-017-0365-6}, url = {https://www.nature.com/articles/s41559-017-0365-6}, author = {Bellard, C{\'e}line and Rysman, Jean-Fran{\c c}ois and Leroy, Boris and Claud, C and Mace, Georgina M} } @article {8573, title = {The Gulf Stream frontal system: A key oceanographic feature in the habitat selection of the leatherback turtle?}, journal = {Deep Sea Research Part I: Oceanographic Research Papers}, volume = {123}, year = {2017}, month = {Jan-05-2017}, pages = {35 - 47}, issn = {09670637}, doi = {10.1016/j.dsr.2017.03.003}, url = {https://linkinghub.elsevier.com/retrieve/pii/S0967063716303016}, author = {Chambault, Philippine and Roquet, Fabien and Benhamou, Simon and Baudena, Alberto and Pauthenet, Etienne and de Thoisy, Beno{\^\i}t and Bonola, Marc and Dos Reis, Virginie and Crasson, Rodrigue and Brucker, Mathieu and Le Maho, Yvon and Chevallier, Damien} } @article {8575, title = {Habitat use and diving behaviour of gravid olive ridley sea turtles under riverine conditions in French Guiana}, journal = {Journal of Marine Systems}, volume = {165}, year = {2017}, month = {Jan-01-2017}, pages = {115 - 123}, issn = {09247963}, doi = {10.1016/j.jmarsys.2016.10.005}, url = {https://linkinghub.elsevier.com/retrieve/pii/S0924796316301889}, author = {Chambault, Philippine and Giraudou, Lucie and de Thoisy, Beno{\^\i}t and Bonola, Marc and Kelle, Laurent and Reis, Virginie Dos and Blanchard, Fabian and Le Maho, Yvon and Chevallier, Damien} } @mastersthesis {6807, title = {High-resolution climatic reconstruction in the tropical Pacific based on biocarbonate archives}, volume = {HDR}, year = {2017}, pages = {110}, abstract = {In the current context of global change and the associated need to provide forecasts on the future evolution of the climate as precise as possible, it is crucial to have a deep understanding of the earth climate system. Pacific Ocean is an important compartment of this system. It is the place of strong ocean-atmosphere interactions and the birthplace of the El Ni{\~n}o Southern Oscillation (ENSO), the impacts of which are catastrophic for the environments and the populations. The current knowledge on ENSO partly relies on observations which are however limited in time. To increase this dataset and understand the natural climate variability, additional data are acquired for past periods, based on various type of archives. Because ENSO occurrences are connected with the seasonal variability and last several months, high temporal resolution information, are necessary. In this manuscript I shall describe how I tried to develop, and to apply, environmental proxies from biocarbonate archives in the tropical Pacific Ocean to reconstruct the monthly or infra-monthly variability of the sea surface temperatures (SSTs) and the evaporation/precipitation balance. To do that, I focused my works on the mollusk shells and Porites sp coral skeleton. These archives contain various tracers (growth and geochemical variations) of the sought environmental variables. I will show that the thicknesses of growth decreases of the Protothaca thaca bivalve shells (East Pacific) indicate occurrences of El Nino events. In the Western part of the Pacific basin, changes in daily increment thicknesses in two Tridacnidae species, Tridacna maxima and Hippopus hippopus are related to SST changes but also depend on physiological condition of the animals. While certain geochemical tracers (Sr/Ca, δ18O) within Porites sp. Skeleton can be used with a certain confidence, this is not always the case for the mollusk shells. I will show that the use of Mg/Ca as a SST proxy depends on the species and that physiology and very early diagenesis are obstacles in the use of this proxy. In T. maxima and H hippopus, δ18O can be used as a tracer of SST and of the evaporation/precipitation balance. To reconstruct variations of these parameters during the Mid-Holocene, I worked on fossil giant clams and corals, after diagenesis assessment. I will show how various types of diagenesis impact the microstructure, the geochemistry, and the reconstructed environmental parameter. I will also propose hypotheses on the diagenesis process itself. Based on results obtained from Mid-Holocene archives, I will show that the post-glacial SST rise was reached at around 6.5-6 ka BP in the Southwest Pacific, that the South Pacific Convergence Zone influence was more probably reduced, the Hadley circulation enhanced, and that ENSO variability was probably reduced. The work done on Lapita (3 ka BP) Tridacnidae confirmed that the Lapita migration has probably been favored by an increase in climatic variability.The last chapter deals with the future directions I would like to give to my research that include i/ better understand the incorporation of proxies in mollusk and ii/ try to propose solution for sustainable management of tropical ecosystems based on the use of biocarbonate as recorder of the environment and its disturbances.In this study we quantified nitrate (NO3-) reduction (denitrification, anammox and DNRA) and N2O production in sediments and epibiont communities associated with Sydney Rock Oyster (Saccostrea glomerata) farming. In sediments beneath an active suspended oyster farm, DNRA accounted for 98\% of NO3- reduction with rates of up to 169\ {\textpm}\ 45\ μmol\ N m-2 h-1. Much of this DNRA was fuelled by NO3- derived from nitrification. Reference sediments had significantly lower DNRA rates of 83.8\ {\textpm}\ 28.2\ μmol\ N m-2 h-1, however this constituted 96\% of the sites total NO3- reduction. Fatty acid analysis showed that sediment organic matter was more labile in the oyster impacted sediments, facilitating subtle shifts in sediment oxygen demand which increased the Fe2+ availability with respect to the reference sediments. The difference in DNRA rate between the sites was attributed to autotrophic oxidation of soluble Fe2+ in sediments underlying the oyster cultures. DNRA was absent in the oyster shell epibiont communities and rates of anammox and denitrification were lower than in the sediments. Production of NH4+ from the oysters and their associated epibionts was larger than DNRA and reached a rate of 206.2\ μmol\ N m-2 h-1. Nitrous oxide production rates were generally low compared to other aquaculture systems and the net flux of N2O for the combined oyster cultivation system (i.e. sediments plus epibionts) was negative, i.e. there was N2O consumption in the sediments beneath the oysters. Overall, subtropical suspended oyster farming systems favour inorganic N retention over N loss.
}, keywords = {Dissimilatory nitrate reduction to ammonium}, issn = {0272-7714}, doi = {http://dx.doi.org/10.1016/j.ecss.2017.05.007}, url = {http://www.sciencedirect.com/science/article/pii/S0272771417301592}, author = {Dirk V. Erler and David T. Welsh and William W. Bennet and Tarik Meziane and C{\'e}dric Hubas and Daniele Nizzoli and Angus J.P. Ferguson} } @article {5152, title = {Inter and intra-specific growth and domoic acid production in relation to nutrient ratios and concentrations in Pseudo-nitzschia: phosphate an important factor}, journal = {Harmful Algae}, volume = {64}, year = {2017}, pages = {11-19}, abstract = {The factors responsible for inducing the synthesis of toxins and responses from toxic phytoplankton
blooms remain unclear. In this study we compare the influence of genotypic (at both the intra and
interspecific levels) and environmental factors (nutrient concentration and ratio) on growth (in terms of
cell densities) and domoic acid (DA) production in three Pseudo-nitzschia species: P. australis, P.pungens
and P.fradulenta. A strong phosphate effect was detected. More precisely, a low initial concentration in
phosphate, even at high initial nitrogen and silicate concentrations, induced the highest DA
concentrations and the lowest cell densities in all strains/species studied. In contrast, a low initial
concentration of nitrogen and silicate combined, with a higher phosphate concentration resulted in low
cell densities, but without high DA production. Inter-species effects were also observed in DA production,
where P. australis represented the most toxigenic species of all. Intra-specific variations were only
moderate, except for a recently isolated P. australis strain, suggesting the influence of time since isolation
on the physiology and DA production of Pseudo-nitzschia species. Overall, the lack of strong interaction
between environmental and genotypic factors showed that the various genotypes investigated did not
extensively diverge in their ability to respond (in terms of DA production and cell densities) to contrasting
nutrient supply.
Aquatic ecosystems of the Bolivian Altiplano (\~{}3800 m a.s.l.) are characterized by extreme hydro-climatic constrains (e.g., high UV-radiations and low oxygen) and are under the pressure of increasing anthropogenic activities, unregulated mining, agricultural and urban development. We report here a complete inventory of mercury (Hg) levels and speciation in the water column, atmosphere, sediment and key sentinel organisms (i.e., plankton, fish and birds) of two endorheic Lakes of the same watershed differing with respect to their size, eutrophication and contamination levels. Total Hg (THg) and monomethylmercury (MMHg) concentrations in filtered water and sediment of Lake Titicaca are in the lowest range of reported levels in other large lakes worldwide. Downstream, Hg levels are 3-10 times higher in the shallow eutrophic Lake Uru-Uru than in Lake Titicaca due to high Hg inputs from the surrounding mining region. High percentages of MMHg were found in the filtered and unfiltered water rising up from \<1 to \~{}50\% THg from the oligo/hetero-trophic Lake Titicaca to the eutrophic Lake Uru-Uru. Such high \%MMHg is explained by a high in situ MMHg production in relation to the sulfate rich substrate, the low oxygen levels of the water column, and the stabilization of MMHg due to abundant ligands present in these alkaline waters. Differences in MMHg concentrations in water and sediments compartments between Lake Titicaca and Uru-Uru were found to mirror the offset in MMHg levels that also exist in their respective food webs. This suggests that in situ MMHg baseline production is likely the main factor controlling MMHg levels in fish species consumed by the local population. Finally, the increase of anthropogenic pressure in Lake Titicaca may probably enhance eutrophication processes which favor MMHg production and thus accumulation in water and biota.
}, keywords = {Titicaca}, issn = {0269-7491}, doi = {https://doi.org/10.1016/j.envpol.2017.08.009}, url = {https://www.sciencedirect.com/science/article/pii/S0269749117320572}, author = {S. Gu{\'e}dron and D. Point and D. Acha and S. Bouchet and P.A. Baya and E. Tessier and M. Monperrus and C.I. Molina and A. Groleau and Laurent Chauvaud and J. Thebault and E. Amice and L. Alanoca and C. Duwig and G. Uzu and Lazzaro, Xavier and A. Bertrand and S. Bertrand and C. Barbraud and K. Delord and Gibon, Francois-Marie and C. Ibanez and M. Flores and P. Fernandez Saavedra and M.E. Ezpinoza and C. Heredia and F. Rocha and C. Zepita and D. Amouroux} } @article {G{\'e}rard20172211, title = {Metazoan parasite communities in Alosa alosa (Linnaeus, 1758) and Alosa fallax (Lac{\'e}p{\`e}de, 1803) (Clupeidae) from North-East Atlantic coastal waters and connected rivers}, journal = {Parasitology Research}, volume = {116}, number = {8}, year = {2017}, note = {cited By 1}, pages = {2211-2230}, doi = {10.1007/s00436-017-5525-8}, url = {https://link.springer.com/article/10.1007\%2Fs00436-017-5525-8}, author = {G{\'e}rard, C. and Herv{\'e}, M. and Gay, M. and Bourgau, O. and Eric Feunteun and Anthony Acou and R{\'e}veillac, E.} } @article {8583, title = {Mixed-stock analysis in green turtles Chelonia mydas: mtDNA decipher current connections among west Atlantic populations}, journal = {Mitochondrial DNA Part A}, volume = {28}, year = {2017}, month = {Apr-03-2017}, pages = {197 - 207}, issn = {2470-1394}, doi = {10.3109/19401736.2015.1115843}, url = {https://www.tandfonline.com/doi/full/10.3109/19401736.2015.1115843}, author = {Costa Jordao, Juliana and Bondioli, Ana Cristina Vigliar and Almeida-Toledo, Lurdes Foresti de and Bilo, Karin and Berzins, Rachel and Le Maho, Yvon and Chevallier, Damien and de Thoisy, Beno{\^\i}t} } @article {4626, title = {Molecular characterization of an adipokinetic hormone-related neuropeptide (AKH) from a mollusk}, journal = {General and Comparative Endocrinology}, volume = {243}, year = {2017}, pages = {15-21}, author = {Marie-Pierre Dubos and Bernay, Beno{\^\i}t and Pascal Favrel} } @article {5560, title = {Morphodynamics of an eroding beach and foredune in the Mekong River delta: Implications for deltaic shoreline change}, journal = {Continental Shelf Research}, volume = {147}, year = {2017}, pages = {155 - 164}, abstract = {River delta shorelines composed of sand may be characterized by complex spatial and temporal patterns of erosion and accretion even when sand supply is readily available. This is especially the case for deltas with multiple mouths subject to significant wave and tide influence. High-resolution topographical and wave and current measurements were conducted from 2010 to 2012 at Ba D{\^o}ng beach, a popular resort located on the largest of the multiple inter-distributary plains of the Mekong River delta. Ba D{\^o}ng beach is a mesotidal, multiple bar-trough system. The upper beach corresponds to the current active beach ridge in the sequence of ridges that have marked the progradation of the inter-distributary delta plains, and is capped by a low foredune that protects villages and agricultural land from marine flooding. During the low river-flow season, the beach is characterized by Northeast monsoon waves and strong longshore currents that transport sediment towards the southwest. Weaker longshore currents towards the northeast are generated by Southwest monsoon waves during the high river-flow season. Ba D{\^o}ng beach underwent strong erosion between 2010 and 2012, following a phase of massive accretion. In 2012, this erosion resulted in breaching of the foredune, contributing to concerns that the Mekong delta had become vulnerable to retreat. The local erosion at Ba D{\^o}ng needs to be considered, however, in the broader context of delta shoreline morphodynamics, which involves space- and time-varying patterns of beach accretion and erosion. These patterns are the present expressions of plan-view beach-ridge morphology in the delta, which is characterized by flaring and truncations that reflect changing beach morphodynamics in the course of deltaic progradation. We surmise that these patterns are related to complex interactions involving river water and sediment discharge, waves and wave-generated longshore currents, tidal currents, and shoreline orientation.
}, keywords = {Asian monsoon waves, Beach morphodynamics, Beach ridges, Delta erosion and accretion, Mekong delta}, issn = {0278-4343}, doi = {https://doi.org/10.1016/j.csr.2017.06.018}, url = {http://www.sciencedirect.com/science/article/pii/S0278434316305271}, author = {E.J. Anthony and P. Dussouillez and Franck Dolique and M. Besset and G. Brunier and V.L. Nguyen and M. Goichot} } @article {9366, title = {Morphology and evolution of the nervous system in Gnathostomulida (Gnathifera, Spiralia)}, journal = {Organisms Diversity \& Evolution}, volume = {17}, year = {2017}, month = {Jan-06-2017}, pages = {447 - 475}, issn = {1439-6092}, doi = {10.1007/s13127-017-0324-8}, url = {http://link.springer.com/10.1007/s13127-017-0324-8}, author = {G{\k a}siorowski, Ludwik and Bekkouche, Nicolas and Worsaae, Katrine} } @article {4724, title = {Multi-approach analysis to assess diet of harbour porpoises Phocoena phocoena in the southern North Sea}, journal = {Marine Ecology and Progress Series}, volume = {563}, year = {2017}, month = {01/2017}, pages = {249-259}, abstract = {Over the past decade, the distribution of harbour porpoises Phocoena phocoena has undergone a southward shift in the North Sea, which has led to an increase in the number of stranded porpoises in its southern part. Since the changes in distribution and relative abundance of porpoises may be linked to the changes in prey availability, the aim of the present work was to investigate whether any changes in the feeding habits of harbour porpoises along the North Sea occurred in the past decade. The diet of harbour porpoises stranded along the southern North Sea (northern France and Belgian coast) was assessed through 3 complementary methods: stomach content analysis, stable isotopes (carbon and nitrogen) analysis determined from muscle samples, and fatty acids analysis determined from blubber samples. Fatty acid patterns and stable isotope values from 52 porpoises were compared to 14 potential prey species collected from the southern North Sea. Our results showed that the diet of porpoises along the southern North Sea comprises fish species that are among the most abundant and widely distributed in the area, except for the sardine Sardina pilchardus that appeared to be a new potential prey. Moreover, our results suggested that the decline in sandeel (Ammodytidae) in the northern parts of the North Sea along with the re-invasion of the southern North Sea by sardine species might affect the distribution of harbour porpoises.
}, author = {Mahfouz, C and Tarik Meziane and Henry, F and Abi-Ghanem, C and Spitz, J and Jauniaux, T and Bouveroux, T and Khalef, G} } @article {5153, title = {{A nanoscale study of carbon and nitrogen fluxes in mats of purple sulfur bacteria: implications for carbon cycling at the surface of coastal sediments}}, journal = {Frontiers in Microbiology}, volume = {8}, year = {2017}, pages = {1995}, abstract = {Mass blooms of purple sulfur bacteria growing seasonally on green stranded macroalgae have a major impact on the microbial composition and functionality of intertidal mats. To explore the active anoxygenic phototrophic community in purple bacterial mats from the Roscoff Aber Bay (Brittany, France), we conducted a combined approach including molecular and high-resolution secondary ion mass spectrometry (NanoSIMS) analyses. To investigate the dynamics of carbon and nitrogen assimilation activities, NanoSIMS was coupled with a stable isotope probing (SIP) experiment and a compound specific isotope analysis (CSIA) of fatty acid methyl ester (FAME). Sediment samples were incubated with 13C- and/or 15N-labelled acetate, pyruvate, bicarbonate and ammonium. NanoSIMS analysis of 13C - and 15N -incubated samples showed elevated incorporations of 13C - and 15N in the light and of 13C -acetate in the dark into dense populations of spherical cells that unambiguously dominated the mats. These results confirmed CSIA data that ranked vaccenic acid, an unambiguous marker of purple sulfur bacteria, as the most strongly enriched in the light after 13C -acetate amendment and indicated that acetate uptake, the most active in the mat, was not light-dependent. Analysis of DNA- and cDNA-derived pufM gene sequences revealed that Thiohalocapsa-related clones dominated both libraries and were the most photosynthetically active members of the mat samples. This study provides novel insights into the contribution of purple sulfur bacteria to the carbon cycle during their seasonal developments at the sediment surface in the intertidal zone.
}, doi = {10.3389/fmicb.2017.01995}, url = {https://www.frontiersin.org/articles/10.3389/fmicb.2017.01995/abstract}, author = {C{\'e}dric Hubas and Boeuf, Dominique and Bruno Jesus and Najet Thiney and Bozec, Yann and Christian Jeanthon} } @article {8572, title = {New epizoic diatom (Bacillariophyta) species from sea turtles in the Eastern Caribbean and South Pacific}, journal = {Diatom Research}, volume = {32}, year = {2017}, month = {Feb-01-2017}, pages = {109 - 125}, issn = {0269-249X}, doi = {10.1080/0269249X.2017.1299042}, url = {https://www.tandfonline.com/doi/full/10.1080/0269249X.2017.1299042}, author = {Riaux-Gobin, Catherine and Witkowski, Andrzej and Kociolek, J. Patrick and Ector, Luc and Chevallier, Damien and Comp{\`e}re, Pierre} } @article {9367, title = {New insights on the musculature of filospermoid Gnathostomulida}, journal = {Zoomorphology}, volume = {136}, year = {2017}, month = {Jan-12-2017}, pages = {413 - 424}, issn = {0720-213X}, doi = {10.1007/s00435-017-0367-6}, url = {http://link.springer.com/10.1007/s00435-017-0367-6}, author = {G{\k a}siorowski, Ludwik and Bekkouche, Nicolas and S{\o}rensen, Martin V. and Kristensen, Reinhardt M. and Sterrer, Wolfgang and Worsaae, Katrine} } @article {4756, title = {Nuclear and membrane progestin receptors in the European eel: characterization and expression in vivo through spermatogenesis}, journal = {Comparative Biochemistry and Physiology, Part A}, volume = {207}, year = {2017}, pages = {79-92}, author = {Morini, Marina and Penaranda, David S and V{\'\i}lchez, M C and Nourizadeh-Lillabadi, R and Anne-Gaelle Lafont and Sylvie Dufour and Asturiano, J F and Weltzien, Finn-Arne and Perez, Luz} } @article {4725, title = {Nursery function of coastal temperate benthic habitats: New insight from the bivalve recruitment perspective}, journal = {Journal of Sea Research}, volume = {121}, year = {2017}, pages = {11-23}, abstract = {
Marine habitat function has been typically investigated in terms of biogeochemical regulation but rarely in terms of population renewal, which is mainly controlled by recruitment dynamics. The recruitment phase is crucial for
organisms with a bentho-pelagic life cycle, such as bivalves, and it regulates the population renewal success. This study provides new insight on the role of temperate benthic habitats on bivalve recruitment, as a function of
nursery areas. Six dominant benthic habitats of the Chausey archipelago (Normandy, France) were studied. In each habitat, bivalve recruit assemblages were described at the end of two reproductive seasons. Furthermore, Ostrea edulis
juveniles were immerged on each habitat during two months to compare growth performances and feeding status, estimated by fatty acid composition. Recruit assemblages differ from each habitat according to sediment grain-size composition and bathymetrical levels. Subtidal habitats, and especially Crepidula fornicata banks and Glycymeris glycymeris coarse sands, supported the highest species abundance and richness of recruits. All O. edulis juveniles fed on the same trophic resources but digestive glands of juveniles from C. fornicata banks were more concentrated in total fatty acids than those from subtidal G. glycymeris coarse sands and maerl banks. Our results depict the key role of subtidal and structured habitats, composed of ecosystem engineers, in enhancing bivalve recruitment and extending the bivalve population renewal. This study suggests that the crucial role of
these habitats as bivalve nurseries must be integrated in management perspectives
The population dynamics of different Pseudo-nitzschia species, along with particulate domoic acid (pDA) concentrations, were studied from May 2012 to December 2013 in the Bay of Seine (English Channel, Normandy). While Pseudo-nitzschia spp. blooms occurred during the two years of study, Pseudo-nitzschia species diversity and particulate domoic acid concentrations varied greatly. In 2012, three different species were identified during the spring bloom (P. australis, P. pungens and P. fraudulenta) with high pDA concentrations (\~{}1400\ ng\ l-1) resulting in shellfish harvesting closures. In contrast, the 2013 spring was characterised by a P. delicatissima bloom without any toxic event. Above all, the results show that high pDA concentrations coincided with the presence of P. australis and with potential silicate limitation (Si:N\ \<\ 1), while nitrate concentrations were still replete. The contrasting environmental conditions between 2012 and 2013 highlight different environmental controls that might favour the development of either P. delicatissima or P. australis. This study points to the key role of Pseudo-nitzschia diversity and cellular toxicity in the control of particulate domoic acid variations and highlights the fact that diversity and toxicity are influenced by nutrients, especially nutrient ratios.
}, keywords = {Bloom dynamics, Domoic acid, English Channel, Nutrient ratios, Pseudo-nitzschia Species diversity}, issn = {1568-9883}, doi = {https://doi.org/10.1016/j.hal.2017.07.005}, url = {http://www.sciencedirect.com/science/article/pii/S1568988317300148}, author = {Thorel, Maxine and Pascal Claquin and Mathilde Schapira and Romain Le Gendre and Riou, Philippe and Goux, Didier and Le Roy, Bertrand and Raimbault, V and Deton-Cabanillas, Anne-Flore and Bazin, Pauline and Kientz-Bouchart, Val{\'e}rie and Juliette Fauchot} } @article {6928, title = {The nutritional quality of non-calcified macroalgae in Guadeloupe (Lesser Antilles) evaluated by their biochemical composition}, journal = {Gulf and Caribbean Research}, volume = {28}, year = {2017}, pages = {1-6}, author = {Charlotte R. Dromard and Bouchon, Yolande and Harmelin-Vivien, Mireille and Bouchon, Claude} } @article {6902, title = {The Pax gene family: Highlights from cephalopods}, journal = {PLOS ONE}, volume = {12}, year = {2017}, month = {Feb-03-2017}, pages = {e0172719}, doi = {10.1371/journal.pone.017271910.1371}, url = {https://dx.plos.org/10.1371/journal.pone.0172719}, author = {Navet, Sandra and Buresi, Auxane and S{\'e}bastien Baratte and Aude Andouche and Laure Bonnaud-Ponticelli and Yann Bassaglia}, editor = {Schubert, Michael} } @article {7900, title = {Is personality of young fish consistent through different behavioural tests?}, journal = {Applied Animal Behaviour Science}, volume = {194}, year = {2017}, month = {Jan-09-2017}, pages = {127 - 134}, abstract = {Most studies carried out on personality recognized that personality is defined by behavioural traits consistent through time and/or contexts. In\ fish, most studies on personality were performed either on juveniles (aged between 6 months and 1 year) or adults, but very few focused on the early life stages. The main goal of this study is to characterize behavioural syndromes and to highlight the existence of a personality in young juvenile pikeperch, a species with a strong economic value. To study the consistency of behavioural responses of juvenile (50 and 64 days post-hatch) pikeperch\ Sander lucioperca\ (n = 41, total length = 5.8 {\textpm} 1.0 cm and mass = 1.6 {\textpm} 0.7 g), we performed three tests per\ fish in one day: exploration (cross-maze), dyadic and restraint test. In the cross-maze test, exploratory\ fish were more active and bolder. In the dyadic test,\ fish with the highest number of contacts, showed also more approaches, orientations and avoidance behaviours. In the restraint test, bolder\ fish were more active and tried to escape more often. Consequently, the investigation of the different behavioural responses of each\ fish highlighted behavioural syndromes in this species. Furthermore, for the\ first time, we showed, with a cross-context analysis, that young juvenile pikeperch, responded in the same way to exploration and dyadic test but their responses were opposite in the restraint test. Our results opened new opportunities for testing individual personality in very young\ fish that may help solving some aquaculture problems, such as intra-cohort cannibalism.}, keywords = {Behavioural syndromes, behavioural tests, Individual personality, Pikeperch juveniles, Sander lucioperca}, issn = {01681591}, doi = {10.1016/j.applanim.2017.05.012}, url = {https://linkinghub.elsevier.com/retrieve/pii/S0168159117301545}, author = {Tatiana Colchen and Faux, E. and Teletchea, F. and Pasquet, A.} } @article {4687, title = {Phylogeography of the reef-building polychaetes of the genus Phragmatopoma in the western Atlantic Region}, journal = {Journal of Biogeography}, volume = {44}, year = {2017}, month = {06/2017}, pages = {1612-1625}, abstract = {Aim
To verify the synonymy of the reef-building polychaete Phragmatopoma caudata (described for the Caribbean) and Phragmatopoma lapidosa (described for Brazil) using molecular data. To evaluate the patterns of genetic diversity and connectivity among populations from Florida to South Brazil.
Location
Intertidal zone in the western Atlantic biogeographical Region: Brazil, eastern Caribbean and Florida (USA).
Methods
DNA sequence data from one mitochondrial (cox-1) and one nuclear ribosomal (ITS-1) loci were obtained from 11 populations of P. caudata spanning the coasts of Brazil, eastern Caribbean and Florida. Phylogenetic relationships among populations of P. caudata and other members of the genus were inferred by Bayesian methods. Population differentiation was evaluated by Bayesian analysis of population structure (baps), AMOVA and pairwise φst. Demographic history was inferred by Bayesian skyline plots.
Results
Phylogenetic inference supported the interpretation of a single species of Phragmatopoma spanning the Brazilian and Caribbean Provinces of the western Atlantic Region. Little population structure was observed across the species distribution, with the exception of the Florida population. The baps analysis supported a 2-population model, with population differentiation being strong and significant between Florida and all other Atlantic populations for cox-1, and significant between Florida and most populations for ITS-1. Differences in genetic diversity were not significant between Caribbean and Brazilian populations, although several populations in Brazil had low values for diversity indices. Bayesian skyline plots indicate population expansion starting at c.\ 200\ ka.
Main conclusions
Phragmatopoma caudata is able to maintain genetic connectivity across most of its geographical range, with population differentiation being observed only between Florida and all other localities, possibly due to ecological speciation in the transition zone between tropical and subtropical environments. Long-distance connectivity across much of the species range is likely the result of long-lived larvae that are tolerant to a wide range of environmental conditions.
}, doi = {10.1111/jbi.12938}, author = {Flavia Nunes and Alain Van Wormhoudt and Larisse Faroni Perez and J{\'e}r{\^o}me Fournier} } @article {4341, title = {Physiological adjustments and transcriptome reprogramming are involved in the acclimation to salinity gradients in diatoms}, journal = {Environmental Microbiology}, volume = {19}, year = {2017}, month = {5}, pages = {909-925}, abstract = {Salinity regimes in estuaries and coastal areas vary with river discharge patterns, seawater evaporation, the morphology of the coastal waterways, and the dynamics of marine water mixing. Therefore, microalgae have to respond to salinity variations at time scales ranging from daily to annual cycles. Microalgae may also have to adapt to physical alterations that induce the loss of connectivity between habitats and the enclosure of bodies of water. Here, we integrated physiological assays and measurements of morphological plasticity with a functional genomics approach to examine the regulatory changes that occur during the acclimation to salinity in the estuarine diatom Thalassiosira weissflogii. We found that cells exposed to different salinity regimes for a short or long period presented adjustments in their carbon fractions, silicon pools, pigment concentrations and/or photosynthetic parameters. Salinity-induced alterations in frustule symmetry were observed only in the long-term cultures. Whole transcriptome analyses revealed a down-regulation of nuclear and plastid encoded genes during the long-term response and identified only a few regulated genes that were in common between the short- and long-term responses. We propose that in diatoms, one strategy for acclimating to salinity gradients and maintaining optimal cellular fitness could be a reduction in the cost of transcription. This article is protected by copyright. All rights reserved.
}, issn = {1462-2920}, doi = {10.1111/1462-2920.13398}, url = {http://dx.doi.org/10.1111/1462-2920.13398}, author = {Adrien Bussard and Corre, Erwan and C{\'e}dric Hubas and Duvernois-Berthet, Evelyne and Gildas Le Corguille and Jourdren, Laurent and Coulpier, Fanny and Pascal Claquin and Pascal Jean Lopez} } @article {5023, title = {The {\textquotedblleft}Pinocchio-shrimp effect{\textquotedblright}: first evidence of variation in rostrum length with the environment in Caridina H. Milne-Edwards, 1837 (Decapoda: Caridea: Atyidae)}, journal = {Journal of Crustacean Biology}, volume = {37}, year = {2017}, month = {05/2017}, pages = {243-248}, abstract = {External morphology has always been the first criterion used to separate species of shrimps,
especially in the freshwater genus Caridina H. Milne-Edwards, 1837, but more doubts have been
expressed regarding the relevance of some of the morphological characters. We collected 27
specimens of Caridina from seven different localities during field work conducted on the island
of Pohnpei (Federated States of Micronesia). After genetic verification that they all belonged to
the same species, 19 morphological variables were measured and correlated with the elevation
of the collecting stations using correlation analyses. We provide evidence that the length of the
rostrum showed strong negative correlation with the elevation. This could be explained either
by the physical stress exerted on the rostrum by the stronger water currents in the stations at a
higher elevation, as a defence against predators in the lower stations, or a combination of both
possibilities. The taxonomy of these shrimps is thus challenging and should not rely only on
rostrum length, but on other characters such as the number of teeth on the dorsal margin of
the carapace, which is not correlated with rostrum length and therefore, with the environment.
}, keywords = {correlation analysis, effect of elevation, freshwater shrimps, Micronesia, morphology, taxonomy}, author = {de Mazancourt, Valentin and Marquet, G{\'e}rard and Philippe Keith} } @article {5175, title = {Pollution at Cohana Bay, Lake Titicaca (Bolivia): challenges and opportunities to promote its recovery}, journal = {Ecología en Bolivia}, volume = {52}, year = {2017}, month = {September 2017}, pages = {65-76}, issn = {1605-2528}, author = {Molina, Carlos I and Lazzaro, Xavier and Gu{\'e}dron, S and Dar{\'\i}o Ach{\'a}} } @article {5285, title = {Present and future distribution of three aquatic plants taxa across the world: decrease in native and increase in invasive ranges}, journal = {Biological Invasions}, volume = {19}, year = {2017}, month = {04/2017}, pages = {2159-2170}, abstract = {Inland aquatic ecosystems are vulnerable to both climate change and biological invasion at broad spatial scales. The aim of this study was to establish the current and future potential distribution of three invasive plant taxa, Egeria densa, Myriophyllum aquaticum and Ludwigia spp., in their native and exotic ranges. We used species distribution models (SDMs), with nine different algorithms and three global circulation models, and we restricted the suitability maps to cells containing aquatic ecosystems. The current bioclimatic range of the taxa was predicted to represent 6.6{\textendash}12.3\% of their suitable habitats at global scale, with a lot of variations between continents. In Europe and North America, their invasive ranges are predicted to increase up to two\ fold by 2070 with the highest gas emission scenario. Suitable new areas will mainly be located to the north of their current range. In other continents where they are exotic and in their native range (South America), the surface areas of suitable locations are predicted to decrease with climate change, especially for Ludwigia spp. in South America (down to -55\% by 2070 with RCP 8.5 scenario). This study allows to identify areas vulnerable to ongoing invasions by aquatic plant species and thus could help the prioritisation of monitoring and management, as well as contribute to the public awareness regarding biological invasions.
}, doi = {10.1007/s10530-017-1428-y}, url = {https://link.springer.com/article/10.1007/s10530-017-1428-y}, author = {Gillard, Morgane and Thi{\'e}baut, Gabrielle and Deleu, Carole and Leroy, Boris} } @article {4860, title = {Proteomic response of Macrobrachium rosenbergii hepatopancreas exposed to chlordecone: Identification of endocrine disruption biomarkers?}, journal = {Ecotoxicology and Environmental Safety}, volume = {141}, year = {2017}, pages = {306-314}, author = {Lafontaine, Anne and Baiwir, Dominique and Joaquim-Justo, C{\'e}lia and de Pauw, Edwin and Lemoine, Soazig and Boulang{\'e}-Lecomte, C{\'e}line and Jo{\"e}lle Forget-Leray and Thom{\'e}, Jean-Pierre and Gismondi, Eric} } @article {5016, title = {Rapid de novo assembly of the European eel genome from nanopore sequencing reads}, journal = {Scientific Reports}, volume = {7}, year = {2017}, pages = {7213}, author = {J. Jansen and M. Liem and S. Jong-Raadsen and Sylvie Dufour and Weltzien, Finn-Arne and W. Swinkels and A. Koelewijn and A. Palstra and B. Pelster and H. Spaink and G. van den Thillart and Dirks, Ron and Christiaan V Henkel} } @article {4757, title = {Recurrent DCC gene losses during bird evolution}, journal = {Scientific Reports}, volume = {7}, year = {2017}, pages = {37569}, author = {Friocourt, Fran{\c c}ois and Anne-Gaelle Lafont and Kress, Cl{\'e}mence and Pain, Bertrand and Manceau, Marie and Sylvie Dufour and Chedotal, Alain} } @article {5366, title = {Regional and latitudinal patterns of soft-bottom macrobenthic invertebrates along French coasts: Results from the RESOMAR database}, journal = {Journal of Sea Research}, volume = {130}, year = {2017}, pages = {96 - 106}, abstract = {This study aims to describe the patterns of soft bottom macrozoobenthic richness along French coasts. It is based on a collaborative database developed by the {\textquotedblleft}R{\'e}seau des Stations et Observatoires Marins{\textquotedblright} (RESOMAR). We investigated patterns of species richness in sublittoral soft bottom habitats (EUNIS level 3) at two different spatial scales: 1) seaboards: English Channel, Bay of Biscay and Mediterranean Sea and 2) 0.5{\textdegree} latitudinal and longitudinal grid. Total observed richness, rarefaction curves and three incidence-based richness estimators (Chao2, ICE and Jacknife1) were used to compare soft bottom habitats species richness in each seaboard. Overall, the Mediterranean Sea has the highest richness and despite higher sampling effort, the English Channel hosts the lowest number of species. The distribution of species occurrence within and between seaboards was assessed for each major phylum using constrained rarefaction curves. The Mediterranean Sea hosts the highest number of exclusive species. In pairwise comparisons, it also shares a lower proportion of taxa with the Bay of Biscay (34.1\%) or the English Channel (27.6\%) than that shared between these two seaboards (49.7\%). Latitudinal species richness patterns along the Atlantic and English Channel coasts were investigated for each major phylum using partial LOESS regression controlling for sampling effort. This showed the existence of a bell-shaped latitudinal pattern, highlighting Brittany as a hotspot for macrobenthic richness at the confluence of two biogeographic provinces.
}, keywords = {France, Latitudinal pattern, Regional pattern, Soft-bottom, Species richness, Zoobenthos}, issn = {1385-1101}, doi = {https://doi.org/10.1016/j.seares.2017.03.011}, url = {http://www.sciencedirect.com/science/article/pii/S1385110116302660}, author = {R{\'e}gis K. Gallon and Nicolas Lavesque and Jacques Grall and C{\'e}line Labrune and Antoine Gr{\'e}mare and Guy Bachelet and Hugues Blanchet and Paulo Bonif{\'a}cio and Vincent M.P. Bouchet and Jean-Claude Dauvin and Nicolas Desroy and Franck Gentil and Laurent Guerin and C{\'e}line Houbin and J{\'e}r{\^o}me Jourde and Sandrine Laurand and Michel Le Duff and Vincent Le Garrec and Xavier de Montaudouin and Fr{\'e}d{\'e}ric Olivier and Francis Orvain and Pierre-Guy Sauriau and Eric Thi{\'e}baut and Olivier Gauthier} } @article {7901, title = {Relationship between individual and group learning in a marine teleost: A case study with sea bass under self-feeding conditions}, journal = {Learning \& Behavior}, volume = {45}, year = {2017}, month = {Jan-09-2017}, pages = {276 - 286}, abstract = {Fish learning and cognition are usually approached by testing single individuals in various devices such as mazes that have serious drawbacks, especially in gregarious species, including the stress induced by the test procedure. This might impair the results and lead to misinterpretation about the learn- ing abilities of the targeted species. In order to provide an alter- native to the individual-based tests, we investigated for the first time the operant conditioning of four similar groups (50 indi- viduals per tank) of sea bass. We used two computerized self- feeder devices per tank, each coupled with individual electronic identification and that were alternately activated during varying positive appetitive reinforcement period of time (7 to 1 day). Learning abilities were examined at both group and individual levels. At the group level, the operant conditioning was dem- onstrated as the triggering activity significantly decreased when\ the device was turned off and increased when it was turned on, whatever the reinforcement period duration. The individual level analysis revealed a more complex situation with fish showing different learning performances that can be best ex- plained through the producer-scrounger game theory.}, keywords = {Group conditions, Operant conditioning, Personality traits, Positive reinforcement, Producer-scrounger, Social structure}, issn = {1543-4494}, doi = {10.3758/s13420-017-0266-1}, url = {http://link.springer.com/10.3758/s13420-017-0266-1}, author = {Benha{\"\i}m, D. and Ferrari, S. and Tatiana Colchen and Chatain, B. and B{\'e}gout, M-L.} } @article {4780, title = {Resource use of three juvenile scarids (Cryptotomus roseus, Scarus iseri, Sparisoma radians) in Caribbean seagrass beds}, journal = {Aquatic Botany}, volume = {136}, year = {2017}, pages = {1-8}, abstract = {The bucktooth parrotfish\ Sparisoma radians, the striped parrotfish\ Scarus iseri\ and the bluelip parrotfish\ Cryptotomus roseus\ are three herbivorous fishes commonly found at juvenile stages in Caribbean seagrass beds. While the diet of the three species as adults is relatively well known, few studies have been conducted on the feeding patterns of juveniles. In this study, the resource use of the juveniles of three scarid species were studied using two complementary methods: gut content and stable isotope analyses (13C:12C and\ 15N:14N ratios). Bayesian mixing model approaches were used to calculate the contribution of each food item to fish diets (SIAR, mixing models). The three parrotfish species appeared to rely essentially on the consumption of fleshy macrophytes.\ Cryptotomus roseus\ consumed more benthic invertebrates and presented a higher trophic level than the two other scarid species.\ Scarus iseri\ presented a higher assimilation of benthic biofilm, in accordance with the high percentage of sediment in its gut content, and\ Sparisoma radians\ assimilated more\ Thalassia testudinum\ leaves. This research highlighted a food resources partitioning among the juveniles of the three herbivorous fishes, probably to avoid inter-specific competitive interactions for the most palatable food at a critical stage of their life.
Keywords:\ Gut content analyses; Trophic niche; Stable isotopes analyses
}, doi = {DOI: 10.1016/j.aquabot.2016.08.003}, author = {Charlotte R. Dromard and Vaslet, Amandine and Gautier, F and Yolande Bouchon-Navaro and Mireille Harmelin-Vivien and Claude Bouchon} } @article {8718, title = {Responses of primary cultured haemocytes derived from the marine gastropod Haliotis tuberculata to an industrial effluent exposure}, journal = {Cytotechnology}, volume = {69}, year = {2017}, month = {Jan-04-2017}, pages = {191 - 200}, issn = {0920-9069}, doi = {10.1007/s10616-016-0050-7}, url = {http://link.springer.com/10.1007/s10616-016-0050-7}, author = {Ladhar-Chaabouni, Rim and Houel, Thomas and Serpentini, Antoine and Karray, Sahar and Lebel, Jean-Marc and Hamza-Chaffai, Amel} } @article {5017, title = {Review of Schismatogobius (Gobiidae) from Papua New Guinea to Samoa, with description of seven new species}, journal = {Cybium}, volume = {41}, year = {2017}, month = {03/2017}, pages = {45-66}, abstract = {The species of Schismatogobius from Papua New Guinea to Samoa are reviewed and compared to
the three known species described from the area. Eleven species are recognized including seven new species.
These are described using genetic and morphomeristic approaches. The species differ by a high percentage of
divergence in partial COI gene (636 bp) and by several characters including the number of pectoral fin rays, the
pattern of the ventral surface of the head in males and/or females, the pectoral fin colour pattern, the jaw length/
head length ratio or the jaw length of male and/or female, and the fin lengths.
}, keywords = {Australia, New species, Papua New Guinea, Samoa, Schismatogobius, Solomon}, author = {Philippe Keith and Clara Lord and Larson, Helen K} } @article {7512, title = {Revision of the species complex{\textquoteright}Neritina pulligera{\textquoteright}(Gastropoda, Cyclonetimorpha: Neritidae) using taxonomy and barcoding}, journal = {Vie et Milieu / Life \& Environment}, volume = {67}, year = {2017}, month = {2017}, pages = {149-161}, author = {Ahmed Abdou and Ren{\'e} Galzin and Clara Lord and Denys, Ga{\"e}l PJ and Philippe Keith} } @article {6811, title = {Saving Our Marine Archives}, journal = {Eos}, year = {2017}, month = {Dec-02-2018}, doi = {10.1029/2017EO068159}, url = {https://eos.org/project-updates/saving-our-marine-archives}, author = {Dassi{\'e}, Emilie and DeLong, Kristine and Kilbourne, Hali and Williams, Branwen and Abram, Nerilie and Brenner, Logan and Brahmi, Chlo{\'e} and Cobb, Kim and Corr{\`e}ge, Thierry and Dissard, Delphine and Emile-Geay, Julien and Evangelista, Heitor and Evans, Michael and Farmer, Jesse and Felis, Thomas and Gagan, Michael and Gillikin, David and Goodkin, Nathalie and Khodri, Myriam and Lavagnino, Ana and LaVigne, Mich{\`e}le and Claire E. Lazareth and Linsley, Braddock and Lough, Janice and McGregor, Helen and Nurhati, Intan and Ouellette, Gilman and Perrin, Laura and Raymo, Maureen and Rosenheim, Brad and Sandstrom, Michael and Sch{\"o}ne, Bernd and Sifeddine, Abdelfettah and Stevenson, Samantha and Thompson, Diane and Waite, Amanda and Wanamaker, Alan and Wu, Henry} } @article {5024, title = {Schismatogobius (Gobiidae) from Indonesia, with description of four new species}, journal = {Cybium}, volume = {41}, year = {2017}, month = {06/2017}, pages = {195-211}, abstract = {The species of Schismatogobius from Indonesia are reviewed and compared to the known species described from the area. Eight species are recognized including four new species. These are described using genetic and morphomeristic approaches. The species differ by a high percentage of genetic divergence in partial COI gene (652 bp) and by several characters including the number of pectoral fin rays, the pattern of the ventral surface of the head in males and/or females, the pectoral fin colour pattern, the jaw length/head length ratio or the jaw length of male and/or female.
}, keywords = {Gobiidae, Indonesia, New species, Schismatogobius}, author = {Philippe Keith and Clara Lord and Darhuddin, H. and Limmon, G and Sukmono, T and Hadiaty, Renny and Hubert, Nicolas} } @article {5000, title = {Seasonal and latitudinal variation in seagrass mechanical traits across Europe: The influence of local nutrient status and morphometric plasticity}, journal = {Limnology and Oceanography}, year = {2017}, abstract = {Seagrasses are marine flowering plants distributed worldwide. They are however threatened, mostly due to the increase of human activities. Seagrasses have the capacity to adapt their morphological, physiological, and mechanical traits to their local conditions. Mechanical traits have been identified as a good tool to investigate a plant-species capacity to withstand physical forces or disturbances but are still sparsely studied in seagrasses. With this study, we aimed to assess how the mechanical traits of a broadly spread seagrass species vary along a latitudinal gradient in relation to its morphometric plasticity and nutrient status. We found that seagrasses acclimate their mechanical traits in relation to their physiological or morphological traits, both over the growing season and across a latitudinal range: leaves were weaker and thinner in northern areas, particularly at the end of the growing season. Besides the influence of the latitudinal gradient, leaf mechanical strength and stiffness were both strongly affected by their morphometric plasticity. Moreover, we showed that leaves mechanical traits change depending on their nutrient status: leaves were stronger and stiffer in oligotrophic conditions as compared to more eutrophic conditions. Thus, our results imply that, under eutrophication, leaves become weaker and thus more vulnerable to physical forces. This vulnerability is higher in the north at the end of the growing season. The latter is consistent with the more ephemeral character of northern seagrass meadows, in contrast to the more evergreen southern meadows.
}, doi = {10.1002/lno.10611}, url = {http://onlinelibrary.wiley.com/doi/10.1002/lno.10611/full}, author = {L.M. Soissons and M.M. van Katwijk and G. Peralta and F.G. Brun and P.G. Cardoso and T.F. Grilo and B. Ondiviela and M. Recio and M. Valle and J.M. Garmendia and F. Ganthy and I. Auby and L. Rigouin and Laurent Godet and J{\'e}r{\^o}me Fournier and Nicolas Desroy and L. Barill{\'e} and P. Kadel and R. Asmus and P.M.J. Herman and T.J. Bouma} } @article {8719, title = {Shell extracts of the edible mussel and oyster induce an enhancement of the catabolic pathway of human skin fibroblasts, in vitro}, journal = {Cytotechnology}, volume = {69}, year = {2017}, month = {Jan-10-2017}, pages = {815 - 829}, issn = {0920-9069}, doi = {10.1007/s10616-017-0096-1}, url = {http://link.springer.com/10.1007/s10616-017-0096-1}, author = {Latire, Thomas and Legendre, Florence and Bouyoucef, Mouloud and Marin, Fr{\'e}d{\'e}ric and Carreiras, Franck and Rigot-Jolivet, Muriel and Lebel, Jean-Marc and Gal{\'e}ra, Philippe and Serpentini, Antoine} } @article {5968, title = {{\textdagger}Sorbinicharax verraesi: An unexpected case of a benthic fish outside Acanthomorpha in the Upper Cretaceous of the Tethyan Sea}, journal = {PLOS ONE}, volume = {12}, year = {2017}, month = {08}, pages = {1-15}, abstract = {{\textdagger}Sorbinicharax verraesi is a marine teleostean fish from the Upper Cretaceous of Nard{\`o} (Italy). It was first attributed to the otophysan order Characiformes, which represents potential evidence for the controversial marine origin of the clade. Through a review of all the available material, we demonstrate that this species is not an otophysan since it lacks key structures that would allow for its inclusion in this group. {\textdagger}Sorbinicharax has a body shape that recalls ground fishes classically assigned to Acanthomorpha. However, no unambiguous feature allows us to relate it to this clade. In fact, the presence of cellular bony tissue supports its exclusion from Eurypterygii. Since no feature permits the definitive attribution of {\textdagger}Sorbinicharax to any teleost group, it remains as Teleostei incertae sedis. We infer that the morphology of {\textdagger}Sorbinicharax indicates a benthic ecology. It displays: an anteriorly wide body with enlarged ribs; large pectoral fins, while anal and dorsal fins are reduced; a large head measuring {\textonequarter} of the total body length; and a mouth opening dorsally in a high position. Such morphology was so far undescribed in Nardo. It is surprisingly displayed by a non-eurypterygian teleost fish which means by a fish which does not belong to the clades that diversify since the upper Cretaceous and include the extant families that show ground ecomorphologies.
}, doi = {10.1371/journal.pone.0183879}, url = {https://doi.org/10.1371/journal.pone.0183879}, author = {Mayrinck, D. and Brito, Paulo M. and Meunier, Francois J. and Alvarado-Ortega, J. and Otero, Olga} } @article {7176, title = {Southern Ocean Echinoids database {\textendash} An updated version of Antarctic, Sub-Antarctic and cold temperate echinoid database.}, journal = {ZooKeys}, volume = {697}, year = {2017}, month = {Feb-09-2018}, pages = {1 - 20}, issn = {1313-2989}, doi = {10.3897/zookeys.697.14746}, url = {https://zookeys.pensoft.net/articles.php?id=14746}, author = {Fabri-Ruiz, Salom{\'e} and Sauc{\`e}de, Thomas and Danis, Bruno and David, Bruno} } @article {5027, title = {Space-time evolution of a large field of pockmarks in the Bay of Concarneau (NW Brittany)}, journal = {Bulletin de la Soci{\'e}t{\'e} G{\'e}ologique de France}, year = {2017}, abstract = {About a decade ago, a large field of pockmarks, covering an overall area of 36 km2 was discovered in water depths of \<30m in the central part of the Bay of Concarneau (Southern Brittany, France). This field, composed of features from 5m to 35m in diameter and \<1m in depth, is characterized by unusual high densities of pockmarks, up to 5840 per square kilometre. Geophysical data correlated with sedimentary samples acquired in 2005 and 2009 show that pockmarks and their immediate surroundings are associated with dense tubes benches cover, built by a filter-feeding amphipod: Haploops nirae, forming original benthic communities. Two complementary surveys were carried out in April 2011 (Pock and Ploops) and April 2014 (Pock and Tide), on the Oceanographic Vedette (O/V) Haliotis (Ifremer/Genavir), to map the limit of the pockmarks and Haploops fields with the maximum accuracy. The link between the presence of the Haploops nirae communities and the occurrence of pockmarks /gas was then established and the proposed hypothesis was that tidal cycles may provide a good candidate for a short-term (monthly) triggering mechanism of fluid expulsion (Baltzer A, Ehrohold A, Rigolet C, Souron A, Cordier C, Clouet H. 2014. Geophysical exploration of an active pockmark field in the Bay of Concarneau, southern Brittany, and implications for resident suspension feeders. Geo-Marine Letters, 34, 215{\textendash}230). Due to the high-level precision (50 cm) of the positioning system (Magellan Aquarius Ixsea Hydrins) coupled with the RTK attitude system, these new bathymetric and imagery maps together with the sub-bottom Chirp profiles, allow us to compare the data sets from April 2011 and April 2014. The superimposition of the two data sets shows that the distribution of the pockmarks remains similar between these 2 dates (i.e. for 3 years), for the group of large, widely scattered pockmarks, which are deeply rooted in the Holocene palaeo-valley infills and for the group of pockmarks identified as the trawl-scour pockmarks, initiated by trawling action. Most of the pockmarks present very recent shapes without any infilling but sonar imagery reveals that some of them have been covered by a thin muddy layer, thereby reflecting, at least, a temporary cessation of expulsion or a different activity. Chirp profiles indicate some acoustic flares above the pockmarks, revealing gas/fluid expulsion. Different gas clues within the sedimentary column, such as acoustic turbidity, enhanced gas reflectors (EGR), chimneys pipes, occur at exactly the same places on the chirp seismic profiles from 2011 and 2014. Therefore, contrary to most examples described in the\ literature, this pockmarks field is still active.
}, doi = {10.1051/bsgf/2017191}, author = {Agn{\`e}s Baltzer and Marine Reynaud and Axel Ehrhold and J{\'e}r{\^o}me Fournier and C{\'e}line Cordier and H{\'e}l{\`e}ne Clouet} } @article {6827, title = {Spatial overlaps of foraging and resting areas of black-legged kittiwakes breeding in the English Channel with existing marine protected areas}, journal = {Marine biology}, volume = {164}, year = {2017}, pages = {119}, doi = {https://doi.org/10.1007/s00227-017-3151-8}, url = {https://link.springer.com/article/10.1007/s00227-017-3151-8$\#$citeas}, author = {Ponchon, Aurore and Aulert, Christophe and Le Guillou, Gilles and Gallien, Fabrice and Clara P{\'e}ron and Gr{\'e}millet, David} } @article {4584, title = {Specific gravity and migratory patterns of amphidromous gobioid fish from Okinawa Island, Japan}, journal = {Journal of Experimental Marine Biology and Ecology}, volume = {486}, year = {2017}, pages = {160-169}, abstract = {Amphidromy is a diadromous life history pattern where fish spawn in freshwater, and their larvae drift downstream to the sea; the larvae develop in marine environments then migrate back in rivers to grow and reproduce. Two amphidromous types with different life history characteristics, such as egg and larval sizes, exist. To understand the ecology and early life history of amphidromous gobioid fish, six species from Okinawa Island were selected{\textemdash}two large egg-type species (Rhinogobius similis and Tridentiger kuroiwae) and four small egg-type species (Stiphodon percnopterygionus, Stenogobius sp., Sicyopterus lagocephalus, and Eleotris acanthopoma). The migratory pattern of four of these species was confirmed using otolith Sr:Ca and Ba:Ca ratios combined with water chemistry analysis. Although these species showed amphidromous migratory patterns, the timing of migration from estuarine to freshwater habitats was species-specific. The large egg-type, R. similis, showed three different migratory patterns: a long marine larval phase with a relatively fast migration from estuarine to freshwater habitats, a short marine larval phase with a relatively fast migration, and a gradual migration. Similar patterns of a long and fast migration or a gradual migration were seen in T. kuroiwae; however, the two small eggtype species, Sti. percnopterygionus and Stenogobius sp., showed rapid migration to freshwater after entering the river. To estimate larval ecology in the sea, ontogenetic changes in specific gravity (SG) were examined in all species. The SG was measured day and night for 1{\textendash}5 days until settlement in R. similis and T. kuroiwae, and until 10 days after hatching in the other species. The SG of all species ranged from 1.0138 to 1.0488, and varied among ontogenetic stages and between day and night and species. Larval SG was relatively similar between R. similis and T. kuroiwae, with low SG in the early stages and high SG after yolk absorption. During the late larval stages and until settlement, T. kuroiwae showed diel changes in SG, with higher SG during the day, whereas R. similis had a relatively constant pattern. The diel changes of T. kuroiwae larvae suggest different activity during the day and at night (e.g. diel vertical migration). In the four small egg-type species, SG was high at hatching and decreased thereafter, not showing large diel changes. The results suggest that sympatric amphidromous gobioid species have various early life histories that may be influenced by several larval traits, including SG.
}, keywords = {Buoyancy, diadromy, Early life history, Migratory history, otolith, Specific gravity}, author = {Iida, Midori and Masashi Kondo and H{\'e}l{\`e}ne Tabouret and Maeda, Ken and P{\'e}cheyran, C and Atsushi Hagiwara and Philippe Keith and Katsunori Tachihara} } @article {5067, title = {Strat{\'e}gie de d{\'e}veloppement des outils de bio-indication en mangroves pour la DCE}, year = {2017}, month = {2017}, pages = {25 pp}, institution = {ONEMA - MNHN}, abstract = {Le deuxi{\`e}me s{\'e}minaire du GT DCE {\guillemotleft} mangroves {\guillemotright} a permis d{\textquoteright}{\'e}tablir une premi{\`e}re liste des descripteurs du bon {\'e}tat {\'e}cologique des mangroves du point de vue de la DCE, de finaliser le choix des param{\`e}tres pertinents pour la construction d{\textquoteright}outils de bioindication, et de poser les bases de la phase test d{\textquoteright}acquisition de donn{\'e}es qui permettra de construire les outils de bioindication. Le groupe de travail se donne pour objectif de disposer des premiers outils op{\'e}rationnels pour le prochain cycle de gestion de la DCE d{\'e}butant en 2022.\
}, author = {Guillaume Dirberg} } @article {4745, title = {Structural bias in aggregated species-level variables driven by repeated species co-occurrences: a pervasive problem in community and assemblage data}, journal = {Journal of Biogeography}, year = {2017}, month = {02/2017}, abstract = {Aim Species attributes are often used to explain diversity patterns across assemblages/communities. However, repeated species co-occurrences can generate spatial pattern and strong statistical relationships between aggregated attributes and richness in the absence of biological information. Our aim is to increase awareness of this problem. Location North America. Methods We generated empirical species richness patterns using two data structures: (1) birds gridded from range maps and (2) tree communities from the US Forest Service{\textquoteright}s Forest Inventory and Analysis. We analysed richness using linear regression, regression trees, generalized additive models, geographically weighted regression and simultaneous autoregression, with {\textquoteleft}random intrinsic variables{\textquoteright} as predictors generated by assigning random numbers to species and calculating averages in assemblages. We then generated simulations in which species with cohesive or patchy distributions are placed with respect to the North American temperature gradient with or without a broad-scale richness gradient. Random intrinsic variables are again used as predictors of richness. Finally, we analysed one simulated scenario with random intrinsic variables as both response and predictor variables. Results The models of bird and tree richness often explained moderate to large proportions of the variance. Regression trees, geographically weighted regression and simultaneous autoregression were very sensitive to the problem; generalized additive models were moderately affected, as was multiple regression to a lesser extent. In the virtual data, the variance explained increased with increasing species co-occurrences, but neither range cohesion, a richness gradient nor spatial autocorrelation in predictors had major impacts on the variance explained. The problem persisted when the response variable was also a random intrinsic variable. Main conclusions Repeated species co-occurrences can generate strong spurious relationships between richness and aggregated species attributes. It is important to realize that models utilizing assemblage variables aggregated from species-level values, as well as maps illustrating their spatial patterns, cannot be taken at face value.}, keywords = {community structure, community weighted means, geographical ecology, intrinsic variables, spatial analysis, species co-occurrence, species composition, species richness gradients, trait analysis}, issn = {1365-2699}, doi = {10.1111/jbi.12953}, url = {http://dx.doi.org/10.1111/jbi.12953}, author = {Hawkins, Bradford A. and Leroy, Boris and Rodr{\'\i}guez, Miguel {\'A}. and Singer, Alexander and Vilela, Bruno and Villalobos, Fabricio and Wang, Xiangping and Zelen{\'y}, David} } @article {4797, title = {Sub-lethal effects of a glyphosate-based commercial formulation and adjuvants on juvenile oysters (Crassostrea gigas) exposed for 35 days}, journal = {Marine Pollution Bulletin}, year = {2017}, keywords = {Crassostrea gigas, individual biomarkers, mortality, oxidative stress, POEAs, Roundup}, author = {S{\'e}guin, Alexis and Mottier, Antoine and Perron, Carole and Lebel, Jean-Marc and Antoine Serpentini and Katherine Costil} } @article {8717, title = {Sub-lethal effects of a glyphosate-based commercial formulation and adjuvants on juvenile oysters ( Crassostrea gigas ) exposed for 35 days}, journal = {Marine Pollution Bulletin}, volume = {117}, year = {2017}, month = {Jan-04-2017}, pages = {348 - 358}, issn = {0025326X}, doi = {10.1016/j.marpolbul.2017.02.028}, url = {https://linkinghub.elsevier.com/retrieve/pii/S0025326X1730142X}, author = {S{\'e}guin, Alexis and Mottier, Antoine and Perron, Carole and Lebel, Jean Marc and Serpentini, Antoine and Katherine Costil} } @article {4718, title = {Synchronism of naupliar development of Sacculina carcini Thompson, 1836 (Pancrustacea, Rhizocephala) revealed by precise monitoring}, journal = {Helgoland Marine Research}, volume = {70}, year = {2017}, month = {dec 2016}, pages = {1-11}, abstract = {Sacculina carcini is member of a highly-specialized group of parasitic cirripeds (Rhizocephala) that use crabs (Carcinus maenas) as hosts to carry out the reproductive phase of their life cycle. We describe the naupliar development of S. carcini Thompson, 1836 from a very precise monitoring of three different broods from three specimens. Nauplii were sampled every 4 h, from the release of the larvae until the cypris stage. Larval development, from naupliar instar 1 to the cypris stage, lasts 108 h at 18 {\textdegree}C. A rigorous sampling allowed us to describe an additional intermediate naupliar instar, not described previously. Naupliar instars are renumbered from 1 to 5. Nauplius 1 (N1) larvae hatch in the interna; N2 are released from the interna and last between 12 and 16 h; N3 appear between 12 and 16 h after release; N4 appear between 28 and 32 h; and N5 appear between 44 and 48 h. The cypris stage appears between 108 and 112 h. The redescribed morphologies allowed us to identify new characters. Antennular setation discriminates naupliar instars 3, 4 and 5. Telson and furca morphologies discriminate all naupliar instars. Furthermore, we demonstrate that the speed of larval development is similar within a single brood and between broods from different specimens, suggesting synchronization of larval development. From precise monitoring of broods every 4 h, we demonstrate that the life cycle of S. carcini includes five instars of naupliar larvae instead of four. The morphological characters of the larvae discriminate these naupliar instars and allow the identification of S. carcini from other Rhizocephala species. S. carcini larvae develop synchronously. Consequently, they might be an informative model to study larval development in crustaceans.
}, author = {Tredez, Fabien and Nicolas Rabet and Bellec, L and Audebert, Fabienne} } @article {5034, title = {Tempo and Rates of diversification in the South American Cichlid Genus Apistogramma (Teleostei: Perciformes: Cichlidae)}, journal = {PLoS ONE }, volume = {in press}, year = {2017}, author = {Tougard, C and Garcia Davila, C and R{\"o}mer, U and Fabrice Duponchelle and Cerqueira, F and Guinand, B and Angulo Ch{\'a}vez, C and Salas, V and Sophie Qu{\'e}rouil and Sirvas Cornero, S and Renno, Jean-Francois} } @article {5046, title = {Towards ecosystem-based management: identifying operational food-web indicators for marine ecosystems}, journal = {ICES Journal of Marine Science}, year = {2017}, pages = {fsw230}, author = {Tam, Jamie C and Link, Jason S and Rossberg, Axel G. and Rogers, Stuart I and Levin, Philip S and Rochet, Marie-Jo{\"e}lle and Bundy, Alida and Belgrano, Andrea and Libralato, Simone and Maciej Tomasz Tomczak and van de Wolfshaar, K and Pranovi, F and Gorokhova, E and Large, S I and Nathalie Niquil and Greenstreet, SPR and Druon, JN and Lesutiene, J and Johansen, M and Preciado, I and Patr{\'\i}cio, Joana and Palialexis, A and Tett, P and Johansen, GO and Houle, J and Rindorf, A} } @article {Tam20172040, title = {Towards ecosystem-based management: Identifying operational food-web indicators for marine ecosystems}, journal = {ICES Journal of Marine Science}, volume = {74}, number = {7}, year = {2017}, note = {cited By 25}, pages = {2040-2052}, publisher = {Oxford University Press}, abstract = {Modern approaches to Ecosystem-Based Management and sustainable use of marine resources must account for the myriad of pressures (interspecies, human and environmental) affecting marine ecosystems. The network of feeding interactions between co-existing species and populations (food webs) are an important aspect of all marine ecosystems and biodiversity. Here we describe and discuss a process to evaluate the selection of operational food-web indicators for use in evaluating marine ecosystem status. This process brought together experts in food-web ecology, marine ecology, and resource management, to identify available indicators that can be used to inform marine management. Standard evaluation criteria (availability and quality of data, conceptual basis, communicability, relevancy to management) were implemented to identify practical food-web indicators ready for operational use and indicators that hold promise for future use in policy and management. The major attributes of the final suite of operational food-web indicators were structure and functioning. Indicators that represent resilience of the marine ecosystem were less developed. Over 60 potential food-web indicators were evaluated and the final selection of operational food-web indicators includes: the primary production required to sustain a fishery, the productivity of seabirds (or charismatic megafauna), zooplankton indicators, primary productivity, integrated trophic indicators, and the biomass of trophic guilds. More efforts should be made to develop thresholds-based reference points for achieving Good Environmental Status. There is also a need for international collaborations to develop indicators that will facilitate management in marine ecosystems used by multiple countries. {\textcopyright} 2017 International Council for the Exploration of the Sea. All rights reserved.}, keywords = {Biomass, coexistence, ecosystem approach, ecosystem management, ecosystem resilience, environmental assessment, environmental indicator, food web, marine ecosystem, primary production, strategic approach, trophic status}, issn = {10543139}, doi = {10.1093/icesjms/fsw230}, url = {https://academic.oup.com/icesjms/article-abstract/74/7/2040/2970046}, author = {Tam, J.C. and Link, J.S. and Rossberg, A.G. and Rogers, S.I. and Levin, P.S. and Rochet, M.-J. and Bundy, A. and Belgrano, A. and Libralato, S. and Maciej Tomasz Tomczak and Van De Wolfshaar, K. and Pranovi, F. and Gorokhova, E. and Large, S.I. and Nathalie Niquil and Greenstreet, S.P.R. and Druon, J.-N. and Lesutiene, J. and Johansen, M. and Preciado, I. and Patricio, J. and Palialexis, A. and Tett, P. and Johansen, G.O. and Houle, J. and Rindorf, A.} } @article {4988, title = {Toxicity assessment of five emerging pollutants, alone and in binary or ternary mixtures, towards three aquatic organisms}, journal = {Environmental Science and Pollution Research}, year = {2017}, abstract = {Despite a growing scientific attention on ecological impact of emerging pollutants (EPs) such as pharmaceuticals, personal care products, and pesticides, knowledge gaps remain regarding mixture toxicity and effects on aquatic organisms. Several EPs were screened in seawater (Normandy, France), and the ecotoxicity of five compounds, chosen on their occurrence in ecosystems and use worldwide, was assessed and were the biocides methylparaben (MP) and triclosan (TCS), a pesticide degradation product (AMPA), and the pharmaceuticals venlafaxine (VEN) and carbamazepine (CBZ). The acute or sub-chronic toxicity, alone or in binary/ternary mixtures of three of them (CBZ, AMPA, and MP), was assessed on one marine and two freshwater organisms: Crassostrea gigas, Pseudokirchneriella subcapitata, and Daphnia magna. TCS and AMPA were, respectively, the most (EC50 \< 1 mg L-1) and the least (EC50 \> 50 mg L-1) toxic chemicals for the four endpoints (algal growth inhibition, daphnia immobilization, oyster embryotoxicity, and metamorphosis). The anxiolytic VEN (EC50 \< 1 mg L-1) was particularly toxic to oyster larvae showing sensitivity difference between freshwater and marine organisms. If all the mixtures appeared to be in the same range of toxicity, the joint-toxic effects mainly led to synergistic or antagonistic interactions compared to single-compound toxicity. The data also highlighted species-dependent differing models of toxicity and underscored the need for an awareness of cocktail effects for better ecological risk assessment.
}, keywords = {Freshwater species, Marine bivalve, Mixture and single-compound toxicity, Personal care products, Pesticides, pharmaceuticals}, doi = {DOI 10.1007/s11356-017-9306-9}, author = {Di Poi, Carole and Katherine Costil and Bouchart, Valerie and Halm-Lemeille, Marie-Pierre} } @article {Houssard201749, title = {Trophic position increases with thermocline depth in yellowfin and bigeye tuna across the Western and Central Pacific Ocean}, journal = {Progress in Oceanography}, volume = {154}, year = {2017}, note = {cited By 12}, pages = {49-63}, doi = {10.1016/j.pocean.2017.04.008}, url = {https://www.sciencedirect.com/science/article/pii/S007966111630177X}, author = {Houssard, P. and Lorrain, A. and Tremblay-Boyer, L. and Allain, V. and Graham, B.S. and Menkes, C.E. and Pethybridge, H. and Couturier, L.I.E. and Point, D. and Leroy, Bruno and Receveur, A. and Hunt, B.P.V. and Vourey, E. and Bonnet, S. and Rodier, M. and Raimbault, P. and Eric Feunteun and Kuhnert, P.M. and Munaron, J.-M. and Lebreton, B. and Otake, T. and Letourneur, Y.} } @article {5211, title = {Two new ovoviviparous species of the family Selachinematidae and Sphaerolaimidae (Nematoda, Chromadorida and Monhysterida) from the northern South China Sea}, journal = {Zootaxa}, volume = {4317}, year = {2017}, month = {01/09/2017}, pages = {95-110}, abstract = {Two new ovoviviparous nematode species are described from South China Sea. Bendiella vivipara n. sp. belongs to the family Selachinematidae and is characterized by a cuticle with lateral differentiation of 2{\textendash}4 longitudinal rows of dots, and the presence of 3 papillose precloacal supplements. Parasphaerolaimus jintiani n. sp. is characterized by a cuticle with lateral longitudinal unstriated band extending from about the middle of the pharynx to the anterior two-thirds of the tail and a vulva situated far posteriorly. The importance of ovoviviparity in free living marine nematodes is discussed.
}, keywords = {Bendiella vivipara n. sp., free-living marine nematodes, ovoviviparity, Parasphaerolaimus jintiani n. sp., South China Sea}, doi = {10.11646/zootaxa.4317.1.4}, url = {https://biotaxa.org/Zootaxa/article/view/zootaxa.4317.1.4}, author = {Sujing Fu and Boucher, G and Lizhe Cai} } @article {8570, title = {Two new Tursiocola species (Bacillariophyta) epizoic on green turtles (Chelonia mydas) in French Guiana and Eastern Caribbean}, journal = {Fottea}, volume = {17}, year = {2017}, month = {Aug-09-2018}, pages = {150 - 163}, issn = {18025439}, doi = {10.5507/fot.2017.007}, url = {http://fottea.czechphycology.cz/doi/10.5507/fot.2017.007.html}, author = {Riaux-Gobin, Catherine and Witkowski, Andrzej and Chevallier, Damien and Daniszewska-Kowalczyk, Genowefa} } @article {5044, title = {Uses of innovative modeling tools within the implementation of the marine strategy framework directive}, journal = {Bridging the Gap Between Policy and Science in Assessing the Health Status of Marine Ecosystems}, year = {2017}, pages = {75}, author = {Lynam, Christopher P. and Uusitalo, Laura and Patr{\'\i}cio, Joana and Piroddi, Chiara and Queir{\'o}s, Ana M and Teixeira, Heliana and Rossberg, Axel G. and Sagarminaga, Yolanda and Hyder, Kieran and Nathalie Niquil and M{\"o}llmann, C and Wilson, C and Chust, Guillem and Galpasoro, I and Forster, R and Verissimo, H and Tedesco, Letizia and Revilla, M and Neville, Suzanna} } @article {6800, title = {Variable selection and accurate predictions in habitat modelling: a shrinkage approach}, journal = {Ecography}, volume = {40}, year = {2017}, pages = {549-560}, abstract = {Habitat modelling is increasingly relevant in biodiversity and conservation studies. A typical application is to predict potential zones of specific conservation interest. With many environmental covariates, a large number of models can be investigated but multi-model inference may become impractical. Shrinkage regression overcomes this issue by dealing with the identification and accurate estimation of effect size for prediction. In a Bayesian framework we investigated the use of a shrinkage prior, the Horseshoe, for variable selection in spatial generalized linear models (GLM). As study cases, we considered 5 datasets on small pelagic fish abundance in the Gulf of Lion (Mediterranean Sea, France) and 9 environmental inputs. We compared the predictive performances of a simple kriging model, a full spatial GLM model with independent normal priors for regression coefficients, a full spatial GLM model with a Horseshoe prior for regression coefficients and 2 zero-inflated models (spatial and non-spatial) with a Horseshoe prior. Predictive performances were evaluated by cross-validation on a hold-out subset of the data: models with a Horseshoe prior performed best, and the full model with independent normal priors worst. With an increasing number of inputs, extrapolation quickly became pervasive as we tried to predict from novel combinations of covariate values. By shrinking regression coefficients with a Horseshoe prior, only one model needed to be fitted to the data in order to obtain reasonable and accurate predictions, including extrapolations.}, doi = {10.1111/ecog.01633}, url = {https://onlinelibrary.wiley.com/doi/full/10.1111/ecog.01633}, author = {Authier, Matthieu and Saraux, Claire and Clara P{\'e}ron} } @article {5022, title = {Visual census, photographic records and the trial of a video network provide first evidence of the elusive Sicyopterus cynocephalus in Australia}, journal = {Cybium}, volume = {41}, year = {2017}, month = {06/2017}, pages = {117-125}, abstract = {Opportunistic encounters with an elusive large-bodied sicydiine goby in a single plunge pool led us to photograph and deploy three video cameras to detect individuals in that pool. Subsequently, a catchment-wide search indicated that the species, eventually identified as Sicyopterus cynocephalus, was confined to the single pool where it was originally detected. A network of ten video cameras was then deployed to estimate the number of individuals of that species and of a congener, S. lagocephalus, by non-destructive means. This study provides the first record of S. cynocephalus in Australia, and showcases the synergy of active snorkel searches and a remote camera network in counting individuals of two sympatric species of Sicyopterus.
}, keywords = {Australia, Coastal stream, Elusive species, First record, Gobiidae, Sicyopterus cynocephalus, Underwater video, Visual census}, author = {Ebner, Brendan C and Donaldson, James and Allen, Gerald and Philippe Keith} } @article {5045, title = {What Is Marine Biodiversity? Towards Common Concepts and Their Implications for Assessing Biodiversity Status. Front}, journal = {Bridging the Gap Between Policy and Science in Assessing the Health Status of Marine Ecosystems}, volume = {3}, year = {2017}, pages = {377}, author = {Cochrane, SKJ and Andersen, JH and Berg, T and Hugues Blanchet and Borja, A and Carstensen, J and Elliott, M and Hummel, H and Nathalie Niquil and Renaud, PE} } @article {5020, title = {When molecules and morphology work together: lines of evidence for the validity of Caridina buehleri Roux (Crustacea :Decapoda : Atyidae) and for C. gueryi Marquet, Keith and Kalfatak as its junior synonym}, journal = {Invertebrate Systematics}, volume = {31}, year = {2017}, month = {01/2017}, pages = {220-230}, abstract = {The taxonomy of the freshwater shrimps Caridina (Atyidae) is very complex and confused mostly because the morphological characters that have traditionally been used for species delimitation and identification are highly plastic. There is thus a need for an integrative approach to their taxonomy. In total, 42 specimens belonging to either Caridina buehleri Roux, 1934 or Caridina gueryi Marquet, Keith \& Kalfatak, 2009 were examined. We combined here morphological data from 12 specimens from the whole distributional range of the species, including type specimens with 16S mtDNA analyses from seven freshly sampled specimens, to verify the specific status of Caridina buehleri from Papua New-Guinea, Central Sulawesi, Western Samoa and the Solomon Islands, and C. gueryi from Vanuatu. The comparison of 24 morphological characters showed that morphological variations of character traits between C. gueryi and C. buehleri are widely overlapping and that no morphological feature can effectively split specimens into two clear groups. Molecular characters corroborated these results, as specimens from both groups were only separated by a 2\% p-distance, a genetic distance that is coherent with their potentially high dispersal abilities. We thus consider C. gueryi as a junior synonym of C. buehleri. Finally, C. buehleri is characterised mainly by a styliform and characteristically indented rostrum and a long stylocerite. Detailed re-descriptions of the type specimens of C. buehleri and C. gueryi are given, as well as their geographical and ecological distribution.
}, keywords = {16S., freshwater shrimp, Indo-Pacific, Integrative taxonomy}, author = {de Mazancourt, Valentin and Marquet, G{\'e}rard and Klotz, Werner and Philippe Keith and Castelin, Magalie} } @article {4164, title = {A 365-Million-Year-Old Freshwater Community Reveals Morphological and Ecological Stasis in Branchiopod Crustaceans.}, journal = {Current Biology}, volume = {26}, year = {2016}, month = {02/2016}, pages = {383-390}, abstract = {Branchiopod crustaceans are represented by fairy, tadpole, and clam shrimps (Anostraca, Notostraca, Laevicaudata, Spinicaudata), which typically inhabit temporary freshwater bodies, and water fleas (Cladoceromorpha), which live in all kinds of freshwater and occasionally marine environments [1, 2]. The earliest branchiopods occur in the Cambrian, where they are represented by complete body fossils from Sweden such as Rehbachiella kinnekullensis [3] and isolated mandibles preserved as small carbonaceous fossils [4-6] from Canada. The earliest known continental branchiopods are associated with hot spring environments [7] represented by the Early Devonian Rhynie Chert of Scotland (410 million years ago) and include possible stem-group or crown-group Anostraca, Notostraca, and clam shrimps or Cladoceromorpha [8-10], which differ morphologically from their modern counterparts [1, 2, 11]. Here we report the discovery of\ an ephemeral pool branchiopod community from the 365-million-year-old Strud locality of Belgium. It\ is characterized by new anostracans and spinicaudatans, closely resembling extant species, and the\ earliest notostracan, Strudops goldenbergi [12]. These branchiopods released resting eggs into the sediment in a manner similar to their modern representatives [1, 2]. We infer that this reproductive strategy was critical to overcoming environmental constraints such as seasonal desiccation imposed by living on land. The pioneer colonization of ephemeral freshwater pools by branchiopods in the Devonian was followed by remarkable ecological and morphological stasis that persists to the present day.
}, issn = {1879-0445}, doi = {10.1016/j.cub.2015.12.039}, author = {Pierre Gueriau and Nicolas Rabet and Cl{\'e}ment, Ga{\"e}l and Linda Lagebro and Vannier, Jean and Briggs, Derek E G and Charbonnier, Sylvain and Olive, S{\'e}bastien and B{\'e}thoux, Olivier} } @article {6707, title = {Ability of the marine bacterium Pseudomonas fluorescens BA3SM1 to counteract the toxicity of CdSe nanoparticles}, journal = {Journal of Proteomics}, volume = {148}, year = {2016}, month = {Jan-10-2016}, pages = {213 - 227}, issn = {18743919}, doi = {10.1016/j.jprot.2016.07.021}, url = {https://www.sciencedirect.com/science/article/pii/S187439191630330X?via\%3Dihub}, author = {Poirier, Isabelle and Kuhn, Lauriane and Demorti{\`e}re, Arnaud and Mirvaux, Boris and Hammann, Philippe and Chicher, Johana and Christelle Caplat and Pallud, Marie and Bertrand, Martine} } @article {5423, title = {Activation of brain steroidogenesis and neurogenesis during the gonadal differentiation in protandrous black porgy, Acanthopagrus schlegelii.}, journal = {Developmental Neurobiology}, volume = {76}, year = {2016}, pages = {121-136}, doi = {DOI: 10.1002/dneu.22303}, author = {Lin, Chien-Ju and Fran-Chiang, Y C and Sylvie Dufour and Chang, Ching-Fong} } @article {4506, title = {Activation of brain steroidogenesis and neurogenesis during the gonadal differentiation in protandrous black porgy, Acanthopagrus schlegelii.}, journal = {Dev Neurobiol}, volume = {76}, year = {2016}, month = {2016 Feb}, pages = {121-36}, abstract = {The early brain development, at the time of gonadal differentiation was investigated using a protandrous teleost, black porgy. This natural model of monosex juvenile fish avoids the potential complexity of sexual dimorphism. Brain neurogenesis was evaluated by histological analyses of the diencephalon, at the time of testicular differentiation (in fish between 90 and 150 days after hatching). Increases in the number of both Nissl-stained total brain cells, and Pcna-immunostained proliferative brain cells were observed in specific area of the diencephalon, such as ventromedialis thalami and posterior preoptic area, revealing brain cell proliferation. qPCR analyses showed significantly higher expression of the radial glial cell marker blbp and neuron marker bdnf. Strong immunohistochemical staining of Blbp and extended cellular projections were observed. A peak expression of aromatase (cyp19a1b), as well as an increase in estradiol (E2 ) content were also detected in the early brain. These data demonstrate that during gonadal differentiation, the early brain exhibits increased E2 synthesis, cell proliferation, and neurogenesis. To investigate the role of E2 in early brain, undifferentiated fish were treated with E2 or aromatase inhibitor (AI). E2 treatment upregulated brain cyp19a1b and blbp expression, and enhanced brain cell proliferation. Conversely, AI reduced brain cell proliferation. Castration experiment did not influence the brain gene expression patterns and the brain cell number. Our data clearly support E2 biosynthesis in the early brain, and that brain E2 induces neurogenesis. These peak activity patterns in the early brain occur at the time of gonad differentiation but are independent of the gonads.
}, issn = {1932-846X}, doi = {10.1002/dneu.22303}, author = {Lin, Chien-Ju and Fan-Chiang, Yi-Chun and Sylvie Dufour and Chang, Ching-Fong} } @article {4627, title = {Association of a Specific Algal Group with Methylmercury Accumulation in Periphyton of a Tropical High-Altitude Andean Lake}, journal = {Archives of Environmental Contamination and Toxicology}, year = {2016}, pages = {1{\textendash}10}, abstract = {Periphyton relevance for methylmercury (MeHg) production and accumulation are now well known in aquatic ecosystems. Sulfate-reducing bacteria and other microbial groups were identified as the main MeHg producers, but the effect of periphyton algae on the accumulation and transfer of MeHg to the food web remains little studied. Here we investigated the role of specific groups of algae on MeHg accumulation in the periphyton of Schoenoplectus californicus ssp. (Totora) and Myriophyllum sp. in Uru Uru, a tropical high-altitude Bolivian lake with substantial fishing and mining activities accruing around it. MeHg concentrations were most strongly related to the cell abundance of the Chlorophyte genus Oedogonium (r 2\ =\ 0.783, p\ =\ 0.0126) and to no other specific genus despite the presence of other 34 genera identified. MeHg was also related to total chlorophyll-a (total algae) (r 2\ =\ 0.675, p\ =\ 0.0459), but relations were more significant with chlorophyte cell numbers, chlorophyll-b (chlorophytes), and chlorophyll-c (diatoms and dinoflagellates) (r 2\ =\ 0.72, p\ =\ 0.028, r 2\ =\ 0.744, p\ =\ 0.0214, and r 2\ =\ 0.766, p\ =\ 0.0161 respectively). However, Oedogonium explains most variability of chlorophytes and chlorophyll-c (r 2\ =\ 0.856, p\ =\ \<\ 0.001 and r 2\ =\ 0.619, p\ =\ 0.002, respectively), suggesting it is the most influential group for MeHg accumulation and periphyton algae composition at this particular location and given time.
}, issn = {1432-0703}, doi = {10.1007/s00244-016-0324-2}, url = {http://dx.doi.org/10.1007/s00244-016-0324-2}, author = {Lanza, William G. and Dar{\'\i}o Ach{\'a} and Point, David and Masbou, Jeremy and Alanoca, Lucia and Amouroux, David and Lazzaro, Xavier} } @article {4246, title = {Calcium Deposits in the Crayfish, Cherax quadricarinatus: Microstructure Versus Elemental Distribution}, journal = {Microscopy and Microanalysis}, volume = {22}, year = {2016}, pages = {22-38}, type = {Journal Article}, author = {Gilles Luquet and Yannicke Dauphin and Aline Percot and Murielle Salom{\'e} and Andreas Ziegler and Maria S. Fernandez and Jos{\'e} L. Arias} } @article {4041, title = {The Channel ecosystem, a cross-roads of anthropogenic pressures and scientific studies: Lessons learned from the European \{INTERREG\} \{IV\} projects (2009{\textendash}2015)}, journal = {Marine Policy}, volume = {63}, year = {2016}, month = {11/2015}, pages = {158 - 165}, author = {L Evariste and Pascal Claquin and Jean-Paul Robin and Arnaud Auber and Abigail McQuatters-Gollop and Jean-Claude Dauvin} } @article {4377, title = {Characterisation of the mantle transcriptome and biomineralisation genes in the blunt-gaper clam, Mya truncata}, journal = {Marine Genomics}, volume = {27}, year = {2016}, pages = {47 - 55}, abstract = {Abstract Members of the Myidae family are ecologically and economically important, but there is currently very little molecular data on these species. The present study sequenced and assembled the mantle transcriptome of Mya truncata from the North West coast of Scotland and identified candidate biomineralisation genes. RNA-Seq reads were assembled to create 20,106 contigs in a de novo transciptome, 18.81\% of which were assigned putative functions using \{BLAST\} sequence similarity searching (cuttoff E-value 1E {\quotesinglbase}{\`a}{\'\i} 10). The most highly expressed genes were compared to the Antarctic clam (Laternula elliptica) and showed that many of the dominant biological functions (muscle contraction, energy production, biomineralisation) in the mantle were conserved. There were however, differences in the constitutive expression of heat shock proteins, which were possibly due to the M. truncata sampling location being at a relatively low latitude, and hence relatively warm, in terms of the global distribution of the species. Phylogenetic analyses of the Tyrosinase proteins from M. truncata showed a gene expansion which was absent in L. elliptica. The tissue distribution expression patterns of putative biomineralisation genes were investigated using quantitative PCR, all genes showed a mantle specific expression pattern supporting their hypothesised role in shell secretion. The present study provides some preliminary insights into how clams from different environments {\quotesinglbase}{\"A}{\`\i} temperate versus polar {\quotesinglbase}{\"A}{\`\i} build their shells. In addition, the transcriptome data provides a valuable resource for future comparative studies investigating biomineralisation.
}, keywords = {shell}, issn = {1874-7787}, doi = {http://dx.doi.org/10.1016/j.margen.2016.01.003}, url = {http://www.sciencedirect.com/science/article/pii/S1874778716300034}, author = {Victoria A. Sleight and Michael A.S. Thorne and Lloyd S. Peck and Arivalagan, Jaison and Berland, Sophie and Marie, Arul and Melody S. Clark} } @article {5814, title = {{Climate change and the ash dieback crisis}}, journal = {Scientific Reports}, volume = {6}, year = {2016}, abstract = {{\textcopyright} The Author(s) 2016. Beyond the direct influence of climate change on species distribution and phenology, indirect effects may also arise from perturbations in species interactions. Infectious diseases are strong biotic forces that can precipitate population declines and lead to biodiversity loss. It has been shown in forest ecosystems worldwide that at least 10{\%} of trees are vulnerable to extinction and pathogens are increasingly implicated. In Europe, the emerging ash dieback disease caused by the fungus Hymenoscyphus fraxineus, commonly called Chalara fraxinea, is causing a severe mortality of common ash trees (Fraxinus excelsior); this is raising concerns for the persistence of this widespread tree, which is both a key component of forest ecosystems and economically important for timber production. Here, we show how the pathogen and climate change may interact to affect the future spatial distribution of the common ash. Using two presence-only models, seven General Circulation Models and four emission scenarios, we show that climate change, by affecting the host and the pathogen separately, may uncouple their spatial distribution to create a mismatch in species interaction and so a lowering of disease transmission. Consequently, as climate change expands the ranges of both species polewards it may alleviate the ash dieback crisis in southern and occidental regions at the same time.
}, issn = {20452322}, doi = {10.1038/srep35303}, author = {Goberville, Eric and Nina-Coralie Hautek{\`e}ete and Richard R Kirby and Yves Piquot and Christophe Luczak and Gr{\'e}gory Beaugrand} } @article {4265, title = {Coastal evolution and sedimentary mobility of Br{\o}gger Peninsula, northwest Spitsbergen}, journal = {Polar Biology}, year = {2016}, month = {03/2016}, pages = {1-10}, abstract = {Since the end of the Little Ice Age (LIA), Svalbard glaciers have undergone a net retreat in response to changing meteorological conditions. Located between 76{\textdegree}N and 80{\textdegree}N, western Spitsbergen has seen a climatic transition from a glacial to a paraglacial system. On the northern shore of the Br{\o}gger Peninsula (northwest Spitsbergen), the average temperature increased by 3\ {\textdegree}C between 1965 and 2015, and cold-based valley glaciers have retreated more than 1\ km from their LIA limits. This rapid deglaciation has exposed large areas of glacigenic sediments being easily reworked by runoff. This has led to the formation of extensive glacier-river delta systems and coastal progradation. Post-LIA coastal progradation and formation of new landforms in Kongsfjorden have been controlled predominantly by substantial availability of glacial sediment. A combination of aerial photographic and field data has been employed to estimate the post-LIA evolution of coastal sandur deltas and their submarine parts (named here {\textquotedblleft}prodeltas{\textquotedblright}). The data set reveals that delta shoreline advance could have reached around 5\ m/year. between 1966 and 1990 for the most energetic delta of Austre Lovenbreen, and around 4\ m/year between 2011 and 2014 for the most energetic delta of Midtre Lovenbreen. The prodeltas registered a net growth from 2009 to 2012: the biggest, located in the prolongation of deltas of Austre Lovenbreen, measured 1033\ m in length in 2009 and 1180\ m in length in 2012. This substantial amount of sediment supplied in the fjord has an impact on the fjord ecology, especially on the benthic ecosystem.
}, keywords = {High Arctic, Paraglacial, Sedimentary flux, Submarine and aerial coastal evolution, Svalbard}, doi = {10.1007/s00300-016-1930-1}, author = {Marine Bourriquen and Agn{\`e}s Baltzer and Denis Mercier and J{\'e}r{\^o}me Fournier and Laurent Perez and Sylvain Haquin and Eric Bernard and Maria Ansine Jensen} } @article {4494, title = {Coleoid cephalopod color patterns: Adult skin structures and their emergence during development in sepia officinalis}, journal = {Vie et Milieu}, volume = {66}, year = {2016}, month = {May 2016}, pages = {43-55}, abstract = {The skin of coleo{\"\i}d cephalopods is a complex tissue that allows the rapid display of numerous changing or static patterns for communication and camouflage. Chromatophores, iridophores, and leucophores are responsible for these properties. Chromatophores are pigmentary neuromuscular organs, directly controlled by the brain. Iridophores are iridescent cells that use platelets of proteins that are arranged into repetitive structures (iridosomes) to produce iridescence; and leucophores are perfect reflectors. The same family of protein (reflectins), initially characterized in iridophores, have been detected (at different levels) in the three structures. Here we review the current knowledge of adult skin and its nervous control and describe the establishment of chromatophores and iridophores during embryonic development in Sepia officinalis.
}, keywords = {Cephalopods, Chromatophores, color pattern, Development, iridophores}, author = {Aude Andouche and Yann Bassaglia} } @conference {4385, title = {Comparison of MODIS and LANDSAT-8 retrievals of chlorophyll-a and water temperature over lake Titicaca}, booktitle = {IEEE International Symposium}, year = {2016}, publisher = {Geoscience and Remote Sensing (IGARSS)}, organization = {Geoscience and Remote Sensing (IGARSS)}, address = {10-15 july 2016, Beijing, China}, author = {Ruiz-Verd{\'u}, A and Jim{\'e}nez, JC and Lazzaro, Xavier and Tango, C and Delegido, J and Pereira, M and Sobrino, JA and Moreno, J} } @article {4509, title = {A comparison of techniques for studying oogenesis in the European eel Anguilla anguilla.}, journal = {J Fish Biol}, year = {2016}, month = {2016 Aug 8}, abstract = {A multi-technique approach was used to study the changes occurring in European eel Anguilla anguilla ovaries during hormonally-induced vitellogenesis. Aside from classic techniques used to monitor the vitellogenic process, such as ovary histology, fat content analysis, sodium dodecyl sulphate-polyacrylamide gel electrophoresis (SDS-PAGE) and vitellogenin enzyme linked immunosorbent assay (ELISA), a new technique, Fourier-transform infrared (FT-IR) microspectroscopy, was used to analyse A. anguilla ovaries. The results from the different techniques provided different ways of approaching the same process. Although it is considered a time consuming approach, of all the employed techniques, histology provided the most direct evidences about vitellogenesis. SDS-PAGE and ELISA were also useful for studying vitellogenesis, whereas fat analysis cannot be used for this purpose. The FT-IR analysis provided a representative IR spectrum for each ovarian stage (previtellogenic stage, early vitellogenic stage, mid-vitellogenic stage and late vitellogenic stage), demonstrating that it is a valid method able to illustrate the distribution of the oocytes within the ovary slices. The chemical maps obtained confirmed changes in lipid concentrations and revealed their distribution within the oocytes at different maturational stages. When the results and the accuracy of the FT-IR analysis were compared with those of the traditional techniques commonly used to establish the vitellogenic stage, it became evident that FT-IR is a useful and reliable tool, with many advantages, including the fact that it requires little biological material, the costs involved are low, analysis times are short and last but not least, the fact that it offers the possibility of simultaneously analysing various biocomponents of the same oocyte.
}, issn = {1095-8649}, doi = {10.1111/jfb.13103}, author = {Mazzeo, I and Giorgini, E and Gioacchini, G and Maradonna, F and V{\'\i}lchez, M C and Sylvie Baloche and Sylvie Dufour and P{\'e}rez, L and Carnevali, O and Asturiano, J F} } @article {4595, title = {Dating of the Limnadiidae family suggests an American origin of Eulimnadia}, journal = {Hydrobiologia}, volume = {773}, year = {2016}, month = {02/2016}, pages = {149{\textendash}161}, abstract = {The spinicaudatan clam shrimp is a group of branchiopod crustaceans that has existed as far back as the Devonian and well-preserved fossils are known. Evidence of monophyly exists for only one family (Limnadiidae), which has a worldwide distribution and morphological conservatism. The evolutionary relationships among genera and diversification mechanisms are not deeply resolved as well as origin of the genus Eulimnadia. To address these issues, we constructed phylogenies of limnadiid clam shrimp, with both Bayesian inference and maximum likelihood methods to infer limnadiid evolutionary relationships. We then performed dated phylogenies using a relaxed clock of the Spinicaudata using fossil calibrations. Divergence date estimates show a perfect match with the break up of the Pangaea that could explain current limnadiid distributions; however the genus Eulimnadia apparently diverged 30 Ma ago. Eulimnadia phylogeography suggests an American origin and ecological patterns were analyzed to propose hypotheses on its origin and spread. This genus also shows a strong dispersive capacity, which could be explained by its reproduction modalities (androdioecy). This study and this first phylogeny with fossil calibration date the current distribution of Spinicaudata and reveal congruence with continental drift, except for Eulimnadia.
}, doi = {10.1007\%2Fs10750-016-2694-x}, author = {Laure Bellec and Nicolas Rabet} } @article {4214, title = {Determinants of local and regional communities in intermittent and perennial headwaters of the Bolivian Amazon}, journal = {Freshwater Biology}, year = {2016}, abstract = {SUMMARY
1. The effect of drying events on aquatic biodiversity is still overlooked in wet Neotropical systems. Yet, the responses of local communities and metacommunities in these biodiversity hotspots may differ from what is reported in other areas.
2. We addressed the effect of drying events on local and regional fish and macroinvertebrate communities in the headwaters of the Chipiriri River basin, in the wet Neotropical piedmont of Bolivia. According to current knowledge in intermittent rivers and ephemeral streams (IRES) ecology, we predicted that intermittent (INT) sites would harbour lower a-diversity, but higher b-diversity, than perennial (PER) sites, due to local, negative effect of drying combined with the existence of multiple recovery stages at the network scale.
3. Although habitat variables were similar between INT and PER sites, local and regional diversity patterns differed. Local invertebrate communities were not different between site types as soon as 4{\textendash}6 weeks after flow resumption. The proximity of colonist sources and frequent rainfall probably enhanced persistence through dry periods and high resilience. In contrast, fish communities were still poorer at INT than PER sites, indicating they were still in the process of recolonising upstream INT reaches.
4. b-diversity analyses confirmed that invertebrate and fish metacommunities were not at the same recovery stage because (i) b-diversity of invertebrates was best explained by physical and environmental distances at both INT and PER sites, whereas that of fish was explained only by physical distances at INT sites; (ii) fish b-diversity was higher at INT than at PER sites, but invertebrate b-diversity was similar; and (iii) physical distances were correlated with the turnover component of invertebrate b-diversity but with the nestedness component for fish.
5. Exploring regional community patterns in IRES and across biota with different dispersal abilities and modes can advance metacommunity theory and improve our ability to predict local community composition in dynamic ecosystems.
}, doi = {doi:10.1111/fwb.12706}, author = {T. Datry and N. Moya and J. Zubieta and Thierry Oberdorff} } @article {5740, title = {Development of an ecotoxicological protocol for the deep-sea fauna using the hydrothermal vent shrimp Rimicaris exoculata}, journal = {Aquatic Biology}, volume = {175}, year = {2016}, pages = {277-285}, doi = {https://doi.org/10.1016/j.aquatox.2016.03.024}, author = {Auguste, M and Mestre, N and Rocha, T and Cardoso, C and Cueff-Gauchard, V and Le Bloa, S and Cambon-Bonavita, M-A and Bruce Shillito and Magali Zbinden and Juliette Ravaux and Bebianno, M} } @article {6812, title = {Development of laser ablation multi-collector inductively coupled plasma mass spectrometry for boron isotopic measurement in marine biocarbonates: new improvements and application to a modern Porites coral}, journal = {Rapid Communications in Mass Spectrometry}, volume = {30}, year = {2016}, month = {Mar-02-2017}, pages = {359 - 371}, abstract = {RATIONALE: Laser Ablation coupled to Multi-Collector Inductively Coupled Plasma Mass Spectrometry (LA-MCICPMS)The development of several cephalopods among them Sepia officinalis (Linnaeus, 1758) has been very carefully described by Naef in the early 20th century. Here an illustrated developmental table of Sepia officinalis is proposed with a morphological description of each stage. The 30 stages are grouped into five steps of development: cleavage (stages 1 to 9), gastrulation (stages 10 to 13), organogenesis, plane phase (stages 14 to 18), organogenesis, extension phase (stages 19 to 22) and organogenesis, growth phase (stages 23 to 30), when the embryo has acquired the general adult conformation. For each stage, morphological identification criteria are proposed in order that this table is used as a lab tool for cephalopod researchers interested in development.
}, keywords = {Cephalopoda, Development, Embryology, Sepia officinalis}, issn = {02408759}, author = {Boletzky, S.V and Aude Andouche and Laure Bonnaud-Ponticelli} } @article {Boulenger2016281, title = {Difference in factors explaining growth rate variability in European eel subpopulations: The possible role of habitat carrying capacity}, journal = {Ecology of Freshwater Fish}, volume = {25}, number = {2}, year = {2016}, note = {cited By 1}, pages = {281-294}, doi = {10.1111/eff.12209}, url = {https://onlinelibrary.wiley.com/doi/abs/10.1111/eff.12209}, author = {Boulenger, C. and Crivelli, A.J. and Charrier, F. and Roussel, J.-M. and Eric Feunteun and Anthony Acou} } @article {Trancart20169, title = {Difference in responses of two coastal species to fluctuating salinities and temperatures: Potential modification of specific distribution areas in the context of global change}, journal = {Estuarine, Coastal and Shelf Science}, volume = {173}, year = {2016}, note = {cited By 3}, pages = {9-15}, doi = {10.1016/j.ecss.2016.02.012}, url = {https://www.sciencedirect.com/science/article/pii/S0272771416300555}, author = {Thomas Trancart and Eric Feunteun and Lefran{\c c}ois, C. and Anthony Acou and Boinet, C. and Alexandre Carpentier} } @article {4530, title = {Differential protein expression during sperm maturation and capacitation in an hermaphroditic bivalve, Pecten maximus (Linnaeus, 1758)}, journal = {Journal of Molluscan Studies}, year = {2016}, month = {09/2016}, pages = {1-10}, author = {Boonmee, A and Clothilde Heude-Berthelin and Kingtong, S and Pauletto, M and Bernay, B and Adeline, B and Suquet, M and Pascal Sourdaine and Kristell Kellner-Cousin} } @article {5238, title = {Differential protein expression during sperm maturation and capacitation in an hermaphroditic bivalve, Pecten maximus (Linnaeus, 1758)}, journal = {J. of Molluscan Studies}, volume = {82}, year = {2016}, month = {11/2016}, pages = {575-584}, type = {research}, abstract = {In order to investigate the mechanisms of final maturation and capacitation of spermatozoa in Pecten maximus, we used a 2D proteomic approach coupled with MALDI-TOF/TOF mass spectrometry (MS) and bioinformatics search against the Pecten database, to set up a reference map of the proteome of spawned spermatozoa, and identified 133 proteins on the basis of the EST database. These proteins are mainly involved in energy production, ion and electron transport (44\%), cell movement (22\%) and developmental processes (10\%). Comparison between proteomes of spermatozoa collected before and after transit through the genital ducts of P. maximus led to the identification of differentially expressed proteins. Most of them are associated with energy metabolism (aconitate hydratase, malate dehydrogenase, glyceraldehyde-3-phosphate dehydrogenase), indicating important modifications of energy production during transit in gonoducts, potentially linked with acquisition of sperm motility. Three proteins involved in cell movement (Tektin-2, tubulin and microtubule-associated protein RP/EB family member 3) were down-regulated in spermatozoa stripped from the gonad. 40S ribosomal protein SA, involved in maturation of 40S ribosomal subunits, was also found to be down-regulated in spermatozoa obtained by induced spawning, suggesting reduction of the effi- ciency of RNA translation, a characteristic of late spermatozoon differentiation. These results confirm that maturation processes of P. maximus spermatozoa during transit through the gonoduct involve RNA translation, energy metabolism and structural proteins implicated in cell movement. Spermatozoa maturation processes clearly differ between P. maximus and gonochoric or alternately hermaphroditic bivalves, potentially in relation to reproductive strategies: the final maturation of the spermatozoon along the genital tract probably contributes to reduction of autofertilization in this simultaneously hermaphroditic species
}, doi = {doi:10.1093/mollus/eyw028}, author = {Boonmee, A and Clothilde Berthelin and Kingtong, S and Pauletto, M and Bernay, B and Suquet, M and Pascal Sourdaine and Kellner K} } @article {Lamy201629, title = {Dinard Herbarium: History of a Marine Station1}, journal = {Cryptogamie, Algologie}, volume = {37}, number = {1}, year = {2016}, note = {cited By 2}, pages = {29-45}, doi = {10.7872/crya/v37.iss1.2016.29}, url = {https://bioone.org/journals/Cryptogamie-Algologie/volume-37/issue-1/v37.iss1.2016.29/Dinard-Herbarium-History-of-a-Marine-Station1/10.7872/crya/v37.iss1.2016.29.short}, author = {Lamy, Dominique and Robuchon, Marine and Kervran, L. and Dennetiere, B. and Eric Feunteun and Le Gall, L.} } @article {Besson2016779, title = {Disrupted downstream migration behaviour of European silver eels (Anguilla anguilla, L.) in an obstructed river}, journal = {Environmental Biology of Fishes}, volume = {99}, number = {10}, year = {2016}, note = {cited By 13}, pages = {779-791}, doi = {10.1007/s10641-016-0522-9}, url = {https://link.springer.com/article/10.1007/s10641-016-0522-9}, author = {Besson, M.L. and Thomas Trancart and Anthony Acou and Charrier, F. and Mazel, V. and Legault, A. and Eric Feunteun} } @article {4515, title = {Dynamics of δ(15)N isotopic signatures of different intertidal macroalgal species: Assessment of bioindicators of N sources in coastal areas.}, journal = {Mar Pollut Bull}, volume = {110}, year = {2016}, month = {2016 Sep 15}, pages = {470-83}, abstract = {δ(15)N of annual (Ulva sp., Porphyra sp.) and perennial intertidal seaweed species (Chondrus crispus, Fucus sp.) collected on 17 sampling points along the French coast of the English Channel in 2012 and 2013 were assessed on their suitability as bioindicators of N pollution in coastal areas. A sine function applied for δ(15)N time series data showed for all the species the same seasonal trend with lowest δ(15)N values in April and highest in summer but with no significant interspecific differences of amplitude (α) and phase angle (ϕ). This model provides a useful tool for monitoring the inter-annual changes of N pollution. An interspecific variability of δ(15)N values was observed, probably due to their tolerance to emersion. An in vitro study for comparing the kinetic acquisition of the isotopic signal and N uptake mechanisms of each species underlined the influence of algal physiology on the δ(15)N interspecific variability.
}, issn = {1879-3363}, doi = {10.1016/j.marpolbul.2016.06.006}, author = {St{\'e}phanie Lemesle and Erraud, Alexandre and Isabelle Mussio and Anne-Marie Rusig and Pascal Claquin} } @article {7177, title = {Echinoids of the Kerguelen Plateau {\textendash} occurrence data and environmental setting for past, present, and future species distribution modelling}, journal = {ZooKeys}, volume = {630}, year = {2016}, month = {Sep-11-2016}, pages = {1 - 17}, issn = {1313-2989}, doi = {10.3897/zookeys.630.985610.3897/zookeys.630.9856.figure110.3897/zookeys.630.9856.figure2}, url = {http://zookeys.pensoft.net/articles.php?id=9856}, author = {Guillaumot, Charl{\`e}ne and Martin, Alexis and Fabri-Ruiz, Salom{\'e} and Eleaume, Marc and Sauc{\`e}de, Thomas} } @article {4413, title = {Effects of an environmentally relevant concentration of diuron on oyster genitors during gametogenesis: responses of early molecular and cellular markers and physiological impacts.}, journal = {Environ Sci Pollut Res Int}, volume = {23}, year = {2016}, month = {2016 Apr}, pages = {8008-20}, abstract = {Genitors of the Pacific oyster Crassostrea gigas were submitted during gametogenesis to a short pulse exposure to the herbicide diuron at a realistic environmental concentration. Histological analysis showed no effect of diuron on gametogenesis course, sex ratio and reproductive effort. A non-significant increase in testosterone and progesterone levels was observed in genitors exposed to the herbicide. At cell level, diuron exposure was shown to modulate the phagocytic activity of circulating hemocytes. The results of a transcriptional analysis showed that diuron affected the expression of genes belonging to functions known to play a major role during oyster gametogenesis such as gene transcription regulation, DNA replication and repair, DNA methylation and cytokinesis. Taking into account the results we previously obtained on the same genitors, this study showed a negative effect of diuron on oyster reproduction by inducing both structural and functional modifications of the DNA.
}, issn = {1614-7499}, doi = {10.1007/s11356-015-5969-2}, author = {Akcha, F and Barranger, A and Bach{\`e}re, E and Clothilde Heude-Berthelin and Piquemal, D and Alonso, P and Sallan, R Rondon and Dimastrogiovanni, G and Porte, C and Menard, D and Szczybelski, A and Benabdelmouna, A and Auffret, M and Rouxel, J and Burgeot, T} } @article {4281, title = {Effects of chlordecone on 20-hydroxyecdysone concentration and chitobiase activity in a decapod crustacean, Macrobrachium rosenbergii}, journal = {Aquatic toxicology}, year = {2016}, abstract = {Chlordecone (CLD) is an organochlorine insecticide abundant in aquatic environment of the French West Indies. However, few studies have investigated its impact on freshwater invertebrates. WhereasCLD is suspected of inducingendocrine disruption,this work aimed to study the effects of environmentally relevant concentrations of CLD on the 20-hydroxyecdysone (20-HE) hormone concentration and on the chitobiase activity, both having key roles in the molting process of crustaceans. In addition, the bioaccumulation of CLD was measured in the muscle tissueof Macrobrachium rosenbergiito underline potential dose-response relationship. The results have shown that CLD was bioaccumulated in exposed organisms according to a trend to a dose-response relationship. Moreover, it was observed that CLD decreased the 20-HE concentration in exposed prawns when compared to control, whatever the duration of exposure, as well as it inhibited the chitobiase activity after 30 days of exposure. The present study indicates that CLD could interfere with molting process of M. rosenbergiiby disturbing the 20-HE concentration and the activity of chitobiase, suggesting consequences at the long term on the shrimp development. This study also confirmed that CLD could be an endocrine disruptor in decapod crustaceans, as it was already observed in vertebrates.
}, keywords = {20-Hydroxyecdysone, Chitobiase, Chlordecone, Endocrine Disruptors, Macrobrachium rosenbergii}, doi = {10.1016/j.aquatox.2016.04.006}, author = {Lafontaine, Anne and Gismondi, Eric and Boulang{\'e}-Lecomte, C{\'e}line and Gerraudie, Perrine and Dodet, Nathalie and Campos, Fanny and Lemoine, Soazig and Lagadic, Laurent and Thom{\'e}, Jean-Pierre and Jo{\"e}lle Forget-Leray} } @article {4803, title = {Empirical observations of the spawning migration of European eels: The long and dangerous road to the Sargasso Sea.}, journal = {Science Advances}, year = {2016}, abstract = {The spawning migration of the European eel (Anguilla anguilla\ L.) to the Sargasso Sea is one of the greatest animal migrations. However, the duration and route of the migration remain uncertain. Using fishery data from 20 rivers across Europe, we show that most eels begin their oceanic migration between August and December. We used electronic tagging techniques to map the oceanic migration from eels released from four regions in Europe. Of 707 eels tagged, we received 206 data sets. Many migrations ended soon after release because of predation events, but we were able to reconstruct in detail the migration routes of \>80 eels. The route extended from western mainland Europe to the Azores region, more than 5000 km toward the Sargasso Sea. All eels exhibited diel vertical migrations, moving from deeper water during the day into shallower water at night. The range of migration speeds was 3 to 47 km day-1. Using data from larval surveys in the Sargasso Sea, we show that spawning likely begins in December and peaks in February. Synthesizing these results, we show that the timing of autumn escapement and the rate of migration are inconsistent with the century-long held assumption that eels spawn as a single reproductive cohort in the springtime following their escapement. Instead, we suggest that European eels adopt a mixed migratory strategy, with some individuals able to achieve a rapid migration, whereas others arrive only in time for the following spawning season. Our results have consequences for eel management.}, doi = {10.1126/sciadv.1501694}, url = {https://advances.sciencemag.org/content/2/10/e1501694}, author = {D. Righton and H. Westerberg and Eric Feunteun and F. Okland and P. Gargan and E. Amilhat and J. Metcalfe and J. Lobon-Cervia and N. Sj{\"o}berg and J. Simon and Anthony Acou and M. Vedor and A. Walker and Thomas Trancart and U Br{\"a}mick and K. Aarestrup} } @article {4053, title = {Environmental correlates of body size distribution in Cyprinidae (Actinopterygians) depend on phylogenetic scale}, journal = {Ecology of Freshwater Fish}, volume = {25}, year = {2016}, pages = {125-132}, abstract = {ABSTRACT: The pattern of increasing species body size with increasing latitude has been noticed in different groups of animals. Here, we used seven key environmental factors and independent contrasts to assess body size latitudinal clines in Cyprinidae at two phylogenetic levels (inter- and intragenera), which were defined using a genus-level supertree. Model selection procedures revealed that environmental factors shaping body size variation in Cyprinidae differed according to the phylogenetic scale considered. At the higher phylogenetic level, we found that both temperature (negative effect) and habitat availability (positive effect of drainage basin surface area) constituted mechanistic explanations of large-scale body size distribution. No temperature-related body size cline was observed at the intragenus level. Instead, competitive interaction (negative effect of species richness), habitat availability (positive effect of drainage basin surface area), migration ability and available energy (positive effects of glacial coverage and actual evapotranspiration) constitute alternative explanations at this lower phylogenetic scale. We conclude that (i) at the intergenus level, cyprinids do show a tendency to be smaller at high temperatures and larger at low temperatures, (ii) this tendency no longer exists at the intragenus level, (iii) latitude per se is a weak predictor of body size clines whatever the taxonomic level analysed, (iv) generalising geographical body size patterns may be rendered difficult by the superimposition of a series of mechanisms across different taxonomic scales, and (v) habitat size, here acting positively at both taxonomic scales, may play a major role in shaping riverine species body size clines.
\
During 2002-2005, a new container terminal in the commercial harbour of Le Havre, named "Port2000", was built on the northern flank of the Seine estuary, northern France. This extension is already known to have modified the estuary current and sediment dynamics, as well as reducing biomass of the suprabenthos assemblage, for the whole downstream part of the system. However, studies on other biotic communities were largely inconclusive, and an ecosystem-wide analysis was still lacking. Here, we performed a before/after study of ecosystem dynamics of the different habitats of the Seine estuary, using a Linear Inverse Modelling technique (LIM-MCMC) to estimate all flows occurring in the food web. Ecological Network Analysis indices were calculated, summarising ecosystem functioning traits and giving indications about the habitat health status. Results showed that the southern flank (FS, Fosse Sud) exhibits all characteristics to be considered as the least stressed habitat of the estuary: system activity and functional specialisation of flows were stable between periods, ecosystem recycling processes and detrital dynamics were also stable; an increase in trophic specialisation (decrease in system omnivory) was the only change confirming a general ecological succession. The northern flank (FN, Fosse Nord), where the actual terminal was built, showed a food web with increased importance of lower trophic levels (increased detritivory and carbon recycling), increased stability and flow efficiency, but possibly regressed to a previous step in ecological succession. In the central navigation channel (CH), patterns of network indices were overall inconclusive and the general image is one of a constantly shifting food web, a condition possibly caused by the year-round dredging activities. The functioning of the Seine estuary especially of FN and FS - seems to have been modified by the combination of harbour construction and the related mitigation measures. Network indices partially captured this combination of changes and, although not fully operational yet, they are promising tools to comply with the European Union mandate of defining ecosystem health status. (c) 2015 Elsevier Ltd. All rights reserved.
}, issn = {{1470-160X}}, doi = {{10.1016/j.ecolind.2015.10.036}}, author = {Samuele Tecchio and Chaalali, Aur{\'e}lie and Raoux, Aurore and Rius, Armonie Tous and Lequesne, Justine and Girardin, Valerie and G{\'e}raldine Lassalle and Cachera, Marie and Riou, P and Lobry, Jeremy and Dauvin, Jean-Claude and Nathalie Niquil} } @mastersthesis {9381, title = {Evolution and structure of neuromuscular systems in spiralian meiofauna}, year = {2016}, abstract = {Spiralia is a vast clade of Metazoa comprising large and well-known organisms, e.g., Annelida and Mollusca, but also many microscopic animals such as Gastrotricha or Gnathifera (including, Rotifera) of the often overlooked meiofauna. To date, the phylogeny and morphology of Spiralia have been difficult to resolve and understand. The present thesis focuses on spiralian meiofauna to i) reconstruct the phylogeny of this clade using transcriptomics and place enigmatic meiofaunal taxa and ii) resolve the morphology of three important taxa, mainly employing confocal laser scanning microscopy and immunohistochemistry: the spiralian incertae sedis, Lobatocerebrum, the recently described monospecific phylum Micrognathozoa (Gnathifera), and an early branching Gastrotricha, Diuronotus aspetos.Human activities may generate geometrical landscape (i.e. composed of rectilinear and repetitive landscape units) structures that can significantly influence the spatial distribution of birds. While bird distribution in various landscape types has been extensively studied, the role played by landscape configuration and composition in different facets of bird diversity remains unclear. Here, these two main components of landscape characteristics (i.e. configuration and composition) are disentangled and their relative influence on three different facets of bird assemblages: taxonomic and functional characteristics, and the presence of rare species, is tested. We chose four large coastal salinas of Western France as a relevant model of geometrical and human-dominated landscapes where each landscape unit can be easily identified and mapped. The landscape characteristics of these sites were mapped and quantified. Then, terrestrial breeding birds were sampled in 172 point-counts using a standardized protocol. 69 diurnal terrestrial bird species were detected and considered in analyses (waterbirds and owls excluded). Landscape composition was found to have a higher influence on bird communities than landscape configuration, which fits with the {\textquotedblleft}landscape composition hypothesis{\textquotedblright}. More specifically, the most {\textquotedblleft}extreme{\textquotedblright} landscapes {\textemdash} those with low terrestrial surface areas, low landscape richness and diversity, low cohesion, and very patchy landscapes with complex geometrical shapes {\textemdash} host the lowest bird taxonomic abundance, richness and diversity and functional richness, but are characterized by the presence of rare species (mainly wetland specialist species, e.g. Reed Bunting Emberiza schoeniclus and species with restricted ranges e.g. Bluethroat Luscinia svecica namnetum). Our results suggest that conservation plans in such geometrical and human-dominated habitats should not only focus on one aspect of landscape characteristics or one aspect of biological diversity but also consider the adverse effects of landscape characteristics on these different facets.
\
The central Amazon floodplains are particularly productive ecosystems, where a large diversity of organic carbon sources are available for aquatic organisms. Despite the fact that C4 macrophytes generally produce larger biomasses than C3 macrophytes, food webs in the central Amazon floodplains appear dominantly based on a C3 carbon source.
In order to investigate the respective fate and degradation patterns of C4 and C3 aquatic plant-derived material in central Amazon floodplains, we developed a 23-days batch experiment. Fatty acid and carbon concentrations as well as stable isotope compositions were monitored over time in 60\ L tanks. These tanks contained Amazon water, with different biomasses of C3 and C4 macrophyte, representative of in situ densities occurring in central Amazon floodplains.
In the C4Paspalum repens treatments, organic (POC, DOC) and inorganic carbon (DIC) got rapidly enriched in 13C, whereas in the C3Salvinia auriculata treatments, POC and DOC showed little change in concentration and isotopic composition, and DIC got depleted in 13C. The contribution of P. repens to POC and DOC was estimated to reach up to 94.2 and 70.7\%, respectively. In contrast, no differences were reported between the C3S. auriculata and control treatments, an observation attributed to the lower C3 biomass encountered in the field, to a slower degradation rate of C3 compared to C4 compounds, and to similar isotopic compositions for river POC and DOC, and C3 compounds.
The 13C enrichments of POC, DOC, and DIC from P. repens treatments were attributed to an enhanced bacterially-mediated hydrolysis and mineralization of C4 material. Evolutions of bacterial abundance and branched fatty acid concentrations confirmed the role of heterotrophic microbial communities in the high P. repens decomposition rate. Our experiment highlights the predominant role of C4 aquatic plants, as a large source of almost entirely biodegradable organic matter available for heterotrophic activity and CO2 outgassing to the atmosphere.
}, keywords = {Central amazon, Degradation, fatty acids, Floodplains, Macrophytes, Stables isotopes}, doi = {doi:10.1016/j.limno.2016.03.008}, author = {Jean-Michel Mortillaro and Passarelli, C and Gwena{\"e}l Abril and C{\'e}dric Hubas and Luis Felipe Artigas and Marc F Benedetti and Najet Thiney and Moreira-Turcq, P and P{\'e}rez, M A and Vidal, L and Tarik Meziane} } @article {4637, title = {First record of Siganus randalli (Teleost, Siganidae) in New Caledonia, and comments on its diet}, journal = {Marine Biodiversity Records}, volume = {9}, year = {2016}, month = {11/2016}, pages = {1-5}, abstract = {Background: Most of the 29 Siganidae species are widely distributed through the Indo-Pacific area. In New
Caledonia, these family was represented by 12 species. The present report is the first record of Siganus randalli in New
Caledonian waters and provide information on its diet.
Methods: Three specimens of Siganus randalli were caught in shallow mangrove waters of the southern part of New
Caledonia. Their stomach contents and isotopic signatures (carbon and nitrogen) were analyzed and compared to
others siganids species.
Results and conclusion: This note provides the most southerly record of the rabbitfish Siganus randalli, which extends
its distribution range by 1200 km southward and 1300 km southwest. The data on its diet, when compared with other
co-occurring or more reef-associated siganid species, provide information on feeding processes and ecological
functions associated with its mangrove habitat.
Keywords: Variegated rabbitfish, Diet, Stomach content, Isotope, SW pacific
Abbreviations: ADECAL, Agence de d{\'e}veloppement {\'e}conomique de la Nouvelle-Cal{\'e}donie; ARR, Arr{\^e}t{\'e};
C, Carbon; DENV, Direction de l{\textquoteright}environnement; G, grams; IRI, Index of relative importance; LIVE, Laboratoire
insulaire du vivant et de l{\textquoteright}environnement; MM, millimeter; N, Nitrogen; SD, standard deviation; TL, Total length;
UNC, Universit{\'e} de la Nouvelle-Cal{\'e}donie
{As species biology and ecology is profoundly influenced by climate, any climatic alteration may have severe consequences on marine pelagic ecosystems and their food webs. It remains challenging to estimate the influence of climate on both structural and functional properties of food webs. In this study, we proposed an innovative approach to assess the propagating effects of climate change on ecosystem food web. The approach is based on a sensitivity analysis of a food-web model, a linear inverse model using a Monte Carlo method coupled with a Markov Chain, in which changes in the values of parameters are driven by external Ecological Niche Model outputs. Our sensitivity analysis was restricted to parameters regarding a keystone functional group in marine ecosystems, i.e. small pelagic fish. At the ecosystem level, the consequences were evaluated using both structural and functional ecological network indices. The approach is innovative as it is the first time that these three methods were combined to assess ecological network indices sensitivity to future climatic pressure. This coupling method was applied on the French continental shelf of the Bay of Biscay for which a food-web model already exists and where future changes in the distribution of small pelagic fish have already been examined through model building and projections. In response to the sensitivity analysis corresponding to an increase in small pelagics production only, our results suggested a more active system with an intense plankton-small pelagics-seabirds chain and an efficient recycling to maximize detritus use in the system in relation with detritus export. All results combined together seemed to be in favor of a system adapting to sustain the tested increase in production of small pelagic planktivores. Finally, regarding the innovative combination of numerical tools presented, even if further investigations are still necessary to get a more realistic view of cumulative effects resulting from one given pressure (or more) on a food web (e.g. altering different biological compartments at the same time), the Ecological Network Analysis indices values showed a higher variability under the scenarios of change. Our study thus pointed out a promising methodology to assess propagating changes in structural and functional ecosystem properties. (C) 2016 Elsevier B.V. All rights reserved.}
}, issn = {{0304-3800}}, doi = {{10.1016/j.ecolmodel.2016.04.022}}, author = {Chaalali, Aur{\'e}lie and Gr{\'e}gory Beaugrand and Virginie Raybaud and G{\'e}raldine Lassalle and Saint-B{\'e}at, B and Le Loc{\textquoteright}h, Francois and Bopp, Laurent and Samuele Tecchio and Safi, Georges and Chifflet, Marina and Lobry, Jeremy and Nathalie Niquil} } @article {4507, title = {Functional characterization of eel dopamine D2 receptors and involvement in the direct inhibition of pituitary gonadotropins.}, journal = {J Neuroendocrinol}, year = {2016}, month = {2016 Jul 25}, abstract = {In various vertebrate species, dopamine (DA) exerts an inhibitory action on reproduction. In the European eel, DA plays a pivotal role in the inhibitory control of the gonadotrope function and the blockade of puberty. In vivo studies suggested that this effect is mediated by receptors pharmacologically related to the D2-family. In the European eel, two distinct D2 receptor (D2-R) paralogous genes have been identified (D2A-R and D2B-R) and both shown to be expressed in the pituitary. We investigated the potential role of each paralog in the control of gonadotrope function in this species. Eel recombinant D2A-R or D2B-R were expressed in HEK 293 cells, with a universal Gα subunit, and receptor activation was followed by inositol phosphate production. Recombinant D2-Rs exhibited a comparable affinity for DA, but differential affinities for mammalian D2-R agonists and antagonists, supporting subtle structure/activity differences. Further, using eel pituitary cell primary cultures, the expression by gonadotrope cells of both native eel D2-R paralogs was examined by in situ hybridisation of D2A-R or D2B-R transcripts, coupled to immunofluorescence of LHβ or FSHβ. LH and to a lesser extent, FSH cells expressed both D2-R transcripts, but with a clear predominance of D2B-R. Notably, D2B- R transcripts were detected on the majority of LH cells. Accordingly, using these cultures, we showed that DA potently inhibited basal and testosterone-stimulated LHβ expression and less potently basal and activin-stimulated FSHβ expression. We also tested some D2-R antagonists in order to select the most adequate one to be used in innovative protocols for induction of eel sexual maturation. We identified eticlopride as the most potent inhibitor of DA action on basal and stimulated LH expression in vitro. Our data suggest a differential functionalisation of the duplicated receptor genes and demonstrate that mainly D2B-R is involved in the dopaminergic inhibitory control of eel gonadotrope function. This article is protected by copyright. All rights reserved.
}, issn = {1365-2826}, doi = {10.1111/jne.12411}, author = {Jolly, C and Karine Rousseau and Pr{\'e}zeau, L and Vol, C and Tomkiewicz, J and Sylvie Dufour and Pasqualini, C} } @article {4226, title = {Geographic variation in stable isotopic and fatty acid composition of anguilliform leptocephali and particulate organic matter in the South Pacific}, journal = {Marine Ecology and Progress Series}, volume = {544}, year = {2016}, pages = {225-241}, abstract = {The feeding ecology of leptocephali has remained poorly understood because they apparently feed on particulate organic matter (POM), which varies in composition, and it is unclear which components of the POM they assimilate. The δ13C and δ15N stable isotope (SI) and fatty acid (FA) compositions of 3 families of leptocephali and POM were compared in 3 latitudinal current zones of the western South Pacific. The δ15N signatures of leptocephali and POM overlapped, with both having their lowest values in the southern current zone. POM in general (across all zones) contained 38 FAs and was rich in saturated FAs (SFA) (16:0, 18:0, 14:0), while leptocephali contained 50 FAs, with high proportions of 16:0, and higher contributions of 22:6ω3, 20:5ω3, 18:1ω9, 16:1ω7 and other FAs than found in the POM. Serrivomeridae leptocephali in the north had higher δ15N signatures and were also distinguished from Nemichthyidae and Muraenidae larvae by their FA compositions (higher SFAs, lower 22:6ω3 and 20:5ω3). Although SI signatures of the Serrivomeridae larvae did not clearly vary with size, 16:0 and 18:0 FA proportions decreased with increasing larval size, and 22:6ω3 and 16:1ω7 increased in larger larvae. Correspondences between the latitudinal variations in nitrogen SI signatures and FA compositions of POM with those of leptocephali and the presence of FA markers of both autotrophic and heterotrophic organisms were consistent with leptocephali feeding on POM. POM can contain various materials from primary producers and heterotrophic microorganisms, but differences in the SI signatures and FA compositions in leptocephali remain to be explained through further research.
}, keywords = {Leptocephali {\textperiodcentered} Fatty acids {\textperiodcentered} Stable isotopes {\textperiodcentered} Biomarkers {\textperiodcentered} Trophic ecology {\textperiodcentered} Oceanic currents}, isbn = {doi:10.3354/meps11575 }, author = {Li{\'e}nart, Camilla and Eric Feunteun and Miller, M J and Aoyama, J and Jean-Michel Mortillaro and C{\'e}dric Hubas and Kuroki, M and Watanabe, S and Christine Dupuy and Alexandre Carpentier and Otake, T and Tsukamoto, K and Tarik Meziane} } @article {5813, title = {{Global impacts of the 1980s regime shift}}, journal = {Global Change Biology}, volume = {22}, year = {2016}, abstract = {{\textcopyright} 2016 John Wiley {\&} Sons Ltd. Despite evidence from a number of Earth systems that abrupt temporal changes known as regime shifts are important, their nature, scale and mechanisms remain poorly documented and understood. Applying principal component analysis, change-point analysis and a sequential t-test analysis of regime shifts to 72 time series, we confirm that the 1980s regime shift represented a major change in the Earth{\textquoteright}s biophysical systems from the upper atmosphere to the depths of the ocean and from the Arctic to the Antarctic, and occurred at slightly different times around the world. Using historical climate model simulations from the Coupled Model Intercomparison Project Phase 5 (CMIP5) and statistical modelling of historical temperatures, we then demonstrate that this event was triggered by rapid global warming from anthropogenic plus natural forcing, the latter associated with the recovery from the El Chich{\'o}n volcanic eruption. The shift in temperature that occurred at this time is hypothesized as the main forcing for a cascade of abrupt environmental changes. Within the context of the last century or more, the 1980s event was unique in terms of its global scope and scale; our observed consequences imply that if unavoidable natural events such as major volcanic eruptions interact with anthropogenic warming unforeseen multiplier effects may occur.
}, keywords = {Climate, Earth systems, Global change, Regime shift, Statistical analysis, Time series, Volcanic forcing}, issn = {13652486}, doi = {10.1111/gcb.13106}, author = {Philip Chris Reid and Renata E. Hari and Gr{\'e}gory Beaugrand and David M. Livingstone and Christoph Marty and Dietmar Straile and Jonathan Barichivich and Goberville, Eric and Rita Adrian and Yasuyuki Aono and Ross Brown and James Foster and Pavel Groisman and Pierre H{\'e}laou{\"e}t and Huang-Hsiung Hsu and Richard R Kirby and Jeff Knight and Alexandra Kraberg and Jianping Li and Tzu-Ting Lo and Ranga B. Myneni and Ryan P. North and Alan J. Pounds and Tim Sparks and Ren{\'e} St{\"u}bi and Yongjun Tian and Karen H. Wiltshire and Dong Xiao and Zaichun Zhu} } @article {4153, title = {Gondwanalimnadia (Branchiopoda: Spinicaudata) replacement name for Afrolimnadia Rogers, Rabet and Weeks, 2012 (Limnadiidae), junior homonym of Afrolimnadia Tasch, 1987 (Lioestheriidae)}, journal = {Journal of Crustacean Biology}, volume = {36}, year = {2016}, month = {01/2016}, pages = {105-105}, type = {Research Article}, author = {D. Christopher Rogers and Nicolas Rabet and Stephen Weeks} } @article {4527, title = {High-resolution structural and elemental analyses of calcium storage structures synthesized by the noble crayfish Astacus astacus.}, journal = {J Struct Biol}, year = {2016}, month = {2016 Sep 6}, abstract = {During premolt, crayfish develop deposits of calcium ions, called gastroliths, in their stomach wall. The stored calcium is used for the calcification of parts of the skeleton regularly renewed for allowing growth. Structural and molecular analyses of gastroliths have been primarily performed on three crayfish species, Orconectes virilis, Procambarus clarkii, and more recently, Cherax quadricarinatus. We have performed high-resolution analyses of gastroliths from the native noble crayfish, Astacus astacus, focusing on the microstructure, the mineralogical and elemental composition and distribution in a comparative perspective. Field emission scanning electron microscopy (FESEM) and atomic force microscopy (AFM) observations showed a classical layered microstructure composed of 200-nm diameter granules aligned along fibers. These granules are themselves composed of agglomerated nanogranules of 50nm-mean diameters. Denser regions of bigger fused granules are also present. Micro-Raman spectroscopy show that if A. astacus gastroliths, similarly to the other analyzed gastroliths, are mainly composed of amorphous calcium carbonate (ACC), they are also rich in amorphous calcium phosphate (ACP). The presence of a carotenoid pigment is also observed in A. astacus gastrolith contrary to C. quadricarinatus. Energy-dispersive X-ray spectroscopy (EDX) analyses demonstrate the presence of minor elements such as Mg, Sr, Si and P. The distribution of this last element is particularly heterogeneous. X-ray absorption near edge structure spectroscopy (XANES) reveals an alternation of layers more or less rich in phosphorus evidenced in the mineral phase as well as in the organic matrix in different molecular forms. Putative functions of the different P-comprising molecules are discussed.
}, issn = {1095-8657}, doi = {10.1016/j.jsb.2016.09.001}, author = {Gilles Luquet and Salom{\'e}, Murielle and Ziegler, Andreas and Paris, C{\'e}line and Percot, Aline and Dauphin, Yannicke} } @article {4346, title = {How do macrobenthic resources concentrate foraging waders in large megatidal sandflats?}, journal = {Estuarine, Coastal and Shelf Science}, year = {2016}, abstract = {The relationship between foraging shorebirds, macrobenthos and sedimentary parameters has been widely studied across Western Europe. Megatidal areas have large zones uncovered when the water retreats. Consequently, in such cases, the tide also influences foraging activities. This paper examines the use of an intertidal space by waders to define how macrobenthic resource concentrates foraging activity of birds in a large megatidal sandflat. This approach combines accurate spatial distribution of waders (Oystercatcher, Eurasian curlew, Bar-tailed Godwit and Redknot) according to their activity with ecological/biological parameters. A differential exploitation of the flat is clearly shown, with macrobenthic biomass appearing as one of the main explanatory factor for the four species considered on the western part of the bay and altitude (shore elevation) in the eastern part. The novelty of this study relates to the large area, also presumed to be a functional unit, while considering at the same time the singularities of the different parts of the flat. This multi-scale approach identifies important factors influencing the differential distribution patterns observed. The different selected parameters present an important variability in their contribution, underlining the complexity of explaining the distribution of foraging birds. Consequently, the study of such complex phenomena needs to consider additional variables to improve the relevance of explanatory models.
}, doi = {10.1016/j.ecss.2016.05.023}, author = {Ponsero, Alain and Sturbois, Anthony and Nicolas Desroy and Patrick Le Mao and Jones, Auriane and J{\'e}r{\^o}me Fournier} } @article {6814, title = {Ideas and perspectives: Southwestern tropical Atlantic coral growth response to atmospheric circulation changes induced by ozone depletion in Antarctica}, journal = {Biogeosciences}, volume = {13}, year = {2016}, month = {Jan-01-2016}, pages = {2379 - 2386}, abstract = {Recent Southern Hemisphere (SH) atmosphericAbstract In coastal environments, fishing and aquaculture may be important sources of disturbance to ecosystem functioning, the quantification of which must be assessed to make them more sustainable. In the Chausey Archipelago, France, recreational fishing and commercial shellfish farming are the only two evident anthropogenic activities, dominated by bivalve hand-raking and {\textquoteleft}bouchot{\textquoteright} mussel culture, respectively. This study evaluates the impact of both activities on bivalve recruitment dynamics by comparing primary recruitment intensity (short-term effect) and recruitment efficiency (medium-term effect) by sampling bivalves in reference (undisturbed) and disturbed (i.e. subjected to hand-raking or in {\textquoteleft}bouchot{\textquoteright} mussel culture areas) parcels throughout and at the end of the recruitment season, respectively. Specific hypotheses evaluated were that (H1) bivalve hand-raking negatively affects bivalve recruitment and that (H2) {\textquoteleft}bouchot{\textquoteright} mussel culture promotes bivalve recruitment. Patterns in bivalve community structure in reference parcels (i.e. natural pattern) differed between initial and final recruitment, underlining the great importance of early post-settlement processes, particularly secondary dispersal. Primary recruitment intensity was inhibited in hand-raking parcels whereas it was promoted in {\textquoteleft}bouchot{\textquoteright} mussel culture parcels, but the effect on recruitment efficiency was muted for both activities due to post-settlement processes. Nevertheless, the importance of effects that occur during the first step of recruitment should not be ignored as they may affect bivalve communities and induce immediate consequences on the trophic web through a cascade effect. Finally, it is highlighted that hand-raking damages all life stages of the common cockle Cerastoderma edule, one of the major target species, suggesting that this activity should be managed with greater caution than is currently done.
}, keywords = {{\textquoteleft}Bouchot{\textquoteright}}, issn = {0141-1136}, doi = {http://dx.doi.org/10.1016/j.marenvres.2016.03.006}, url = {http://www.sciencedirect.com/science/article/pii/S0141113616300319}, author = {Nicolas Toupoint and Pierrick Barbier and R{\'e}jean Tremblay and P Archambault and Christopher W. McKindsey and Gesche Winkler and Tarik Meziane and Fr{\'e}d{\'e}ric Olivier} } @article {8577, title = {The influence of oceanographic features on the foraging behavior of the olive ridley sea turtle Lepidochelys olivacea along the Guiana coast}, journal = {Progress in Oceanography}, volume = {142}, year = {2016}, month = {Jan-03-2016}, pages = {58 - 71}, issn = {00796611}, doi = {10.1016/j.pocean.2016.01.006}, url = {https://linkinghub.elsevier.com/retrieve/pii/S0079661115300094}, author = {Chambault, Philippine and de Thoisy, Beno{\^\i}t and Heerah, Karine and Conchon, Anna and Barrioz, S{\'e}bastien and Dos Reis, Virginie and Berzins, Rachel and Kelle, Laurent and Picard, Baptiste and Roquet, Fabien and Le Maho, Yvon and Chevallier, Damien} } @article {4575, title = {Insights from the shell proteome: biomineralization to adaptation.}, journal = {Mol Biol Evol}, year = {2016}, month = {2016 Oct 15}, abstract = {Bivalves have evolved a range of complex shell forming mechanisms that are reflected by their incredible diversity in shell mineralogy and microstructures. A suite of proteins exported to the shell matrix space plays a significant role in controlling these features, in addition to underpinning some of the physical properties of the shell itself. Although, there is a general consensus that a minimum basic protein tool kit is required for shell construction, to date, this remains undefined. In this study the shell matrix proteins (SMPs) of four highly divergent bivalves (The Pacific oyster, Crassostrea gigas; the blue mussel, Mytilus edulis; the clam, Mya truncata and the king scallop, Pecten maximus) were analyzed in an identical fashion using proteomics pipeline. This enabled us to identify the critical elements of a "basic tool kit" for calcification processes, which were conserved across the taxa irrespective of the shell morphology and arrangement of the crystal surfaces. In addition, protein domains controlling the crystal layers specific to aragonite and calcite were also identified. Intriguingly, a significant number of the identified SMPs contained domains related to immune functions. These were often are unique to each species implying their involvement not only in immunity, but also environmental adaptation. This suggests that the SMPs are selectively exported in a complex mix to endow the shell with both mechanical protection and biochemical defense.
}, issn = {1537-1719}, doi = {10.1093/molbev/msw219}, author = {Arivalagan, Jaison and Yarra Teja and Marie, Benjamin and Sleight, Victoria A and Duvernois-Berthet, Evelyne and Clark, Melody S and Marie, Arul and Berland, Sophie} } @article {4540, title = {International Perspectives on the Effects of Climate Change on Inland Fisheries}, journal = {Fisheries}, volume = {41}, year = {2016}, month = {07/2016}, pages = {399-405}, doi = {10.1080/03632415.2016.1182513}, author = {I.J. Winfield and C. Baigun and P.A. Balykin and B. Becker and Y. Chen and A.F. Filipe and Y.V. Gerasimov and A.L. Godinho and R.M. Hugues and J.D. Koehn and D.N. Kutsyn and V. Mendoza-Portillo and Thierry Oberdorff and A.M. Orlov and A.P. Pedchenko and F. Pletterbauer and I.G. Prado and R. R{\"o}sch and S.J. Vatland} } @article {8576, title = {Inter-nesting behavioural adjustments of green turtles to an estuarine habitat in French Guiana}, journal = {Marine Ecology Progress Series}, volume = {555}, year = {2016}, month = {Jun-08-2017}, pages = {235 - 248}, issn = {0171-8630}, doi = {10.3354/meps11813}, url = {http://www.int-res.com/abstracts/meps/v555/p235-248/}, author = {Chambault, P and de Thoisy, B and Kelle, L and Berzins, R and Bonola, M and Delvaux, H and Le Maho, Y and Chevallier, D} } @article {6813, title = {Intra-skeletal calcite in a live-collected Porites sp.: Impact on environmental proxies and potential formation process}, journal = {Geochimica et Cosmochimica Acta}, volume = {176}, year = {2016}, month = {Jan-03-2016}, pages = {279 - 294}, abstract = {Geochemical proxies measured in the carbonate skeleton of tropical coral Porites sp. have commonly been used to reconstruct sea surface temperature (SST) and more recently seawater pH. Nevertheless, both reconstructed SST and pH depend on the preservation state of the skeleton, here made of aragonite; i.e., diagenetic processes and its related effects should be limited. In this study, we report on the impact of the presence of intra-skeletal calcite on the skeleton geochemistry of a live-collected Porites sp. The Porites skeleton preservation state was analyzed using X-ray diffraction and scanning electron microscopy. Sr/Ca, Mg/Ca, U/Ca, Ba/Ca, Li/Mg, and B/Ca ratios were measured at a monthly and yearly resolution using quadrupole ICP-MS and multi-collector ICP-MS. The δ11B signatures and the calcite percentages were acquired at a yearly timescale. The coral colony presents two parts, one with less than 3\% calcite (referred to as {\textquotedblleft}no-calcite{\textquotedblright} skeleton), the other one, corresponding to the skeleton formed during the last 4 years of growth, with calcite percentages varying from 13\% to 32\% (referred to as {\textquotedblleft}with calcite{\textquotedblright} skeleton). This intra-skeletal calcite replaces partly or completely numerous centers of calcification (COCs). All investigated geochemical tracers are significantly impacted by the presence of calcite. The reconstructed SST decreases by about 0.1 {\textdegree}C per calcite-percent as inferred from the Sr/Ca ratio. Such impact reaches up to 0.26 {\textdegree}C per calcite-percent for temperature deduced from the Li/Mg ratio. So, less than 5\% of such intra-skeletal calcite does not prevent SST reconstructions using Sr/Ca ratio, but the percentage and type of calcite have to be determined before fine SST interpretation. Seawater pH reconstruction inferred from boron isotopes drop by about -0.011 pH-unit per calcite-percent. Such sensitivity to calcite presence is particularly dramatic for fine paleo-pH reconstructions. Here we suggest that after being brought to shallow waters following a cyclone, the studied coral was seasonally subjected to rainfall-related water freshening that could have mimicked a vadose environment like can be encountered on raised fossil coral reefs. Nevertheless, the process of calcite precipitation remains to be determined.}, issn = {00167037}, doi = {10.1016/j.gca.2015.12.020}, url = {https://hal.archives-ouvertes.fr/hal-01253864v1}, author = {Claire E. Lazareth and Soares-Pereira, Caroline and Douville, Eric and Brahmi, Chlo{\'e} and Dissard, Delphine and Le Cornec, Florence and Thil, Fran{\c c}ois and Gonzalez-Roubaud, C{\'e}cile and Caquineau, Sandrine and Cabioch, Guy} } @article {4368, title = {The invasive lionfish, Pterois volitans, used as a sentinel species to assess the organochlorine pollution by chlordecone in Guadeloupe (Lesser Antilles)}, journal = {Marine Pollution Bulletin}, volume = {107}, year = {2016}, pages = {102-106}, type = {Journal Article}, author = {Charlotte R. Dromard and Yolande Bouchon-Navaro and S{\'e}bastien Cordonnier and Claude Bouchon} } @article {3846, title = {Larval traits of the Caribbean amphidromous goby Sicydium punctatum (Gobioidei: Sicydiinae) in Guadeloupe}, journal = {ECOLOGY OF FRESHWATER FISH}, volume = {25}, year = {2016}, pages = {272-280}, keywords = {amphidromy, larval dispersal, Lesser Antilles, otolith, Sicydiinae}, author = {L{\'e}a Lejeune and H{\'e}l{\`e}ne Tabouret and Taillebois, Laura and Monti, Dominique and Philippe Keith} } @article {4192, title = {Level of contamination by metallic trace elements and organic molecules in the seagrass beds of Guadeloupe island.}, journal = {Environmental Science and Pollution Research}, volume = {23}, year = {2016}, month = {2016}, pages = {61-72}, author = {Claude Bouchon and Lemoine, Soazig and Charlotte R. Dromard and Yolande Bouchon-Navaro} } @article {4546, title = {Major drivers of invasion risks throughout the world}, journal = {Ecosphere}, volume = {7}, year = {2016}, pages = {e01241}, abstract = {In this paper, we investigate how climate, land use, habitat characteristics, and socioeconomic activities contribute to predict the current potential distributions of the {\textquotedblleft}100 among the world{\textquoteright}s worst invasive alien species{\textquotedblright}. We calculated the predictive power of each of the 41 variables for the 95 species including a large number of plants, vertebrates and invertebrates. We then calibrated the species distribution models with a set of appropriate variables for each invasive alien species to predict the potential distribution of these species and identify the major regions of origin of the invasive alien species. We found that climate variables were primarily predictors of the distribution of the global invaders studied. In addition, the habitat characteristics were also important predictors following by the socioeconomic variables such as the nearest distance to airports, seaports and human population density. We show that the potential areas at the highest risk of invasions from these species are located in Western Europe, Eastern United States, Central America, the eastern coast of Australia, and some Indonesian islands. We argue that these potential hotspots of invasions should be monitored in priority to prevent new invasions from these species. This study provides evidence of the importance of considering both habitat characteristics, socioeconomic and climate change factors for the current and future predictions of biological invasions.}, doi = {10.1002/ecs2.1241}, url = {http://onlinelibrary.wiley.com/doi/10.1002/ecs2.1241/full}, author = {Bellard, C{\'e}line and Leroy, Boris and Thuiller, Wilfried and Rysman, Jean-Fran{\c c}ois and Courchamp, Franck} } @article {4547, title = {Massive yet grossly underestimated global costs of invasive insects}, journal = {Nature Communications}, volume = {7}, year = {2016}, month = {10/2016}, pages = {12986}, abstract = {Insects have presented human society with some of its greatest development challenges by spreading diseases, consuming crops and damaging infrastructure. Despite the massive human and financial toll of invasive insects, cost estimates of their impacts remain sporadic, spatially incomplete and of questionable quality. Here we compile a comprehensive database of economic costs of invasive insects. Taking all reported goods and service estimates, invasive insects cost a minimum of US$70.0 billion per year globally, while associated health costs exceed US$6.9 billion per year. Total costs rise as the number of estimate increases, although many of the worst costs have already been estimated (especially those related to human health). A lack of dedicated studies, especially for reproducible goods and service estimates, implies gross underestimation of global costs. Global warming as a consequence of climate change, rising human population densities and intensifying international trade will allow these costly insects to spread into new areas, but substantial savings could be achieved by increasing surveillance, containment and public awareness.}, doi = {10.1038/ncomms12986}, url = {http://www.nature.com/ncomms/2016/161004/ncomms12986/full/ncomms12986.html}, author = {Bradshaw, Corey J.A. and Leroy, Boris and Bellard, C{\'e}line and Roiz, David and Albert, C{\'e}line and Fournier, Alice and Barbet-Massin, Morgane and Salles, Jean-Michel and Simard, Fr{\'e}d{\'e}ric and Courchamp, Franck} } @article {4396, title = {Meiofauna distribution in a mangrove forest exposed to shrimp farm effluents (New Caledonia)}, journal = {Marine Environmental Research}, volume = {119}, year = {2016}, pages = {100 - 113}, abstract = {Abstract Meiofauna abundance, biomass and individual size were studied in mangrove sediments subjected to shrimp farm effluents in New Caledonia. Two strategies were developed: i) meiofauna examination during the active (AP) and the non-active (NAP) periods of the farm in five mangrove stands characteristics of the mangrove zonation along this coastline, ii) meiofauna examination every two months during one year in the stand the closest to the pond (i.e. Avicennia marina). Thirteen taxonomic groups of meiofauna were identified, with nematodes and copepods being the most abundant ones. Meiofauna abundance and biomass increased from the land side to the sea side of the mangrove probably as a result of the increased length of tidal immersion. Abundance of total meiofauna was not significantly different before and after the rearing period. However, the effluent-receiving mangrove presented twice the meiofauna abundance and biomass than the control one. Among rare taxa, mites appeared extremely sensitive to this perturbation.
}, keywords = {New Caledonia}, issn = {0141-1136}, doi = {http://dx.doi.org/10.1016/j.marenvres.2016.05.028}, url = {http://www.sciencedirect.com/science/article/pii/S0141113616300976}, author = {L. Della Patrona and Cyril Marchand and C{\'e}dric Hubas and Nathalie Molnar and J. Deborde and Tarik Meziane} } @article {4213, title = {Metacommunity patterns across three Neotropical catchments with varying environmental harshness}, journal = {Freshwater Biology}, volume = {61}, year = {2016}, pages = {277-292}, abstract = {SUMMARY
1. Most metacommunity studies indicate that dispersal processes play a minor role compared with species sorting in explaining metacommunity organisation, in particular, in stream systems. However, the role of dispersal could vary with environmental harshness, as a result of frequent resetting of community succession by disturbances and the selection of generalist species from regional species pools. The importance of dispersal may also be mitigated by species dispersal ability.
2. In this study, we explored how species sorting and dispersal shaped invertebrate and fish metacommunities across streams in three tropical headwater catchments in Bolivia with contrasting environmental harshness, including flow regime, altitude and climate conditions. We addressed the hypothesis that the relative roles of dispersal and species sorting vary with environmental harshness: we predicted that the role of species sorting would predominate in benign conditions, whereas that of dispersal would predominate under moderate environmental harshness, and that neither dispersal nor species sorting would be relevant to explain metacommunities under high environmental harshness. We also hypothesised that the role of dispersal would decrease with increasing species dispersal ability.
3. Although there was little or no spatial autocorrelation of environmental distances (i.e. environmental differences) across the headwater catchments, community similarity correlated more strongly with environmental than spatial distances among headwater sites that had low environmental harshness, but the opposite pattern was observed among sites with moderate environmental harshness. Under high environmental harshness, neither environmental harshness nor spatial distances between sites explained community similarity.
4. Under moderate environmental harshness, the correlation between community similarity and spatial distances was the strongest for moderate dispersers of both invertebrates and fish. Yet, in contrast to fish, strongly dispersing invertebrate taxa were spatial structured, suggesting that they were not able to reach all sites as predicted.
5. Our results suggest the role of dispersal might be underestimated, notably in systems prone to environmental harshness. Better proxies for dispersal, along with the use of spatial distances to account for resistance to animal movements in river systems and that account for flow magnitude and directionality, slope, riparian vegetation, wind and streambed roughness, may promote a more realistic integration of dispersal processes in basic and applied metacommunity research.
A 5-month experiment combining a geochemical survey of metals with a bioaccumulation study in batches of Crassostrea gigas was conducted in two shellfish farming areas and a marina in Normandy (France). Various endpoints at different levels of biological organization were studied. ROCCH data showed differences in biota contamination between the two shellfish areas but the present study revealed only slight differences in metallic contamination and biomarkers. By contrast, significantly different values were recorded in the marina in comparison with the two other sites. Indeed, higher levels of Cd, Cu and Zn were measured in the oysters from the marina, and these oysters also showed a poorer physiological condition (e.g., condition index, histopathological alterations and neutral lipid content). For coastal monitoring, the multi-biomarker approach coupled with an assessment of metallic contamination in biota appeared to be suitable for discriminating spatial differences in environmental quality after only a few months of exposure.
}, issn = {1879-3363}, doi = {10.1016/j.marpolbul.2016.02.068}, author = {S{\'e}guin, A and Christelle Caplat and Antoine Serpentini and Lebel, J M and Menet-Nedelec, F and Katherine Costil} } @article {8582, title = {Migration of juvenile Black Storks: stay with the family or go alone?}, journal = {Ringing \& Migration}, volume = {31}, year = {2016}, month = {Jan-06-2017}, pages = {74 - 76}, issn = {0307-8698}, doi = {10.1080/03078698.2016.1190616}, url = {http://www.tandfonline.com/doi/full/10.1080/03078698.2016.1190616}, author = {Larue, M{\'e}lanie and Boos, Mathieu and Brossard, Christian and Baillon, Fran{\c c}ois and Boutteaux, Jean-Jacques and Bernard, J{\'e}r{\^o}me and Brossault, Paul and Petit, Odile and Chevallier, Damien} } @article {4287, title = {Modelling spatial distribution of Patagonian toothfish through life-stages and sex and its implications for the fishery on the Kerguelen Plateau}, journal = {Progress in Oceanography}, volume = {141}, year = {2016}, pages = {81 - 95}, abstract = {Abstract Size and sex specific habitat preferences are common in animal populations and can have important implications for sound spatial management of harvested species. Patagonian toothfish (Dissostichus eleginoides) is a commercially exploited fish species characterised by its longevity (\>50 yo) and its extremely broad distribution in depths ranging from 10 m to 2500 m on most of the Plateaux, banks and seamounts of the Southern Ocean. As many bentho-pelagic fish species, Patagonian toothfish exhibits sexual dimorphism and ontogenetic habitat shift towards deeper waters as they grow. In this study, we modelled the spatial structure of Patagonian toothfish population (median total length and sex composition) in a data-rich area, the Kerguelen Plateau (Southern Indian Ocean), to better understand the ecological drivers of their distributional patterns and inform current and future fishery management strategies. We applied spatially-explicit statistical models to quantify and predict the effects of the complex topography of the Kerguelen Plateau in structuring the spatial distribution of Patagonian toothfish total length and sex ratio, while controlling for gear selectivity and season. Model predictions showed that juvenile toothfish live in shallow regions (shelf and banks) and move downward progressively up to 600 m while they grow. Between 600 m and 1200 m, the downward movement stops and fish settle at their preferred depths. While in this depth range, fish are \~{}75 cm long and most vulnerable to fisheries. As they approach maturity large fish move downward to deep-sea habitats (from 1200 m to \>2300 m) and head towards the spawning grounds on the western side of the plateau and around Skiff Bank. Importantly, the sex ratio was not evenly distributed across the Plateau; prediction maps revealed a higher proportion of females in the South whereas a strong male-bias sex ratio (70\%) occurred in the North-West. Large-scale prediction maps derived from our models assisted in developing hypotheses regarding ecological drivers of Patagonian toothfish habitat-use and movement across different life stages and sex. Such hypotheses are crucial to inform management strategies of this multijurisdictional fishery (France and Australia) at the spatial and temporal scales over which natural processes and fishery extend.
}, issn = {0079-6611}, doi = {10.1016/j.pocean.2015.12.003}, url = {http://www.sciencedirect.com/science/article/pii/S007966111530015X}, author = {Clara P{\'e}ron and Dirk C. Welsford and Philippe Ziegler and Timothy D. Lamb and Nicolas Gasco and Charlotte Chazeau and Romain Sin{\`e}gre and Guy Duhamel} } @article {3727, title = {Morphological changes during the transition from freshwater to sea water in an amphidromous goby, Sicyopterus lagocephalus (Pallas 1770) (Teleostei).}, journal = {Ecology of Freshwater fish}, volume = {25}, year = {2016}, pages = {48-59}, abstract = {The widely distributed amphidromous goby Sicyopterus lagocephalus needs drastic change of habitat to
fulfil its life cycle: adults live and spawn in rivers, where eggs hatch into prolarvae that have to reach the sea to
acquire characteristics of planktonic larvae. Postlarvae return to rivers where they recruit and grow to the adult
reproductive stage. Here, we describe the prolarval stages, namely from hatching to first contact with sea water, as
well as the first marine larval stages. The observations were made under experimental conditions. We described 3
prolarval substages in freshwater (L1a{\textendash}L1c). Prolarvae present a slight but visible ontogenetic development in
freshwater, during which the yolk sac begins to reduce, the pigmentation increases on the body and in the eyes, and
the lenses appear, although the eyes are not functional. Prolarvae need to reach the sea in a maximum of 96 h to
pursue their development. Their transfer in sea water at a salinity of 36.5 induces important morphological
modifications (i.e. yolk sac full absorption, appearance of pectoral fins, migration of the eyes in anterolateral
position of the head, opening of mouth and anus), enabling the organisms to adapt to their new environment. This
marine stage is divided into two substages: L2a corresponding to the organisation of the morphological structures
adapted to the marine environment and L2b during which these morphological structures become functional.
Whether it is in freshwater or sea water, the duration of the substages depends on the water temperature, but is
similar for all individuals for a given temperature.
Information concerning the morphology of Dendrocephalus brasiliensis Pesta, 1921 is currently fragmented. This study reviewed the morphological structures described previously and new features (e.g., antenna-like structures and gonopod). We review the distribution of this species and also expand the geographic distribution of D. brasiliensis in the state of Alagoas. The specimens were obtained from fish-breeding tanks in Porto Real do Col{\'e}gio, Alagoas, Brazil, in November 2012. Several morphological structures of D. brasiliensis are described in greater detail, including all branches and sub-branches from the frontal appendage and thoracopods from one population and compared to other species.
}, doi = {10.1590/2358-2936e2016008}, author = {Samara de Paiva Barros-Alves and Douglas Fernandes Rodrigues Alves and Eduardo Ant{\^o}nio Bolla Jr and Nicolas Rabet and Gustavo Luis Hirose} } @article {3859, title = {Morpho-sedimentology of coastal natural sites colonized by Sand Martin (Riparia riparia)}, journal = {Revue d{\textquoteright}Ecologie (Terre et Vie)}, volume = {71}, year = {2016}, abstract = {Morpho-sedimentology of coastal natural sites colonized by Sand Martin (Riparia riparia). {\textemdash} The Sand Martin or Bank Swallow Riparia riparia returns annually to a same site to establish a colony. These sites are natural or anthropogenic origin but are still subject to permanent changes. The species is characterized by its ability to dig tunnels in which it carries out its reproductive cycle. Several authors have attempted to identify the criteria used by the swallows to choose a favourable site to the installation of a colony. Among the many parameters that can help explain the location of colonies, morpho-sedimentary settings have been poorly documented. Among abiotic factors, the composition of the soil particles seems to play an important role in the depth of the tunnels which is directly proportional to the reproductive success. The aim of this article is to contribute to explore the morpho-sedimentary parameters of two colonies localized in coastal area. We investigated the supposed effect of morpho-sedimentary parameters on the presence and layout of tunnels, their depth and if the colonized sites have different characteristics from nearby favourable but not colonized sites. We took into consideration several morphological parameters of the colonies and sampled sediments, which were analysed and compared using statistical tests and linear regression. We show that, in the Bay of Mont Saint-Michel, Bank Swallows do not choose their nesting site depending on the nature of the sediment unlike what was proposed in a previous study on a continental site. For each site, we were only able to find tenuous differences between colonized and no colonized sites. The swallows have all chosen the same sedimentary strata regardless of the site. The choice of this stratum is linked mainly to the limitation of the risk of flooding but also to the fact that the uppermost stratum that supports vegetation is more difficult to be excavated due to the presence of roots and rhizomes. The characteristics of sedimentary material are however structuring in the depth of the tunnels.
}, author = {J{\'e}r{\^o}me Fournier and Alexandre Corbeau and Patrick Le Mao} } @article {9377, title = {Nervous system and ciliary structures of Micrognathozoa (Gnathifera): evolutionary insight from an early branch in Spiralia}, journal = {Royal Society Open Science}, volume = {3}, year = {2016}, month = {Jan-10-2016}, pages = {160289}, doi = {10.1098/rsos.160289}, url = {https://royalsocietypublishing.org/doi/10.1098/rsos.160289}, author = {Bekkouche, Nicolas and Worsaae, Katrine} } @article {4491, title = {Nervous system development in cephalopods: How egg yolk-richness modifies the topology of the mediolateral patterning system.}, journal = {Dev Biol}, volume = {415}, year = {2016}, month = {2016 Jul 1}, pages = {143-56}, abstract = {Cephalopods possess the most complex centralized nervous system among molluscs and the molecular determinants of its development have only begun to be explored. To better understand how evolved their brain and body axes, we studied Sepia officinalis embryos and investigated the expression patterns of neural regionalization genes involved in the mediolateral patterning of the neuroectoderm in model species. SoxB1 expression reveals that the embryonic neuroectoderm is made of several distinct territories that constitute a large part of the animal pole disc. Concentric nkx2.1, pax6/gsx, and pax3/7/msx/pax2/5/8 positive domains subdivide this neuroectoderm. Looking from dorsal to ventral sides, the sequence of these expressions is reminiscent of the mediolateral subdivision in model species, which provides good evidence for "mediolateral patterning" conservation in cephalopods. A specific feature of cephalopod development, however, includes an unconventional orientation to this mediolateral sequence: median markers (like nkx2.1) are unexpectedly expressed at the periphery of the cuttlefish embryo and lateral markers (like Pax3/7) are expressed centrally. As the egg is rich with yolk, the lips of the blastopore (that classically organizes the neural midline) remain unclosed at the lateral side of the animal pole until late stages of organogenesis, therefore reversing the whole embryo topology. These findings confirm - by means of molecular tools - the location of both ventral and dorsal poles in cephalopod embryos.
}, issn = {1095-564X}, doi = {10.1016/j.ydbio.2016.04.027}, author = {Buresi, Auxane and Aude Andouche and Navet, S and Yann Bassaglia and Laure Bonnaud-Ponticelli and S{\'e}bastien Baratte} } @article {8574, title = {Network Analysis Shows Asymmetrical Flows within a Bird Metapopulation}, journal = {PLOS ONE}, volume = {11}, year = {2016}, month = {Apr-11-2018}, pages = {e0166701}, doi = {10.1371/journal.pone.016670110.1371/journal.pone.0166701.g00110.1371/journal.pone.0166701.t00110.1371/journal.pone.0166701.t00210.1371/journal.pone.0166701.s001}, url = {https://dx.plos.org/10.1371/journal.pone.0166701}, author = {Rojas, Emilio R. and Sueur, C{\'e}dric and Henry, Pierre-Yves and Doligez, Blandine and Wey, G{\'e}rard and Dehorter, Olivier and Massemin, Sylvie and Chevallier, Damien and Clauss, Thierry and Dugu{\'e} Hubert and Merle, Christian}, editor = {Margalida, Antoni} } @article {9368, title = {Neuromuscular study of early branching Diuronotus aspetos (Paucitubulatina) yields insights into the evolution of organs systems in Gastrotricha}, journal = {Zoological Letters}, volume = {2}, year = {2016}, month = {Jan-12-2016}, doi = {10.1186/s40851-016-0054-3}, url = {http://zoologicalletters.biomedcentral.com/articles/10.1186/s40851-016-0054-3}, author = {Bekkouche, Nicolas and Worsaae, Katrine} } @article {5438, title = {Neuropeptidome of the Cephalopod Sepia officinalis: Identification, Tissue Mapping, and Expression Pattern of Neuropeptides and Neurohormones during Egg Laying.}, journal = {J Proteome Res. }, volume = {15}, year = {2016}, pages = {48-67}, author = {C{\'e}line Zatylny-Gaudin and Cornet, Val{\'e}rie and Leduc, Alexandre and Zanuttini, Bruno and Corre, Erwan and Corguill{\'e}, Gildas Le and Bernay, Beno{\^\i}t and Kraut, Alexandra and Cout{\'e}, Yohan and Jo{\"e}l Henry} } @article {6821, title = {New electroantennography method on a marine shrimp in water}, journal = {Journal of Experimental Biology}, volume = {219}, year = {2016}, pages = {3696{\textendash}3700}, abstract = {Antennular chemoreception in aquatic decapods is well studied via the recording of single chemoreceptor neuron activity in the antennule, but global responses of the antennule (or antennae in insects) by electroantennography (EAG) has so far been mainly restricted to aerial conditions. We present here a well-established underwater EAG method to record the global antennule activity in the marine shrimp Palaemon elegans in natural (aqueous) conditions. EAG responses to food extracts, recorded as net positive deviations of the baseline, are reproducible, dose-dependent and exhibit sensory adaptation. This new EAG method opens a large field of possibilities for studying in vivo antennular chemoreception in aquatic decapods, in a global approach to supplement current, more specific techniques.}, issn = {0022-0949}, doi = {10.1242/jeb.140947}, url = {https://jeb.biologists.org/content/219/23/3696}, author = {Machon, Julia and Juliette Ravaux and Magali Zbinden and Lucas, Philippe} } @article {4676, title = {A new species and four new records of sedentary polychaetes from the Canadian High Arctic}, journal = {Journal of the Marine Biological Association of the United Kingdom}, year = {2016}, month = {007}, pages = {1-10}, abstract = {During ArcticNet surveys aboard {\textquoteleft}CCGS Amundsen{\textquoteright} in 2011, several subtidal stations located in Canadian Archipelago were sampled in order to study the composition of their benthic communities. Among the abundant material sampled, several specimens of rare polychaete species were found. Examination of this material showed four species not previously recorded in the area, and a new species described herein. Descriptions of these specimens are given in this work. Ophelina brattegardi Kongsrud et al., 2011 is characterized by a body composed of 27{\textendash}28 chaetigers, by having the parapodia of the last four chaetigers shifted to the ventral side of the body, and by lacking branchiae in mid-body chaetigers. Macrochaeta polyonix Eliason, 1962 is unique within the genus in having several (instead of one or two) compound neurochaetae in anterior parapodia. Chaetozone acuta Banse \& Hobson, 1968 is characterized by having spines from anterior third of the body and arranged in bundles composed of " $\#$ "just a few chaetae. Chaetozone jubata Chambers \& Woodham, 2003 can be distinguished from similar species by having very long capillary chaetae from chaetiger 2 or 3. Finally, Dialychone hervyae n. sp. is characterized by bearing four pairs of radioles with narrow flanges, by the bilobed tip of its first peristomial ring that projects beyond the collar, and by the paleate thoracic notochaetae bearing long mucros.
}, doi = {10.1017/S0025315416000953}, url = {https://www.cambridge.org/core/article/div-class-title-a-new-species-and-four-new-records-of-sedentary-polychaetes-from-the-canadian-high-arctic-div/3950848DE7205A141D2159F4FA91FDA2}, author = {Eduardo Lopez and Fr{\'e}d{\'e}ric Olivier and Cindy Grant and P Archambault} } @article {4430, title = {A new species of Eleotris (Teleostei: Gobioidei: Eleotridae) from the Solomon Islands}, journal = {Pacific Science}, volume = { in press}, year = {2016}, author = {Marion Mennesson and Philippe Keith and Ebner, Brendan C and Gerbeaux, Philippe} } @article {4366, title = {A new species of Lentipes (Teleostei: Gobiidae) from Solomon islands.}, journal = {Cybium}, volume = {40}, year = {2016}, pages = {139-146}, author = {Philippe Keith and Clara Lord and Boseto, David and Ebner, Brendan C} } @article {5147, title = {Parabothus rotundifrons (Pleuronectiformes: Bothidae), a new bothid flatfish from Saya de Malha Bank (Indian Ocean)}, journal = {Cybium}, volume = {40}, year = {2016}, pages = {275{\textendash}280}, abstract = {Abstract.{\textendash}nine species of Parabothus are currently recognized. A new bothid flatfish, Parabothus rotundifrons, is described from six specimens. it is considered as a species of Parabothus because of caudal skeleton structure, moderate width of concave interorbital space in male and moderate body depth in both male and female. P. rotundifrons is easily separable from other congeners by having a lowest number of scales in the lateral line (48- 58), biserial teeth on the upper jaw, steep dorsal profile of the head, 8-9 non-serrate gill ...
}, author = {Voronina, Elena and Patrice Pruvost and Causse, Romain} } @article {4597, title = {Parental influence in relation to growth and survival in larval families of Doncella Pseudoplatystoma punctifer}, journal = {Folia Amaz{\'o}nica}, volume = {25}, year = {2016}, pages = {77-82}, author = {Castro-Ruiz, D and Baras, Etienne and Fern{\'a}ndez, C and Sophie Qu{\'e}rouil and Chota-Macuyama, Werner and F. Duponchelle and Renno, J-F and Darias, Maria and Garc{\'\i}a-D{\'a}vila, C and Jesus Nu{\~n}ez-Rodriguez} } @article {4516, title = {Photosystem-II shutdown evolved with Nitrogen fixation in the unicellular diazotroph Crocosphaera watsonii.}, journal = {Environ Microbiol}, volume = {18}, year = {2016}, month = {2016 Feb}, pages = {477-85}, abstract = {Protection of nitrogenase from oxygen in unicellular Cyanobacteria is obtained by temporal separation of photosynthesis and diazotrophy through transcriptional and translational regulations of nitrogenase. But diazotrophs can face environmental situations in which N2 fixation occurs significantly in the light, and we believe that another control operates to make it possible. The night-time shutdown of PSII activity is a peculiar behaviour that discriminates Crocosphaera watsonii WH8501 from any other phototroph, whether prokaryote or eukaryote. This phenomenon is not only due to the plastoquinone pool redox status, and suggests that the sentinel D1 protein, expressed in periods of nitrogen fixation, is inactive. Results demonstrate a tight constraint of oxygen evolution in C. watsonii as additional protection of nitrogenase activity and suggest a possible recycling of cellular components.
}, issn = {1462-2920}, doi = {10.1111/1462-2920.13157}, author = {Rabouille, Sophie and Pascal Claquin} } @article {4261, title = {Picophytoplankton contribution to Mytilus edulis growth in an intensive culture environment}, journal = {Marine Biology}, volume = {163}, year = {2016}, pages = {1{\textendash}15}, issn = {1432-1793}, doi = {10.1007/s00227-016-2845-7}, url = {http://dx.doi.org/10.1007/s00227-016-2845-7}, author = {R{\'e}mi Sonier and Filgueira, R. and Guyondet, T. and R{\'e}jean Tremblay and Fr{\'e}d{\'e}ric Olivier and Tarik Meziane and Starr, M. and LeBlanc, A. R. and Comeau, L. A.} } @article {7178, title = {Planktonic foraminiferal biogeography in the Indian sector of the Southern Ocean: Contribution from CPR data}, journal = {Deep Sea Research Part I: Oceanographic Research Papers}, volume = {110}, year = {2016}, month = {Jan-04-2016}, pages = {75 - 89}, issn = {09670637}, doi = {10.1016/j.dsr.2015.12.014}, url = {https://linkinghub.elsevier.com/retrieve/pii/S0967063716300280}, author = {Meilland, Julie and Fabri-Ruiz, Salom{\'e} and Koubbi, Philippe and Monaco, Claire Lo and Cott{\'e}, C{\'e}dric and Hosie, Graham W. and Sanchez, Sophie and Howa, H{\'e}l{\`e}ne} } @article {6823, title = {Plasticity and acquisition of the thermal tolerance (upper thermal limit and heat shock response) in the intertidal species Palaemon elegans}, journal = {Journal of Experimental Marine Biology and Ecology}, volume = {484}, year = {2016}, pages = {39 - 45}, abstract = {The marine species sensitivity to climate change will depend on the ways by which these species can adapt to thermal increase and heterogeneity. Here, we present evidence that the intertidal shrimp Palaemon elegans acclimates its thermal tolerance, in response to environmental water temperature, through a significant shift of its upper thermal limit with no concomittant acclimation of the heat shock response (hsp70 stress gene expression threshold). This species is less thermotolerant than its congener Palaemonetes varians, and would therefore potentially be more sensitive to an increase in environmental temperature, such as imposed by global warming. In P. elegans life cycle, physiological adjustments like the shift of the thermal limit and the acquisition of a significant HSR, occurred during the metamorphosis from larvae to post-larvae. This suggests that this step is a genetically-programmed milestone in the process of thermal tolerance acquisition.}, keywords = {acclimation, Caridea, Development, heat stress, hsp70, thermal biology}, issn = {0022-0981}, doi = {https://doi.org/10.1016/j.jembe.2016.07.003}, url = {http://www.sciencedirect.com/science/article/pii/S0022098116301125}, author = {Juliette Ravaux and L{\'e}ger, Nelly and Rabet, Nicolas and Fourgous, Claire and Voland, Guillaume and Magali Zbinden and Bruce Shillito} } @article {4372, title = {Pollen limitation may be a common Allee effect in marine hydrophilous plants: implications for decline and recovery in seagrasses}, journal = {Oecologia}, year = {2016}, pages = {1-15}, doi = {10.1007/s00442-016-3665-7}, author = {B.I. Van Tussenbroek and L.M. Soissons and T.J. Bouma and R. Asmus and I. Auby and F.G. Brun and P.G. Cardoso and Nicolas Desroy and J{\'e}r{\^o}me Fournier and F. Ganthy and J.M. Garmendia and Laurent Godet and T.F. Grilo and P. Kadel and B. Ondiviela and G. Peralta and M. Recio and M. Valle and T. Van der Heide and van Katwijk, M M} } @article {T{\'e}tard2016216, title = {Poor oxic conditions in a large estuary reduce connectivity from marine to freshwater habitats of a diadromous fish}, journal = {Estuarine, Coastal and Shelf Science}, volume = {169}, year = {2016}, note = {cited By 7}, pages = {216-226}, doi = {10.1016/j.ecss.2015.12.010}, url = {https://www.sciencedirect.com/science/article/pii/S0272771415301670}, author = {St{\'e}phane T{\'e}tard and Eric Feunteun and Bultel, E. and Gadais, R. and B{\'e}gout, M.-L. and Thomas Trancart and Lasne, E.} } @article {4677, title = {Present-day African analogue of a pre-European Amazonian floodplain fishery shows convergence in cultural niche construction}, journal = {Proceedings of the National Academy of Sciences}, year = {2016}, abstract = {Erickson [Erickson CL (2000) Nature 408 (6809):190{\textendash}193] interpreted features in seasonal floodplains in Bolivia{\textquoteright}s Beni savannas as vestiges of pre-European earthen fish weirs, postulating that they supported a productive, sustainable fishery that warranted cooperation in the construction and maintenance of perennial structures. His inferences were bold, because no close ethnographic analogues were known. A similar present-day Zambian fishery, documented here, appears strikingly convergent. The Zambian fishery supports Erickson{\textquoteright}s key inferences about the pre-European fishery: It allows sustained high harvest levels; weir construction and operation require cooperation; and weirs are inherited across generations. However, our comparison suggests that the pre-European system may not have entailed intensive management, as Erickson postulated. The Zambian fishery{\textquoteright}s sustainability is based on exploiting an assemblage dominated by species with life histories combining high fecundity, multiple reproductive cycles, and seasonal use of floodplains. As water rises, adults migrate from permanent watercourses into floodplains, through gaps in weirs, to feed and spawn. Juveniles grow and then migrate back to dry-season refuges as water falls. At that moment fishermen set traps in the gaps, harvesting large numbers of fish, mostly juveniles. In nature, most juveniles die during the first dry season, so that their harvest just before migration has limited impact on future populations, facilitating sustainability and the adoption of a fishery based on inherited perennial structures. South American floodplain fishes with similar life histories were the likely targets of the pre-European fishery. Convergence in floodplain fish strategies in these two regions in turn drove convergence in cultural niche construction.
}, doi = {10.1073/pnas.1613169114}, url = {http://www.pnas.org/content/early/2016/12/09/1613169114.abstract}, author = {McKey, Doyle B. and Dur{\'e}cu, M{\'e}lisse and Marc Pouilly and Bearez, Philippe and Ovando, Alex and Kalebe, Mashuta and Carl F. Huchzermeyer} } @article {4592, title = {Review of the Eulimnadia (Branchiopoda: Spinicaudata: Limnadiidae) from Argentina with the description of a new species.}, journal = {Zootaxa}, volume = {4158}, year = {2016}, month = {2016 Aug 30}, pages = {419-32}, abstract = {A new spinicaudatan species, Eulimnadia pampa sp. nov., is described from Argentina mostly based on the differential egg morphology. This species was collected from rainwater pools from Buenos Aires City and the provinces of Buenos Aires and Entre R{\'\i}os, and compared to other Neotropical species. Previous Argentine record of E. brasiliensis is shown to belong to our new species, which represents the southernmost Neotropical Eulimnadia. We also present new records of the Paraguayan Eulimnadia ovisimilis Martin and Belk, 1989 from northeastern Argentina. Eulimnadia santiaguensis is treated as a species inquirenda, thus we recognize only three Eulimnadia species in Argentina: E. pampa sp. nov., E. ovilunata and E. ovisimilis, and we provide a brief indentification key. We present the first description and SEM images of the putative Eulimnadia spermatophore, which we found in the new species.
}, issn = {1175-5334}, doi = {10.11646/zootaxa.4158.3.7}, author = {Marinone, Mar{\'\i}a Cristina and Urcola, Juan Ignacio and Nicolas Rabet} } @article {4365, title = {Revisiting the ichthyodiversity of Java and Bali through DNA barcodes: taxonomic coverage, identification accuracy, cryptic diversity and identification of exotic species.}, journal = {Mol Ecol Resour}, year = {2016}, month = {2016 Mar 22}, abstract = {Among the 899 species of freshwater fishes reported from Sundaland biodiversity hotspot, nearly 50\% are endemics. The functional integrity of aquatic ecosystems is currently jeopardized by human activities and landscape conversion led to the decline of fish populations in several part of Sundaland, particularly in Java. The inventory of the Javanese ichthyofauna has been discontinuous and the taxonomic knowledge is scattered in the literature. The present study provides a DNA barcode reference library for the inland fishes of Java and Bali with the aim to streamline the inventory of fishes in this part of Sundaland. Owing to the lack of available checklist for estimating the taxonomic coverage of the present study, a checklist was compiled based on online catalogs. A total of 95 sites were visited and a library including 1,046 DNA barcodes for 159 species was assembled. Nearest neighbor distance was 28-fold higher than maximum intra-specific distance on average and a DNA barcoding gap was observed. The list of species with DNA barcodes displayed large discrepancies with the checklist compiled here as only 36\% (i.e. 77 species) and 60\% (i.e.24 species) of the known species were sampled in Java and Bali, respectively. This result was contrasted by a high number of new occurrences and the ceiling of the accumulation curves for both species and genera. These results highlight the poor taxonomic knowledge of this ichthyofauna and the apparent discrepancy between present and historical occurrence data is to be attributed to species extirpations, synonymy and misidentifications in previous studies. This article is protected by copyright. All rights reserved.
}, issn = {1755-0998}, doi = {10.1111/1755-0998.12528}, author = {Dahruddin, Hadi and Hutama, Aditya and Fr{\'e}d{\'e}ric Busson and Sauri, Sopian and Hanner, Robert and Philippe Keith and Hadiaty, Renny and Hubert, Nicolas} } @article {6828, title = {Seeing the ocean through the eyes of seabirds: a new path for marine conservation?}, journal = {Marine Policy}, volume = {68}, year = {2016}, pages = {212{\textendash}220}, doi = {https://doi.org/10.1016/j.marpol.2016.02.015}, url = {https://www.sciencedirect.com/science/article/pii/S0308597X16000671}, author = {Lescro{\"e}l, Am{\'e}lie and Mathevet, Rapha{\"e}l and Clara P{\'e}ron and Authier, Matthieu and Provost, Pascal and Takahashi, Akinori and Gr{\'e}millet, David} } @article {4270, title = {Shell matrix proteins of the clam, Mya truncata: Roles beyond shell formation through proteomic study}, journal = {Marine Genomics}, volume = {27}, year = {2016}, month = {06/2016}, pages = {69-74}, abstract = {Abstract Mya truncata, a soft shell clam, is presented as a new model to study biomineralization through a proteomics approach. In this study, the shell and mantle tissue were analysed in order to retrieve knowledge about the secretion of shell matrix proteins (SMPs). Out of 67 and 127 shell and mantle proteins respectively, 16 were found in both shell and mantle. Bioinformatic analysis of \{SMP\} sequences for domain prediction revealed the presence of several new domains such as fucolectin tachylectin-4 pentraxin-1 (FTP), scavenger receptor, alpha-2-macroglobulin ({\OE}{\textpm}2 M), lipocalin and myosin tail along with previously reported \{SMP\} domains such as chitinase, carbonic anhydrase, tyrosinase, sushi, and chitin binding. Interestingly, these newly predicted domains are attributed with molecular functions other than biomineralization. These findings suggest that shells may not only act as protective armour from predatory action, but could also actively be related to other functions such as immunity. In this context, the roles of \{SMPs\} in biomineralization need to be looked in a new perspective.
}, keywords = {biomineralization}, issn = {1874-7787}, doi = {http://dx.doi.org/10.1016/j.margen.2016.03.005}, url = {http://www.sciencedirect.com/science/article/pii/S1874778716300186}, author = {Arivalagan, Jaison and Marie, Benjamin and Victoria A. Sleight and Melody S. Clark and Berland, Sophie and Marie, Arul} } @article {4176, title = {Spatial and seasonal contrasts of sedimentary organic matter in floodplain lakes of the central Amazon basin}, journal = {Biogeosciences}, volume = {13}, year = {2016}, type = {original}, abstract = {
In this study, we investigated the seasonal and spatial pattern of sedimentary organic matter (SOM) in five floodplain lakes of the central Amazon basin (Cabaliana, Janauaca, Cana{\c c}ari, Mirituba and Curuai) which have different morphologies, hydrodynamics and vegetation coverages. Surface sediments were collected in four hydrological seasons: low water (LW), rising water (RW), high water (HW) and falling water (FW) in 2009 and 2010. We inves-tigated commonly used bulk geochemical tracers such as the C/N ratio and the stable isotopic composition of organic carbon (13Cor). These results were compared with lignin phenol parameters as an indicator of vascular plant detritus and branched glycerol dialkyl glycerol tetraethers (brGDGTs) to trace the input of soil organic matter (OM) from land to the aquatic settings. We also applied the crenarchaeol as an indi- cator of aquatic (rivers and lakes) OM. Our data showed that during the RW and FW seasons, the surface sediments were enriched in lignin and brGDGTs in comparison to other seasons. Our study also indicated that floodplain lake sediments primarily consisted of allochthonous, C3 plant-derived OM. However, a downstream increase in C4 macrophyte-derivedOM contribution was observed along the gradient of increas-ing open waters {\textendash} i.e., from upstream to downstream. Accordingly, we attribute the temporal and spatial difference in SOM composition to the hydrological dynamics between the floodplain lakes and the surrounding flooded forests.
\
Surface water samples of size-selected seston (0.7{\textendash}20 μm) were collected from April 2013 to September 2013 at three similar coarse-sand benthic habitats. Additionally, seston sampling was performed at a fixed location throughout a complete tidal cycle (2014). A combination of fatty acid (FA), isotope, and flow cytometry analyses were used to determine the quality and quantity of nano- and pico-sized particulate organic matter (POM). High variability was found between fatty acid replicate samples. Similar temporal patterns were observed at two sheltered sites, while the exposed site displayed less pronounced seasonal changes. Lower concentrations of 16C and 18C polyunsaturated fatty acids were found during low tide sampling. Globally, POM was dominated by picoeukaryotes, with concentrations exceeding 50,000 cells mL-1, and (16:4ω3 + 18:3ω3)/Σω3 is proposed as novel biomarker of picoeukaryotes in this region.
}, issn = {1939-5590}, doi = {10.1002/lno.10276}, url = {http://dx.doi.org/10.1002/lno.10276}, author = {Moynihan, Molly A. and Pierrick Barbier and Fr{\'e}d{\'e}ric Olivier and Nicolas Toupoint and Tarik Meziane} } @article {6829, title = {Starving seabirds: unprofitable foraging and its fitness consequences in Cape gannets competing with fisheries in the Benguela upwelling ecosystem}, journal = {Marine biology}, volume = {163}, year = {2016}, pages = {35}, author = {Gr{\'e}millet, David and Clara P{\'e}ron and Kato, Akiko and Am{\'e}lineau, Fran{\c c}oise and Ropert-Coudert, Yan and Ryan, Peter G and Pichergru, Lorien} } @article {3506, title = {Sub-chronic exposure to fluoxetine in juvenile oysters (Crassostrea gigas): uptake and biological effects.}, journal = {Environ Sci Pollut Res Int}, year = {2016}, month = {2014 Oct 15}, abstract = {The bioconcentration potential of fluoxetine (FLX) and its biological effects were investigated in juvenile Pacific oyster exposed for 28\ days to environmentally relevant concentrations of FLX (1\ ng L(-1), 100\ ng L(-1) and up to 10\ μg\ L(-1)). FLX bioaccumulated in oyster flesh resulting in 28-day bioconcentration factors greater than 2,000 and 10,000 by referring to wet and dry weights, respectively. Nevertheless, FLX did not induce oyster mortality, delayed gametogenesis, or lead to adverse histopathological alterations. At the two highest concentrations, despite non-optimal trophic conditions, FLX stimulated shell growth but only in a transient manner, suggesting a role of serotonin in the regulation of feeding and metabolism in bivalves. Those high concentrations seemed to drive bell-shaped responses of catalase and glutathione S-transferase activities throughout the exposure period, which may indicate the activation of antioxidant enzyme synthesis and then an enhanced catabolic rate or direct inhibition of those enzymes. However, no clear oxidative stress was detected because no strong differences in thiobarbituric acid-reactive substance (TBARS) content (i.e. lipid peroxidation) were observed between oyster groups, suggesting that cellular defence mechanisms were effective. These results demonstrate the importance of considering additional biomarkers of oxidative stress to obtain a comprehensive overview of the FLX-induced changes in marine bivalves exposed under realistic conditions. Considering the battery of biomarkers used, FLX appears to induce little or no effects on oyster physiology even at a concentration of 10\ μg\ L(-1). These results do not confirm the lowest observed effect concentration (LOEC) values reported by some authors in other mollusc species.
}, issn = {1614-7499}, doi = {10.1007/s11356-014-3702-1}, author = {Di Poi, C and L Evariste and S{\'e}guin, Alexis and Mottier, A and Pedelucq, Julie and Jean-Marc Lebel and Antoine Serpentini and Budzinski, H{\'e}l{\`e}ne and Katherine Costil} } @article {8581, title = {Tele-anaesthesia{\textquoteright}: a new approach to wild bird capture under field conditions}, journal = {Ringing \& Migration}, volume = {31}, year = {2016}, month = {Jan-06-2017}, pages = {77 - 80}, issn = {0307-8698}, doi = {10.1080/03078698.2016.1190549}, url = {http://www.tandfonline.com/doi/full/10.1080/03078698.2016.1190549}, author = {Chevallier, Damien and Dehorter, Olivier and Brossard, Christian and Larvol, Jean-Pierre} } @article {4508, title = {Three nuclear and two membrane estrogen receptors in basal teleosts, Anguilla sp.: Identification, evolutionary history and differential expression regulation.}, journal = {Gen Comp Endocrinol}, volume = {235}, year = {2016}, month = {2016 Sep 1}, pages = {177-91}, abstract = {Estrogens interact with classical intracellular nuclear receptors (ESR), and with G-coupled membrane receptors (GPER). In the eel, we identified three nuclear (ESR1, ESR2a, ESR2b) and two membrane (GPERa, GPERb) estrogen receptors. Duplicated ESR2 and GPER were also retrieved in most extant teleosts. Phylogeny and synteny analyses suggest that they result from teleost whole genome duplication (3R). In contrast to conserved 3R-duplicated ESR2 and GPER, one of 3R-duplicated ESR1 has been lost shortly after teleost emergence. Quantitative PCRs revealed that the five receptors are all widely expressed in the eel, but with differential patterns of tissue expression and regulation. ESR1 only is consistently up-regulated in vivo in female eel BPG-liver axis during induced sexual maturation, and also up-regulated in vitro by estradiol in eel hepatocyte primary cultures. This first comparative study of the five teleost estradiol receptors provides bases for future investigations on differential roles that may have contributed to the conservation of multiple estrogen receptors.
}, issn = {1095-6840}, doi = {10.1016/j.ygcen.2015.11.021}, author = {Anne-Gaelle Lafont and Karine Rousseau and Tomkiewicz, Jonna and Sylvie Dufour} } @article {4280, title = {Trans-Amazonian natal homing in giant catfish}, journal = {Journal of Applied Ecology}, volume = {53}, year = {2016}, pages = {1511-1520}, abstract = {1.Knowledge of fish migration is a prerequisite to sustainable fisheries management and preservation, especially in large international river basins. In particular, understanding whether a migratory lifestyle is compulsory or facultative, and whether adults home to their natal geographic area is paramount to fully appraise disruptions of longitudinal connectivity resulting from damming.2.In the Amazon, the large migratory catfishes of the Brachyplatystoma genus are apex predators of considerable interest for fisheries. They are believed to use the entire length of the basin to perform their life cycle, with hypothesized homing behaviours. Here we tested these hypotheses, using the emblematic B. rousseauxii as a model species.3.We sampled adults close to major breeding areas in the Amazon basin (upper Madeira and upper Amazonas) and assessed their lifetime movements by measuring variations in 87Sr/86Sr along transverse sections of their otoliths (ear stones) using laser ablation multicollector mass spectrometry (LA-MC-ICPMS).4.We demonstrate that larvae migrate downstream from the Andean piedmont to the lower Amazon, where they grow over a protracted period before migrating upstream as adults. Contrary to prevailing inferences, not all fish spend their nursery stages in the Amazon estuary. By contrast, the passage in the lower or central Amazon seems an obligate part of the life cycle. We further evidence that most adults home to their natal geographic area within the Madeira sub-basin. Such long-distance natal homing is exceptional in purely freshwater fishes.5.Synthesis and applications. By using otolith microchemistry, we were able to demonstrate a seemingly compulsory basin-wide migratory life cycle of large Amazonian catfishes. This makes them the organisms performing the longest migrations (\>8000 km) in fresh waters. This exceptional life history is already jeopardized by two dams recently built in the Madeira River, which block a major migration route and access to a substantial part of their spawning grounds. Major impacts can be anticipated from the current and forthcoming hydroelectric development in the Amazon basin, not only on the populations and fisheries of this apex predator, but also on Amazonian food webs through trophic cascades.This article is protected by copyright. All rights reserved.
}, keywords = {87Sr/86Sr ratios, Amazon, anthropogenic activities, Brachyplatystoma spp, freshwater fish, giant catfish, hydroelectric dams, Migration, otoliths}, issn = {1365-2664}, doi = {10.1111/1365-2664.12665}, url = {http://dx.doi.org/10.1111/1365-2664.12665}, author = {Fabrice Duponchelle and Marc Pouilly and Pecheyran, Christophe and Hauser, Marilia and Renno, Jean-Francois and Panfili, Jacques and Darnaude, Audrey M. and Garc{\'\i}a-Vasquez, Aurea and Carvajal-Vallejos, Fernando and Carmen Garc{\'\i}a-D{\'a}vila and Doria, Carolina and B{\'e}rail, Sylvain and Donard, Ariane and Sondag, Francis and Santos, Roberto V. and Jesus Nu{\~n}ez-Rodriguez and Point, David and Labonne, Maylis and Baras, Etienne} } @article {4448, title = {Unexpectedmovements of male Bluethroats Luscinia svecica namnetum during the breeding period}, journal = {Alauda}, volume = {84}, year = {2016}, pages = {195-202}, abstract = {During a radiotracking survey on 61 different males of Bluethroat Luscinia svecica namnetum from 2012 to 2015 in three different sites, we found that 8 males joined remote areas, at 300 to 900meters fromtheir regular territory and home range. Thesemovements occurred at dawn and dusk, but also at day. Such movements are not recorded in the literature and we propose four different hypotheses to explain them: the existence of {\textquotedblleft}hidden leks{\textquotedblright}, a male poly-territoriality, the look for food or for a shelter from predators.
}, author = {Cl{\'e}ment Harmange and Laurent Godet and Matthieu Marquet and Julie Dietrich and Sarah Monnet and Elisa Gr{\'e}goire and Marie-Christine Eybert and J{\'e}r{\^o}me Fournier} } @article {4519, title = {Validation of trophic and anthropic underwater noise as settlement trigger in blue mussels}, journal = {Scientific Reports}, volume = {6}, year = {2016}, pages = {33829}, author = {Jolivet, Aur{\'e}lie and R{\'e}jean Tremblay and Fr{\'e}d{\'e}ric Olivier and Gervaise, C{\'e}dric and R{\'e}mi Sonier and Genard, Bertrand and Laurent Chauvaud} } @article {3829, title = {virtualspecies, an R package to generate virtual species distributions}, journal = {Ecography}, volume = {39}, year = {2016}, pages = {599-607}, abstract = {virtualspecies is a freely available package for R designed to generate virtual species distributions, a procedure increasingly used in ecology to improve species distribution models. This package combines the existing methodological approaches with the objective of generating virtual species distributions with increased ecological realism. The package includes (1) generating the probability of occurrence of a virtual species from a spatial set of environmental conditions (i.e., environmental suitability), with two different approaches; (2) converting the environmental suitability into presence-absence with a probabilistic approach; (3) introducing dispersal limitations in the realised virtual species distributions and (4) sampling occurrences with different biases in the sampling procedure. The package was designed to be extremely flexible, to allow users to simulate their own defined species-environment relationships, as well as to provide a fine control over every simulation parameter. The package also includes a function to generate random virtual species distributions. We provide a simple example in this paper showing how increasing ecological realism of the virtual species impacts the predictive performance of species distribution models. We expect that this new package will be valuable to researchers willing to test techniques and protocols of species distribution models as well as various biogeographical hypotheses.}, doi = {10.1111/ecog.01388}, url = {https://onlinelibrary.wiley.com/doi/full/10.1111/ecog.01388}, author = {Leroy, Boris and Meynard, Christine N. and Bellard, C{\'e}line and Courchamp, Franck} } @article {4215, title = {Which factors determine the altitudinal distribution of tropical Andean riverine fishes?}, journal = {Revista de Biologia Tropical}, volume = {64}, year = {2016}, month = {03/2016}, pages = {173-192}, abstract = {Abstract: Which factors determine the altitudinal distribution of tropical Andean riverine fishes?
Altitudinal gradients represent an appropriate system to assess whether there is a relationship between richness patterns, environmental variables, and the ecological processes that determine the species type and number inhabiting a given area. In mountain streams freshwater fishes, the most prevalent relationship is a monotonic decrease in species richness with elevation. The objective of this study was to evaluate four hypotheses that can explain the negative relationship between local fish species richness and altitude, 1) the hypothesis of decreasing energy availability, 2) the hypothesis of increasing climate severity, 3) the hypothesis of habitat diversity, and 4) the hypothesis of isolation by physical severity of the environment. Fish and macro-invertebrates were col- lected following standard methods from 83 sites (between 200-4 000 meters) of two river basins in the Bolivian Amazon. The first hypothesis was tested by analyzing relationships between the density of macro-invertebrates, the richness of invertivorous fish species and altitude; while the second and third hypotheses were assessed by a multiple regression analysis (GLM) between fish species richness and several local and regional factors. Besides, assemblage dissimilarity between sites along the altitudinal gradient was analyzed using βsim and βness indices. Fish richness decreases linearly with increasing altitude. The density of macro-invertebrates tends to increase at higher altitudes, contrary to invertivorous fish species richness, suggesting that energy availability is not a limiting factor for fish species colonization. The GLM explained 86 \% of the variation in fish species richness, with a significant contribution of water temperature, maximum slope in the river mainstem, and stream width. There is a higher species turnover (βsim) between sites at low elevation. Inversely, βness shows higher values in the upper parts, corresponding to change in assemblages mainly due to species loss. Taken together, these results suggest that climatic and physical severities create strong barriers to colonization, further explaining the decrease in fish richness along the altitudinal gradient.
}, issn = {ISSN-0034-7744}, author = {E. De La Barra and J. Zubieta and G. Aguilera and M. Maldonado and Marc Pouilly and Thierry Oberdorff} } @article {4216, title = {Worldwide freshwater fish homogenization is driven by a few widespread non-native species}, journal = {Biological Invasions}, year = {2016}, abstract = {Introduction of non-native species have changed the composition of freshwater fish assem- blages throughout the world and hence the dissimilar- ity between them, either toward homogenization (i.e. decrease in dissimilarity) or differentiation (i.e. increase in dissimilarity). However, there is still no assessment of individual contributions of non-native species to this overall trend at the global scale. Here, we disentangle individual non-native species effect from the global effect of the whole introduced species pool at the biogeographic realm scale and test which determinant can explain the effect of non-native species on changes in assemblage dissimilarity. Our results show that the contribution of introduced species on changes in dissimilarity is highly variable and all directions of changes are observed through the introduction process, i.e. either toward homogeniza- tion, differentiation or no change. Overall, only a few widespread species contribute to the worldwide homogenization pattern, whereas most of introduced species slightly contribute to the global change in dissimilarity. The effect of species on change in dissimilarity was influenced by the introduction pres- sure but also by whether introduced species were translocated (i.e. introduced to other basins within their biogeographic realm) or exotic (i.e. introduced from other biogeographic realms). Homogenization is strongly determined by the species translocated within a realm and only by few widespread exotic species whereas the majority of exotics contribute to a differentiation effect. Nevertheless, under future intensified human pressure, the exotic species spread across realms is predicted to increase and their differentiation effect might turn towards homogeniza- tion, and might trigger the global homogenization trend.
}, doi = {DOI 10.1007/s10530-016-1067-8}, author = {A. Toussaint and O. Beauchard and Thierry Oberdorff and S. Brosse and S. Vill{\'e}ger} } @book {4150, title = {4th RIIA International Conference : Book of abstracts.}, year = {2015}, pages = {84 p.}, publisher = {Universidad Mayor de San Sim{\'o}n; Institut de Recherche pour le D{\'e}veloppement}, organization = {Universidad Mayor de San Sim{\'o}n; Institut de Recherche pour le D{\'e}veloppement}, address = {Cochabamba; Marseille}, author = {Darias, Maria and Rejas, Danny} } @article {3747, title = {Acute combined pressure and temperature exposures on a shallow-water crustacean: novel insights into the stress response and high pressure neurological syndrome.}, journal = {Comp Biochem Physiol A Mol Integr Physiol}, volume = {181}, year = {2015}, month = {2015 Mar}, pages = {9-17}, abstract = {Little is known about the ecological and physiological processes governing depth distribution limits in species. Temperature and hydrostatic pressure are considered to be two dominant factors. Research has shown that some marine ectotherms are shifting their bathymetric distributions in response to rapid anthropogenic ocean surface warming. Shallow-water species unable to undergo latitudinal range shifts may depend on bathymetric range shifts to seek refuge from warming surface waters. As a first step in constraining the molecular basis of pressure tolerance in shallow water crustaceans, we examined differential gene expression in response to acute pressure and temperature exposures in juveniles of the shallow-water shrimp Palaemonetes varians. Significant increases in the transcription of genes coding for an NMDA receptor-regulated protein, an ADP ribosylation factor, β-actin, two heat shock protein 70 kDa isoforms (HSP70), and glyceraldehyde-3-phosphate dehydrogenase (GAPDH) were found in response to elevated pressure. NMDA receptors have been implicated in pathways of excitotoxic damage to neurons and the onset of high pressure neurological syndrome (HPNS) in mammals. These data indicate that the sub-lethal effects of acute barotrauma are associated with transcriptional disturbances within the nervous tissue of crustaceans, and cellular macromolecular damage. Such transcriptional changes lead to the onset of symptoms similar to that described as HPNS in mammals, and may act as a limit to shallow water organisms{\textquoteright} prolonged survival at depth.
}, issn = {1531-4332}, doi = {10.1016/j.cbpa.2014.10.028}, author = {Morris, J P and Thatje, S and Juliette Ravaux and Bruce Shillito and Fernando, D and Hauton, C} } @article {4235, title = {Additive transcriptomic variation associated with reproductive traits suggest local adaptation in a recently settled population of the Pacific oyster, Crassostrea gigas.}, journal = {BMC Genomics}, volume = {16}, year = {2015}, month = {2015}, pages = {808}, abstract = {BACKGROUND: Originating from Northeast Asia, the Pacific oyster Crassostrea gigas has been introduced into a large number of countries for aquaculture purpose. Following introduction, the Pacific oyster has turned into an invasive species in an increasing number of coastal areas, notably recently in Northern Europe.
METHODS: To explore potential adaptation of reproductive traits in populations with different histories, we set up a common garden experiment based on the comparison of progenies from two populations of Pacific oyster sampled in France and Denmark and their hybrids. Sex ratio, condition index and microarray gene expression in gonads, were analyzed in each progeny (n = 60).
RESULTS: A female-biased sex-ratio and a higher condition index were observed in the Danish progeny, possibly reflecting an evolutionary reproductive strategy to increase the potential success of natural recruitment in recently settled population. Using multifarious statistical approaches and accounting for sex differences we identified several transcripts differentially expressed between the Danish and French progenies, for which additive genetic basis is suspected (showing intermediate expression levels in hybrids, and therefore additivity). Candidate transcripts included mRNA coding for sperm quality and insulin metabolism, known to be implicated in coordinated control and success of reproduction.
CONCLUSIONS: Observed differences suggest that adaptation of invasive populations might have occurred during expansion acting on reproductive traits, and in particular on a female-biased sex-ratio, gamete quality and fertility.
}, issn = {1471-2164}, doi = {10.1186/s12864-015-1972-8}, author = {Sussarellu, Rossana and Huvet, Arnaud and Lap{\`e}gue, Sylvie and Virgile Quillien and Christophe Lelong and Cornette, Florence and Jensen, Lasse Fast and Bierne, Nicolas and Boudry, Pierre} } @article {6831, title = {Adult and juvenile European seabirds at risk from marine plundering off West Africa}, journal = {Biological Conservation}, volume = {182}, year = {2015}, pages = {143{\textendash}147}, author = {Gr{\'e}millet, David and Clara P{\'e}ron and Provost, Pascal and Lescro{\"e}l, Am{\'e}lie} } @article {4197, title = {Age, growth, and mortality of the Atlantic goliath grouper Epinephelus itajara in French Guiana. }, journal = {Endangered Species Research}, volume = {28}, year = {2015}, month = {2015}, pages = {275-287}, author = {C. Artero and D.J. Murie and C.C. Koenig and R. Berzins and C. Bouchon and L. Lampert} } @article {Mennesson2015249, title = {Amphidromous life cycle of Eleotris fusca (Gobioidei: Eleotridae), a widespread species from the Indo-Pacific studied by otolith analyses}, journal = {Cybium}, volume = {39}, number = {4}, year = {2015}, note = {cited By 5}, pages = {249-260}, doi = {10.26028/cybium/2015-394-002}, url = {http://sfi-cybium.fr/fr/amphidromous-life-cycle-eleotris-fusca-gobioidei-eleotridae-widespread-species-indo-pacific-studied}, author = {Marion Mennesson and H{\'e}l{\`e}ne Tabouret and P{\'e}cheyran, C. and Eric Feunteun and Philippe Keith} } @article {4361, title = {Amphidromous life cycle of Eleotris fusca (Teleostei: Gobioidei: Eleotridae) a widespread species from the Indo-Pacific studied by otolith analyses.}, journal = {Cybium}, volume = {39 }, year = {2015}, pages = {249-260.}, author = {Marion Mennesson and H{\'e}l{\`e}ne Tabouret and Pecheyran, Christophe and Philippe Keith} } @article {5815, title = {{Anthropogenic impact on macrobenthic communities and consequences for shorebirds in Northern France: A complex response}}, journal = {Biological Conservation}, volume = {184}, year = {2015}, abstract = {{\textcopyright} 2015 Elsevier Ltd. Shorebird populations are declining worldwide due to the combined effect of climate change and anthropogenic forcing, the ongoing coastal urbanisation amplifying the alteration of their habitat in both rate and magnitude. By focusing on a highly anthropogenically-influenced region in Northern France, we studied the impact of a seawall construction on wintering shorebird populations through potential alterations in the abundance and availability of their food resources. We concurrently investigated changes in the spatial distribution of muddy-sand beach macrobenthic communities between two periods of contrasting anthropogenic impacts and examined year-to-year trends of wintering shorebirds. Our study reveals that the seawall construction led to a major spatial reorganisation of the macrobenthic communities with a drastic reduction of the muddy-sand community. However, no relation between macrobenthic changes and shorebird abundances was detected. Fluctuations in shorebird abundances appeared to be congruent with flyway population trends. This result suggests that the response of shorebirds to human-induced perturbations is much more complex than expected. While an assessment of potential disturbances induced by coastal engineering constructions is needed, the pathways by which alterations could propagate through an ecosystem are not linear and as such difficult to determine. Ecosystems appear as complex adaptive systems in which macroscopic dynamics emerge from non-linear interactions at entangled smaller/larger scales. Our results confirm that an in-depth knowledge of the local, regional and global factors that influence trends of shorebirds and their habitat use is essential for accurate and effective management and conservation strategies.
}, keywords = {Anthropogenic impact, Coastal conservation, Complexity, Macrobenthic communities, Shorebirds}, issn = {00063207}, doi = {10.1016/j.biocon.2015.02.016}, author = {C{\'e}line Rolet and Nicolas Spilmont and Dominique Davoult and Goberville, Eric and Christophe Luczak} } @proceedings {3545, title = {Artificial reef: Multiscale monitoring of colonization and primary production - R{\'e}cif artificiel: mise en place d{\textquoteright}un suivi de la colonisation a plusieurs {\'e}chelles}, volume = {1}, year = {2015}, month = {01/2015}, pages = {103-110}, edition = {M. Boutouil \& S. Leboulanger}, address = {ESITC Caen}, isbn = {978-2-95517664-0-5}, author = {Pascal Claquin and Leroy, Fanny and Anne-Marie Rusig and Isabelle Mussio and Eric Feunteun and Foveau, Aur{\'e}lie and Jean-Claude Dauvin and R{\'e}gis Gallon and Lebrun, J-L and Lestarquit, Mabel and Francis Orvain and Anne-Sophie Martinez and Desoche, E and Napol{\'e}on, Camille and Roussel, D{\'e}borha and Boutoil, Mohamed} } @article {3791, title = {Assessment of the contamination of marine fauna by chlordecone in Guadeloupe and Martinique (Lesser Antilles)}, journal = {Environmental Science and Pollution Research}, year = {2015}, author = {Charlotte R. Dromard and Bodiguel, xavier and Lemoine, Soazig and Yolande Bouchon-Navaro and Reynal, Lionel and Thouard, Emmanuel and Claude Bouchon} } @article {6824, title = {Behavioural study of two hydrothermal crustacean decapods: Mirocaris fortunata and Segonzacia mesatlantica, from the Lucky Strike vent field (Mid-Atlantic Ridge)}, journal = {Deep Sea Research Part II: Topical Studies in Oceanography}, volume = {121}, year = {2015}, pages = {146 - 158}, abstract = {Identifying the factors driving community dynamics in hydrothermal vent communities, and in particular biological interactions, is challenged by our ability to make direct observations and the difficulty to conduct experiments in those remote ecosystems. As a result, we have very limited knowledge on species׳ behaviour and interactions in these communities and how they in turn influence community dynamics. Interactions such as competition or predation significantly affect community structure in vent communities, and video time-series have successfully been used to gain insights in biological interactions and species behaviour, including responses to short-term changes in temperature or feeding strategies. In this study, we combined in situ and ex situ approaches to characterise the behaviour and interactions among two key species encountered along the Mid-Atlantic Ridge (MAR): the shrimp Mirocaris fortunata and the crab Segonzacia mesatlantica. In situ, species small-scale distribution, interactions and behaviour were studied using the TEMPO observatory module deployed on the seafloor at the base of the active Eiffel Tower edifice in the Lucky Strike vent field as part of the EMSO-A{\c c}ores MoMAR observatory. TEMPO sampled 2min of video four times a day from July 2011 to April 2012. One week of observations per month was used for {\textquoteleft}long-term{\textquoteright} variations, and a full video data set was analysed for January 2012. In addition, observations of crab and shrimp individuals maintained for the first time under controlled conditions in atmospheric pressure (classic tank) and pressurised (AbyssBox) aquaria allowed better characterisation and description of the different types of behaviour and interactions observed in nature. While the identified in situ spatial distribution pattern was stable over the nine months, both species displayed a significant preference for mussel bed and anhydrite substrata, and preferentially occupied the area located directly in the fluid flow axis. The aggregation behaviour of M. fortunata resulted in the occurrence of numerous intraspecific interactions mainly involving the use of two pairs of sensory organs (antenna/antennule) and fleeing behaviours when in contact or close to individuals of S. mesatlantica. The higher level of passiveness observed in the ex situ artificial environment compared to the in situ environment was attributed to the lack of stimulation related to low densities of congeners and/or of sympatric species compared to the natural environment and the absence of continuous food supply, as both species displayed a significant higher level of activity during feeding time. This result emphasises the role of food supply as a driver of species distribution and behaviour. Direct in situ observations using cameras deployed on deep-sea observatories, combined with experimental set-up in pressurised aquaria, will help investigators understand the factors influencing community dynamics and species biology at vents as well as their underlying mechanisms.}, keywords = {32{\textdegree}16.3'W, 37{\textdegree}17'N, AbyssBox, Biological interactions, Deep-sea observatory, Eiffel Tower edifice, Experimental research, Feeding behaviour, Lucky Strike, Mid-Atlantic Ridge, Time series, Video imagery}, issn = {0967-0645}, doi = {https://doi.org/10.1016/j.dsr2.2015.04.008}, url = {http://www.sciencedirect.com/science/article/pii/S0967064515001113}, author = {Matabos Marjolaine and Cuvelier Daphn{\'e} and Brouard Johan and Bruce Shillito and Juliette Ravaux and Magali Zbinden and Barthelemy Dominique and Sarradin, Pierre-Marie and Sarrazin, Jozee} } @article {Miller201584, title = {Biodiversity and distribution of leptocephali west of the Mascarene Plateau in the southwestern Indian Ocean}, journal = {Progress in Oceanography}, volume = {137}, year = {2015}, note = {cited By 10}, pages = {84-102}, doi = {10.1016/j.pocean.2015.05.026}, url = {https://www.sciencedirect.com/science/article/pii/S0079661115001317}, author = {Miller, M.J. and Eric Feunteun and Aoyama, J. and Watanabe, S. and Kuroki, M. and Lecomte-Finiger, R. and Minegishi, Y. and Robinet, T. and R{\'e}veillac, E. and Gagnaire, P.-A. and Berrebi, P. and Tsukamoto, K. and Otake, T.} } @article {3325, title = {Biogenic reefs affect multiple components of intertidal soft-bottom benthic assemblages: the Lanice conchilega case study}, journal = {Estuarine, Coastal and Shelf Science}, volume = {152}, year = {2015}, month = {01/2015}, pages = {44-55}, abstract = {Biogenic reefs composed of the tube-building polychaete Lanice conchilega are important from a conservation point of view because they noticeably increase the biodiversity in otherwise species poor
environments. However, up to now, little or no attention has been paid to the intertidal epi- and hyperbenthic communities associated with the reefs. Therefore, this is the first study which focuses on
the effect of L. conchilega reefs on the entire bentho-pelagic community at two different locations. Environmental variables were measured and macro-, epi- and hyperbenthic communities were sampled
within a L. conchilega reef and a control area at two locations in France: the bay of the Mont Saint-Michel (BMSM) and Boulogne-sur-Mer (Boulogne). The effect of the reef presence on the benthic community
was studied with a 3-factor (Reef, Location and Period) Permanova. In addition, the relationship between the benthic community and the environmental variables was investigated using Distance-based linear
models (DistLM). Most collected organisms were sampled in the reef area (macrobenthos: 91\%, epibenthos: 81\% and hyperbenthos: 78.5\%) indicating that, independent of the location, the L. conchilega
reefs positively affect all three associated benthic communities. However, the extent of the effect seems to be most pronounced for the macrobenthos and less distinct in case of the hyperbenthos. The macro-,
and epibenthos are mainly structured by biotic variables (L. conchilega density and macrobenthic food availability respectively), while the hyperbenthos is rather structured by environmental variables. In
general, L. conchilega reefs do not only affect abundances and diversity but they substantially steer the structure of the intertidal benthic sandy beach ecosystem.
Rimicaris exoculata is a deep-sea hydrothermal vent shrimp whose enlarged gill chamber houses a complex trophic epibiotic community. Its gut harbours an autochthonous and distinct microbial community. This species dominates hydrothermal ecosystem megafauna along the Mid-Atlantic Ridge, regardless of contrasting geochemical conditions prevailing in them. Here, the resident gut epibiont community at four contrasted hydrothermal vent sites (Rainbow, TAG, Logatchev and Ashadze) was analysed and compiled with previous data to evaluate the possible influence of site location, using 16S rRNA surveys and microscopic observations (transmission electron microscopy, scanning electron microscopy and fluorescence in situ hybridization analyses). Filamentous epibionts inserted between the epithelial cell microvilli were observed on all examined samples. Results confirmed resident gut community affiliation to Deferribacteres, Mollicutes, Epsilonproteobacteria and to a lesser extent Gammaproteobacteria lineages. Still a single Deferribacteres phylotype was retrieved at all sites. Four Mollicutes-related operational taxonomic units were distinguished, one being only identified on Rainbow specimens. The topology of ribotype median-joining networks illustrated a community diversification possibly following demographic expansions, suggesting a more ancient evolutionary history and/or a larger effective population size at Rainbow. Finally, the gill chamber community distribution was also analysed through ribotype networks based on sequences from R. exoculata collected at the Rainbow, Snake Pit, TAG, Logatchev and Ashadze sites. Results allow the refining of hypotheses on the epibiont role and transmission pathways.
}, issn = {1574-6941}, doi = {10.1093/femsec/fiv101}, author = {Durand, Lucile and Roumagnac, Marie and Cueff-Gauchard, Val{\'e}rie and Jan, Cyrielle and Guri, Mathieu and Tessier, Claire and Haond, Marine and Crassous, Philippe and Magali Zbinden and Arnaud-Haond, Sophie and Cambon-Bonavita, Marie-Anne} } @article {3838, title = {Bluethroats Luscinia svecica namnetum offset landscape constraints by expanding their home range}, journal = {Journal of Ornithology}, volume = {156}, year = {2015}, month = {06/2015}, pages = {591-600}, abstract = {The highly fragmented landscape structures of coastal salinas are known to result in decreased terrestrial bird abundance, species richness and diversity but to promote original assemblages dominated by specialist species, such as the Bluethroat Luscinia svecica namnetum. This species is mainly found at the core of these salinas, where the landscape characteristics are a priori the most hostile for terrestrial birds. The aim of this study was to test whether individuals of a specialized species like the Bluethroat may offset such landscape constraints by expanding their home ranges. We therefore radio-tracked 21 males in 2013 and 2014 in the salinas of the Marais du Mes (Parc Naturel R{\'e}gional de Bri{\`e}re, Western France). The data of the 18 best-monitored males were used to carry out a hierarchical partitioning of variance to test the relative influence of landscape characteristics, individual characteristics\ and distance to other males on their home-range sizes. We found that landscape characteristics were the factors that best explained home range sizes. Home-range sizes were significantly smaller in diversified landscapes composed of tidal creeks and salt-marsh patches and tended to be larger in landscapes dominated by the aquatic matrix consisting of water ponds. The results of this study demonstrate that although a few bird species are able to
select a priori hostile landscapes, they can offset such constraints by expanding their home-range size.
The bushmeat trade in tropical Africa represents illegal, unsustainable off-takes of millions of tons of wild game - mostly mammals - per year. We sequenced four mitochondrial gene fragments (cyt b, COI, 12S, 16S) in \>300 bushmeat items representing nine mammalian orders and 59 morphological species from five western and central African countries (Guinea, Ghana, Nigeria, Cameroon and Equatorial Guinea). Our objectives were to assess the efficiency of cross-species PCR amplification and to evaluate the usefulness of our multilocus approach for reliable bushmeat species identification. We provide a straightforward amplification protocol using a single {\textquoteright}universal{\textquoteright} primer pair per gene that generally yielded \>90\% PCR success rates across orders and was robust to different types of meat preprocessing and DNA extraction protocols. For taxonomic identification, we set up a decision pipeline combining similarity- and tree-based approaches with an assessment of taxonomic expertise and coverage of the GENBANK database. Our multilocus approach permitted us to: (i) adjust for existing taxonomic gaps in GENBANK databases, (ii) assign to the species level 67\% of the morphological species hypotheses and (iii) successfully identify samples with uncertain taxonomic attribution (preprocessed carcasses and cryptic lineages). High levels of genetic polymorphism across genes and taxa, together with the excellent resolution observed among species-level clusters (neighbour-joining trees and Klee diagrams) advocate the usefulness of our markers for bushmeat DNA typing. We formalize our DNA typing decision pipeline through an expert-curated query database - DNAbushmeat - that shall permit the automated identification of African forest bushmeat items.
}, issn = {1755-0998}, doi = {10.1111/1755-0998.12334}, author = {Gaubert, Philippe and Njiokou, Flobert and Olayemi, Ayodeji and Pagani, Paolo and Dufour, Sylvain and Danquah, Emmanuel and Nutsuakor, Mac Elikem K and Ngua, Gabriel and Missoup, Alain-Didier and Pablo Tedesco and Dernat, R{\'e}my and Antunes, Agostinho} } @article {6815, title = {Calibration of seawater temperature and δ18Oseawater signals in Tridacna maxima{\textquoteright}s δ18Oshell record based on in situ data}, journal = {Coral Reefs}, volume = {34}, year = {2015}, month = {Jan-06-2015}, pages = {437 - 450}, issn = {0722-4028}, doi = {10.1007/s00338-014-1245-z}, url = {http://link.springer.com/10.1007/s00338-014-1245-z}, author = {Duprey, N. and Claire E. Lazareth and Dupouy, C. and Butscher, J. and Farman, R. and Maes, C. and Cabioch, G.} } @article {6878, title = {Characterising multi-level effects of acute pressure exposure on a shallow-water invertebrate: insights into the kinetics and hierarchy of the stress response}, journal = {Journal of Experimental Biology}, volume = {218}, year = {2015}, month = {Jan-08-2015}, pages = {2594 - 2602}, issn = {0022-0949}, doi = {10.1242/jeb.125914}, url = {http://jeb.biologists.org/cgi/doi/10.1242/jeb.125914}, author = {Morris, J. P. and Thatje, S. and Juliette Ravaux and Bruce Shillito and Hauton, C.} } @proceedings {3549, title = {Chemical interaction between epilitic microphytobenthic biofilm and larval development of the sea urchin Paracentrotus lividus}, volume = {1}, year = {2015}, month = {01/2015}, pages = {239-247}, edition = {M. Boutouil \& S. Leboulanger}, address = {ESITC Caen}, isbn = {978-2-95517664-0-5}, author = {Francis Orvain and Anne-Sophie Martinez and Desoche, E and Pascal Claquin} } @inbook {4080, title = {Cnidaires}, booktitle = {La fonction venimeuse}, year = {2015}, pages = {59-91}, publisher = {Lavoisier Tec \& Doc}, organization = {Lavoisier Tec \& Doc}, edition = {Sous la direction de C. Rollard, J.-P. Chippaux \& M. Goyffon}, chapter = {5}, address = {Paris}, author = {Mireille M.M. Guillaume} } @proceedings {3547, title = {Colonisation {\`a} court terme par le benthos sur un {\'e}co-r{\'e}cif artificiel}, volume = {1}, year = {2015}, month = {01/2015}, pages = {119-126}, edition = {M. Boutouil \& S. Leboulanger}, address = {ESITC Caen}, isbn = {978-2-95517664-0-5}, author = {Foveau, Aur{\'e}lie and Jean-Claude Dauvin and Anne-Marie Rusig and Isabelle Mussio and Pascal Claquin} } @article {3700, title = {Colonization of plant substrates at hydrothermal vents and cold seeps in the northeast Atlantic and Mediterranean and occurrence of symbiont-related bacteria.}, journal = {Front Microbiol}, volume = {6}, year = {2015}, month = {2015}, pages = {162}, abstract = {Reducing conditions with elevated sulfide and methane concentrations in ecosystems such as hydrothermal vents, cold seeps or organic falls, are suitable for chemosynthetic primary production. Understanding processes driving bacterial diversity, colonization and dispersal is of prime importance for deep-sea microbial ecology. This study provides a detailed characterization of bacterial assemblages colonizing plant-derived substrates using a standardized approach over a geographic area spanning the North-East Atlantic and Mediterranean. Wood and alfalfa substrates in colonization devices were deployed for different periods at 8 deep-sea chemosynthesis-based sites in four distinct geographic areas. Pyrosequencing of a fragment of the 16S rRNA-encoding gene was used to describe bacterial communities. Colonization occurred within the first 14 days. The diversity was higher in samples deployed for more than 289 days. After 289 days, no relation was observed between community richness and deployment duration, suggesting that diversity may have reached saturation sometime in between. Communities in long-term deployments were different, and their composition was mainly influenced by the geographical location where devices were deployed. Numerous sequences related to horizontally-transmitted chemosynthetic symbionts of metazoans were identified. Their potential status as free-living forms of these symbionts was evaluated based on sequence similarity with demonstrated symbionts. Results suggest that some free-living forms of metazoan symbionts or their close relatives, such as Epsilonproteobacteria associated with the shrimp Rimicaris exoculata, are efficient colonizers of plant substrates at vents and seeps.
}, issn = {1664-302X}, doi = {10.3389/fmicb.2015.00162}, author = {Szafranski, Kamil M and Deschamps, Philippe and Cunha, Marina R and Sylvie M Gaudron and S{\'e}bastien Duperron} } @article {4823, title = {Comparative environmental performance of artisanal and commercial feed use in Peruvian freshwater aquaculture}, journal = {Aquaculture}, volume = {435}, year = {2015}, pages = {52-66}, type = {Journal Article}, issn = {0044-8486}, doi = {http://dx.doi.org/10.1016/j.aquaculture.2014.08.001}, url = {http://www.sciencedirect.com/science/article/pii/S0044848614003925}, author = {Avad{\'\i}, Angel and Pelletier, Nathan and Aubin, Jo{\"e}l and Ralite, St{\'e}phane and Jesus Nu{\~n}ez-Rodriguez and Fr{\'e}on, Pierre} } @article {4358, title = {Comparative phylogeography of Javanese and Balinese freshwater fishes: DNA barcodes shed light on Quaternary range expansion dynamic in a biodiversity hotspot.}, journal = {Genome}, volume = {58}, year = {2015}, pages = {230}, author = {Hutama, A. and Darhuddin, H. and Fr{\'e}d{\'e}ric Busson and Sauri, S and Hanner, R and Philippe Keith and Hadiaty, Renny and Hubert, N} } @article {4233, title = {The Comparison of δ13C Values of a Deposit- and a Suspension-Feeder Bio-Indicates Benthic vs. Pelagic Couplings and Trophic Status in Contrasted Coastal Ecosystems}, journal = {Estuaries and Coasts}, year = {2015}, month = {08/2015}, doi = {10.1007/s12237-015-0020-x}, author = {Sylvie M Gaudron and Karine Granger{\'e} and S{\'e}bastien Lefebvre} } @article {4240, title = {Compte rendu du s{\'e}minaire du groupe de travail {\guillemotleft} mangroves {\guillemotright}. Paris, MNHN, 28-30 septembre 2015. Convention ONEMA/MNHN 2015. 12 pages.}, year = {2015}, keywords = {Bioindication, DCE, DOM, Mangrove}, author = {Guillaume Dirberg} } @article {3559, title = {Concentrations and Fractionation of Carbon, Iron, Sulfur, Nitrogen and Phosphorus in Mangrove Sediments Along an Intertidal Gradient (Semi-Arid Climate, New Caledonia)}, journal = {J. Mar. Sci. Eng.}, year = {2015}, month = {02/2015}, pages = {52-57}, type = {OPEN ACCESS}, abstract = {In mangrove ecosystems, strong reciprocal interactions exist between plant and substrate. Under semi-arid climate, Rhizophora spp. are usually predominant, colonizing the seashore, and Avicennia marina develops at the edge of salt-flats, which is the highest zone in the intertidal range. Along this zonation, distribution and speciation of C, Fe, S, N, and P in sediments and pore-waters were investigated. From the land-side to the sea-side of the mangrove, sediments were characterized by I/ increase in: (i) water content; (ii) TOC; (iii) mangrove-derived OM; II/ and decrease in: (i) salinity; (ii) redox; (iii) pH; (iv) solid Fe and solid P. Beneath Avicennia and Rhizophora, TS accumulated at depth, probably as a result of reduction of iron oxides and sulfate. The loss of total Fe observed towards the sea-side may be related to sulfur oxidation and to more intense tidal flushing of dissolved components. Except the organic forms, dissolved N and P concentrations were very low beneath Avicennia and Rhizophora stands, probably as a result of their uptake by the root systems. However, in the unvegetated salt-flat, NH4+ can accumulate in organic rich and anoxic layers. This study shows: (i) the evolution of mangrove sediment biogeochemistry along the intertidal zone as a result of the different duration of tidal inundation and organic enrichment; and (ii) the strong links between the distribution and speciation of the different elements.
}, keywords = {biogeochemistry, Mangrove, New Caledonia, zonation}, issn = {2077-1312}, author = {Jonhatan Deborde and Cyril Marchand and Nathalie Molnar and Luc Della-Patrona and Tarik Meziane} } @article {3744, title = {Is the deep-sea crab Chaceon affinis able to induce a thermal stress response?}, journal = {Comp Biochem Physiol A Mol Integr Physiol}, volume = {181}, year = {2015}, month = {2015 Mar}, pages = {54-61}, abstract = {Fluctuations in the stress level of an organism are expressed in behavioural and molecular changes that can affect its ecology and survival. Our knowledge of thermal adaptations in deep-sea organisms is very limited, and this study investigates the critical thermal maximum (CTmax) and the heat-shock response (HSR) in the deep-sea crab Chaceon affinis commonly found in waters of the North East Atlantic. A mild but significant HSR in C. affinis was noted and one of the lowest CTmax known amongst Crustacea was revealed (27.5 {\textdegree}C at 0.1 MPa; 28.5 {\textdegree}C at 10 MPa). The thermal sensitivity of this species appears to be reduced at in situ pressure (10 MPa), given the slightly higher CTmax and the significant 3-fold induction of stress genes hsp70 form 1 and hsp70 form 2. Although C. affinis deep-sea habitat is characterized by overall low temperature this species appears to have retained its ability to induce a HSR. This capability may be linked with C. affinis{\textquoteright} occasional exploitation of warmer and thermally instable hydrothermal vent fields, where it has been found foraging for food.
}, issn = {1531-4332}, doi = {10.1016/j.cbpa.2014.11.015}, author = {Mestre, N{\'e}lia C and Cottin, Delphine and Bettencourt, Raul and Cola{\c c}o, Ana and Correia, S{\'e}rgio P C and Bruce Shillito and Thatje, Sven and Juliette Ravaux} } @article {3937, title = {Demonstration of the Coexistence of Duplicated LH Receptors in Teleosts, and Their Origin in Ancestral Actinopterygians.}, journal = {PLoS One}, volume = {10}, year = {2015}, month = {2015}, pages = {e0135184}, abstract = {Pituitary gonadotropins, FSH and LH, control gonad activity in vertebrates, via binding to their respective receptors, FSHR and LHR, members of GPCR superfamily. Until recently, it was accepted that gnathostomes possess a single FSHR and a single LHR, encoded by fshr and lhcgr genes. We reinvestigated this question, focusing on vertebrate species of key-phylogenetical positions. Genome analyses supported the presence of a single fshr and a single lhcgr in chondrichthyans, and in sarcopterygians including mammals, birds, amphibians and coelacanth. In contrast, we identified a single fshr but two lhgcr in basal teleosts, the eels. We further showed the coexistence of duplicated lhgcr in other actinopterygians, including a non-teleost, the gar, and other teleosts, e.g. Mexican tetra, platyfish, or tilapia. Phylogeny and synteny analyses supported the existence in actinopterygians of two lhgcr paralogs (lhgcr1/ lhgcr2), which do not result from the teleost-specific whole-genome duplication (3R), but likely from a local gene duplication that occurred early in the actinopterygian lineage. Due to gene losses, there was no impact of 3R on the number of gonadotropin receptors in extant teleosts. Additional gene losses during teleost radiation, led to a single lhgcr (lhgcr1 or lhgcr2) in some species, e.g. medaka and zebrafish. Sequence comparison highlighted divergences in the extracellular and intracellular domains of the duplicated lhgcr, suggesting differential properties such as ligand binding and activation mechanisms. Comparison of tissue distribution in the European eel, revealed that fshr and both lhgcr transcripts are expressed in the ovary and testis, but are differentially expressed in non-gonadal tissues such as brain or eye. Differences in structure-activity relationships and tissue expression may have contributed as selective drives in the conservation of the duplicated lhgcr. This study revises the evolutionary scenario and nomenclature of gonadotropin receptors, and opens new research avenues on the roles of duplicated LHR in actinopterygians.
}, issn = {1932-6203}, doi = {10.1371/journal.pone.0135184}, author = {Gersende Maugars and Sylvie Dufour} } @article {4205, title = {Description of the skeletal anatomy of reared juveniles of Pseudoplatystoma~punctifer (Castelnau, 1855) with notes on skeletal anomalies}, journal = {Journal of Applied Ichthyology}, volume = {31}, year = {2015}, pages = {88{\textendash}97}, abstract = {This study aimed at describing the normal bony skeleton of Pseudoplatystoma\ punctifer juveniles to use as a reference when assessing the adequacy of nutritional and environmental conditions in experimental rearing during the early developmental stages and to provide a baseline for characterizing skeletal anomalies that might appear in rearing trials with this species. Fertilized eggs and newly hatched P.\ punctifer larvae were incubated at 27.8\ {\textpm}\ 0.4{\textdegree}C in two 60-L tanks (50-L water volume) connected to a clear water recirculating system. At 3\ days post fertilization {\textendash} dpf (2\ days post hatching {\textendash} dph) larvae were reared in three 40-L tanks (30-L water volume; initial n\ =\ 2700 larvae per tank; 28.3\ {\textpm}\ 0.4{\textdegree}C, pH 6.9\ {\textpm}\ 0.2, dissolved oxygen 8.2\ {\textpm}\ 0.5\ mg\ L-1, N{\textendash}NO2 0.04\ {\textpm}\ 0.02\ mg\ L-1, N{\textendash}NH4 0.14\ {\textpm}\ 0.05\ mg\ L-1; 0L:24D photoperiod) and fed as follows: non-enriched Artemia spp. nauplii from 4 to 21 dpf (3{\textendash}20 dph) and a commercial compound diet from 18 dpf onwards. Pseudoplatystoma\ punctifer juveniles (23.2\ {\textpm}\ 5.5\ mm standard length, SL, n\ =\ 58) were stained with alizarin red and their skeletal structures analysed and identified under stereoscope. Pseudoplatystoma\ punctifer presents an osseous skeleton typical of catfishes, consisting of a broad and depressed skull containing small eyes, 43{\textendash}44 vertebrae (44 being the most frequent), a caudal fin complex composed of one epural, five hypurals, one parhypural and two hypurapophyses, dorsal and pectoral fins with spines and anal and adipose fins. The observed occurrence of several skeletal anomalies indicates that the rearing conditions might have been suboptimal.
}, issn = {1439-0426}, doi = {10.1111/jai.12983}, url = {http://dx.doi.org/10.1111/jai.12983}, author = {Estivals, G and Carmen Garc{\'\i}a-D{\'a}vila and Darias, Maria} } @article {9369, title = {Detailed reconstruction of the nervous and muscular system of Lobatocerebridae with an evaluation of its annelid affinityAbstractBackgroundResultsConclusions}, journal = {BMC Evolutionary Biology}, volume = {15}, year = {2015}, month = {Jan-12-2015}, doi = {10.1186/s12862-015-0531-x}, url = {https://bmcevolbiol.biomedcentral.com/articles/10.1186/s12862-015-0531-x}, author = {Kerbl, Alexandra and Bekkouche, Nicolas and Sterrer, Wolfgang and Worsaae, Katrine} } @article {Miller201543, title = {Did a "perfect storm" of oceanic changes and continental anthropogenic impacts cause northern hemisphere anguillid recruitment reductions?}, journal = {ICES Journal of Marine Science}, volume = {73}, number = {1}, year = {2015}, note = {cited By 24}, pages = {43-56}, doi = {10.1093/icesjms/fsv063}, url = {https://academic.oup.com/icesjms/article/73/1/43/2457868}, author = {Miller, M.J. and Eric Feunteun and Tsukamoto, K.} } @article {3982, title = {Dietary tracers in Bathyarca glacialis from contrasting trophic regions in the Canadian Arctic}, journal = {Marine Ecology Progress Series}, volume = {536}, year = {2015}, month = {09/2015}, pages = {175-186}, keywords = {Bathyarca glacialis, Bivalve, Canadian Arctic Archipelago, FATMs, Fatty acid trophic markers, Non-methylene-interrupted fatty acid, Pelagic {\textendash} benthic coupling}, author = {Gaillard, B and Tarik Meziane and R{\'e}jean Tremblay and P Archambault and Layton, KKS and Martel, AL and Fr{\'e}d{\'e}ric Olivier} } @article {8584, title = {Dispersal and diving adjustments of green turtles in response to dynamic environmental conditions during post-nesting migration}, journal = {PLOS ONE}, volume = {10}, year = {2015}, month = {Nov-09-2016}, pages = {e0137340}, doi = {10.1371/journal.pone.0137340}, url = {https://dx.plos.org/10.1371/journal.pone.0137340}, author = {Chambault, Philippine and Pinaud, David and Vantrepotte, Vincent and Kelle, Laurent and Entraygues, Mathieu and Guinet, Christophe and Berzins, Rachel and Bilo, Karin and Gaspar, Philippe and de Thoisy, Beno{\^\i}t and Le Maho, Yvon and Chevallier, Damien} } @article {Martin2015991, title = {Dispersal capacities of anadromous Allis shad population inferred from a coupled genetic and otolith approach}, journal = {Canadian Journal of Fisheries and Aquatic Sciences}, volume = {72}, number = {7}, year = {2015}, note = {cited By 13}, pages = {991-1003}, doi = {10.1139/cjfas-2014-0510}, url = {https://www.nrcresearchpress.com/doi/abs/10.1139/cjfas-2014-0510?journalCode=cjfas}, author = {Martin, J. and Rougemont, Q. and Drouineau, H. and Launey, S. and Jatteau, P. and Bareille, G. and Berail, S. and P{\'e}cheyran, C. and Eric Feunteun and Roques, S. and Clav{\'e}, D. and Nach{\'o}n, D.J. and Antunes, C. and Mota, M. and R{\'e}veillac, E. and Daverat, F.} } @article {3745, title = {Diversification, Evolution and Sub-Functionalization of 70kDa Heat-Shock Proteins in Two Sister Species of Antarctic Krill: Differences in Thermal Habitats, Responses and Implications under Climate Change.}, journal = {PLoS One}, volume = {10}, year = {2015}, month = {2015}, pages = {e0121642}, abstract = {BACKGROUND: A comparative thermal tolerance study was undertaken on two sister species of Euphausiids (Antarctic krills) Euphausia superba and Euphausia crystallorophias. Both are essential components of the Southern Ocean ecosystem, but occupy distinct environmental geographical locations with slightly different temperature regimes. They therefore provide a useful model system for the investigation of adaptations to thermal tolerance.
METHODOLOGY/PRINCIPAL FINDING: Initial CTmax studies showed that E. superba was slightly more thermotolerant than E. crystallorophias. Five Hsp70 mRNAs were characterized from the RNAseq data of both species and subsequent expression kinetics studies revealed notable differences in induction of each of the 5 orthologues between the two species, with E. crystallorophias reacting more rapidly than E. superba. Furthermore, analyses conducted to estimate the evolutionary rates and selection strengths acting on each gene tended to support the hypothesis that diversifying selection has contributed to the diversification of this gene family, and led to the selective relaxation on the inducible C form with its possible loss of function in the two krill species.
CONCLUSIONS: The sensitivity of the epipelagic species E. crystallorophias to temperature variations and/or its adaptation to cold is enhanced when compared with its sister species, E. superba. These results indicate that ice krill could be the first of the two species to be impacted by the warming of coastal waters of the Austral ocean in the coming years due to climate change.
}, issn = {1932-6203}, doi = {10.1371/journal.pone.0121642}, author = {Cascella, K{\'e}vin and Jollivet, Didier and Papot, Claire and Nelly L{\'e}ger and Corre, Erwan and Juliette Ravaux and Clark, Melody S and Toullec, Jean-Yves} } @article {3524, title = {Diversity of trophic niches among herbivorous fishes on a Caribbean reef (Guadeloupe, Lesser Antilles), evidenced by stable isotope and gut content analyses}, journal = {Journal of Sea Reasearch}, volume = {95}, year = {2015}, pages = {124-131}, keywords = {Caribbean reefs, functional diversity, gut contents, herbivorous fishes, Stable isotopes, trophic niches}, author = {Charlotte R. Dromard and Yolande Bouchon-Navaro and Mireille Harmelin-Vivien and Claude Bouchon} } @article {4102, title = {DNA Barcoding Indonesian freshwater fishes: challenges and prospects.}, journal = {DNA barcode}, volume = {3}, year = {2015}, pages = {144-169}, keywords = {Checklist, DNA barcoding, Southeast Asia}, author = {Hubert, Nicolas and Kadarusman and Wibowo, A and Fr{\'e}d{\'e}ric Busson and Caruso, D. and Sulandari, S. and Nafiqoh, N and R{\"u}ber, L and Pouyaud, L and Avarre, JC and Herder, F and Hanner, R and Philippe Keith and Hadiaty, Renny} } @article {4356, title = {DNA barcoding of Javanese and Balinese freshwater fishes: molecular insights into a poorly known ichthyofauna.}, journal = {Genome}, volume = {58}, year = {2015}, pages = {209}, author = {Darhuddin, H. and Hutama, A. and Fr{\'e}d{\'e}ric Busson and Sauri, S and Philippe Keith and Hanner, R and Hadiaty, Renny and Hubert, Nicolas} } @article {4099, title = {Do Sicydium punctatum adults move in the Caribbean estuaries? New insight from strontium isotopes.}, journal = {Life and environment}, volume = {65}, year = {2015}, pages = {85-89.}, keywords = {INSULAR RIVERS, MICROCHEMISTRY, MIGRATIONS, otolith, SICYDIINAE., STRONTIUM}, author = {H{\'e}l{\`e}ne Tabouret and Monti, Dominique and Martin, J and Berail, S and P{\'e}cheyran, C and Philippe Keith and Bareille, Gilles} } @article {3507, title = {Does a short-term exposure to cadmium chloride affects haemocyte parameters of the marine gastropod Haliotis tuberculata?}, journal = {Environ Sci Pollut Res Int}, year = {2015}, month = {2014 Aug 19}, abstract = {In this study, a model based on primary cultured haemocytes from the gastropod mollusc Haliotis tuberculata was established to investigate the effects of cadmium chloride in vitro. Cells were exposed for 24\ h to CdCl2 concentrations of 0, 1 and 100\ μg\ ml(-1). The effects of cadmium on haemocyte parameters were investigated using morphological, spectrophotometric and flow cytometry analysis. Results showed that cadmium has no significant effects on cell viability and phagocytotic activity under the tested conditions. However, haemocytes became more rounded after cadmium exposure, which could explain the significant decrease of cell area beginning at 1\ μg\ ml(-1) of CdCl2.
}, issn = {1614-7499}, doi = {10.1007/s11356-014-3387-5}, author = {Ladhar-Chaabouni, R and Machreki-Ajmi, Monia and Antoine Serpentini and Jean-Marc Lebel and Hamza-Chaffai, A} } @article {3773, title = {The Dopaminergic Neurons Controlling Anterior Pituitary Functions: Anatomy and Ontogenesis in Zebrafish.}, journal = {Endocrinology}, year = {2015}, month = {2015 May 12}, pages = {en20151091}, abstract = {Dopaminergic (DA) neurons located in the preoptico-hypothalamic region of the brain exert a major neuroendocrine control on reproduction, growth and homeostasis by regulating the secretion of anterior pituitary (or adenohypophysis) hormones. Here, using a retrograde tract tracing experiment, we identified the neurons playing this role in the zebrafish. The DA cells projecting directly to the anterior pituitary are localized in the most anteroventral part of the preoptic area, and we named them preoptico-hypophyseal DA (POHDA) neurons. During development, these neurons do not appear before 72 hours post fertilization (hpf) and are the last dopaminergic cell group to differentiate. We found that the number of neurons in this cell population continues to increase life-long, proportionally to the growth of the fish. BrdU incorporation analysis suggested that this increase is due to continuous neurogenesis and not due to a phenotypic change in already existing neurons. Finally, expression profiles of several genes (foxg1a, dlx2a and nr4a2a/b) were different in the POHDA compared to the adjacent suprachiasmatic DA neurons, suggesting that POHDA neurons develop as a distinct DA cell population in the preoptic area. This study offers some insights into the regional identity of the preoptic area and provides the first bases for future functional genetic studies on the development of DA neurons controlling anterior pituitary functions.
}, issn = {1945-7170}, doi = {10.1210/en.2015-1091}, author = {Fontaine, Romain and Affaticati, Pierre and Bureau, Charlotte and Colin, Ingrid and Demarque, Micha{\"e}l and Sylvie Dufour and Vernier, Philippe and Yamamoto, Kei and Pasqualini, Catherine} } @article {4050, title = {Is drift the primary process promoting the resilience of river invertebrate communities? A manipulative field experiment in an intermittent alluvial river}, journal = {Freshwater Biology}, year = {2015}, abstract = {ABSTRACT: 1. In river systems, aquatic invertebrate communities are surprisingly persistent over time and generally recover quickly from disturbances. Drift has long been viewed as the primary process promoting this resilience, and it plays a important role in predictive models of community composition and concepts in lotic ecology. More recently, other processes such as vertical migration from the hyporheic zone, aerial oviposition from distant refuges and the use of resistance forms (e.g. diapause) have received greater recognition and support for their importance. 2. In this study, the view that drift is the primary process promoting invertebrate community resilience was challenged in an intermittent alluvial river using reach-scale flow manipulations. First, six treatment channels were completely dried for 1 week, while three others were left flowing to be used as controls. Second, flow was re-established in channels and drift was either allowed or blocked for a 4-week period. Third, during this period the resilience of community structure, composition and function was compared between treatments, and the potential for colonisation from the drift, hyporheic zone, aerial oviposition and resistance forms was measured. 3. Communities recovered after only 2 weeks in all of the previously dried channels, and contrary to our hypotheses, invertebrate community structure, composition and functional trait composition were not altered by blocking drift, indicating it was not the primary process promoting resilience in this river. 4. Three lines of evidence suggested colonisation from the hyporheic zone and not aerial oviposition nor resistance forms promoted resilience following rewetting including the following: (i) finding all common benthic taxa in the hyporheic zone during the drying event, (ii) a distinct decrease in invertebrate size upon rewetting in all treatment channels and (iii) a negative correlation between resilience and water table depth. 5. This experiment highlighted the potential importance of the hyporheic zone as a key source of colonisation in alluvial rivers and emphasises the need for a three-dimensional perspective when considering community resilience in rivers. Adaptive management approaches are needed to direct attention to sources (e.g. hyporheic zone) that are essential to promoting community resilience in rivers facing increased pressures due to climate change, water abstraction and flow regime alteration.
}, doi = {DOI:10.1111/fwb.12658}, author = {R. Vander Vorste and F. Malard and T. Datry} } @article {3774, title = {Duplicated leptin receptors in two species of eel bring new insights into the evolution of the leptin system in vertebrates.}, journal = {PLoS One}, volume = {10}, year = {2015}, month = {2015}, pages = {e0126008}, abstract = {Since its discovery in mammals as a key-hormone in reproduction and metabolism, leptin has been identified in an increasing number of tetrapods and teleosts. Tetrapods possess only one leptin gene, while most teleosts possess two leptin genes, as a result of the teleost third whole genome duplication event (3R). Leptin acts through a specific receptor (LEPR). In the European and Japanese eels, we identified two leptin genes, and for the first time in vertebrates, two LEPR genes. Synteny analyses indicated that eel LEPRa and LEPRb result from teleost 3R. LEPRb seems to have been lost in the teleost lineage shortly after the elopomorph divergence. Quantitative PCRs revealed a wide distribution of leptins and LEPRs in the European eel, including tissues involved in metabolism and reproduction. Noticeably, leptin1 was expressed in fat tissue, while leptin2 in the liver, reflecting subfunctionalization. Four-month fasting had no impact on the expression of leptins and LEPRs in control European eels. This might be related to the remarkable adaptation of silver eel metabolism to long-term fasting throughout the reproductive oceanic migration. In contrast, sexual maturation induced differential increases in the expression of leptins and LEPRs in the BPG-liver axis. Leptin2 was strikingly upregulated in the liver, the central organ of the reproductive metabolic challenge in teleosts. LEPRs were differentially regulated during sexual maturation, which may have contributed to the conservation of the duplicated LEPRs in this species. This suggests an ancient and positive role of the leptin system in the vertebrate reproductive function. This study brings new insights on the evolutionary history of the leptin system in vertebrates. Among extant vertebrates, the eel represents a unique case of duplicated leptins and leptin receptors as a result of 3R.
}, issn = {1932-6203}, doi = {10.1371/journal.pone.0126008}, author = {Morini, Marina and Pasquier, J{\'e}r{\'e}my and Dirks, Ron and van den Thillart, Guido and Tomkiewicz, Jonna and Karine Rousseau and Sylvie Dufour and Anne-Gaelle Lafont} } @article {4051, title = {Ecological research and management of intermittent rivers: an historical review and future directions}, journal = {Freshwater Biology}, year = {2015}, abstract = {ABSTRACT: 1. Rivers and streams that do not flow permanently (herein intermittent rivers; IRs) make up a large proportion of the world{\textquoteright}s inland waters and are gaining widespread attention. We review the research on IRs from its early focus on natural history through to current application in management and policy. 2. The few early studies of the ecology of IRs were largely descriptive. Nevertheless, in the 1970s, synthesis of this sparse research complemented work on temporary standing waters to found a powerful framework for much of the subsequent research on IRs. 3. Research on the ecology and biogeochemistry of IRs continues to fuel our understanding of resistance and resilience to drying and flooding as disturbances. Syntheses of the growing literature, including cross-continental and cross-climate comparisons, are revealing the generality and individuality of ecological and ecosystem responses to flow cessation and surface water loss. Meanwhile, increasing numbers of experiments test the causality of these responses. 4. Much of the increased consideration of IRs in research, management and policy is driven by the observed and projected shifts in flow regimes from perennial to intermittent associated with changes in land and water use and climate, superimposed on the high incidence of natural intermittency. The need to protect and better manage IRs is prompting researchers to develop new or modified methods to monitor flow status and assess the ecological condition of these systems. 5. Intermittent river research and management will benefit from greater exploration of aquatic{\textendash}terrestrial linkages, wet{\textendash}dry cycling and temporal dynamics, more-detailed mapping and predictive modelling of flow intermittency and the application of metapopulation and metacommunity concepts alongside multiple-stressors and novel-ecosystems research. By building on existing knowledge, continuing to develop quantitative models and distribution maps and using experiments to test hypotheses and concepts, we can further ecological understanding and wise management of these ubiquitous ecosystems.
}, doi = {DOI:10.1111/fwb.12646}, author = {C. Leigh and A.J. Boulton and J. Courtwright and T. Datry} } @article {3936, title = {Editorial: A Comparative Survey of the RF-Amide Peptide Superfamily.}, journal = {Front Endocrinol (Lausanne)}, volume = {6}, year = {2015}, month = {2015}, pages = {120}, issn = {1664-2392}, doi = {10.3389/fendo.2015.00120}, author = {Karine Rousseau and Sylvie Dufour and Vaudry, Hubert} } @article {Trancart2015168, title = {The effect of thermal shock during diel vertical migration on the energy required for oceanic migration of the European silver eel}, journal = {Journal of Experimental Marine Biology and Ecology}, volume = {463}, year = {2015}, note = {cited By 2}, pages = {168-172}, doi = {10.1016/j.jembe.2014.12.004}, url = {https://www.sciencedirect.com/science/article/pii/S0022098114003190}, author = {Thomas Trancart and Tudorache, C. and van den Thillart, G.E.E.J.M. and Anthony Acou and Alexandre Carpentier and Boinet, C. and Gouchet, G. and Eric Feunteun} } @article {3505, title = {Effects of subchronic exposure to glyphosate in juvenile oysters (Crassostrea gigas): From molecular to individual levels.}, journal = {Mar Pollut Bull}, year = {2015}, month = {2014 Oct 30}, abstract = {Glyphosate-based herbicides are extensively used and can be measured in aquatic ecosystems, including coastal waters. The effect of glyphosate on non-target organisms is an issue of worldwide concern. The aim of this study was to investigate the effects of subchronic exposure to glyphosate in juvenile oysters, Crassostrea gigas. Yearling oysters were exposed to three concentrations of glyphosate (0.1, 1 and 100μgL(-1)) for 56days. Various endpoints were studied, from the individual level (e.g., gametogenesis and tissue alterations) to the molecular level (mRNA quantification), including biochemical endpoints such as glutathione-S-transferase (GST) and catalase activities and malondialdehyde content. No mortality and growth occurred during the experiment, and individual biomarkers revealed only slight effects. The levels of gene expression significantly increased in oysters exposed to the highest glyphosate concentration (GST and metallothioneins) or to all concentrations (multi-xenobiotic resistance). These results suggested an activation of defence mechanisms at the molecular level.
}, issn = {1879-3363}, doi = {10.1016/j.marpolbul.2014.10.026}, author = {Mottier, A and S{\'e}guin, Alexis and Devos, Alexandre and Le Pabic, C and Voiseux, C and Lebel, Jean-Marc and Antoine Serpentini and Fievet, B and Katherine Costil} } @proceedings {3548, title = {Effet du mat{\'e}riau du r{\'e}cif artificiel sur la colonisation par les macroalgues en conditions contr{\^o}l{\'e}es}, volume = {1}, year = {2015}, month = {01/2015}, pages = {136-145}, edition = {M. Boutouil \& S. Leboulanger}, address = {ESITC Caen}, isbn = {978-2-95517664-0-5}, author = {Lestarquit, Mabel and Isabelle Mussio and Anne-Marie Rusig and Pascal Claquin} } @article {4420, title = {The endocrine-disrupting effect and other physiological responses of municipal effluent on the clam Ruditapes decussatus.}, journal = {Environ Sci Pollut Res Int}, volume = {22}, year = {2015}, month = {2015 Dec}, pages = {19716-28}, abstract = {In order to document the potential endocrine disrupting and toxic effect of the municipal wastewater effluents discharged into the Sfax coastal area (South of Tunisia), specimens of clam R. decussatus were collected from a reference site and were in vivo exposed to treated sewage effluent for 30 days. To this end, estrogenic and androgenic activities were measured in the gills to assess potential accumulation and regulation of active compounds. After effluent exposure androgenic activity in organic extracts increased up to fivefold compared to controls and remained elevated, while estrogenic activity was not significantly affected by exposure. As a consequence, remarkable disruptions in the gametogenesis activity, glycogen content, and Vitellogenin-like protein levels in male clams were observed. A parallel analysis of heavy metals in clam tissues was determined. A significant uptake of Ni, Zn, and Pb in soft tissues of exposed clams was observed. The significant increase of malondialdehyde (MDA) concentrations as a function of exposure time implies that clams have been exposed to an oxidative stress probably due to the presence of high metal concentrations in sewage effluent. Correlation analysis has revealed a statistically significant and positive relationship between MDA levels and metal concentrations in clams{\textquoteright} tissues. The acetylcholinesterase activity was not significantly affected by exposure. Altogether, these results showed that a short-term exposure to a mixture of chemical compounds released by the Sfax wastewater treatment plant induce adverse physiological and reproductive effects in R. decussatus. Further studies are underway in order to evaluate its long-term impacts on aquatic wildlife in the gulf of Gabes area.
}, issn = {1614-7499}, doi = {10.1007/s11356-015-5199-7}, author = {Mezghani-Chaari, Sawssan and Machreki-Ajmi, Monia and Tremolet, Gauthier and Kristell Kellner-Cousin and Geffard, Alain and Minier, Christophe and Hamza-Chaffai, Amel} } @article {5237, title = {The endocrine-disrupting effect and other physiological responses of municipal effluent on the clam Ruditapes decussatus}, journal = {Environ Sci Pollut Res Int. }, volume = {22}, year = {2015}, pages = {19716-28}, type = {research}, author = {Mezghani-Chaari, Sawssan and Monia Machreki-Ajmi and Gauthier Tremolet and Kristell Kellner-Cousin and Alain Geffard and Christophe Minier and Hamza-Chaffai, Amel} } @article {3984, title = {Environmental microbiology as a mosaic of explored ecosystems and issues}, journal = {Environmental Science and Pollution Research}, volume = {22}, year = {2015}, pages = {13577-13598}, keywords = {Critical zone, Environmental microbiology, Microbial ecology, Microbial ecosystems}, issn = {0944-1344}, doi = {10.1007/s11356-015-5164-5}, url = {http://dx.doi.org/10.1007/s11356-015-5164-5}, author = {Faure, Denis and Bonin, Patricia and Duran, Robert and The EC2CO consortium} } @article {3761, title = {Epsilonproteobacteria as gill epibionts of the hydrothermal vent gastropod Cyathermia naticoides (North East-Pacific Rise)}, journal = {Marine Biology}, volume = {162}, year = {2015}, month = {11 D{\'e}c 2014}, pages = {435-448}, abstract = {Mollusks, and particularly gastropods, are one of the major taxonomic groups at vents. In these ecosystems, devoid of light, chemoautotrophic bacteria are at the base of the food web and symbiotic association between metazoa and these bacteria is numerous. Nevertheless, apart few {\textquotedblleft}large-size{\textquotedblright} well-known species, the {\textquotedblleft}small-size{\textquotedblright} gastropods (shell \<5\ mm), although very abundant, remain poorly studied regarding symbioses. We investigated here Cyathermia naticoides (War{\'e}n and Bouchet in Zool Scr 18(1), 1989), a small coiled gastropod found in abundance on the East Pacific Rise among Riftia pachyptila tubes, and usually inferred to graze on tubeworm bacterial cover, and/or filter feeding. Among mollusks, symbioses are well known in large species and almost exclusively rely on sulfide or methane-oxidizing proteobacterial endosymbionts, occurring within the host tissues in gill epithelial bacteriocytes. Combining several approaches (molecular biology, microscopy, stable isotopes analyses), we described here an unusual symbiosis, where autotrophic filamentous Epsilonproteobacteria are located extracellularly, at the base of host gill filaments. Numerous endocytotic lysosome-like structures were observed in the gill epithelium of the animal suggesting bacteria may contribute to its nutrition through intracellular digestion by gill cells. Additional food source by non-symbiotic proteobacteria grazed on R. pachyptila tubes could complete the diet. The possible role of temperature in the selection of Epsilon- vs Gammaproteobacterial partners is discussed.
}, url = {http://link.springer.com/article/10.1007/s00227-014-2591-7$\#$}, author = {Magali Zbinden and Marqu{\'e}, Lise and Sylvie M Gaudron and Juliette Ravaux and Nelly L{\'e}ger and S{\'e}bastien Duperron} } @article {3554, title = {Exploitation of intertidal feeding ressources by the red knot Calidris canutus under megatidal conditions (Bay of Saint-Brieuc, France)}, journal = {Journal of Sea Research}, volume = {96}, year = {2015}, pages = {23-30}, author = {Anthony Sturbois and Alain Ponsero and Nicolas Desroy and Patrick Le Mao and J{\'e}r{\^o}me Fournier} } @article {9380, title = {Exploring the potential of small RNA subunit and ITS sequences for resolving phylogenetic relationships within the phylum Ctenophora}, journal = {Zoology}, volume = {118}, year = {2015}, month = {Jan-04-2015}, pages = {102 - 114}, issn = {09442006}, doi = {10.1016/j.zool.2014.06.004}, url = {https://linkinghub.elsevier.com/retrieve/pii/S0944200614000816}, author = {Simion, Paul and Bekkouche, Nicolas and Jager, Muriel and Qu{\'e}innec, Eric and Manuel, Michael} } @article {6830, title = {Extreme climate events and individual heterogeneity shape life-history traits and population dynamics}, journal = {Ecological Monographs}, volume = {85}, year = {2015}, pages = {605{\textendash}624}, doi = {https://doi.org/10.1890/14-1834.1}, url = {https://esajournals.onlinelibrary.wiley.com/doi/full/10.1890/14-1834.1}, author = {Jenouvrier, St{\'e}phanie and Clara P{\'e}ron and Weimerskirch, H.} } @article {4151, title = {First faunal inventory of large branchiopods (Crustacea: Branchiopoda) of Western Maharashtra, India with taxonomical and distributional comments.}, journal = {Zootaxa}, volume = {3904}, year = {2015}, month = {2015}, pages = {208-22}, abstract = {An updated inventory of large branchiopods of the Western Maharashtra state, India is presented for the first time. Employing current identification keys, we have detailed the egg morphology of Eulimnadia indocylindrova, which shares some similarities with E. geayi from South America and E. alluaudi from Madagascar, based on these egg characters. A thorough re-description of few morphological traits of the same species is also presented. We also have described the female of a Cyzicus species seen rarely from the studied region. Distributional comments on few species are also reported.
}, issn = {1175-5326}, doi = {10.11646/zootaxa.3904.2.2}, author = {Padhye, Sameer and Nicolas Rabet and Ghate, Hemant} } @article {4195, title = {Foraging habits of reef fishes associated with mangroves and seagrass beds in a Caribbean lagoon: a stable isotope approach.}, journal = {Ciencias marinas}, volume = {41}, year = {2015}, month = {2015}, pages = {217-232}, author = {Vaslet, Amandine and Yolande Bouchon-Navaro and Mireille Harmelin-Vivien and Lepoint, Gilles and Louis, Max and Claude Bouchon} } @article {3663, title = {Foraminiferal assemblages as bioindicators to assess potential pollution in mangroves used as a natural biofilter for shrimp farm effluents (New Caledonia)}, journal = {Marine Pollution Bulletin}, volume = {93}, year = {2015}, month = {15 April 2015}, pages = {103-120}, type = {Research}, abstract = {In New Caledonia, semi-intensive shrimp farms release untreated effluents into the mangrove. Foraminiferal assemblages were analyzed for assessing the impact of effluent release on the benthic compartment. Comparison was made between samples collected (1) in an effluent receiving mangrove before and after the rearing cycle, and (2) for one-year monitoring an effluent receiving and a control mangrove. The distribution of foraminiferal assemblages was primarily driven by the gradient between\ Rhizophora\ stands and salt-flats, related to salinity and tidal elevation, and by seasonal cycles. The potential impact of effluent release was due to the combined effects of normal-saline effluents on surface salinity, and of nutrient input and microbial stimulation on food availability. Foraminiferal assemblages did not indicate a substantial impact of farm effluents and suggest that semi-intensive shrimp farming using mangrove for effluent discharge may appear as a sustainable solution in New Caledonia, when considering only the impact on the mangrove itself.
}, keywords = {Effluents, fatty acids, Foraminifera, Mangrove, Shrimp farming, SW Pacific}, doi = {10.1016/j.marpolbul.2015.02.009}, author = {Debenay, J-P and Cyril Marchand and Nathalie Molnar and Ad{\'e}laide Aschenbroich and Tarik Meziane} } @article {4429, title = {The freshwater fish fauna history between Rhine and Ebro: general considerations and comments from on-going developments in fish taxonomy.}, journal = {Frontiers in Marine Science}, volume = {2}, year = {2015}, author = {Persat, Henri and Denys, Ga{\"e}l and Dettai, Agn{\`e}s and Philippe Keith} } @article {4355, title = {Freshwater neritids (Mollusca: Gastropoda) of tropical islands, amphidromy as a life cycle, a review}, journal = {Revue d{\textquoteright}{\'e}cologie (Terre et Vie)}, volume = {70}, year = {2015}, pages = {387-397}, author = {Ahmed Abdou and Philippe Keith and Ren{\'e} Galzin} } @article {4101, title = {Freshwater neritids (Mollusca: Gastropoda) of tropical islands, amphidromy as a life cycle, a review. }, journal = {Revue d{\textquoteright}{\'e}cologie (Terre et Vie)}, volume = {70}, year = {2015}, pages = {387-397} } @article {3601, title = {From current distinctiveness to future homogeneization of the world{\textquoteright}s freshwater fish faunas}, journal = {Diversity and Distributions}, volume = {21}, year = {2015}, month = {02/2015}, pages = {223-235}, doi = {DOI: 10.1111/ddi.12242}, author = {S. Vill{\'e}ger and S. Blanchet and O. Beauchard and Thierry Oberdorff and S. Brosse} } @article {5817, title = {{Future vulnerability of marine biodiversity compared with contemporary and past changes}}, journal = {Nature Climate Change}, volume = {5}, year = {2015}, abstract = {{\textcopyright} 2015 Macmillan Publishers Limited. Many studies have implied significant effects of global climate change on marine life. Setting these alterations into the context of historical natural change has not been attempted so far, however. Here, using a theoretical framework, we estimate the sensitivity of marine pelagic biodiversity to temperature change and evaluate its past (mid-Pliocene and Last Glacial Maximum (LGM)), contemporaneous (1960-2013) and future (2081-2100; 4 scenarios of warming) vulnerability. Our biodiversity reconstructions were highly correlated to real data for several pelagic taxa for the contemporary and the past (LGM and mid-Pliocene) periods. Our results indicate that local species loss will be a prominent phenomenon of climate warming in permanently stratified regions, and that local species invasion will prevail in temperate and polar biomes under all climate change scenarios. Although a small amount of warming under the RCP2.6 scenario is expected to have a minor influence on marine pelagic biodiversity, moderate warming (RCP4.5) will increase by threefold the changes already observed over the past 50 years. Of most concern is that severe warming (RCP6.0 and 8.5) will affect marine pelagic biodiversity to a greater extent than temperature changes that took place between either the LGM or the mid-Pliocene and today, over an area of between 50 (RCP6.0: 46.9-52.4{\%}) and 70{\%} (RCP8.5: 69.4-73.4{\%}) of the global ocean.
}, issn = {17586798}, doi = {10.1038/nclimate2650}, author = {Gr{\'e}gory Beaugrand and Martin Edwards and Virginie Raybaud and Goberville, Eric and Richard R Kirby} } @article {3719, title = {Genetic variation among Corsican and continental populations of the Eurasian treecreeper (Aves: Certhia familiaris) reveals the existence of a palaeoendemic mitochondrial lineage}, journal = {Biological Journal of the Linnean Society}, volume = {115}, year = {2015}, month = {04/2015}, pages = {134-153}, abstract = {In this study we investigated the phylogenetics of the Eurasian treecreeper (Certhia familiaris), a forest passerine with a wide Palaearctic range including Corsica, using three mitochondrial genes and three nuclear introns, and
its phylogeographic history using the COI gene. Our phylogenetic results, including eight of the ten sub-species currently recognized, support the monophyly of C. familiaris with respect to its Indo-Asian sister species
C. hodgsoni. C. familiaris comprises two lineages that diverged during the mid-Pleistocene (c. 1 Myr): one palaeoendemic lineage has an allopatric range nowadays restricted to the Corsica island and the Caucasus region
whereas the second one, more recent and widespread, is distributed over most of Eurasia and in northern China. The most likely scenario that may explain such a pattern is a double colonization of the western Palaearctic from
the eastern range of the species. During the middle Pleistocene period, a first lineage expanded its range up into Europe but did not persist through glacial cycles except in Corsica and the Caucasus region. Later, during the
upper Pleistocene, a second lineage began to diversify around 0.09 Myr, spreading towards the western Palaearctic from a unique refuge likely located in the eastern Palaearctic [correction added on 6 March 2015 after first online
publication: 0.9 Myr amended to 0.09 Myr]. Apart from C. f. corsa, our results do not suggest any distinct evolutionary history for other sub-species previously described on morphological grounds in Europe. Our study
highlights the important conservation value of the Corsican treecreeper and emphasizes the major role of mature pine forests in the evolution of endemic bird taxa in Corsica.
BACKGROUND: The Pacific oyster, Crassostrea gigas, is one of the most important aquaculture shellfish resources worldwide. Important efforts have been undertaken towards a better knowledge of its genome and transcriptome, which makes now C. gigas becoming a model organism among lophotrochozoans, the under-described sister clade of ecdysozoans within protostomes. These massive sequencing efforts offer the opportunity to assemble gene expression data and make such resource accessible and exploitable for the scientific community. Therefore, we undertook this assembly into an up-to-date publicly available transcriptome database: the GigaTON (Gigas TranscriptOme pipeliNe) database.
DESCRIPTION: We assembled 2204 million sequences obtained from 114 publicly available RNA-seq libraries that were realized using all embryo-larval development stages, adult organs, different environmental stressors including heavy metals, temperature, salinity and exposure to air, which were mostly performed as part of the Crassostrea gigas genome project. This data was analyzed in silico and resulted into 56621 newly assembled contigs that were deposited into a publicly available database, the GigaTON database. This database also provides powerful and user-friendly request tools to browse and retrieve information about annotation, expression level, UTRs, splice and polymorphism, and gene ontology associated to all the contigs into each, and between all libraries.
CONCLUSIONS: The GigaTON database provides a convenient, potent and versatile interface to browse, retrieve, confront and compare massive transcriptomic information in an extensive range of conditions, tissues and developmental stages in Crassostrea gigas. To our knowledge, the GigaTON database constitutes the most extensive transcriptomic database to date in marine invertebrates, thereby a new reference transcriptome in the oyster, a highly valuable resource to physiologists and evolutionary biologists.
}, keywords = {Animals, Base Sequence, Computational Biology, Crassostrea, Databases, Genetic, Gene Library, Gene Ontology, Genome, High-Throughput Nucleotide Sequencing, Molecular Sequence Data, Sequence Analysis, RNA, Software, Transcriptome}, issn = {1471-2105}, doi = {10.1186/s12859-015-0833-4}, author = {Guillaume Rivi{\`e}re and Klopp, Christophe and Ibouniyamine, Nabihoudine and Huvet, Arnaud and Boudry, Pierre and Pascal Favrel} } @article {4553, title = {Global diversity patterns of freshwater fishes - potential victims of their own success}, journal = {Diversity and Distributions}, volume = {21}, year = {2015}, pages = {345{\textendash}356}, issn = {1472-4642}, doi = {10.1111/ddi.12271}, url = {http://onlinelibrary.wiley.com/doi/10.1111/ddi.12271/abstract}, author = {Pelayo-Villamil, Patricia and Guisande, Castor and Vari, Richard P. and Manjarrez-Hern{\~A}{\textexclamdown}ndez, Ana and Garcia-Rosello, Emilio and Gonzalez-Dacosta, Jacinto and Heine, Jurgen and Gonzalez Vilas, Luis and Patti, Bernardo and Quinci, Enza Maria and Jimenez, Luz Fernanda and Granado-Lorencio, Carlos and Pablo Tedesco and Lobo, Jorge M.} } @article {3862, title = {Gonadal transcriptome analysis of wild contaminated female European eels during artificial gonad maturation.}, journal = {Chemosphere}, volume = {139}, year = {2015}, month = {2015 Jul 6}, pages = {303-309}, abstract = {Since the early 1980s, the population of European eels (Anguilla anguilla) has dramatically declined. Nowadays, the European eel is listed on the red list of threatened species (IUCN Red List) and is considered as critically endangered of extinction. Pollution is one of the putative causes for the collapse of this species. Among their possible effects, contaminants gradually accumulated in eels during their somatic growth phase (yellow eel stage) would be remobilized during their reproductive migration leading to potential toxic events in gonads. The aim of this study was to investigate the effects of organic and inorganic contaminants on the gonad development of wild female silver eels. Female silver eels from two sites with differing contamination levels were artificially matured. Transcriptomic analyses by means of a 1000 candidate gene cDNA microarray were performed on gonads after 11weeks of maturation to get insight into the mechanisms of toxicity of contaminants. The transcription levels of several genes, that were associated to the gonadosomatic index (GSI), were involved in mitotic cell division but also in gametogenesis. Genes associated to contaminants were mainly involved in the mechanisms of protection against oxidative stress, in DNA repair, in the purinergic signaling pathway and in steroidogenesis, suggesting an impairment of gonad development in eels from the polluted site. This was in agreement with the fact that eels from the reference site showed a higher gonad growth in comparison to contaminated fish.
}, issn = {1879-1298}, doi = {10.1016/j.chemosphere.2015.06.007}, author = {Baillon, Lucie and Oses, Jennifer and Pierron, Fabien and Bureau du Colombier, Sarah and Caron, Antoine and Normandeau, Eric and Lambert, Patrick and Couture, Patrice and Labadie, Pierre and Budzinski, H{\'e}l{\`e}ne and Sylvie Dufour and Bernatchez, Louis and Baudrimont, Magalie} } @article {4203, title = {Growth, survival and the histology of the digestive tract of juvenile Osteoglossum bicirrhosum (Cuvier, 1829) fed three diets containing different protein and lipid levels}, journal = {Journal of Applied Ichthyology}, volume = {31}, year = {2015}, pages = {67{\textendash}73}, abstract = {The influence of three commercial diets with different protein and lipid contents (40\ :\ 14, 45\ :\ 8, 48\ :\ 8 protein\ :\ lipid {\textendash} P\ :\ L, in \% dry weight of diet) on growth performance, survival and the histology of the liver and intestine was analysed in early juveniles of silver arowana, Osteoglossum\ bicirrhosum, reared in captivity. Individuals (initial wet\ weight{\textendash}Wi\ =\ 1.07\ {\textpm}\ 0.04\ g; total length{\textendash}TL\ = 6.0\ {\textpm} 0.17\ cm) were raised in triplicate (n\ =\ 12 fish per tank) at 26.2\ {\textpm}\ 0.1{\textdegree}C and fed one of three commercial diets over 60\ days. At the end of the trial, survival (90.5\ {\textpm}\ 3.3\%) and condition factor (0.5\ {\textpm}\ 0.02) were not affected by dietary treatments, whereas specific growth rate, TL and W gain were lower in animals fed the 40P\ :\ 14L diet. Histological analysis revealed a larger accumulation of lipid droplets in the intestines of the group supplied with the 40P\ :\ 14L diet, as well as a larger surface of hepatic lipid vacuoles compared to the other treatments, although no signs of steatosis were observed. Juveniles fed the 48P\ :\ 8L diet displayed the lowest liver lipid accumulation; however, a protein content higher than 45\% did not improve growth performance. The intestine and liver lipid accumulation of individuals fed the 45P\ :\ 8L diet might indicate a more balanced lipidic metabolism. Intestine and liver histologies proved to be useful markers to identify the nutritional condition in juveniles of O.\ bicirrhosum, even when differences in nutritional composition were subtle (i.e. protein variation of 3\%).
}, issn = {1439-0426}, doi = {10.1111/jai.12977}, url = {http://dx.doi.org/10.1111/jai.12977}, author = {Darias, Maria and G{\'o}mez, M. A. and Salvador Tello and Gisbert, E} } @article {4198, title = {High clonality in Acropora palmata and Acropora cervicornis populations of Guadeloupe, French Lesser Antilles. }, journal = {Marine and Freshwater Research}, volume = {66}, year = {2015}, month = {2015}, pages = {847-851}, author = {Japaud, Aur{\'e}lien and Claude Bouchon and Manceau, Jean-Lou and Fauvelot, C{\'e}cile} } @article {6822, title = {How are microbial and detrital sources partitioned among and within gastropods species at East Pacific Rise hydrothermal vents?}, journal = {Marine Ecology}, volume = {36}, year = {2015}, pages = {18-34}, abstract = {Abstract For the last few decades, trophic ecology has usually been investigated by using stable isotopes. However, the isotopic signatures of potential food sources in hydrothermal vent ecosystems are often unknown and so their relative contribution to the consumers{\textquoteright} diet, as well as resource partitioning, are then difficult to estimate. Here, we used a recent Bayesian mixing model (stable isotope analysis in R, SIAR) based on δ13C and δ15N to estimate the contribution of multiple food sources to the diet of eight vent gastropods that can reach high densities at hydrothermal vents (Lepetodrilus elevatus, Lepetodrilus pustulosus, Lepetodrilus ovalis, Eulepetopsis vitrea, Cyathermia naticoides, Peltospira delicata, Peltospira operculata and Rhynchopelta concentrica). These species, known as primary consumers (mostly bacterivores and detritivores), were sampled on the South-East Pacific Rise at 17{\textdegree}25'\ S and the North-East Pacific Rise at 9{\textdegree}50'\ N and 12{\textdegree}50'\ N. Several potential food sources were sampled according to the gastropod habitat on the chimney wall, or mussel beds (proxies of Gammaproteobacteria form I RubisCO, Gammaproteobacteria form II RubisCO and Epsilonproteobacteria, biofilms of siboglinid and alvinellid tubes, biofilms of mussel shells and particulate organic matter). Some of these microbial and detrital sources were confirmed as present in the gut content of some small specimens by transmission electron microscopy. Distinct stable isotopic signatures of the potential food sources allowed calculation of their relative contributions to primary consumers{\textquoteright} diets. This revealed that gastropod species living on siboglinid or bathymodiolin habitats are usually generalists, feeding on various pools of microbial or detrital origins. For a particular habitat, sympatric gastropod species partition the food sources, thus avoiding being in competition. Only for the alvinellid habitat Peltospira spp. appeared to be more specialists as the choice of food sources is more reduced.}, keywords = {Chemosynthetic, gastropods, mixing model, Stable isotopes, trophic niche, vents}, doi = {10.1111/maec.12260}, url = {https://onlinelibrary.wiley.com/doi/abs/10.1111/maec.12260}, author = {Sylvie M Gaudron and Marqu{\'e}, Lise and Eric Thi{\'e}baut and Riera, Pascal and Duperron, S{\'e}bastien and Magali Zbinden} } @article {3864, title = {How Egg Case Proteins Can Protect Cuttlefish Offspring?}, journal = {PLoS One}, volume = {10}, year = {2015}, month = {2015}, pages = {e0132836}, abstract = {Sepia officinalis egg protection is ensured by a complex capsule produced by the female accessory genital glands and the ink bag. Our study is focused on the proteins constituting the main egg case. De novo transcriptomes from female genital glands provided essential databases for protein identification. A proteomic approach in SDS-PAGE coupled with MS unveiled a new egg case protein family: SepECPs, for Sepia officinalis Egg Case Proteins. N-glycosylation was demonstrated by PAS staining SDS-PAGE gels. These glycoproteins are mainly produced in the main nidamental glands. SepECPs share high sequence homology, especially in the signal peptide and the three cysteine-rich domains. SepECPs have a high number of cysteines, with conserved motifs involved in 3D-structure. SDS-PAGE showed that SepECPs could form dimers; this result was confirmed by TEM observations, which also revealed a protein network. This network is similar to the capsule network, and it associates these structural proteins with polysaccharides, melanin and bacteria to form a tight mesh. Its hardness and elasticity provide physical protection to the embryo. In addition, SepECPs also have bacteriostatic antimicrobial activity on GRAM- bacteria. By observing the SepECP / Vibrio aestuarianus complex in SEM, we demonstrated the ability of these proteins to agglomerate bacteria and thus inhibit their growth. These original proteins identified from the outer egg case ensure the survival of the species by providing physical and chemical protection to the embryos released in the environment without any maternal protection.
}, issn = {1932-6203}, doi = {10.1371/journal.pone.0132836}, author = {Cornet, Val{\'e}rie and Jo{\"e}l Henry and Goux, Didier and Duval, Emilie and Bernay, Beno{\^\i}t and Gildas Le Corguille and Corre, Erwan and C{\'e}line Zatylny-Gaudin} } @article {5043, title = {Hydrothermal Fe cycling and deep ocean organic carbon scavenging: Model-based evidence for significant POC supply to seafloor sediments}, journal = {EARTH AND PLANETARY SCIENCE LETTERS}, volume = {419}, year = {2015}, month = {JUN 1}, pages = {143-153}, abstract = {Submarine hydrothermal venting has recently been identified to have the potential to impact ocean biogeochemistry at the global scale. This is the case because processes active in hydrothermal plumes are so vigorous that the residence time of the ocean, with respect to cycling through hydrothermal plumes, is comparable to that of deep ocean mixing caused by thermohaline circulation. Recently, it has been argued that seafloor venting may provide a significant source of bio-essential Fe to the oceans as the result of a close coupling between Fe and organic carbon in hydrothermal plumes. But a complementary question remains to be addressed: does this same intimate Fe-C-org association in hydrothermal plumes cause any related impact to the global C cycle? To address this, SCOR-InterRidge Working Group 135 developed a modeling approach to synthesize site-specific field data from the East Pacific Rise 9 degrees 50{\textquoteright} N hydrothermal field, where the range of requisite data sets is most complete, and combine those inputs with global estimates for dissolved Fe inputs from venting to the oceans to establish a coherent model with which to investigate hydrothermal C-org cycling. The results place new constraints on submarine Fe vent fluxes worldwide, including an indication that the majority of Fe supplied to hydrothermal plumes should come from entrainment of diffuse flow. While this same entrainment is not predicted to enhance the supply of dissolved organic carbon to hydrothermal plumes by more than similar to 10\% over background values, what the model does indicate is that scavenging of carbon in association with Fe-rich hydrothermal plume particles should play a significant role in the delivery of particulate organic carbon to deep ocean sediments, worldwide. (C) 2015 Elsevier B.V. All rights reserved.
}, issn = {{0012-821X}}, doi = {{10.1016/j.epsl.2015.03.012}}, author = {German, C. R. and Legendre, L and Sander, S. G. and Nathalie Niquil and LutherIII, G. W. and Bharati, L. and Han, X. and Le Bris, Nadine} } @article {8585, title = {Identification of key marine areas for conservation based on satellite tracking of post-nesting migrating green turtles (Chelonia mydas)}, journal = {Biological Conservation}, volume = {184}, year = {2015}, month = {Jan-04-2015}, pages = {36 - 41}, issn = {00063207}, doi = {10.1016/j.biocon.2014.12.021}, url = {https://linkinghub.elsevier.com/retrieve/pii/S000632071400500X}, author = {Baudouin, Marie and de Thoisy, Beno{\^\i}t and Chambault, Philippine and Berzins, Rachel and Entraygues, Mathieu and Kelle, Laurent and Turny, Avasania and Le Maho, Yvon and Chevallier, Damien} } @article {3779, title = {Immune and Stress Responses in Oysters with Insights on Adaptation.}, journal = {Fish Shellfish Immunol}, year = {2015}, month = {2015 May 16}, abstract = {Oysters are representative bivalve molluscs that are widely distributed in world oceans. As successful colonizers of estuaries and intertidal zones, oysters are remarkably resilient against harsh environmental conditions including wide fluctuations in temperature and salinity as well as prolonged air exposure. Oysters have no adaptive immunity but can thrive in microbe-rich estuaries as filter-feeders. These unique adaptations make oysters interesting models to study the evolution of host-defense systems. Recent advances in genomic studies including sequencing of the oyster genome have provided insights into oyster{\textquoteright}s immune and stress responses underlying their amazing resilience. Studies show that the oyster genomes are highly polymorphic and complex, which may be key to their resilience. The oyster genome has a large gene repertoire that is enriched for immune and stress response genes. Thousands of genes are involved in oyster{\textquoteright}s immune and stress responses, through complex interactions, with many gene families expanded showing high sequence, structural and functional diversity. The high diversity of immune receptors and effectors may provide oysters with enhanced specificity in immune recognition and response to cope with diverse pathogens in the absence of adaptive immunity. Some members of expanded immune gene families have diverged to function at different temperatures and salinities or assumed new roles in abiotic stress response. Most canonical innate immunity pathways are conserved in oysters and supported by a large number of diverse and often novel genes. The great diversity in immune and stress response genes exhibited by expanded gene families as well as high sequence and structural polymorphisms may be central to oyster{\textquoteright}s adaptation to highly stressful and widely changing environments.
}, issn = {1095-9947}, doi = {10.1016/j.fsi.2015.05.018}, author = {Guo, Ximing and He, Yan and Zhang, Linlin and Christophe Lelong and Jouaux, Aude} } @article {4047, title = {Impact of Galvanic Anode Dissolution onMetal Trace Element Concentrations in Marine Waters}, journal = {water, air \& soil pollution}, volume = {226}, year = {2015}, month = {11/2015}, pages = {226-423}, abstract = {Submerged harbor steel structures often employ cathodic protection using galvanic anodes to guard against corrosion. A laboratory experiment, with three different cathodic protection configurations by galvanic aluminum-based anodes, was performed to evaluate the potential metal transfer from the anodic alloy dissolution into the surrounding marine water. The anode dissolution rate is proportional to the imposed current demands and induced a significant Al, In, and Zn transfer in the dissolved and particulate fractions of the corrosion product layers covering the anode surface. These layers were poorly adherent, even under low hydrodynamic conditions. Consequently, at the anode vicinity, the suspended particle matter and dissolved fraction of surrounding marine waters showed strong enrichments in Al and Zn, respectively, the values of which could potentially affect the adjacent biota. After the anode activation period, however, the metal inputs from galvanic anode dissolution are rapidly diluted by seawater renewal. At regional scale, these metal fluxes should be negligible compared to river and wastewater fluxes. These results also showed that it is difficult to assess the impact of the anode dissolution on the concentrations of metals in the natural environment, especially for metals included in trace amounts in the anode alloy (i.e., Cu, Fe, In, Mn, and Si) in the aquatic compartment.
}, keywords = {aluminium, galvanic anode, metal transfer, Seawater, Zinc}, issn = {0049-6979}, author = {Deborde, J and Refait, P and Paco Bustamante and Christelle Caplat and Basuyaux, O and Grolleau, AM and M-L Mahaut} } @article {3865, title = {Impact of seaweed beachings on dynamics of δ(15)N isotopic signatures in marine macroalgae.}, journal = {Mar Pollut Bull}, year = {2015}, month = {2015 Jun 18}, abstract = {A fine-scale survey of δ(15)N, δ(13)C, tissue-N in seaweeds was conducted using samples from 17 sampling points at two sites (Grandcamp-Maisy (GM), Courseulles/Mer (COU)) along the French coast of the English Channel in 2012 and 2013. Partial triadic analysis was performed on the parameter data sets and revealed the functioning of three areas: one estuary (EstA) and two rocky areas (GM(*), COU(*)). In contrast to oceanic and anthropogenic reference points similar temporal dynamics characterized δ(15)N signatures and N contents at GM(*) and COU(*). Nutrient dynamics were similar: the N-concentrations in seawater originated from the River Seine and local coastal rivers while P-concentrations mainly from these local rivers. δ(15)N at GM(*) were linked to turbidity suggesting inputs of autochthonous organic matter from large-scale summer seaweed beachings made up of a mixture of Rhodophyta, Phaeophyta and Chlorophyta species. This study highlights the coupling between seaweed beachings and nitrogen sources of intertidal macroalgae.
}, issn = {1879-3363}, doi = {10.1016/j.marpolbul.2015.06.010}, author = {St{\'e}phanie Lemesle and Isabelle Mussio and Anne-Marie Rusig and Florence Menet-N{\'e}d{\'e}lec and Pascal Claquin} } @article {3790, title = {Impact of sediment grain-size and biofilm age on epipelic microphytobenthos resuspension}, journal = {Journal of Experimental Biology and ecology}, volume = {467}, year = {2015}, month = {03/2015}, pages = {52-64}, type = {Journal article}, author = {Martin Ubertini and S{\'e}bastien Lefebvre and Rakotomalala, C and Francis Orvain} } @article {3743, title = {An improved taxonomic sampling is a necessary but not sufficient condition for resolving inter-families relationships in Caridean decapods.}, journal = {Genetica}, volume = {143}, year = {2015}, month = {2015 Apr}, pages = {195-205}, abstract = {During the past decade, a large number of multi-gene analyses aimed at resolving the phylogenetic relationships within Decapoda. However relationships among families, and even among sub-families, remain poorly defined. Most analyses used an incomplete and opportunistic sampling of species, but also an incomplete and opportunistic gene selection among those available for Decapoda. Here we test in the Caridea if improving the taxonomic coverage following the hierarchical scheme of the classification, as it is currently accepted, provides a better phylogenetic resolution for the inter-families relationships. The rich collections of the Mus{\'e}um National d{\textquoteright}Histoire Naturelle de Paris are used for sampling as far as possible at least two species of two different genera for each family or subfamily. All potential markers are tested over this sampling. For some coding genes the amplification success varies greatly among taxa and the phylogenetic signal is highly saturated. This result probably explains the taxon-heterogeneity among previously published studies. The analysis is thus restricted to the genes homogeneously amplified over the whole sampling. Thanks to the taxonomic sampling scheme the monophyly of most families is confirmed. However the genes commonly used in Decapoda appear non-adapted for clarifying inter-families relationships, which remain poorly resolved. Genome-wide analyses, like transcriptome-based exon capture facilitated by the new generation sequencing methods might provide a sounder approach to resolve deep and rapid radiations like the Caridea.
}, issn = {1573-6857}, doi = {10.1007/s10709-014-9807-0}, author = {Aznar-Cormano, L and Brisset, J and Chan, T-Y and Laure Corbari and Puillandre, N and Utge, J and Magali Zbinden and Zuccon, D and Samadi, S} } @article {5041, title = {Incorporating food-web parameter uncertainty into Ecopath-derived ecological network indicators}, journal = {ECOLOGICAL MODELLING}, volume = {313}, year = {2015}, month = {OCT 10}, pages = {29-40}, abstract = {Ecological network analysis (ENA) provides numerous ecosystem level indices offering a valuable approach to compare and categorize the ecological structure and function of ecosystems. The inclusion of ENA methods in Ecopath with Ecosim (EwE) has insured their continued contribution to ecosystem-based management. In EwE, ENA-derived ecological conclusions are currently based on single values of ENA indices calculated from a unique input flow matrix. Here, we document an easy-to-use routine that allows EwE users to incorporate uncertainty in EwE input data into the calculation of ENA indices. This routine, named ENAtool, is a suite of Matlab functions that performs three main steps: (1) import of an existing Ecopath model and its associated parameter uncertainty values in the form of uncertainty intervals into Matlab; (2) generation of an ensemble of Ecopath models with the same structure as the original, and with parameter values varying based on the prescribed uncertainty limits; and (3) calculation of a set of 13 ENA indices for each ensemble member (one set of flow values) and of summary statistics across the whole ensemble. This novel routine offers the opportunity to calculate ENA indices ranges and confidence intervals, and thus to perform quantitative data analyses. An application of ENAtool on a pre-existing Ecopath model of the Bay of Biscay continental shelf is presented, with a focus on the robustness of previously published ENA-based ecological traits of this ecosystem when the newly introduced uncertainty values are added. We also describe the sensitivity of the ENAtool results to both the number of ensemble members used and to the uncertainty interval set around each input parameter. Ecological conclusions derived from EwE, particularly those regarding the comparison of structural and functional elements for a range of ecosystem types or the assessment of ecosystem properties along gradients of environmental conditions or anthropogenic disturbances, will gain in statistical interpretability. (C) 2015 Elsevier B.V. All rights reserved.
}, issn = {{0304-3800}}, doi = {{10.1016/j.ecolmodel.2015.05.036}}, author = {Guesnet, Vanessa and G{\'e}raldine Lassalle and Chaalali, Aur{\'e}lie and Kearney, Kelly and Saint-B{\'e}at, B and Karimi, Battle and Grami, Boutheina and Samuele Tecchio and Nathalie Niquil and Lobry, Jeremy} } @article {3659, title = {{Individual repeatability of foraging behaviour in a marine predator, the great cormorant, Phalacrocorax carbo}}, journal = {Animal Behaviour}, volume = {103}, year = {2015}, pages = {83{\textendash}90}, abstract = {Intrapopulation variability, especially individual foraging specialization, has been investigated in many species. Nevertheless, the repeatability of foraging behaviour remains poorly understood. In particular, whether individuals differ in their respective degrees of repeatability still remains to be determined. Here, we estimated foraging behaviour repeatability in the great cormorant, at both the population and the individual levels, and assessed the effect of repeatability on individual foraging performance. At the population level, we found that some foraging variables were more repeatable (e.g. departure angle and trip duration) than others (e.g. time spent underwater per trip). At the individual level, we found differences in the degree of repeatability for each foraging variable, highlighting the presence of both highly flexible and highly consistent individuals in the population. The effect of repeatability on individual performance depended on the considered timescale: individual-level repeatability of time spent underwater per dive was negatively related to foraging efficiency while individual-level repeatability of time spent underwater per trip was positively related to foraging efficiency. Overall, our study demonstrates the importance of studying repeatability at the individual level and shows how both flexibility and consistency in animal behaviour shape their ability to extract energy from the environment.}, keywords = {behavioural consistency, foraging efficiency, individual flexibility, individual repeatability, piscivorous bird}, issn = {00033472}, doi = {10.1016/j.anbehav.2015.02.008}, url = {http://www.sciencedirect.com/science/article/pii/S0003347215000652}, author = {Potier, Simon and Alexandre Carpentier and Gr{\'e}millet, David and Leroy, Boris and Lescro{\"e}l, Am{\'e}lie} } @book {4364, title = {Indo-Pacific Sicydiine Gobies: biodiversity, life traits and conservation.}, year = {2015}, pages = {256}, publisher = { Soci{\'e}t{\'e} Fran{\c c}aise d{\textquoteright}Icthyologie}, organization = { Soci{\'e}t{\'e} Fran{\c c}aise d{\textquoteright}Icthyologie}, address = {Paris}, author = {Philippe Keith and Clara Lord and Maeda, Ken} } @article {4202, title = {Influence of dietary protein and lipid levels on growth performance and the incidence of cannibalism in Pseudoplatystoma punctifer~(Castelnau, 1855) larvae and early juveniles}, journal = {Journal of Applied Ichthyology}, volume = {31}, year = {2015}, pages = {74{\textendash}82}, abstract = {The aim of the study was to evaluate the influence of different dietary protein and lipid levels and their ratios on larval growth, survival and the incidence of cannibalism in Pseudoplatystoma punctifer. Larvae were raised in a recirculation system from 3 to 26\ days post-fertilization (dpf) (2{\textendash}25\ days post hatching, dph) at an initial density of 40 larvae L-1, 27.8\ {\textpm}\ 0.65{\textdegree}C and 0L\ :\ 24D photoperiod. Larvae were fed from 4 to 12 dpf with Artemia nauplii and weaned onto four different compound diets from 13 dpf within 3\ days, then fed exclusively with these diets until 26 dpf. These diets contained 30\ :\ 15, 30\ :\ 10, 45\ :\ 15 or 45\ :\ 10 protein\ :\ lipid (P\ :\ L) (in \% of dry matter) levels. A control group was fed Artemia nauplii until 17 dpf and weaned thereafter with the 45P\ :\ 10L compound diet. The experiment was carried out in triplicate. Results showed higher growth and survival rates and lower incidence of cannibalism in the group fed the 45P\ :\ 15L diet than in the other treatments. Differences in larval survival and growth performance were associated with the higher protein and lipid content rather than the protein\ :\ lipid ratio of this diet. When comparing diets with the same protein level, the increase in dietary lipid led to an improvement in growth, suggesting that energy from lipids spares protein for growth in P.\ punctifer fingerlings. An Artemia feeding period longer than 12 dpf did not improve larval growth or survival.
}, issn = {1439-0426}, doi = {10.1111/jai.12978}, url = {http://dx.doi.org/10.1111/jai.12978}, author = {Darias, Maria and Castro-Ruiz, D and Estivals, G and Quazuguel, Patrick and Fern{\'a}ndez, C and Jesus Nu{\~n}ez-Rodriguez and Clota, F. and Gilles, S and Garc{\'\i}a-D{\'a}vila, C and Gisbert, E. and Cahu, Chantal L} } @article {4021, title = {Inputs from Microchemistry to the understanding of three Sicydiinae species{\textquoteright} life cycle. }, journal = {Life and environment}, volume = {65}, year = {2015}, pages = {73-84}, keywords = {amphidromy, LIFE HISTORY, MICROCHEMISTRY, Sicydiinae}, author = {Taillebois, Laura and H{\'e}l{\`e}ne Tabouret and P{\'e}cheyran, C and Philippe Keith} } @article {4100, title = {Inputs from Microchemistry to the understanding of three Sicydiinae species{\textquoteright} life cycle. }, journal = { Life and environment.}, volume = {65}, year = {2015}, pages = {73-84}, keywords = {amphidromy, LIFE HISTORY, MICROCHEMISTRY, Sicydiinae}, author = {Taillebois, Laura and H{\'e}l{\`e}ne Tabouret and P{\'e}cheyran, C and Philippe Keith} } @proceedings {3546, title = {Installation of microphytobenthos biofilm on concretes of different compositions - Mise en place d{\textquoteright}un biofilm microphytobenthique sur des b{\'e}tons de diff{\'e}rentes compositions}, volume = {1}, year = {2015}, month = {01/2015}, pages = {127-135}, edition = {M. Boutouil \& S. Leboulanger}, address = {ESITC Caen}, isbn = {978-2-95517664-0-5}, author = {Leroy, Fanny and Lestarquit, Mabel and Anne-Marie Rusig and Isabelle Mussio and Roussel, D{\'e}borah and Napol{\'e}on, Camille and Pascal Claquin} } @article {4003, title = {Integrating Ecosystem Engineering and Food Web Ecology: Testing the Effect of Biogenic Reefs on the Food Web of a Soft-Bottom Intertidal Area}, journal = {PLoS ONE}, volume = {10}, year = {2015}, month = {10/2015}, pages = {e0140857}, abstract = {The potential of ecosystem engineers to modify the structure and dynamics of food webs has recently been hypothesised from a conceptual point of view. Empirical data on the integration of ecosystem engineers and food webs is however largely lacking. This paper investigates the hypothesised link based on a field sampling approach of intertidal biogenic aggregations created by the ecosystem engineer Lanice conchilega (Polychaeta, Terebellidae). The aggregations are known to have a considerable impact on the physical and biogeochemical characteristics of their environment and subsequently on the abundance and biomass of primary food sources and the macrofaunal (i.e. the macro-, hyper- and epibenthos) community. Therefore, we hypothesise that L. conchilega aggregations affect the structure, stability and isotopic niche of the consumer assemblage of a soft-bottom intertidal food web. Primary food sources and the bentho-pelagic consumer assemblage of a L. conchilega aggregation and a control area were sampled on two soft-bottom intertidal areas along the French coast and analysed for their stable isotopes. Despite the structural impacts of the ecosystem engineer on the associated macrofaunal community, the presence of L. conchilega aggregations only has a minor effect on the food web structure of soft-bottom intertidal areas. The isotopic niche width of the consumer communities of the L. conchilega aggregations and control areas are highly similar, implying that consumer taxa do not shift their diet when feeding in a L. conchilega aggregation. Besides, species packing and hence trophic redundancy were not affected, pointing to an unaltered stability of the food web in the presence of L. conchilega.
}, author = {De Smet, Bart and J{\'e}r{\^o}me Fournier and De Troch, Marleen and Vincx, Magda and Vanaverbeke, Jan} } @article {3847, title = {Invalidity of Gasterosteus gymnurus (Cuvier, 1829) (Actinopterygii, Gasterosteidae) according to integrative taxonomy. }, journal = {Cybium}, volume = {39}, year = {2015}, pages = {37-45}, keywords = {Cytochrome C, Gasterosteidae Gasterosteus aculeatus Gasterosteus gymnurus Gasterosteus islandicus, Integrative taxonomy, oxidase subunit 1}, author = {Denys, Ga{\"e}l and Geiger Mathias and Persat, Henri and Philippe Keith and Dettai, Agn{\`e}s} } @article {3848, title = {INVENTAIRES ET ATLAS NATIONAUX DE DISTRIBUTION : POUR UNE APPROCHE PLUS IT{\'E}RATIVE ET UN R{\'E}{\'E}QUILIBRAGE TAXINOMIQUE}, journal = {Revue d{\textquoteright}Ecologie (Terre et Vie)}, volume = {70}, year = {2015}, pages = {97-120}, author = {Julien Touroult and Laurent PONCET and Philippe Keith and Vincent Boullet and G{\'e}rard ARNAL and Herv{\'e} Brustel and Jean-Philippe SIBLET} } @article {4049, title = {Invertebrate assemblage responses and the dual roles of resistance and resilience to drying in intermittent rivers}, journal = {Aquatic Sciences}, year = {2015}, abstract = {ABSTRACT: Intermittent rivers are naturally dynamic ecosystems in which flow cessation and riverbed drying cause temporal fluctuations in aquatic biodiversity. We analysed datasets from intermittent rivers in different climate zones across the world to examine responses of aquatic macroinvertebrate assemblages to drying, in relation to both taxonomic composition and traits of resistance and resilience. First, we compared the differences in taxonomic richness and turnover and in trait diversity, richness and redundancy before and after intermittent sites dried with the differences in concurrently sampled perennial sites. We found such high levels of variation in the before-after differences at intermittent and perennial sites that we could not detect statistical differences between them. Second, we examined the effects of climate (arid, Mediterranean, temperate) and durations of dry and post-dry (flowing) periods on responses to drying at intermittent sites. Only climate had a detectable effect; the proportion of taxa at intermittent sites that persisted through drying-rewetting phases was greatest in arid-zone rivers. Regardless of climate, the invertebrates that persisted at intermittent sites were dominated by taxa resistant to drying. By contrast, taxa that persisted at perennial sites had fewer traits conferring resistance but more conferring resilience. The contributions of resistance and resilience combined with the presence of both intermittent and perennial reaches likely supports the long-term stability and persistence of communities in intermittent rivers, despite the inherently high variation in short-term responses to drying.
}, doi = {DOI:10.1007/s00027-015-0427-2 }, author = {C. Leigh and N. Bonada and A.J. Boulton and B. Hugueny and S.T. Larned and R. Vander Vorste and T. Datry} } @inbook {4008, title = {Invert{\'e}br{\'e}s marins introduits dans le Golfe Normand-Breton depuis 1920}, booktitle = {Atlas Permanent de la mer et du littoral}, volume = {7}, number = {51-53}, year = {2015}, publisher = {Universit{\'e} de Nantes}, organization = {Universit{\'e} de Nantes}, address = {Nantes}, author = {Laurent Godet and Patrick Le Mao and Eric Thi{\'e}baut and Christian Reti{\`e}re and Louis Cabioc{\textquoteright}h and Franck Gentil and Nicolas Desroy and J{\'e}r{\^o}me Fournier} } @article {3879, title = {La p{\^e}che aux {\^\i}les Saint-Paul et Amsterdam}, journal = {Fisheries Centre Research Reports}, volume = {23}, year = {2015}, pages = {37-45}, author = {Patrice Pruvost and Guy Duhamel and Le Manach, Frederic and Palomares, M L D} } @article {Boulenger2015427, title = {Length-weight relationships of the silver European eel, Anguilla anguilla (Linnaeus, 1758), across its geographic range}, journal = {Journal of Applied Ichthyology}, volume = {31}, number = {2}, year = {2015}, note = {cited By 3}, pages = {427-430}, doi = {10.1111/jai.12685}, url = {https://onlinelibrary.wiley.com/doi/abs/10.1111/jai.12685}, author = {Boulenger, C. and Anthony Acou and Thomas Trancart and Crivelli, A.J. and Eric Feunteun} } @article {Laugier2015237, title = {Life history of the Small Sandeel, Ammodytes tobianus, inferred from otolith microchemistry. A methodological approach}, journal = {Estuarine, Coastal and Shelf Science}, volume = {165}, year = {2015}, note = {cited By 6}, pages = {237-246}, doi = {10.1016/j.ecss.2015.05.022}, url = {https://www.sciencedirect.com/science/article/pii/S0272771415001717}, author = {Laugier, F. and Eric Feunteun and P{\'e}cheyran, C. and Alexandre Carpentier} } @article {6825, title = {Long-term maintenance and public exhibition of deep-sea hydrothermal fauna: The AbyssBox project}, journal = {Deep Sea Research Part II: Topical Studies in Oceanography}, volume = {121}, year = {2015}, pages = {137 - 145}, abstract = {The AbyssBox project aims to provide the first permanent public exhibition of live deep-sea hydrothermal fauna maintained at in situ pressure. AbyssBox is a pressurized aquarium designed to function permanently. Here we present details of the project after the public exhibition functioned for more than three years at Oc{\'e}anopolis aquarium in Brest, France. We also describe the AbyssBox pressure aquarium, and provide data and observations on vent shrimp (Mirocaris fortunata) and crabs (Segonzacia mesatlantica) that were sampled from 1700m depth at the Lucky Strike vent field (Mid-Atlantic Ridge) during different cruises. While mortalities exceeded 50\% during the first days following sampling, the remaining animals appeared to acclimate fairly well. Some crabs have now been kept for more than 2 years, and some shrimp have spent more than 3 years in captivity. Primarily designed for a public exhibition, the AbyssBox is already used for scientific purposes, since it provides one of the most effective tools for long-term rearing of deep-sea fauna. AbyssBox is a first step towards maintaining a variety of deep-sea fauna year-round at in situ pressure, which will serve both scientific and public interests.}, keywords = {AbyssBox, Aquaria, Aquariology, Deep waters, Hydrostatic Pressure, Hydrothermal Vents, Public exhibition, Scientific experiments}, issn = {0967-0645}, doi = {https://doi.org/10.1016/j.dsr2.2015.05.002}, url = {http://www.sciencedirect.com/science/article/pii/S0967064515001460}, author = {Bruce Shillito and Juliette Ravaux and Sarrazin, Jozee and Magali Zbinden and Sarradin, Pierre-Marie and Barthelemy Dominique} } @article {9056, title = {Long-term maintenance and public exhibition of deep-sea hydrothermal fauna: The AbyssBox project}, journal = {Deep Sea Research Part II: Topical Studies in Oceanography}, volume = {121}, year = {2015}, month = {Jan-11-2015}, pages = {137 - 145}, issn = {09670645}, doi = {10.1016/j.dsr2.2015.05.002}, url = {https://linkinghub.elsevier.com/retrieve/pii/S0967064515001460}, author = {Bruce Shillito and Juliette Ravaux and Sarrazin, Jozee and Zbinden, M. and Sarradin, Pierre-Marie and Barthelemy, D.} } @article {Caraguel2015435, title = {Mass marking of stocked European glass eels (Anguilla anguilla) with alizarin red S}, journal = {Ecology of Freshwater Fish}, volume = {24}, number = {3}, year = {2015}, note = {cited By 11}, pages = {435-442}, doi = {10.1111/eff.12158}, url = {https://onlinelibrary.wiley.com/doi/abs/10.1111/eff.12158}, author = {Caraguel, J.-M. and Charrier, F. and Mazel, V. and Eric Feunteun} } @inbook {4009, title = {Milieux de vie des mammif{\`e}res de Bretagne}, booktitle = {Atlas des mammif{\`e}res de Bretagne}, year = {2015}, pages = {16-29}, publisher = {Locus Solus}, organization = {Locus Solus}, edition = {GMB}, address = {Loperec}, author = {J{\'e}r{\^o}me Fournier and Patrick Le Mao and Franck Simmonet} } @article {4232, title = {Modelling the effect of Cerastoderma edule bioturbation on microphytobenthos resuspension towards the planktonic food web of estuarine ecosystem}, journal = {Ecological Modelling}, volume = {316}, year = {2015}, month = {09/2015}, pages = {155-167}, abstract = {Microphytobenthos (MPB) represents an important food source for primary consumers in estuarine ecosystems and the availability of MPB as food items results from complex physical, chemical, and biological interactions. In Baie des Veys (Lower Normandy, France), the common cockle Cerastoderma edule constitutes the major bioturbator in the ecosystem in terms of biomass. In this ecosystem, cockle bioturbation is a key process regulating the MPB erosion flux in the water column. This bivalve intensely modifies the top layer of the sediment by increasing the sediment erodibility and the fluxes of suspended chlorophyll a through the valve movements. More precisely, cockle bioturbation destabilizes the sediment surface by creating a biogenic layer that is easily eroded with tidal hydrodynamic forces. Associated MPB can then be exported to the water column to fuel higher trophic levels of the planktonic food web. The aim of this study was to develop a numerical model that reproduces the export of MPB associated to the biogenic layer erosion. Kinetics of suspended MPB, in response to increasing stress, were obtained from flume experiments in lab controlled conditions and in situ natural conditions. Following this, the suspended MPB were analyzed to respectively parameterize the model by (1) a calibration approach, and (2) an independent validation. The analysis has highlighted that the higher the biomass of cockles, the higher the MPB resuspension rates. Our model consistently reproduces the tendency encountered in laboratory analysis and with in situ natural conditions. During the validation, a small site-specific lack of adjustment was identified, but, among the macrozoobenthic community, the model can be significantly improved by considering the bioturbation activities of another ecosystem engineer, Pygospio elegans. This study thus provides reliable estimates of the daily food availability from benthic primary consumers in an estuarine system where cockles dominate the bioturbating assemblage. This model can be inserted in various model designs (0D, 1D-vertical or 3D).
}, author = {Rakotomalala, C and Karine Granger{\'e} and Martin Ubertini and For{\^e}t, M and Francis Orvain} } @article {3626, title = {Molecular characterization of peptide fractions of a Tilapia (Oreochromis niloticus) by-product hydrolysate and in vitro evaluation of antibacterial activity}, journal = {Process Biochemistry}, volume = {50}, year = {2015}, pages = {487-492}, author = {Robert, Marie and C{\'e}line Zatylny-Gaudin and Fournier, Vincent and Corre, Erwan and Gildas Le Corguille and Bernay, Beno{\^\i}t and Jo{\"e}l Henry} } @article {5042, title = {The mosaic of habitats of the Seine estuary: Insights from food-web modelling and network analysis}, journal = {ECOLOGICAL MODELLING}, volume = {312}, year = {2015}, month = {09/2015}, pages = {91-101}, abstract = {Ecological network analysis was applied in the Seine estuary ecosystem, northern France, integrating ecological data from the years 1996 to 2002. The Ecopath with Ecosim (EwE) approach was used to model the trophic flows in 6 spatial compartments leading to 6 distinct EwE models: the navigation channel and the two channel flanks in the estuary proper, and 3 marine habitats in the eastern Seine Bay. Each model included 12 consumer groups, 2 primary producers, and one detritus group. Ecological network analysis was performed, including a set of indices, keystoneness, and trophic spectrum analysis to describe the contribution of the 6 habitats to the Seine estuary ecosystem functioning. Results showed that the two habitats with a functioning most related to a stressed state were the northern and central navigation channels, where building works and constant maritime traffic are considered major anthropogenic stressors. The strong top-down control highlighted in the other 4 habitats was not present in the central channel, showing instead (i) a change in keystone roles in the ecosystem towards sediment-based, lower trophic levels, and (ii) a higher system omnivory. The southern channel evidenced the highest system activity (total system throughput), the higher trophic specialisation (low system omnivory), and the lowest indication of stress (low cycling and relative redundancy). Marine habitats showed higher fish biomass proportions and higher transfer efficiencies per trophic levels than the estuarine habitats, with a transition area between the two that presented intermediate ecosystem structure. The modelling of separate habitats permitted disclosing each one{\textquoteright}s response to the different pressures, based on their a priori knowledge. Network indices, although non-monotonously, responded to these differences and seem a promising operational tool to define the ecological status of transitional water ecosystems. (C) 2015 Elsevier B.V. All rights reserved.
}, issn = {{0304-3800}}, doi = {{10.1016/j.ecolmodel.2015.05.026}}, author = {Samuele Tecchio and Rius, Armonie Tous and Dauvin, Jean-Claude and Lobry, Jeremy and G{\'e}raldine Lassalle and Morin, Jocelyne and Bacq, Nicolas and Cachera, Marie and Chaalali, Aur{\'e}lie and Villanueva, Maria Ching and Nathalie Niquil} } @article {4398, title = {Movement patterns and home range of wild and re-stocked Arapaima gigas (Schinz, 1822) monitored by radio-telemetry in Lake Imiria, Peru}, journal = {Journal of Applied Ichthyology}, volume = {31}, year = {2015}, pages = {10{\textendash}18}, issn = {1439-0426}, doi = {10.1111/jai.12972}, url = {http://dx.doi.org/10.1111/jai.12972}, author = {Jesus Nu{\~n}ez-Rodriguez and Fabrice Duponchelle and Cotrina-Doria, M. and Renno, Jean-Francois and Ch{\'a}vez Veintemilla, C and Rebaza, C. and Deza, S. and Garc{\'\i}a-D{\'a}vila, C and Chu-Koo, F and Salvador Tello and Baras, Etienne} } @article {3775, title = {Multi-causality and spatial non-stationarity in the determinants of groundwater crustacean diversity in Europe}, journal = {Ecography}, volume = {38}, year = {2015}, month = {05/2015}, pages = {531{\textendash}540}, type = {Research}, author = {D. Eme and M. Zagmajster and C. Fiser and D. Galassi and P. Marmonier and F. Stoch and J. F. Cornu and Thierry Oberdorff and F. Malard} } @article {5048, title = {A new modeling approach to define marine ecosystems food-web status with uncertainty assessment}, journal = {Progress in Oceanography}, volume = {135}, year = {2015}, pages = {37{\textendash}47}, author = {Chaalali, Aur{\'e}lie and Saint-B{\'e}at, B and G{\'e}raldine Lassalle and Le Loc{\textquoteright}h, Francois and Samuele Tecchio and Safi, Georges and Savenkoff, Claude and Lobry, Jeremy and Nathalie Niquil} } @article {4363, title = {A new species of Sicyopterus (Teleostei: Gobiidae) from Indonesia. }, journal = {Cybium}, volume = {39}, year = {2015}, pages = {243-248}, author = {Philippe Keith and Clara Lord and Sauri, S and Fr{\'e}d{\'e}ric Busson and Hubert, Nicolas and Hadiaty, Renny} } @article {4103, title = {A new Stiphodon from Indonesia (Teleostei: Gobiidae)}, journal = {Cybium}, volume = {39.}, year = {2015}, pages = {219-225}, keywords = {Freshwater, Gobiidae, Indonesia, New species, Stiphodon aureofuscus}, author = {Philippe Keith and Fr{\'e}d{\'e}ric Busson and Sauri, S and Hubert, N and Hadiaty, Renny} } @article {4360, title = {A new Stiphodon from Indonesia (Teleostei: Gobiidae)}, journal = {Cybium}, volume = {39}, year = {2015}, pages = {219-225}, keywords = {Indonesia, New species, Stiphodon}, author = {Philippe Keith and Clara Lord and Fr{\'e}d{\'e}ric Busson and Sauri, S and Hubert, Nicolas and Hadiaty, Renny} } @article {4154, title = {The oldest notostracan (Upper Devonian Strud Locality, Belgium)}, journal = {Palaeontology}, volume = {58}, year = {2015}, month = {01/2015}, pages = {497-509}, author = {Linda Lagebro and Pierre Gueriau and Thomas Hegna and Nicolas Rabet and Aodh{\'a}n Butler and Graham Budd} } @article {4196, title = {Ontogenetic dietary and habitat shifts in Goliath grouper, Epinephelus itajara, from French Guiana.}, journal = {Endangered species Research}, volume = {27}, year = {2015}, month = {2015}, pages = {155-168}, author = {C Artero and C.C. Koenig and P. Richard and R. Berzins and G. Guillou and C. Bouchon and L. Lampert} } @article {4234, title = {Opinion Paper: how vulnerable are Amazonian freshwater fishes to ongoing climate change?}, journal = {Journal of Applied Ichthyology}, volume = {31}, year = {2015}, pages = {4-9}, abstract = {With around 15\% of all described freshwater fish species in the world, the Amazon Basin is by far the most fish species- rich freshwater ecosystem on the planet. In this opinion paper, a rough evaluation is given on just how vulnerable Amazonian freshwater fishes are to ongoing climate change. And to argue that current anthropogenic threats through rapid expansion of human infrastructure and economic activ- ities in the basin could be a far greater threat to fish commu- nities than those anticipated by any future climate change. Conservation actions in the Amazon Basin should focus preferentially on reducing the impacts of present-day anthro- pogenic threats.
}, doi = {doi: 10.1111/jai.12971}, author = {Thierry Oberdorff and C. J{\'e}z{\'e}quel and M. Campero and F. Carvajal-Vallejos and J.F. Cornu and M.S. Dias and Fabrice Duponchelle and J.A. Maldonado-Ocampo and H. Ortega and J.F. Renno and Pablo Tedesco} } @article {4552, title = {Opinion Paper: how vulnerable are Amazonian freshwater fishes to ongoing climate change?}, journal = {Journal of Applied Ichthytology}, volume = {31}, year = {2015}, pages = {4-9}, author = {Thierry Oberdorff and J{\'e}z{\'e}quel, C{\'e}line and Campero, Melina and Carvajal-Vallejos, Fernando and Cornu, Jean-Fran{\c c}ois and Dias, Murilo S and Fabrice Duponchelle and Maldonado, Mabel and H. Ortega and Renno, Jean-Francois and Pablo Tedesco} } @article {4056, title = {Parental exposure to the herbicide diuron results in oxidative DNA damage to germinal cells of the Pacific oyster Crassostrea gigas.}, journal = {Comp Biochem Physiol C Toxicol Pharmacol}, year = {2015}, month = {2015 Nov 21}, abstract = {Chemical pollution by pesticides has been identified as a possible contributing factor to the massive mortality outbreaks observed in Crassostrea gigas for several years. A previous study demonstrated the vertical transmission of DNA damage by subjecting oyster genitors to the herbicide diuron at environmental concentrations during gametogenesis. This trans-generational effect occurs through damage to genitor-exposed gametes, as measured by the comet-assay. The presence of DNA damage in gametes could be linked to the formation of DNA damage in other germ cells. In order to explore this question, the levels and cell distribution of the oxidized base lesion 8-oxodGuo were studied in the gonads of exposed genitors. High-performance liquid chromatography coupled with UV and electrochemical detection analysis showed an increase in 8-oxodGuo levels in both male and female gonads after exposure to diuron. Immunohistochemistry analysis showed the presence of 8-oxodGuo at all stages of male germ cells, from early to mature stages. Conversely, the oxidized base was only present in early germ cell stages in female gonads. These results indicate that male and female genitors underwent oxidative stress following exposure to diuron, resulting in DNA oxidation in both early germ cells and gametes, such as spermatozoa, which could explain the transmission of diuron-induced DNA damage to offspring. Furthermore, immunostaining of early germ cells seems indicates that damages caused by exposure to diuron on germ line not only affect the current sexual cycle but also could affect future gametogenesis.
}, issn = {1532-0456}, doi = {10.1016/j.cbpc.2015.11.002}, author = {Barranger, Audrey and Clothilde Heude-Berthelin and Rouxel, Julien and Adeline, B{\'e}atrice and Benabdelmouna, Abdellah and Burgeot, Thierry and Akcha, Farida} } @article {4397, title = {Periodic life history strategy of Psectrogaster rutiloides, Kner 1858, in the Iquitos~region, Peruvian Amazon}, journal = {Journal of Applied Ichthyology}, volume = {31}, year = {2015}, pages = {31{\textendash}39}, issn = {1439-0426}, doi = {10.1111/jai.12974}, url = {http://dx.doi.org/10.1111/jai.12974}, author = {Garc{\'\i}a-Vasquez, Aurea and Vargas, Gladys and S{\'a}nchez, H and Salvador Tello and Fabrice Duponchelle} } @article {4158, title = {Photosystem-II shutdown evolved with Nitrogen fixation in the unicellular diazotroph Crocosphaera watsonii.}, journal = {Environ Microbiol}, year = {2015}, month = {2015 Dec 7}, abstract = {Protection of nitrogenase from oxygen in unicellular cyanobacteria is obtained by temporal separation of photosynthesis and diazotrophy, through transcriptional and translational regulations of nitrogenase. But diazotrophs can face environmental situations in which N2 fixation occurs significantly in the light, and we believe that another control operates to make it possible. The nighttime shutdown of PSII activity is a peculiar behavior that discriminates C. watsonii WH8501 from any other phototroph, whether prokaryote or eukaryote. This phenomenon is not only due to the plastoquinone pool redox status and suggests that the sentinel D1 protein, expressed in periods of nitrogen fixation, is inactive. Results demonstrate a tight constraint of oxygen evolution in C. watsonii as additional protection of nitrogenase activity and suggest a possible recycling of cellular components.
}, issn = {1462-2920}, doi = {10.1111/1462-2920.13157}, author = {Rabouille, Sophie and Claquin, Pascal} } @article {4098, title = {Population structure of the Asian amphidromous Sicydiinae goby, Stiphodon percnopterygionus with comments on larval dispersal in the northwest Pacific Ocean. }, journal = {Life and Environment}, volume = {65}, year = {2015}, pages = {63-71}, keywords = {amphidromy, larval dispersal, POPULATION STRUCTURE, Sicydiinae, Stiphodon}, author = {Clara Lord and Maeda, Ken and Philippe Keith and Watanabe, S} } @article {4019, title = {Population structure of the Asian amphidromous Sicydiinae goby, Stiphodon percnopterygionus with comments on larval dispersal in the northwest Pacific Ocean.}, journal = {Life and Environment,}, volume = { 65}, year = {2015}, pages = {63-71}, keywords = {amphidromy, Larval dispersa, Population structure., Sicydiinae, Stiphodon}, author = {Clara Lord and Maeda, Ken and Philippe Keith and Watanabe, S} } @article {6880, title = {The potential for climate-driven bathymetric range shifts: sustained temperature and pressure exposures on a marine ectotherm, Palaemonetes varians}, journal = {Royal Society Open Science}, volume = {2}, year = {2015}, month = {Jan-11-2015}, pages = {150472}, issn = {2054-5703}, doi = {10.1098/rsos.150472}, url = {https://royalsocietypublishing.org/doi/10.1098/rsos.150472}, author = {Morris, J. P. and Thatje, S. and Cottin, D. and Oliphant, A. and Brown, A. and Bruce Shillito and Juliette Ravaux and Hauton, C.} } @article {Josset2015150, title = {Pre-release processes influencing short-term mortality of glass eels in the French eel (Anguilla anguilla, Linnaeus 1758) stocking programme}, journal = {ICES Journal of Marine Science}, volume = {73}, number = {1}, year = {2015}, note = {cited By 6}, pages = {150-157}, doi = {10.1093/icesjms/fsv074}, url = {https://academic.oup.com/icesjms/article/73/1/150/2458188}, author = {Josset, Q. and Thomas Trancart and Mazel, V. and Charrier, F. and Frott, L. and Anthony Acou and Eric Feunteun} } @article {4159, title = {Production of exopolymers (EPS) by cyanobacteria: impact on the carbon-to-nutrient ratio of the particulate organic matter}, journal = {Aquatic Ecology}, year = {2015}, pages = {1-16}, abstract = {Freshwater cyanobacteria can produce large amount of mucilage, particularly during large blooms. The production of these carbon-rich exopolymers (EPS) should influence the carbon-to-nutrient ratios of the organic matter (OM), which are regularly used as a proxy for the herbivorous food quality. However, little is known about the consequences of EPS production on the carbon-to-nutrient ratio of the OM. Two EPS forms can be distinguished: the free fraction composed of soluble extracellular polymeric substances (S-EPS) and the particulate fraction corresponding to the transparent exopolymer particles (TEP). The aim of the study was to determine whether the TEP and S-EPS productions by cyanobacteria influence the carbon-to-nutrient ratios of the particulate OM (POM). Five cyanobacteria species were grown in batch culture and characterized in terms of photosynthetic activity, EPS production, and C, N, P
contents. The variability in EPS production was compared with the variability in stoichiometry of the POM. Most of cyanobacteria live in association with
heterotrophic bacteria (HB) within the mucilage. The effect of the presence/absence of HB on EPS production and the carbon-to-nutrient ratios of the POM was also characterized for the cyanobacteria Microcystis aeruginosa. We showed that TEP production increased the carbon-to-nutrient ratios of the POM in
the absence of HB, while the stoichiometry did not significantly change when HB were present. The C:N ratio of the POM decreased with production of\ S-EPS by the five species. Lastly, the three colonial species (Chroococcales) tend to produce more TEP than the two filamentous species (Oscillatoriales), with the two picocyanobacteria being the most productive of both TEP and S-EPS.
DNA methylation within promoter regions (PRDM) controls vertebrate early gene transcription and thereby development, but is neglected outside this group. However, epigenetic features in the oyster Crassostrea gigas suggest functional significance of PDRM in invertebrates. To investigate this, reporter constructs containing in vitro methylated oyster Hox gene promoters were transfected into oyster embryos. The influence of in vivo methylation was studied using bisulfite sequencing and DNA methyltransferase inhibition during development. Our results demonstrate that methylation controls the transcriptional activity of the promoters investigated, unraveling a functional role for PRDM in a lophotrochozoan, an important finding regarding the evolution of epigenetic regulation.
}, keywords = {Animals, Azacitidine, CHO Cells, Crassostrea, Cricetinae, Cricetulus, DNA (Cytosine-5-)-Methyltransferase, DNA Methylation, Embryo, Nonmammalian, Enzyme Inhibitors, Gene Expression Regulation, Developmental, Homeodomain Proteins, Invertebrates, Promoter Regions, Genetic, Transfection}, issn = {1873-3468}, doi = {10.1016/j.febslet.2015.04.043}, author = {Saint-Carlier, Emma and Guillaume Rivi{\`e}re} } @article {3385, title = {Relationships between biodiversity and the stability of marine ecosystems: Comparisons at a European scale using meta-analysis}, journal = {Journal of Sea Research}, volume = {98}, year = {2015}, pages = {5-14}, abstract = {Abstract The relationship between biodiversity and stability of marine benthic assemblages was investigated through meta-analyses using existing data sets (n\ =\ 28) covering various spatial (m{\textendash}km) and temporal (1973{\textendash}2006; ranging from 5 to \>\ 250\ months) scales in different benthic habitats (emergent rock, rock pools and sedimentary habitats) over different European marine systems (North Atlantic and western Mediterranean). Stability was measured by a lower variability in time, and variability was estimated as temporal variance of species richness, total abundance (density or \% cover) and community structure (using Bray{\textendash}Curtis dissimilarities on species composition and abundance). Stability generally decreased with species richness. Temporal variability in species richness increased with the number of species at both quadrat (\<\ 1\ m2) and site (\ \ 100\ m2) scales, while no relationship was observed by multivariate analyses. Positive relationships were also observed at the scale of site between temporal variability in species richness and variability in community structure with evenness estimates. This implies that the relationship between species richness or evenness and species richness variability is slightly positive and depends on the scale of observation. Thus, species richness does not stabilize temporal fluctuations in species number, rather species rich assemblages are those most likely to undergo the largest fluctuations in species numbers and abundance from time to time. Changes within community assemblages in terms of structure are, however, generally independent of biodiversity. Except for sedimentary and rock pool habitats, no relationship was observed between temporal variation of total abundances and diversity at either scale. Overall, our results emphasize that the relation between species richness and species-level measures of temporal variability depends on scale of measurements, type of habitats and the marine system (North Atlantic and Mediterranean) considered.
}, keywords = {Benthic Marine Coastal Habitats, Biodiversity Ecosystem Functioning, Community Variability, Diversity{\textendash}Stability Relationships, Temporal Variability}, issn = {1385-1101}, doi = {http://dx.doi.org/10.1016/j.seares.2014.08.004}, url = {http://www.sciencedirect.com/science/article/pii/S1385110114001609}, author = {Cusson, Mathieu and Tasman P. Crowe and Rita Ara{\'u}jo and Francisco Arenas and Rebbecca Aspden and Fabio Bulleri and Dominique Davoult and Kirstie Dyson and Simonetta Fraschetti and Kristjan Herk{\"u}l and C{\'e}dric Hubas and Stuart Jenkins and Jonne Kotta and Patrik Kraufvelin and Migne, A and Markus Molis and Olwyen Mulholland and Laure M.-L.J. No{\"e}l and Paterson, David M and James Saunders and Paul J. Somerfield and Isabel Sousa-Pinto and Nicolas Spilmont and Antonio Terlizzi and Lisandro Benedetti-Cecchi} } @article {6881, title = {Relative abundances of methane- and sulfur-oxidizing symbionts in gills of the deep-sea hydrothermal vent mussel Bathymodiolus azoricus under pressure}, journal = {Deep Sea Research Part I: Oceanographic Research Papers}, volume = {101}, year = {2015}, month = {Jan-07-2015}, pages = {7 - 13}, issn = {09670637}, doi = {10.1016/j.dsr.2015.03.003}, url = {https://linkinghub.elsevier.com/retrieve/pii/S0967063715000576}, author = {Szafranski, Kamil M. and Piquet, B{\'e}r{\'e}nice and Bruce Shillito and Lallier, Fran{\c c}ois H. and Duperron, S{\'e}bastien} } @article {4201, title = {The Research Network on Amazonian Ichthyofauna}, journal = {Journal of Applied Ichthyology}, volume = {31}, year = {2015}, pages = {1{\textendash}3}, issn = {1439-0426}, doi = {10.1111/jai.12986}, url = {http://dx.doi.org/10.1111/jai.12986}, author = {Darias, Maria and Amadio, S. A. and Rosenthal, H.} } @article {4156, title = {Review of the Eulimnadia (Branchiopoda: Spinicaudata) from North Africa and adjacent regions, with two new species from Mauritania }, journal = {Journal of Crustacean Biology}, volume = {35}, year = {2015}, pages = {461-472}, type = {Research Article}, author = {Nicolas Rabet and Fran{\c c}ois Clarac and Pascal Lluch and Eric Gallerne and Michael Korn} } @article {4362, title = {Revision of vernacular names for the freshwater fish of French Guiana.}, journal = {Cybium}, volume = {39}, year = {2015}, pages = {279-300}, author = {Grenand, Pierre and Chapuis, Jean and Cognat Andr{\'e} and Cristinoi Antonia and Davy Damien and Grenand Fran{\c c}oise and Michel J{\'e}gu and Philippe Keith and Martin, Emmanuel and Nemo Fran{\c c}ois and Pagezy H{\'e}l{\`e}ne and Le Bail, Pierre-Yves} } @article {3764, title = {The role of female cephalopod researchers: past and present}, journal = {Journal of Natural History}, volume = {49}, year = {2015}, pages = {1235{\textendash}1266}, issn = {0022-2933}, doi = {10.1080/00222933.2015.1037088}, url = {http://dx.doi.org/10.1080/00222933.2015.1037088}, author = {Allcock, A. Louise and von Boletzky, Sigurd and Laure Bonnaud-Ponticelli and Brunetti, Norma E. and Cazzaniga, N{\'e}stor J. and Hochberg, Eric and Ivanovic, Marcela and Lipinski, Marek and Marian, Jos{\'e} E. A. R. and Nigmatullin, Chingis and Nixon, Marion and Jean-Paul Robin and Rodhouse, Paul G. K. and Vidal, Erica A. G.} } @article {3383, title = {Seasonal variations of the composition of microbial biofilms in sandy tidal flats: Focus of fatty acids, pigments and exopolymers}, journal = {Estuarine, Coastal and Shelf Science}, volume = {153}, year = {2015}, pages = {29 - 37}, abstract = {Abstract Biofilms, or microbial mats, are common associations of microorganisms in tidal flats; they generally consist of a large diversity of organisms embedded in a matrix of Extracellular Polymeric Substances (EPS). These molecules are mainly composed of carbohydrates and proteins, but their detailed monomer compositions and seasonal variations are currently unknown. Yet this composition determines the numerous roles of biofilms in these systems. This study investigated the changes in composition of carbohydrates in intertidal microbial mats over a year to decipher seasonal variations in biofilms and in varying hydrodynamic conditions. This work also aimed to assess how these compositions are related to microbial assemblages. In this context, natural biofilms whose development was influenced or not by artificial structures mimicking polychaete tubes were sampled monthly for over a year in intertidal flats of the Chausey archipelago. Biofilms were compared through the analysis of their fatty acid and pigment contents, and the monosaccharide composition of their \{EPS\} carbohydrates. Carbohydrates from both colloidal and bound \{EPS\} contained mainly glucose and, to a lower extent, galactose and mannose but they showed significant differences in their detailed monosaccharide compositions. These two fractions displayed different seasonal evolution, even if glucose accumulated in both fractions in summer; bound \{EPS\} only were affected by artificial biogenic structures. Sediment composition in fatty acids and pigments showed that microbial communities were dominated by diatoms and heterotrophic bacteria. Their relative proportions, as well as those of other groups like cryptophytes, changed between times and treatments. The changes in \{EPS\} composition were not fully explained by modifications of microbial assemblages but also depended on the processes taking place in sediments and on environmental conditions. These variations of \{EPS\} compositions are likely to alter different ecosystem processes such as biostabilisation or pollutants trapping.
}, keywords = {biofilms, biogenic structures, EPS, fatty acids, monosaccharide composition, pigments}, issn = {0272-7714}, doi = {http://dx.doi.org/10.1016/j.ecss.2014.11.013}, url = {http://www.sciencedirect.com/science/article/pii/S0272771414003412}, author = {Passarelli, C and Tarik Meziane and Najet Thiney and Dominique Boeuf and B Jesus and Mickael Ruivo and Christian Jeanthon and C{\'e}dric Hubas} } @article {4554, title = {Shell growth, microstructure and composition over the development cycle of the European abalone Haliotis tuberculata}, journal = {Marine Biology}, volume = {162}, year = {2015}, pages = {687{\textendash}697}, abstract = {The shell of the European abalone Haliotis tuberculata is a model for studying mechanisms of mollusc shell formation, but the early steps of shell formation and calcification remain poorly documented. The microstructure and the mineralogical and geochemical composition of larval and juvenile shells were investigated by scanning electron microscopy, infrared spectroscopy and ion microprobe analyses (NanoSIMS). Analyses were performed on shells obtained from controlled fertilisations at the hatchery France-Haliotis (Plouguerneau, France) in July 2009 and 2010 using abalone from Roscoff. Shell cross sections revealed the microstructural arrangement of the developing shell, showing progressive biomineral organisation into two differentiated layers, i.e. the outer granular and the internal nacreous layer. Infrared analysis confirmed that the European abalone shell, at every stage of development, was mostly composed of CaCO3 in the form of aragonite. Variations in trace element composition, i.e. Sr/Ca, were measured in the different stages and correlated with micro-structural changes in the shells. Experimental manganese labelling of live abalones produced cathodoluminescence marks in the growing shell sections. The increase in shell thickness can be used to determine the growth rate of an early adult abalone shell.
}, issn = {1432-1793}, doi = {10.1007/s00227-015-2615-y}, url = {http://dx.doi.org/10.1007/s00227-015-2615-y}, author = {St{\'e}phanie Auzoux-Bordenave and Brahmi, C. and Badou, Aicha and de Raf{\'e}lis, M. and Huchette, S.} } @article {3880, title = {A short history of the fisheries of Crozet Islands}, journal = {Fisheries Centre Research Reports}, volume = {23}, year = {2015}, pages = {31}, issn = {1198 - 6727}, author = {Patrice Pruvost and Guy Duhamel and Nicolas Gasco and Palomares, M L D} } @article {3941, title = {Spatial changes in fatty acids signatures of the great scallop Pecten maximus across the Bay of Biscay continental shelf}, journal = {Continental Shelf Research}, volume = {109}, year = {2015}, month = {15/10/2015}, pages = {1-9}, abstract = {The spatial variability of food resources along continental margins can strongly influence the physiology and ecology of benthic bivalves. We explored the variability of food sources of the great scallop Pecten maximus, by determining their fatty acid (FA) composition along an inshore{\textendash}offshore gradient in the Bay of Biscay (from 15 to 190\ m depth). The FA composition of the digestive gland showed strong differences between shallow and deep-water habitats. This trend was mainly driven by their content in diatom-characteristic fatty acids, which are abundant near the coast. Scallops collected from the middle of the continental shelf were characterized by higher contents of flagellate markers than scallops from shallow habitats. This could be related to a permanent vertical stratification in the water column, which reduced vertical mixing of waters, thereby enhancing organic matter recycling through the microbial loop. In the deeper water station (190\ m), FA compositions were close to the compositions found in scallops from shallow areas, which suggest that scallops could have access to the same resources (i.e. diatoms). Muscle FA composition was more indicative of the physiological state of scallops over this depth range, revealing contrasting reproductive strategies among the two coastal sites and metabolic or physiological adaptation at greater depth (e.g. structural and functional adjustments of membrane composition). This study therefore revealed contrasted patterns between shallow and deeper habitats for both P. maximus muscle and digestive gland tissues. This emphasizes the variability in the diet of this species along its distribution range, and stresses the importance of analyzing different tissues for their FA composition in order to better understand their physiology and ecology.
}, keywords = {Depth gradient, fatty acids, Metabolism, Pecten maximus, Trophic markers}, author = {Nerot, C and Tarik Meziane and Gauthier Schaal and Grall, J and Lorrain, A and Paullet, Y-M and Kraffe, E} } @article {3522, title = {Spatio-temporal variations in the composition of organic matter in surface sediments of a mangrove receiving shrimp farm effluents (New Caledonia)}, journal = {Science of The Total Environment}, volume = {512{\textendash}513}, year = {2015}, pages = {296 - 307}, abstract = {In order to investigate spatio-temporal variations in the composition and origin of the benthic organic matter (OM) at the sediment surface in mangrove receiving shrimp farm effluents, fatty acid (FA) biomarkers, natural stable isotopes (δ13C and δ15N), C:N ratios and chlorophyll-a (chl-a) concentrations were determined during the active and the non-active period of the farm. Fatty acid compositions in surface sediments within the mangrove forest indicated that organic matter inputs varied along the year as a result of farm activity. Effluents were the source of fresh particulate organic matter for the mangrove, as evidenced by the unsaturated fatty acid (UFA) distribution. The anthropogenic \{MUFA\} 18:1ω9 was not only accumulated at the sediment surface in some parts of the mangrove, but was also exported to the seafront. Direct release of bacteria and enhanced in situ production of fungi, as revealed by specific FAs, stimulated mangrove litter decomposition under effluent runoff condition. Also, microalgae released from ponds contributed to maintain high benthic chl-a concentrations in mangrove sediments in winter and to a shift in microphytobenthic community assemblage. Primary production was high whether the farm released effluent or not which questioned the temporary effect of shrimp farm effluent on benthic microalgae dynamic. This study outlined that mangrove benthic organic matter was qualitatively and quantitatively affected by shrimp farm effluent release and that responses to environmental condition changes likely depended on mangrove stand characteristics.
}, keywords = {Chlorophyll-a, fatty acids, Mangrove, Organic matter, Shrimp farming, Stable isotopes}, issn = {0048-9697}, doi = {http://dx.doi.org/10.1016/j.scitotenv.2014.12.082}, url = {http://www.sciencedirect.com/science/article/pii/S0048969714017938}, author = {Ad{\'e}laide Aschenbroich and Cyril Marchand and Nathalie Molnar and Jonhatan Deborde and C{\'e}dric Hubas and Herv{\'e} Rybarczyk and Tarik Meziane} } @article {3678, title = {Species-specific {PCR}-{RFLP} for identification of early life history stages of squid and other applications to fisheries research}, journal = {Fisheries Research}, volume = {167}, year = {2015}, pages = {207{\textendash}209}, keywords = {Alloteuthis, Cephalopoda, Fisheries management, Loligo, Species identification, Sustainable}, issn = {0165-7836}, doi = {10.1016/j.fishres.2015.02.007}, url = {http://www.sciencedirect.com/science/article/pii/S0165783615000442}, author = {McKeown, Niall J. and Jean-Paul Robin and Shaw, Paul W.} } @article {9379, title = {Spiralian Phylogeny Informs the Evolution of Microscopic Lineages}, journal = {Current Biology}, volume = {25}, year = {2015}, month = {Jan-08-2015}, pages = {2000 - 2006}, issn = {09609822}, doi = {10.1016/j.cub.2015.06.068}, url = {https://linkinghub.elsevier.com/retrieve/pii/S0960982215007952}, author = {Laumer, Christopher~E. and Bekkouche, Nicolas and Kerbl, Alexandra and Goetz, Freya and Neves, Ricardo~C. and S{\o}rensen, Martin~V. and Kristensen, Reinhardt~M. and Hejnol, Andreas and Dunn, Casey~W. and Giribet, Gonzalo and Worsaae, Katrine} } @article {4052, title = {Stable isotopes reveal food web modifications along the upstream{\textendash} downstream gradient of a temperate stream}, journal = {Aquatic Sciences}, year = {2015}, abstract = {ABSTRACT: The upstream{\textendash}downstream gradient (UDG) is a key feature of streams. For instance food webs are assumed to change from upstream to downstream. We tested this hypothesis in a small European river catchment (937 km 2), and examined whether food web modifications are related to structural (i.e. food web composition) or functional changes (i.e. alteration of linkages within the web). We adopted a double approach at two levels of organisation (assemblage and species levels) using two isotopic metrics (isotopic space area and isotopic niche overlap), and proposed a new hypothesis-testing framework for exploring the dominant feeding strategy within a food web. We confirmed that the UDG influenced stream food webs, and found that food web modifications were related to both structural and functional changes. The structural change was mainly related to an increase in species richness, and induced functional modifications of the web (indirect effect). In addition, the UDG also modified the functional features of the web directly, without changing the web composition. The proposed framework allowed relating the direct effect of the UDG to a diet specialisation of the species, and the indirect effect via the structural changes to a generalist feeding strategy. The framework highlights the benefits of conducting the double approach, and provides a foundation for future studies investigating the dominant feeding strategy that underlies food web modifications.
}, doi = {DOI 10.1007/s00027-015-0421-8}, author = {N. Hette and J{\'e}r{\^o}me Belliard and E. Tales and Thierry Oberdorff} } @article {Feunteun201569, title = {Stable isotopic composition of anguilliform leptocephali and other food web components from west of the Mascarene Plateau}, journal = {Progress in Oceanography}, volume = {137}, year = {2015}, note = {cited By 14}, pages = {69-83}, doi = {10.1016/j.pocean.2015.05.024}, url = {https://www.sciencedirect.com/science/article/pii/S0079661115001299}, author = {Eric Feunteun and Miller, M.J. and Alexandre Carpentier and Aoyama, J. and Christine Dupuy and Kuroki, M. and Pagano, M. and R{\'e}veillac, E. and Sellos, D. and Watanabe, S. and Tsukamoto, K. and Otake, T.} } @article {3849, title = {Stiphodon annieae, a new species of freshwater goby from Indonesia (Teleostei: Gobiidae). }, journal = {Cybium}, volume = {38}, year = {2015}, pages = {267-272}, keywords = {Freshwater, Halmahera, Indonesia, New species, Stiphodon annieae}, author = {Philippe Keith and Hadiaty, Renny} } @article {3900, title = {Stock structure of the {English} {Channel} common cuttlefish {Sepia} officinalis ({Linnaeus}, 1758) during the reproduction period}, journal = {Journal of the Marine Biological Association of the United Kingdom}, year = {2015}, pages = {1{\textendash}10}, abstract = {Within the English Channel, the common cuttlefish Sepia officinalis is a semelparous species for which a 2-year life cycle was
exclusively described in the 1980s. In the 1990s, new research indicated that whilst a 2-year life cycle was still evident for
females and the large majority of males, a small proportion of males were actually maturing at only 1 year of age. Since
1980, the interest of French and UK fishers for this resource has increased and it is nowadays one of the most important
demersal species of the area and is considered to be fully exploited. From the start of the 20th century, fishing effort
and sea surface temperatures have increased in the English Channel and have probably impacted the life history traits of
S. officinalis. A 2-year sampling programme was undertaken at French landing sites of the English Channel during the reproduction
season in 2010 and 2011 to estimate if the proportion of 1-year-old mature animals has changed. Age determination
was carried out by coupling polymodal decomposition and lipofuscin measurement. Size-at-maturity for each year and each
sex was estimated by fitting a binomial error GLM. Results highlight that a variable percentage of males and females belonging
to the first cohort are mature and that size-at-maturity was lower than that observed in the 1990s. Finally, different parameters,
such as temperature and fishing pressure are explored to discuss changes in life history traits suggesting that cuttlefish
could be an indicator of the temperature regime shift in the English Channel.
Fish are currently the only vertebrate group where several hundred new species are still
described each year (Fig. 1). One third of the currently recognized species have been
described in the last 12 years (Fishbase 2002; 2014). The reassesment using modern
approaches of species that were thought to be well known resulted in the discovery of many
new species (Thomas et al. 2014; Zemlak et al. 2009). In a particularly stunning example,
Durand et al.(2012) presented evidence for the presence of many cryptic groups within ...
Biogenic dissolution of carbonates by microborers is one of the main destructive forces in coral reefs and is predicted to be enhanced by eutrophication and ocean acidification by 2100. The chlorophyte Ostreobium sp., the main agent of this process, has been reported to be one of the most responsive of all microboring species to those environmental factors. However, very little is known about its recruitment, how it develops over successions of microboring communities, and how that influences rates of biogenic dissolution. Thus, an experiment with dead coral blocks exposed to colonization by microborers was carried out on a reef in New Caledonia over a year period. Each month, a few blocks were collected to study microboring communities and the associated rates of biogenic dissolution. Our results showed a drastic shift in community species composition between the 4th and 5th months of exposure, i.e., pioneer communities dominated by large chlorophytes such as Phaeophila sp. were replaced by mature communities dominated by Ostreobium sp. Prior the 4th month of exposure, large chlorophytes were responsible for low rates of biogenic dissolution while during the community shift, rates increased exponentially ({\texttimes}10). After 6\ months of exposure, rates slowed down and reached a "plateau" with a mean of 0.93\ kg of CaCO3 dissolved per m(2) of reef after 12\ months of exposure. Here, we show that (a) Ostreobium sp. settled down in new dead substrates as soon as the 3rd month of exposure but dominated communities only after 5\ months of exposure and (b) microbioerosion dynamics comprise three distinct steps which fully depend on community development stage and grazing pressure.
}, issn = {1614-7499}, doi = {10.1007/s11356-014-4069-z}, author = {Grange, J and Herv{\'e} Rybarczyk and Tribollet, A} } @article {3863, title = {The Toll/NF-κB pathway in cuttlefish symbiotic accessory nidamental gland.}, journal = {Dev Comp Immunol}, volume = {53}, year = {2015}, month = {2015 Jul 2}, pages = {42-46}, abstract = {The female genital apparatus of decapod cephalopods contains a symbiotic accessory nidamental gland (ANG) that harbors bacterial symbionts. Although the ANG bacterial consortium is now well described, the impact of symbiosis on Sepia officinalis innate immunity pathways remains unknown. In silico analysis of the de novo transcriptome of ANG highlighted for the first time the existence of the NF-κB pathway in S. officinalis. Several signaling components were identified, i.e. five Toll-like receptors, eight signaling cascade features, and the immune response target gene iNOS, previously described as being involved in the initiation of bacterial symbiosis in a cephalopod gland. This work provides a first key for studying bacterial symbiosis and its impact on innate immunity in S. officinalis ANG.
}, issn = {1879-0089}, doi = {10.1016/j.dci.2015.06.016}, author = {Cornet, Val{\'e}rie and Jo{\"e}l Henry and Corre, Erwan and Gildas Le Corguille and C{\'e}line Zatylny-Gaudin} } @article {4048, title = {Towards understanding the organisation of metacommunities in highly dynamic ecological systems }, journal = {Oikos}, year = {2015}, abstract = {ABSTRACT: Community ecology recognises today that local biological communities are not only affected by local biotic interactions and abiotic environmental conditions, but also by regional processes (e.g. dispersal). While much is known about how metacommunities are organised in space in terrestrial, marine and freshwater ecological systems, their temporal variations remain poorly studied. Here, we address the question of the dynamics of metacommunities in highly variable systems, using intermittent rivers (IRs), those rivers which temporarily stop flowing or dry up, as a model system. We first review how habitat heterogeneity in space and time influences metacommunity organisation. Second, we compare the metacommunities in IRs to those in perennial rivers (PRs) and develop the idea that IRs could undergo highly dynamic shifts due to the temporal variability in local and regional community processes. Third, we develop the idea that in IRs, metacommunities of the wet and dry phases of IRs are closely intertwined, thereby increasing even more their respective temporal dynamics. Last, we provide a roadmap to stimulate further conceptual and empirical developments of metacommunity research and identify possible applications for improving the management of IRs and other highly dynamic ecological systems.
}, doi = {doi: 10.1111/oik.02922}, author = {T. Datry and N. Bonada and J. Heino} } @article {3619, title = {Trace metal concentrations in post-hatching cuttlefish Sepia officinalis and consequences of dissolved zinc exposure.}, journal = {Aquat Toxicol}, volume = {159}, year = {2015}, month = {2015 Feb}, pages = {23-35}, abstract = {In this study, we investigated the changes of 13 trace metal and metalloid concentrations (i.e. Ag, As, Cd, Co, Cr, Cu, Fe, Mn, Ni, Pb, Se, V, Zn) and their subcellular fractionation in juvenile cuttlefish Sepia officinalis reared in controlled conditions between hatching and 2 months post-hatching. In parallel, metallothionein concentrations were determined. Our results highlighted contrasting changes of studied metals. Indeed, As and Fe concentrations measured in hatchlings suggested a maternal transfer of these elements in cuttlefish. The non-essential elements Ag and Cd presented the highest accumulation during our study, correlated with the digestive gland maturation. During the 6 first weeks of study, soluble fractions of most of essential trace metals (i.e. Co, Cr, Cu, Fe, Se, Zn) slowly increased consistently with the progressive needs of cuttlefish metabolism during this period. In order to determine for the first time in a cephalopod how metal concentrations and their subcellular distributions are impacted when the animals are trace metal-exposed, we studied previously described parameters in juveniles exposed to dissolved Zn at environmental (i.e. 50 μg l(-1)) and sublethal (i.e. 200 μg l(-1)) levels. Moreover, oxidative stress (i.e. glutathione S-transferase (GST), superoxide dismutase (SOD) and catalase activities, and lipid peroxidation (LPO)) was assessed in digestive gland and gills after 1 and 2 months exposures. Our results highlighted no or low ability of this stage of life to regulate dissolved Zn accumulation during the studied period, consistently with high sensitivity of this organism. Notably, Zn exposures caused a concentration-dependent Mn depletion in juvenile cuttlefish, and an increase of soluble fraction of Ag, Cd, Cu without accumulation modifications, suggesting substitution of these elements (i.e. Mn, Ag, Cd, Cu) by Zn. In parallel, metallothionein concentrations decreased in individuals most exposed to Zn. Finally, no perturbations in oxidative stress management were detected in gills, whereas modifications of GST, SOD and catalase activity levels were recorded in digestive gland, resulting in an increase of LPO content after a 6-week exposure to low Zn concentration. Altogether, these perturbations are consistent with previously described high sensitivity of juvenile cuttlefish towards Zn. Our results underlined the need to study deeply contamination impact on this animal at this stage of life.
}, issn = {1879-1514}, doi = {10.1016/j.aquatox.2014.11.012}, author = {Le Pabic, C and Christelle Caplat and Lehodey Jean-Paul and Milinkovitch, Thomas and Sim{\'e}oni Koueta-Noussith{\'e} and Cosson, Richard Philippe and Paco Bustamante} } @article {3828, title = {Transcriptome analysis reveals strong and complex antiviral response in a mollusc.}, journal = {Fish Shellfish Immunol}, year = {2015}, month = {2015 May 22}, abstract = {Viruses are highly abundant in the oceans, and how filter-feeding molluscs without adaptive immunity defend themselves against viruses is not well understood. We studied the response of a mollusc Crassostrea gigas to Ostreid herpesvirus 1 {\textmu}Var (OsHV-1μVar) infections using transcriptome sequencing. OsHV-1μVar can replicate extremely rapidly after challenge of C.\ gigas as evidenced by explosive viral transcription and DNA synthesis, which peaked at 24 and 48\ h post-inoculation, respectively, accompanied by heavy oyster mortalities. At 120\ h post-injection, however, viral gene transcription and DNA load, and oyster mortality, were greatly reduced indicating an end of active infections and effective control of viral replication in surviving oysters. Transcriptome analysis of the host revealed strong and complex responses involving the activation of all major innate immune pathways that are equipped with expanded and often novel receptors and adaptors. Novel Toll-like receptor (TLR) and MyD88-like genes lacking essential domains were highly up-regulated in the oyster, possibly interfering with TLR signal transduction. RIG-1/MDA5 receptors for viral RNA, interferon-regulatory factors, tissue necrosis factors and interleukin-17 were highly activated and likely central to the oyster{\textquoteright}s antiviral response. Genes related to anti-apoptosis, oxidation, RNA and protein destruction were also highly up-regulated, while genes related to anti-oxidation were down-regulated. The oxidative burst induced by the up-regulation of oxidases and severe down-regulation of anti-oxidant genes may be important for the destruction of viral components, but may also exacerbate oyster mortality. This study provides unprecedented insights into antiviral response in a mollusc. The mobilization and complex regulation of expanded innate immune-gene families highlights the oyster genome{\textquoteright}s adaptation to a virus-rich marine environment.
}, issn = {1095-9947}, doi = {10.1016/j.fsi.2015.05.023}, author = {He, Yan and Jouaux, Aude and Ford, Susan E and Christophe Lelong and Pascal Sourdaine and Mathieu, Michel and Guo, Ximing} } @article {5049, title = {Trophic networks: How do theories link ecosystem structure and functioning to stability properties? A review}, journal = {Ecological indicators}, volume = {52}, year = {2015}, pages = {458{\textendash}471}, author = {Saint-B{\'e}at, B and Dan Baird and H Asmus and R Asmus and Bacher, C and Pacella, S R and Johnson, Galen A and David, Val{\'e}rie and V{\'e}zina, A F and Nathalie Niquil} } @article {4679, title = {Trophic opportunism of central Amazon floodplain fish}, journal = {Freshwater Biology}, volume = {60}, year = {2015}, pages = {1659{\textendash}1670}, author = {Jean-Michel Mortillaro and Marc Pouilly and Wach, M and Carlos E.C. Freitas and Gwena{\"e}l Abril and Tarik Meziane} } @inbook {3555, title = {The "Turritella Layer": a potential proxy of a drastic Holocene environmental change on the North-East Atlantic coast}, booktitle = {Sediment Fluxex in Coastal Areas}, year = {2015}, pages = {3-21}, publisher = {Springer Science}, organization = {Springer Science}, edition = {Coastal Research Library}, address = {Dordrecht}, author = {Agn{\`e}s Baltzer and Zohra Mokeddem and Evelyne Goubert and Franck Lartaud and Nathalie Labourdette and J{\'e}r{\^o}me Fournier and Jean-Fran{\c c}ois Bourillet} } @article {5816, title = {{Uncertainties in the projection of species distributions related to general circulation models}}, journal = {Ecology and Evolution}, volume = {5}, year = {2015}, abstract = {{\textcopyright} 2015 The Authors. Ecological Niche Models (ENMs) are increasingly used by ecologists to project species potential future distribution. However the application of such models may be challenging and some caveats have already been identified. While studies have generally shown that projections may be sensitive to the ENM applied or the emission scenario to name just a few the sensitivity of ENM-based scenarios to General Circulation Models (GCMs) has been often underappreciated. Here using a multi-GCM and multi-emission scenario approach we evaluated the variability in projected distributions under future climate conditions. We modeled the ecological realized niche (sensu Hutchinson) and predicted the baseline distribution of species with contrasting spatial patterns and representative of two major functional groups of European trees: the dwarf birch and the sweet chestnut. Their future distributions were then projected onto future climatic conditions derived from seven GCMs and four emissions scenarios using the new Representative Concentration Pathways (RCPs) developed for the Intergovernmental Panel on Climate Change (IPCC) AR5 report. Uncertainties arising from GCMs and those resulting from emissions scenarios were quantified and compared. Our study reveals that scenarios of future species distribution exhibit broad differences depending not only on emissions scenarios but also on GCMs. We found that the between-GCM variability was greater than the between-RCP variability for the next decades and both types of variability reached a similar level at the end of this century. Our result highlights that a combined multi-GCM and multi-RCP approach is needed to better consider potential trajectories and uncertainties in future species distributions. In all cases between-GCM variability increases with the level of warming and if nothing is done to alleviate global warming future species spatial distribution may become more and more difficult to anticipate. When future species spatial distributions are examined we propose to use a large number of GCMs and RCPs to better anticipate potential trajectories and quantify uncertainties.
}, keywords = {Biogeography, Climate Change, Ecological niche modeling, Global change models, Species distribution projections, Uncertainties}, issn = {20457758}, doi = {10.1002/ece3.1411}, author = {Goberville, Eric and Gr{\'e}gory Beaugrand and Nina-Coralie Hautek{\`e}ete and Yves Piquot and Christophe Luczak} } @inbook {4068, title = {Unveiling the evolution of bivalve nacre proteins by shell proteomics of Unionoidae. }, booktitle = {Biomineralization: from fundamentals to biomaterials \& environmental issues}, volume = {672}, year = {2015}, pages = {pp.158-167}, edition = {Key Engineering Materials, 978-3-03835-591-5 Trans Tech Publications Ltd}, chapter = {2}, author = {Marie, Benjamin and Arivalagan, Jaison and Dubost, Lionel and Berland, Sophie and Marie, Arul and Marin, Fr{\'e}d{\'e}ric} } @article {3930, title = {The use of {Depletion} {Methods} to assess {Mediterranean} cephalopod stocks under the current {EU} {Data} {Collection} {Framework}}, journal = {Mediterranean Marine Science}, year = {2015}, pages = {513{\textendash}523}, doi = {DOI: http://dx.doi.org/10.12681/mms.1127}, url = {http://www.medit-mar-sc.net/index.php/marine/article/view/1127/671}, author = {Keller, S and Jean-Paul Robin and Valls, M and Gras, Michael and Cabanellas-Reboredo, M and Quetglas, A} } @article {4399, title = {Using barcoding of larvae for investigating the breeding seasons of pimelodid catfishes from the Mara{\~n}on, Napo and Ucayali rivers in the Peruvian Amazon}, journal = {Journal of Applied Ichthyology}, volume = {31}, year = {2015}, pages = {40{\textendash}51}, issn = {1439-0426}, doi = {10.1111/jai.12987}, url = {http://dx.doi.org/10.1111/jai.12987}, author = {Garc{\'\i}a-D{\'a}vila, C. and Castro-Ruiz, Diana and Renno, Jean-Francois and Chota-Macuyama, Werner and Carvajal-Vallejos, Fernando and Sanchez, H. and Angulo, C. and Nolorbe, C. and Alvarado, J. and Estivals, G and Jesus Nu{\~n}ez-Rodriguez and Fabrice Duponchelle} } @article {5040, title = {Using ecological models to assess ecosystem status in support of the European Marine Strategy Framework Directive}, journal = {ECOLOGICAL INDICATORS}, volume = {58}, year = {2015}, month = {NOV}, pages = {175-191}, abstract = {The European Union{\textquoteright}s Marine Strategy Framework Directive (MSFD) seeks to achieve, for all European seas, "Good Environmental Status" (GEnS), by 2020. Ecological models are currently one of the strongest approaches used to predicting and understanding the consequences of anthropogenic and climate-driven changes in the natural environment. We assess the most commonly used capabilities of the modelling community to provide information about indicators outlined in the MSFD, particularly on biodiversity, food webs, non-indigenous species and seafloor integrity descriptors. We built a catalogue of models and their derived indicators to assess which models were able to demonstrate: (1) the linkages between indicators and ecosystem structure and function and (2) the impact of pressures on ecosystem state through indicators. Our survey identified 44 ecological models being implemented in Europe, with a high prevalence of those that focus on links between hydrodynamics and biogeochemistry, followed by end-to-end, species distribution/habitat suitability, bio-optical (remote sensing) and multispecies models. Approximately 200 indicators could be derived from these models, the majority of which were biomass and physical/hydrological/chemical indicators. Biodiversity and food webs descriptors, with similar to 49\% and similar to 43\% respectively, were better addressed in the reviewed modelling approaches than the non-indigenous species (0.3\%) and sea floor integrity (similar to 8\%) descriptors. Out of 12 criteria and 21 MSFD indicators relevant to the abovementioned descriptors, currently only three indicators were not addressed by the 44 models reviewed. Modelling approaches showed also the potential to inform on the complex, integrative ecosystem dimensions while addressing ecosystem fundamental properties, such as interactions between structural components and ecosystems services provided, despite the fact that they are not part of the MSFD indicators set. The cataloguing of models and their derived indicators presented in this study, aim at helping the planning and integration of policies like the MSFD which require the assessment of all European Seas in relation to their ecosystem status and pressures associated and the establishment of environmental targets (through the use of indicators) to achieve GEnS by 2020. (C) 2015 The Authors. Published by Elsevier Ltd.
}, issn = {{1470-160X}}, doi = {{10.1016/j.ecolind.2015.05.037}}, author = {Piroddi, Chiara and Teixeira, Heliana and Lynam, Christopher P. and Smith, Chris and Alvarez, Maria C. and Mazik, Krysia and Andonegi, Eider and Churilova, Tanya and Tedesco, Letizia and Chifflet, Marina and Chust, Guillem and Galparsoro, Ibon and Garcia, Ana Carla and Kamari, Maria and Kryvenko, Olga and G{\'e}raldine Lassalle and Neville, Suzanna and Nathalie Niquil and Papadopoulou, Nadia and Rossberg, Axel G. and Suslin, Vjacheslav and Uyarra, Maria C.} } @article {4392, title = {Variations in reproductive strategy of the silver Arowana, Osteoglossum bicirrhosum Cuvier, 1829 from four sub-basins of the Peruvian Amazon}, journal = {Journal of Applied Ichthyology }, volume = {31}, year = {2015}, pages = {19-30}, author = {Fabrice Duponchelle and Ruiz-Arce Adela and Waty, A. and Garc{\'\i}a-Vasquez, Aurea and Renno, J-F and Chu-Koo, F and Garc{\'\i}a-D{\'a}vila, C. and Vargas, Gladys and Salvador Tello and Ortiz, A. and Pinedo, R. and Manzanares V{\'a}squez, R. and Jesus Nu{\~n}ez-Rodriguez} } @article {3769, title = {What did we learn from PEGASEAS forum "Science and Governance of the Channel Marine Ecosystem"?}, journal = {Mar Pollut Bull}, volume = {93}, year = {2015}, month = {2015 Apr 15}, pages = {1-4}, abstract = {As one of the busiest marine ecosystems in the world, the English Channel is subjected to strong pressures due to the human activities occurring within it. Effective governance is required to improve the combined management of different activities and so secure the benefits provided by the Channel ecosystem. In July 2014, a Cross-Channel Forum, entitled "Science and Governance of the Channel Marine Ecosystem", was held in Caen (France) as part of the INTERREG project "Promoting Effective Governance of the Channel Ecosystem" (PEGASEAS). Here we use outputs from the Forum as a framework for providing Channel-specific advice and recommendations on marine governance themes, including the identification of knowledge gaps, which may form the foundation of future projects for the next INTERREG project call (2015-2020).
}, issn = {1879-3363}, doi = {10.1016/j.marpolbul.2015.02.021}, author = {L Evariste and Claquin, Pascal and Jean-Paul Robin and Arnaud Auber and Abigail McQuatters-Gollop and Fletcher, Stephen and Glegg, Gillian and Jean-Claude Dauvin} } @article {4678, title = {Which factors determine the altitudinal distribution of tropical Andean riverine fishes?}, journal = {Revista de Biolog{{\'\i}a Tropical/International Journal of Tropical Biology and Conservation}, volume = {64}, year = {2015}, pages = {157{\textendash}176}, author = {De La Barra, Evans and Zubieta, Jos{\'e} and Aguilera, Gast{\'o}n and Maldonado, Mabel and Marc Pouilly and Oberdorff, Thierry} } @article {3638, title = {Abnormal ovarian DNA methylation programming during gonad maturation in wild contaminated fish.}, journal = {Environ Sci Technol}, volume = {48}, year = {2014}, month = {2014 Oct 7}, pages = {11688-95}, abstract = {There is increasing evidence that pollutants may cause diseases via epigenetic modifications. Epigenetic mechanisms such as DNA methylation participate in the regulation of gene transcription. Surprisingly, epigenetics research is still limited in ecotoxicology. In this study, we investigated whether chronic exposure to contaminants experienced by wild female fish (Anguilla anguilla) throughout their juvenile phase can affect the DNA methylation status of their oocytes during gonad maturation. Thus, fish were sampled in two locations presenting a low or a high contamination level. Then, fish were transferred to the laboratory and artificially matured. Before hormonal treatment, the DNA methylation levels of the genes encoding for the aromatase and the receptor of the follicle stimulating hormone were higher in contaminated fish than in fish from the clean site. For the hormone receptor, this hypermethylation was positively correlated with the contamination level of fish and was associated with a decrease in its transcription level. In addition, whereas gonad growth was associated with an increase in DNA methylation in fish from the clean site, no changes were observed in contaminated fish in response to hormonal treatment. Finally, a higher gonad growth was observed in fish from the reference site in comparison to contaminated fish.
}, issn = {1520-5851}, doi = {10.1021/es503712c}, author = {Pierron, Fabien and Bureau du Colombier, Sarah and Moffett, Audrey and Caron, Antoine and Peluhet, Laurent and Daffe, Guillemine and Lambert, Patrick and Elie, Pierre and Labadie, Pierre and Budzinski, H{\'e}l{\`e}ne and Sylvie Dufour and Couture, Patrice and Baudrimont, Magalie} } @article {3510, title = {Acute toxicity of 8 antidepressants: what are their modes of action?}, journal = {Chemosphere}, volume = {108}, year = {2014}, month = {2014 Aug}, pages = {314-9}, abstract = {Currently, the hazard posed by pharmaceutical residues is a major concern of ecotoxicology. Most of the antidepressants belong to a family named the Cationic Amphipathic Drugs known to have specific interactions with cell membranes. The present study assessed the impact of eight antidepressants belonging to selective serotonin reuptake inhibitors or serotonin norepinephrine reuptake inhibitors by the combination of multi-approaches (in vivo, in vitro, in silico) and gives some insights on the mode of action for these molecules. Antidepressants were from the most to the least toxic compound for Daphnia magna: Sertraline (EC50=1.15 mg L(-1))\>Clomipramine (2.74 mg L(-1))\>Amitriptyline (4.82 mg L(-1))\>Fluoxetine (5.91 mg L(-1))\>Paroxetine (6.24 mg L(-1))\>Mianserine (7.81 mg L(-1))\>Citalopram (30.14 mg L(-1)) and Venlafaxine (141.28 mg L(-1)). These acute toxicities were found correlated to Log Kow coefficients (R=0.93, p\<0.001) and to cytotoxicity assessed on abalone hemocytes through the neutral red uptake assay (R=0.96, p\<0.001). If narcosis as mode of action is typically expected during acute ecotoxicity bioassays, we showed by molecular modeling that particular interactions can exist between antidepressants and phosphatidylcholine, a major component of cell membranes, leading to a more specific mode of action corresponding to a potential acidic hydrolysis of ester functions.
}, keywords = {Animals, Antidepressive Agents, Cell Survival, Cells, Cultured, Daphnia, Environmental Pollutants, Gastropoda, Hemocytes, Lysosomes, Models, Molecular, Phosphatidylcholines, Serotonin Uptake Inhibitors}, issn = {1879-1298}, doi = {10.1016/j.chemosphere.2014.01.057}, author = {Minguez, Laetitia and Farcy, E and Ballandonne, C{\'e}line and Lepailleur, Alban and Antoine Serpentini and Jean-Marc Lebel and Bureau, Ronan and Halm-Lemeille, Marie-Pierre} } @article {Abril2014, title = {{Amazon River carbon dioxide outgassing fuelled by wetlands}}, journal = {Nature}, volume = {505}, year = {2014}, pages = {395-398}, publisher = {Nature}, doi = {10.1038/nature12797}, author = {Gwena{\"e}l Abril and Martinez, Jean Michel and Luis Felipe Artigas and Moreira-Turcq, Patricia and Marc F Benedetti and Vidal, Luciana and Tarik Meziane and Kim, Jung-Hyun and Bernardes, Marcelo C and Savoye, Nicolas and Deborde, Jonathan and Lima Souza, Edivaldo and Alb{\'e}ric, Patrick and Fernandes, Marcelo and de Souza, Landim and Roland, Fabio} } @article {3722, title = {Amphidromy and marine larval phase of ancestral Gobioids Rhyacichthys guilberti and Protogobius attiti (Teleostei: Rhyacichthyidae).}, journal = {Marine and Freshwater Research}, volume = {65}, year = {2014}, pages = {776{\textendash}783}, abstract = {Even if amphidromous fish species contribute most to the diversity of fish communities in the tropical insular
rivers, their biological cycle remain poorly known. For the first time, the otolith elemental composition and microstructure
of two ancestral gobioids, Rhyacichthys guilberti and Protogobius attiti, were investigated to describe their biological
cycle and pelagic larval duration (PLD). The otolith analysis using a femtosecond laser ablation coupled to an inductively
coupled plasma{\textendash}mass spectrometer (fs-LA-ICP-MS) revealed an amphidromous life history for R. guilberti and it
suggested a progressive habitat shift from a marine habitat to a freshwater environment for P. attiti. For the first time, an
endemic species, P. attiti, showed longer and more variable PLD (55.213.5 days) than did a widespread one
(R. guilberti: ,30 days). These results need to be confirmed by analysing more samples but suggest that factors other
than the PLD control endemism and dispersal processes. In association with this first description of the biological cycle for
both species, such an approach is a prerequisite for the management and conservation of both patrimonial species.
Pharmaceutical compounds like antidepressants found in surface waters raise concerns due to their potential toxicity on non-target aquatic organisms. This study aimed at investigating the in vitro cytotoxicity and immunomodulatory properties of four common antidepressants, namely Amitriptyline, Clomipramine, Citalopram and Paroxetine, on primary cultures of abalone hemocytes (Haliotis tuberculata), after 48 h-exposure. Effects on immunocompetence (phagocytosis, levels of reactive oxygen species, esterase activity and lysosomal membrane destabilization) were assessed. Results obtained by MTT assays revealed that acute toxicity is unlikely to occur in the environment since the LC50s of the four antidepressants are at the mg/L level. The different immunological endpoints displayed a biphasic response, with an increase at the lowest concentration (i.e. 1 μg/L) followed by a decrease at higher concentrations. Overall, Amitriptyline and Clomipramine, the two tricyclic antidepressants, had higher immunomodulatory capacities than the two selective serotonin reuptake inhibitors Citalopram and Paroxetine. Amitriptyline was the most potent and Citalopram the least potent drug in altering immune function in H. tuberculata.
}, keywords = {Animals, Antidepressive Agents, Cell Survival, Cells, Cultured, Enzyme Activation, Esterases, Gastropoda, Hemocytes, Immunity, Innate, Lethal Dose 50, Phagocytosis, Reactive Oxygen Species, Water Pollutants, Chemical}, issn = {1879-1514}, doi = {10.1016/j.aquatox.2013.10.020}, author = {Minguez, Laetitia and Halm-Lemeille, Marie-Pierre and Katherine Costil and Bureau, Ronan and Jean-Marc Lebel and Antoine Serpentini} } @article {3418, title = {Bacterial dynamics in a microphytobenthic biofilm: A tidal mesocosm approach}, journal = {Journal of Sea Research}, volume = {92}, year = {2014}, month = {09/2014}, pages = {144-157}, author = {H{\'e}l{\`e}ne Agogu{\'e} and Clarisse Mallet and Francis Orvain and Margot de Crignis and Fran{\c c}oise Mornet and Christine Dupuy} } @inbook {3857, title = { Biogeographic patterns of fish}, booktitle = { The Biogeographic Atlas of the Southern Ocean }, year = {2014}, author = {Percy-Alexander Hulley and Causse, Romain and Koubbi, Philippe and Vacchi, Marino} } @article {3591, title = {Biomineralization of Schlumbergerella floresiana, a significant carbonate-producing benthic foraminifer.}, journal = {Geobiology}, volume = {12}, year = {2014}, month = {2014 Jul}, pages = {289-307}, abstract = {Most foraminifera that produce a shell are efficient biomineralizers. We analyzed the calcitic shell of the large tropical benthic foraminifer Schlumbergerella floresiana. We found a suite of macromolecules containing many charged and polar amino acids and glycine that are also abundant in biomineralization proteins of other phyla. As neither genomic nor transcriptomic data are available for foraminiferal biomineralization yet, de novo-generated sequences, obtained from organic matrices submitted to ms blast database search, led to the characterization of 156 peptides. Very few homologous proteins were matched in the proteomic database, implying that the peptides are derived from unknown proteins present in the foraminiferal organic matrices. The amino acid distribution of these peptides was queried against the uniprot database and the mollusk uniprot database for comparison. The mollusks compose a well-studied phylum that yield a large variety of biomineralization proteins. These results showed that proteins extracted from S.\ floresiana shells contained sequences enriched with glycine, alanine, and proline, making a set of residues that provided a signature unique to foraminifera. Three of the de novo peptides exhibited sequence similarities to peptides found in proteins such as pre-collagen-P and a group of P-type ATPases including a calcium-transporting ATPase. Surprisingly, the peptide that was most similar to the collagen-like protein was a glycine-rich peptide reported from the test and spine proteome of sea urchin. The molecules, identified by matrix-assisted laser desorption ionization-time of flight mass spectrometry analyses, included acid-soluble N-glycoproteins with its sugar moieties represented by high-mannose-type glycans and carbohydrates. Describing the nature of the proteins, and associated molecules in the skeletal structure of living foraminifera, can elucidate the biomineralization mechanisms of these major carbonate producers in marine ecosystems. As fossil foraminifera provide important paleoenvironmental and paleoclimatic information, a better understanding of biomineralization in these organisms will have far-reaching impacts.
}, keywords = {Amino Acid Sequence, Amino Acids, Calcification, Physiologic, Carbonates, Electrophoresis, Polyacrylamide Gel, Foraminifera, Molecular Sequence Data, Monosaccharides}, issn = {1472-4669}, doi = {10.1111/gbi.12085}, author = {Sabbatini, A and Bedouet, L and Marie, A and Bartolini, A and Landemarre, L and Weber, M X and Gusti Ngurah Kade Mahardika, I and Berland, Sophie and Zito, F and V{\'e}nec-Peyr{\'e}, M-T} } @article {3374, title = {Cellular effects of bacterial N-3-Oxo-dodecanoyl-L-Homoserine lactone on the sponge Suberites domuncula (Olivi, 1792): insights into an intimate inter-kingdom dialogue.}, journal = {PLoS One}, volume = {9}, year = {2014}, month = {2014}, pages = {e97662}, abstract = {Sponges and bacteria have lived together in complex consortia for 700 million years. As filter feeders, sponges prey on bacteria. Nevertheless, some bacteria are associated with sponges in symbiotic relationships. To enable this association, sponges and bacteria are likely to have developed molecular communication systems. These may include molecules such as N-acyl-L-homoserine lactones, produced by Gram-negative bacteria also within sponges. In this study, we examined the role of N-3-oxododecanoyl-L-homoserine lactone (3-oxo-C12-HSL) on the expression of immune and apoptotic genes of the host sponge Suberites domuncula. This molecule seemed to inhibit the sponge innate immune system through a decrease of the expression of genes coding for proteins sensing the bacterial membrane: a Toll-Like Receptor and a Toll-like Receptor Associated Factor 6 and for an anti-bacterial perforin-like molecule. The expression of the pro-apoptotic caspase-like 3/7 gene decreased as well, whereas the level of mRNA of anti-apoptotic genes Bcl-2 Homolog Proteins did not change. Then, we demonstrated the differential expression of proteins in presence of this 3-oxo-C12-HSL using 3D sponge cell cultures. Proteins involved in the first steps of the endocytosis process were highlighted using the 2D electrophoresis protein separation and the MALDI-TOF/TOF protein characterization: α and β subunits of the lysosomal ATPase, a cognin, cofilins-related proteins and cytoskeleton proteins actin, α tubulin and α actinin. The genetic expression of some of these proteins was subsequently followed. We propose that the 3-oxo-C12-HSL may participate in the tolerance of the sponge apoptotic and immune systems towards the presence of bacteria. Besides, the sponge may sense the 3-oxo-C12-HSL as a molecular evidence of the bacterial presence and/or density in order to regulate the populations of symbiotic bacteria in the sponge. This study is the first report of a bacterial secreted molecule acting on sponge cells and regulating the symbiotic relationship.
}, issn = {1932-6203}, doi = {10.1371/journal.pone.0097662}, author = {Gard{\`e}res, Johan and Jo{\"e}l Henry and Bernay, Beno{\^\i}t and Ritter, Andr{\`e}s and C{\'e}line Zatylny-Gaudin and Wiens, Matthias and M{\"u}ller, Werner E G and Le Pennec, Ga{\"e}l} } @article {3391, title = {Cephalopod development: what we can learn from differences}, journal = {OA Biology}, volume = {2}, year = {2014}, pages = {6}, type = {Review}, abstract = {Introduction
The molluscan neuro-muscular system shows extreme diversity. Cephalopods present an original body plan, a derived neuro-muscular complex and a development with drastic changes in the antero-posterior/dorso-ventral orientation. How it took place during evolution is an unresolved question that can be approached by the study of developmental genes. Studying the expression of conserved transcription factors (Pax and NK families, otx, apt) and morphogen (hedgehog) during development is a good test of the conservation of their functions. We underline here unexpected expression patterns during cephalopod development, and we aim to suggest that these patterns may be, at least partly, in relation to morphological novelties in this clade.
Conclusion
The expression patterns observed point out the diversity of molecular pathways recruited during evolution and the necessary carefulness regarding generalization of results obtained from a very small set of model organisms. Studying different species, with a large diversity of morphology, could help to have a better understanding of the variety of the genes roles and/or of the plasticity of networks.
Cephalopods have been utilised in neuroscience research for more than 100\ years particularly because of their phenotypic plasticity, complex and centralised nervous system, tractability for studies of learning and cellular mechanisms of memory (e.g. long-term potentiation) and anatomical features facilitating physiological studies (e.g. squid giant axon and synapse). On 1 January 2013, research using any of the about 700 extant species of "live cephalopods" became regulated within the European Union by Directive 2010/63/EU on the "Protection of Animals used for Scientific Purposes", giving cephalopods the same EU legal protection as previously afforded only to vertebrates. The Directive has a number of implications, particularly for neuroscience research. These include: (1) projects will need justification, authorisation from local competent authorities, and be subject to review including a harm-benefit assessment and adherence to the 3Rs principles (Replacement, Refinement and Reduction). (2) To support project evaluation and compliance with the new EU law, guidelines specific to cephalopods will need to be developed, covering capture, transport, handling, housing, care, maintenance, health monitoring, humane anaesthesia, analgesia and euthanasia. (3) Objective criteria need to be developed to identify signs of pain, suffering, distress and lasting harm particularly in the context of their induction by an experimental procedure. Despite diversity of views existing on some of these topics, this paper reviews the above topics and describes the approaches being taken by the cephalopod research community (represented by the authorship) to produce "guidelines" and the potential contribution of neuroscience research to cephalopod welfare.
}, keywords = {3Rs, Animal welfare, Cephalopods, Directive2010/63/EU, Neuroscience}, issn = {1439-1104}, doi = {10.1007/s10158-013-0165-x}, author = {Fiorito, Graziano and Affuso, Andrea and Anderson, David B and Basil, Jennifer and Laure Bonnaud-Ponticelli and Botta, Giovanni and Cole, Alison and D{\textquoteright}Angelo, Livia and De Girolamo, Paolo and Dennison, Ngaire and Dickel, Ludovic and Di Cosmo, Anna and Di Cristo, Carlo and Gestal, Camino and Fonseca, Rute and Grasso, Frank and Kristiansen, Tore and Kuba, Michael and Maffucci, Fulvio and Manciocco, Arianna and Mark, Felix Christopher and Melillo, Daniela and Osorio, Daniel and Palumbo, Anna and Perkins, Kerry and Ponte, Giovanna and Raspa, Marcello and Shashar, Nadav and Smith, Jane and Smith, David and Sykes, Ant{\'o}nio and Villanueva, Roger and Tublitz, Nathan and Zullo, Letizia and Andrews, Paul} } @article {6885, title = {Cg-SoxE and Cg-β-catenin, two new potential actors of the sex-determining pathway in a hermaphrodite lophotrochozoan, the Pacific oyster Crassostrea gigas}, journal = {Comparative Biochemistry and Physiology - Part A: Molecular and Integrative Physiology}, volume = {167}, year = {2014}, pages = {68-76}, abstract = {Sex determination is poorly known in mollusks, lophotrochozoa and most hermaphrodites. In the oyster Crassostrea gigas, an irregular successive hermaphrodite, sex determination may occur at the end of a gametogenetic cycle to prepare the next cycle. To investigate further into these aspects we have focused on orthologs of SoxE and β-catenin, key players of the male and female gonadic differentiation respectively in mammals. Based on phylogenetic analyses, Cg-SoxE, the oyster{\textquoteright}s SoxE ortholog, is closely related to vertebrate SoxE genes while Cg-β-catenin, the oyster{\textquoteright}s β-catenin ortholog, is classified amongst lophotrochozoa. The mRNA expression measured by qPCR in the gonadic area during a gametogenetic cycle is maximal for Cg-SoxE when sex is indiscernible and for Cg-β-catenin in mature females. Both expressions are localized from early germ cells to spermatocytes and pre-vitellogenic oocytes, and potentially in somatic cells. Cg-β-catenin is also expressed in vitellogenic oocytes. These actors may be involved in early oyster gonadic differentiation, which includes sex determination. Our results enhance the understanding of sex determination in C. gigas and in mollusks and they provide additional knowledge in compared genomics of reproduction and in molecular phylogeny.}, keywords = {Gonadic differentiation, Oyster, Sex-determining pathways, Sox9, β-catenin}, doi = {10.1016/j.cbpa.2013.09.018}, url = {https://hal-normandie-univ.archives-ouvertes.fr/hal-02296496}, author = {Santerre, Christelle and Sourdaine, Pascal and Adeline, B{\'e}atrice and Anne-Sophie Martinez} } @inbook {5148, title = {Chapter 7. Biogeographic patterns of fish}, booktitle = {Biogeographic Atlas of the Southern Ocean}, year = {2014}, pages = {327{\textendash}362}, edition = {In: De Broyer C., Koubbi P., Griffiths H.J., Raymond B., Udekem d{\textquoteright}Acoz C. d{\textquoteright}, et al. (eds.)}, chapter = {7}, isbn = {978-0-948277-28-3}, author = {Guy Duhamel and Percy-Alexander Hulley and Causse, Romain and Koubbi, Philippe and Vacchi, Marino and Patrice Pruvost and Vigetta, Stephanie and Irisson, J.-O. and Mormede, Sophie and Belchier, Mark and others} } @article {3307, title = {Chapter Four : Transitions During Cephalopod Life History: The Role of Habitat, Environment, Functional Morphology and Behaviour}, year = {2014}, keywords = {Acquisition of behaviours, Adult, Cephalopod ontogeny, Cohort survival, Environmental variability, Habitat shifts, Juvenile, Life stages, Morphological changes, Paralarvae, Subadult}, author = {Jean-Paul Robin and Roberts, Michael and Zeidberg, Lou and Bloor, Isobel and Rodriguez, Almendra and Brice{\~n}o, Felipe and Downey, Nicola and Mascar{\'o}, Maite and Guerra, Angel and Hofmeister, Jennifer and Barcellos, Diogo D. and Louren{\c c}o, Silvia A.P. and Roper, Clyde F.E. and Moltschaniwskyj, Natalie A. and Green, Corey P. and Mather, Jennifer} } @article {3490, title = {Characterisation and expression of the biomineralising gene Lustrin A during shell formation of the European abalone Haliotis tuberculata}, journal = {Comparative Biochemistry and Physiology , Part B}, volume = {169}, year = {2014}, month = {2014}, pages = {1-8}, type = {Research article}, abstract = {The molluscan shell is a remarkable product of a highly biomineralisation process, and is composed of calcium carbonate most commonly in the form of calcite or aragonite. The exceptional mechanical properties of this biomaterial are imparted by the embedded organic matrix which is secreted by the underlying mantle tissue. While many shell-matrix proteins have already been identified within adult molluscan shell, their presence and role in the early developmental stages of larval shell formation are not well understood. In the European abalone Haliotis tuberculata, the shell first forms in the early trochophore larva and develops into a mineralised protoconch in the veliger. Following metamorphosis, the juvenile shell rapidly changes as it becomes flattened and develops a more complex crystallographic profile including an external granular layer and an internal nacreous layer. Among the matrix proteins involved in abalone shell formation, Lustrin A is thought to participate in the formation of the nacreous layer. Here we have identified a partial cDNA coding for the Lustrin A gene in H. tuberculata and have analysed its spatial and temporal expression during abalone development. RT-PCR experiments indicate that Lustrin A is first expressed in juvenile (post-metamorphosis) stages, suggesting that Lustrin A is a component of the juvenile shell, but not of the larval shell. We also detected Lustrin A mRNAs in non-nacre forming cells at the distal-most edge of the juvenile mantle as well as in the nacre-forming region of the mantle. Lustrin A was also expressed in 7-day-old post-larvae, prior to the formation of nacre. These results suggest that Lustrin A plays multiple roles in the shell-forming process and further highlight the dynamic ontogenic nature of molluscan shell formation.
}, keywords = {biomineralisation, Haliotis tuberculata, larval development, Lustrin A, mollusc, organic matrix, shell}, author = {Gaume, B{\'e}atrice and Denis, Fran{\c c}oise and Van Wormhoudt, Alain and Huchette, Sylvain and Jackson, Daniel and Avignon, Sol{\`e}ne and St{\'e}phanie Auzoux-Bordenave} } @article {Bosseboeuf_etal2014, title = {{Characterization of spermatogonial markers in the mature testis of the dogfish (Scyliorhinus canicula L.)}}, journal = {Reproduction}, volume = {147}, number = {147}, year = {2014}, month = {01/2014}, pages = {125{\textendash}139}, author = {Bosseboeuf, A and Aude Gautier and Auvray, P and Mazan, S and Pascal Sourdaine} } @article {4223, title = {Colonisation of leaf litter by lotic macroinvertebrates in a headwater stream of the Phachi River (western Thailand)}, journal = {Fundamental and Applied Limnology}, volume = {184}, year = {2014}, month = {04}, pages = {109-124}, doi = {10.1127/1863-9135/2014/0596}, url = {http://dx.doi.org/10.1127/1863-9135/2014/0596}, author = {Frank David and Boonsoong, Boonsatien} } @article {Lassale_etal2013, title = {{Combining quantitative and qualitative models to identify functional groups for monitoring changes in the Bay of Biscay continental shelf exploited foodweb}}, journal = {ICES Journal of Marine Science}, volume = {71}, number = {1}, year = {2014}, pages = {105{\textendash}117}, abstract = {To develop and implement ecosystem-based management, it is critical to monitor foodweb components or functional groups which are robust to uncertainty in ecosystem structure and functioning yet sensitive to changes. To select such functional groups for the Bay of Biscay continental shelf, both quantitative and qualitative foodweb models were developed. First, functional groups for which predictions of directions of change following an increase in primary productivity, prey or predators, or in fishing activities were identical across alternative qualitative model structures were identified. Second, the robustness to model type was assessed by comparing qualitative predictions with quantitative Ecopath model results. The demersal fish community was identified as a sensitive and robust indicator for monitoring foodweb ecological status in the Bay of Biscay. The present study also suggested the potential antagonistic effects of alternative management measures on small pelagic fish and highlighted the need for the joint management of all pressures.
}, keywords = {comparative studies, ecosystem management, foodweb, loop analysis, Northeast Atlantic continental shelf}, doi = {10.1093/icesjms/fst107}, author = {G{\'e}raldine Lassalle and Nelva Pasqual, J-S and Bo{\"e}t, P and Rochet, M J and Trenkel, V M and Nathalie Niquil} } @article {3428, title = {Comparison of the sensitivity of seven marine and freshwater bioassays as regards antidepressant toxicity assessment.}, journal = {Ecotoxicology}, volume = {23}, year = {2014}, month = {2014 Nov}, pages = {1744-54}, abstract = {The hazards linked to pharmaceutical residues like antidepressants are currently a major concern of ecotoxicology because they may have adverse effects on non-target aquatic organisms. Our study assesses the ecotoxicity of three antidepressants (fluoxetine, sertraline and clomipramine) using a battery of marine and freshwater species representing different trophic levels, and compares the bioassay sensitivity levels. We selected the following bioassays: the algal growth inhibition test (Skeletonema marinoi and Pseudokirchneriella subcapitata), the microcrustacean immobilization test (Artemia salina and Daphnia magna), development and adult survival tests on Hydra attenuata, embryotoxicity and metamorphosis tests on Crassostrea gigas, and in vitro assays on primary cultures of Haliotis tuberculata hemocytes. The results showed high inter-species variability in EC50-values ranging from 43 to 15,600\ {\textmu}g/L for fluoxetine, from 67 to 4,400\ {\textmu}g/L for sertraline, and from 4.70\ {\textmu}g/L to more than 100,000\ {\textmu}g/L for clomipramine. Algae (S. marinoi and P. subcapitata) and the embryo-larval stages of the oyster C. gigas were the most sensitive taxa. This raises an issue due to their ecological and/or economic importance. The marine crustacean A. salina was the least sensitive species. This difference in sensitivity between bioassays highlights the importance of using a test battery.
}, issn = {1573-3017}, doi = {10.1007/s10646-014-1339-y}, author = {Minguez, Laetitia and Di Poi, C and Farcy, E and Ballandonne, C{\'e}line and Benchouala, Amira and Bojic, Cl{\'e}ment and Cossu-Leguille, Carole and Katherine Costil and Antoine Serpentini and Jean-Marc Lebel and Halm-Lemeille, Marie-Pierre} } @article {3660, title = {{Complementarity of rarity, specialisation and functional diversity metrics to assess community responses to environmental changes, using an example of spider communities in salt marshes}}, journal = {Ecological Indicators}, volume = {46}, year = {2014}, pages = {351{\textendash}357}, abstract = {The study of community responses to environmental changes can be enhanced by the recent development of new metrics useful in applied conservation: relative rarity, ecological specialisation and functional diversity. These different metrics have been critically assessed independently, but are rarely combined in applied conservation studies, especially for less-studied taxa such as arthropods. Here we report how these different metrics can complement each other by using the response of spider communities to environmental changes in salt marshes as an example. Sampling took place using pitfall traps in salt marshes of the Mont St Michel Bay (France) during 2004 and 2007. The sampling design was spatially replicated (3 plots per treatment and 4 traps per plot) and encompassed four habitat treatments: control, sheep grazing, cutting (annual, in summer) and invasion by the plant Elymus athericus. We observed contrasting responses of spider communities to the different treatments: grazing had a negative impact on both rarity and functional diversity but a positive impact on specialisation; cutting had a negative impact on the three metrics; and invasion only had a negative impact on rarity and specialisation. These contrasting responses emphasise the necessity of using different complementary community metrics in such conservation studies. Consequently, rarity-, specialisation-, and functional-based indices should be applied simultaneously more frequently, as they potentially provide additional complementary information about communities. Such complementary information is the key to better-informed conservation choices.}, keywords = {Community Specialisation Index, CSI, Cutting, FDiv, Functional divergence, Functional Divergence Index, Grazing, Index of Relative Rarity, IRR, Species Specialisation Index, spiders, SSI}, issn = {1470160X}, doi = {10.1016/j.ecolind.2014.06.037}, url = {http://www.sciencedirect.com/science/article/pii/S1470160X14002908}, author = {Leroy, Boris and Le Viol, Isabelle and Petillon, J} } @article {3278, title = {Complex patterns in phytoplankton and microeukaryote diversity along the estuarine continuum}, journal = {Hydrobiologia}, volume = {726}, year = {2014}, pages = {155-178}, keywords = {18S rDNA clone libraries, Diversity, Estuarine gradient, Microeukaryotes, Microscopy, Phytoplankton, semiarid area}, doi = {10.1007/s10750-013- 1761-9}, author = {Bazin, Pauline and Fabien Jouenne and Deton-Cabanillas, Anne-Flore and Perez-Ruzafa, Angel and Beno{\^\i}t V{\'e}ron} } @article {Quaintenne201487, title = {Contrasting Benthos Communities and Prey Selection by Red Knot Calidris canutus in Three Nearby Bays on the Channel Coast}, journal = {Ardea}, volume = {101}, number = {2}, year = {2014}, note = {cited By 6}, pages = {87-98}, doi = {10.5253/078.101.0203}, url = {https://bioone.org/journals/Ardea/volume-101/issue-2/078.101.0203/Contrasting-Benthos-Communities-and-Prey-Selection-by-Red-Knot-Calidris/10.5253/078.101.0203.full}, author = {Gwena{\"e}l Quaintenne and Bocher, P. and Ponsero, A. and Caillot, E. and Eric Feunteun} } @article {3390, title = {Could FaRP-Like Peptides Participate in Regulation of Hyperosmotic Stress Responses in Plants?}, journal = {Front Endocrinol (Lausanne)}, volume = {5}, year = {2014}, month = {2014}, pages = {132}, abstract = {The ability to respond to hyperosmotic stress is one of the numerous conserved cellular processes that most of the organisms have to face during their life. In metazoans, some peptides belonging to the FMRFamide-like peptide (FLP) family were shown to participate in osmoregulation via regulation of ion channels; this is, a well-known response to hyperosmotic stress in plants. Thus, we explored whether FLPs exist and regulate osmotic stress in plants. First, we demonstrated the response of Arabidopsis thaliana cultured cells to a metazoan FLP (FLRF). We found that A. thaliana express genes that display typical FLP repeated sequences, which end in RF and are surrounded by K or R, which is typical of cleavage sites and suggests bioactivity; however, the terminal G, allowing an amidation process in metazoan, seems to be replaced by W. Using synthetic peptides, we showed that amidation appears unnecessary to bioactivity in A. thaliana, and we provide evidence that these putative FLPs could be involved in physiological processes related to hyperosmotic stress responses in plants, urging further studies on this topic.
}, issn = {1664-2392}, doi = {10.3389/fendo.2014.00132}, author = {Bouteau, Francois and Yann Bassaglia and Monetti, Emanuela and Tran, Daniel and Navet, S and Mancuso, Stefano and El-Maarouf-Bouteau, Hayat and Laure Bonnaud-Ponticelli} } @article {9378, title = {Detailed reconstruction of the musculature in Limnognathia maerski (Micrognathozoa) and comparison with other Gnathifera}, journal = {Frontiers in Zoology}, volume = {11}, year = {2014}, month = {Jan-12-2014}, doi = {10.1186/s12983-014-0071-z}, url = {https://frontiersinzoology.biomedcentral.com/articles/10.1186/s12983-014-0071-z}, author = {Bekkouche, Nicolas and Kristensen, Reinhardt M and Hejnol, Andreas and S{\o}rensen, Martin V and Worsaae, Katrine} } @article {4824, title = {Determinaci{\'o}n del sexo en arahuana Osteoglossum bicirrhosum mediante la detecci{\'o}n de los niveles plasm{\'a}ticos de vitelogenina}, journal = {Ciencia Amaz{\'o}nica}, volume = {4}, year = {2014}, pages = {151-159}, type = {Journal Article}, keywords = {Arahuana, Sexaje, Vitellogenine}, doi = {10.22386/ca.v4i2.81}, author = {Ram{\'\i}rez-Arrarte, Pedro and Jesus Nu{\~n}ez-Rodriguez and Chu-Koo, Fred} } @article {3701, title = {Direct evidence for maternal inheritance of bacterial symbionts in small deep-sea clams (Bivalvia: Vesicomyidae).}, journal = {Naturwissenschaften}, volume = {101}, year = {2014}, month = {2014 May}, pages = {373-83}, abstract = {Bacterial symbiont transmission is a key step in the renewal of the symbiotic interaction at each host generation, and different modes of transmission can be distinguished. Vesicomyidae are chemosynthetic bivalves from reducing habitats that rely on symbiosis with sulfur-oxidizing bacteria, in which two studies suggesting vertical transmission of symbionts have been published, both limited by the imaging techniques used. Using fluorescence in situ hybridization and transmission electron microscopy, we demonstrate that bacterial symbionts of Isorropodon bigoti, a gonochoristic Vesicomyidae from the Guiness cold seep site, occur intracellularly within female gametes at all stages of gametogenesis from germ cells to mature oocytes and in early postlarval stage. Symbionts are completely absent from the male gonad and gametes. This study confirms the transovarial transmission of symbionts in Vesicomyidae and extends it to the smaller species for which no data were previously available.
}, keywords = {Animals, Bacterial Physiological Phenomena, Bivalvia, Female, Germ Cells, Gonads, In Situ Hybridization, Fluorescence, Male, Microscopy, Electron, Transmission, Oceans and Seas, Symbiosis}, issn = {1432-1904}, doi = {10.1007/s00114-014-1165-3}, author = {Szafranski, Kamil M and Sylvie M Gaudron and S{\'e}bastien Duperron} } @article {3725, title = {Distocyclus guchereauae a new species of Neotropical electric fish, (Gymnotiformes: Sternopygidae), from French Guiana.}, journal = {Cybium}, volume = {38}, year = {2014}, pages = {223-230}, keywords = {Distocyclus guchereauae, French Guiana, Gymnotiformes, New species, Sternopygidae}, author = {Fran{\c c}ois J Meunier and Philippe Keith and Michel J{\'e}gu} } @article {4126, title = {Diversity of cultivable fungi associated with Antarctic marine sponges and screening for their antimicrobial, antitumoral and antioxidant potential.}, journal = {World J Microbiol Biotechnol}, volume = {30}, year = {2014}, month = {2014 Jan}, pages = {65-76}, abstract = {The diversity of sponge-associated fungi has been poorly investigated in remote geographical areas like Antarctica. In this study, 101 phenotypically different fungal isolates were obtained from 11 sponge samples collected in King George Island, Antarctica. The analysis of ITS sequences revealed that they belong to the phylum Ascomycota. Sixty-five isolates belong to the genera Geomyces, Penicillium, Epicoccum, Pseudeurotium, Thelebolus, Cladosporium, Aspergillus, Aureobasidium, Phoma, and Trichocladium but 36 isolates could not be identified at genus level. In order to estimate the potential of these isolates as producers of interesting bioactivities, antimicrobial, antitumoral and antioxidant activities of fungal culture extracts were assayed. Around 51\% of the extracts, mainly from the genus Geomyces and non identified relatives, showed antimicrobial activity against some of the bacteria tested. On the other hand, around 42\% of the extracts showed potent antitumoral activity, Geomyces sp. having the best performance. Finally, the potential of the isolated fungi as producers of antioxidant activity seems to be moderate. Our results suggest that fungi associated with Antarctic sponges, particularly Geomyces, would be valuable sources of antimicrobial and antitumoral compounds. To our knowledge, this is the first report describing the biodiversity and the metabolic potential of fungi associated with Antarctic marine sponges.
}, keywords = {Animals, Antarctic Regions, Anti-Bacterial Agents, Antineoplastic Agents, Antioxidants, Ascomycota, DNA, Ribosomal Spacer, Porifera, Sequence Analysis, DNA}, issn = {1573-0972}, doi = {10.1007/s11274-013-1418-x}, author = {Henr{\'\i}quez, Marlene and Vergara, Karen and Norambuena, Javiera and Beiza, Andrea and Maza, Felipe and Ubilla, Pamela and Araya, Ivanna and Ch{\'a}vez, Renato and San-Mart{\'\i}n, Aurelio and Darias, Jos{\'e} and Darias, Maria and Vaca, Inmaculada} } @article {3373, title = {Diversity of the RFamide peptide family in mollusks}, journal = {frontiers in endocrinology}, volume = {5}, year = {2014}, type = {review}, abstract = {Since the initial characterization of the cardioexcitatory peptide FMRFamide in the bivalve
mollusk Macrocallista nimbosa, a great number of FMRFamide-like peptides (FLPs) have
been identified in mollusks. FLPs were initially isolated and molecularly characterized in
model mollusks using biochemical methods. The development of recombinant technologies
and, more recently, of genomics has boosted knowledge on their diversity in various
mollusk classes. Today, mollusk FLPs represent approximately 75 distinct RFamide peptides
that appear to result from the expression of only five genes: the FMRFamide-related
peptide gene, the LFRFamide gene, the luqin gene, the neuropeptide F gene, and the cholecystokinin/
sulfakinin gene. FLPs display a complex spatiotemporal pattern of expression
in the central and peripheral nervous system.Working as neurotransmitters, neuromodulators,
or neurohormones, FLPs are involved in the control of a great variety of biological
and physiological processes including cardiovascular regulation, osmoregulation, reproduction,
digestion, and feeding behavior. From an evolutionary viewpoint, the major challenge
will then logically concern the elucidation of the FLP repertoire of orphan mollusk classes
and the way they are functionally related. In this respect, deciphering FLP signaling pathways
by characterizing the specific receptors these peptides bind remains another exciting
objective.
UNLABELLED: We characterized the proteome of the posterior salivary glands of the cephalopod S. officinalis by combining de novo RNA sequencing and mass spectrometry. In silico analysis of the transcriptome revealed the occurrence of three main categories of proteins: enzymes, immune factors and toxins. Protein identification by SDS-PAGE and MALDI-TOF/TOF confirmed the occurrence of proteins essential to venom-like enzymes: peptidase S1 under four isoforms, phospholipase A2 and two toxins. The first toxin is a cystein rich secreted protein (CRISP), a common toxin found in all venomous animals. The second one is cephalotoxin, which is specific to decabrachia cephalopods. Secretions of the posterior salivary glands are transported to the cephalopodium; they are involved in prey catching but also in gamete storage, fertilization and egg-laying. The paralyzing activity and the antimicrobial effect of saliva suggest a dual role in predation and in immune defense in cuttlefish.
BIOLOGICAL SIGNIFICANCE: The originality of this study lies in the use of a transcriptomic approach (de novo RNA sequencing) coupled to a proteomic approach to get an overview of posterior salivary glands in S. officinalis. In cephalopods, these glands are involved in predation, more precisely in paralyzing preys and digesting them. Our in silico analysis equally reveals a role in immune defense as observed in mammals{\textquoteright} saliva. Our study also shows the specificity of cuttlefish venom, with the identification of cephalotoxins, proteins that are not found in octopuses. Finally, we show that cuttlefish saliva is a complex mixture that has antibacterial and crippling properties, but no lethal effect.
}, issn = {1876-7737}, doi = {10.1016/j.jprot.2014.05.019}, author = {Cornet, Val{\'e}rie and Jo{\"e}l Henry and Corre, Erwan and Gildas Le Corguille and Zanuttini, Bruno and C{\'e}line Zatylny-Gaudin} } @article {Personnic2014, title = {An ecosystem-based approach to assess the status of a mediterranean ecosystem, the Posidonia oceanica seagrass meadow}, journal = {PLoS ONE}, volume = {9}, number = {6}, year = {2014}, note = {cited By 37}, doi = {10.1371/journal.pone.0098994}, url = {https://journals.plos.org/plosone/article?id=10.1371/journal.pone.0098994}, author = {Personnic, S. and Boudouresque, C.F. and Astruch, P. and Ballesteros, E. and Blouet, S. and Bellan-Santini, D. and Bonhomme, P. and Thibault-Botha, D. and Eric Feunteun and Mireille Harmelin-Vivien and Pergent, G. and Pergent-Martini, C. and Pastor, J. and Poggiale, J.-C. and Renaud, F. and Thibaut, T. and Ruitton, S.} } @article {3605, title = {The effect of cold stress on the proteome of the marine bacteriumPseudomonas fluorescens BA3SM1 and its ability to copewith metal excess}, journal = {Aquatic Toxicology}, volume = {157}, year = {2014}, month = {10/2014}, pages = {120-133}, abstract = {This study examined the effect of cold stress on the proteome and metal tolerance of Pseudomonas fluo-rescens BA3SM1, a marine strain isolated from tidal flat sediments. When cold stress (+10{\textopenbullet}C for 36 h)was applied before moderate metal stress (0.4 mM Cd, 0.6 mM Cd, 1.5 mM Zn, and 1.5 mM Cu), growthdisturbances induced by metal, in comparison with respective controls, were reduced for Cd and Znwhile they were pronounced for Cu. This marine strain was able to respond to cold stress through a num-ber of changes in protein regulation. Analysis of the predicted differentially expressed protein functionsdemonstrated that some mechanisms developed under cold stress were similar to those developed inresponse to Cd, Zn, and Cu. Therefore, pre-cold stress could help this strain to better counteract toxicityof moderate concentrations of some metals. P. fluorescens BA3SM1 was able to remove up to 404.3 mgCd/g dry weight, 172.5 mg Zn/g dry weight, and 11.3 mg Cu/g dry weight and its metal biosorption abilityseemed to be related to the bacterial growth phase. Thus, P. fluorescens BA3SM1 appears as a promisingagent for bioremediation processes, even at low temperatures.
}, keywords = {Cold stress, Marine strain, Metal biosorptiona, Proteomics, Pseudomonas fluorescens}, author = {Isabelle Poirier and Lauriane Kuhn and Christelle Caplat and Philippe Hammann and Martine Bertrand} } @article {4125, title = {The effect of dietary oxidized lipid levels on growth performance, antioxidant enzyme activities, intestinal lipid deposition and skeletogenesis in Senegalese sole (Solea senegalensis) larvae}, journal = {Aquaculture Nutrition}, volume = {20}, year = {2014}, pages = {692{\textendash}711}, abstract = {Fish tissues, particularly rich in n-3 PUFA, are prone to lipid peroxidation that can damage cellular membranes, cause severe lesions and subsequently incidences of disease and mortality. However, fish possess antioxidant defences, such as vitamin E (VE) and antioxidant enzymes, to protect them against oxidative damage. This study investigated the effects of an increasing gradient of oxidized dietary lipid on the survival, growth performance, skeletogenesis and antioxidant defensive processes occurring in Senegalese sole (Solea senegalensis) larvae. Four groups of fish were fed live prey enriched with experimental emulsions containing an increasing gradient of oxidized oil: non-oxidized, NO+VE, 34.5\ nmol MDA g-1 w.w.; mildly oxidized, MO+VE, 43.1\ nmol MDA g-1 w.w.; highly oxidized, HO+VE, 63.3\ nmol MDA g-1 w.w. and highly oxidized without VE, HO-VE, 78.8\ nmol MDA g-1 w.w. The oxidation levels increased in enriched rotifers following the oxidation gradient of the emulsions, but were not affected in enriched Artemia metanauplii. The oxidation status of Senegalese sole larvae increased during development, but this was not related to the dietary treatments. The increasing dietary oxidation levels did not affect the fatty acid profile, survival, growth performance and metamorphosis processes of sole larvae. Senegalese sole seem to activate antioxidant defence mechanisms in response to the increasing amounts of dietary peroxidized lipids, in a manner efficiently enough to prevent detection of any alterations of these physiological processes. Antioxidant systems and detoxification mechanisms appeared to occur through the consumption of dietary α-tocopherol, the activation of the antioxidant enzymes (catalase, superoxide dismutase, glutathione S-transferase, glutathione reductase) and the retention of oxidized fat in the intestinal enterocytes for detoxification prior to their utilization. However, fish fed the highest oxidized diet presented a reduction in bone mineralization, but lower incidence of deformities in the vertebral and caudal regions than fish fed the other diets. This study exemplifies the importance of rearing Senegalese sole larvae on non-oxidized diets during the early larval development to avoid detrimental consequences in older fish, most notably in the process of skeletogenesis.
}, keywords = {antioxidant enzymes, lipid peroxidation, live prey enrichment, skeletogenesis, Solea senegalensis larvae, vitamin E}, issn = {1365-2095}, doi = {10.1111/anu.12123}, url = {http://dx.doi.org/10.1111/anu.12123}, author = {Boglino, A and Darias, Maria and Est{\'e}vez, A and Andree, K B and Sarasquete, Carmen and Ortiz-Delgado, Juan Bosco and Sol{\'e}, M and Gisbert, E} } @article {3509, title = {The effect of different polychlorinated biphenyls on two aquatic models, the green alga Pseudokirchneriella subcapitata and the haemocytes from the European abalone Haliotis tuberculata.}, journal = {Chemosphere}, volume = {110}, year = {2014}, month = {2014 Sep}, pages = {120-8}, abstract = {The present study was conducted to determine the toxicity of different polychlorinated biphenyls (PCBs) on the green algae, Pseudokirchneriella subcapitata and the haemocytes from the European abalone, Haliotis tuberculata. Using the algal growth inhibition test, the green algae median Effective Concentration (EC50) values ranged from 0.34μM for PCB28 to more than 100μM for PCBs 101 and 153. Considering the MTT viability test, the abalone EC50 values ranged from 1.67μM for PCB153 to 89μM for PCB28. Our results in contrast to previous observation in vertebrates did not show significant differences between the dioxin like- and non dioxin like-PCBs toxicities regardless of the model used. However, our results demonstrated that the toxicities of PCBs were species dependent. For example, PCB28 was the most toxic compound for P. subcapitata whereas PCBs 1, 180 and 153 were less toxic for that species. On the contrary, PCB153 was reported as the most toxic for H. tuberculata haemocytes and PCB28 the least toxic. To investigate the mode of action of these compounds, we used an in silico method. Our results suggested that PCBs have a non-specific mode of action (e.g., narcosis) on green algae, and another mode of action, probably more specific than narcosis, was reported for PCBs on the abalone haemocytes.
}, keywords = {Animals, Chlorophyta, Environmental Pollutants, Gastropoda, Hemocytes, Polychlorinated Biphenyls, Tetrachlorodibenzodioxin}, issn = {1879-1298}, doi = {10.1016/j.chemosphere.2014.02.023}, author = {Halm-Lemeille, Marie-Pierre and Abbaszadeh Fard, Elham and Latire, T and Ferard, Jean-Fran{\c c}ois and Katherine Costil and Jean-Marc Lebel and Bureau, Ronan and Antoine Serpentini} } @article {3511, title = {Effects of acute exposures to mecoprop, mecoprop-p and their biodegradation product (2-MCP) on the larval stages of the Pacific oyster, Crassostrea gigas.}, journal = {Aquat Toxicol}, volume = {146}, year = {2014}, month = {2014 Jan}, pages = {165-75}, abstract = {Studies have shown that pesticides are sometimes detected at rather high levels in seawater and it has been suggested that these chemical compounds could act as additional stress factor for oysters cultured in coastal environments. The effects of pesticides on marine molluscs could be particularly harmful in the early stages which correspond to critical life stages. This study aimed to assess the effects of mecoprop, mecoprop-p and their degradation compound 2-methyl-4-chlorophenol on two larval stages of Crassostrea gigas. Embryotoxic effects were assessed on veliger larvae after 36 h exposures, and both percentages of normal larvae and types of abnormalities were taken into account. The effects of the three substances were evaluated on 21-day-old pediveliger larvae by calculating metamorphosis rates after 24h exposures. The results of the embryotoxicity assay indicated that 2-methyl-4-chlorophenol was more toxic (EC50: 10.81 mg L(-1)) than its parent compounds (EC50 mecoprop: 42.55 mg L(-1); EC50 mecoprop-p: 78.85 mg L(-1)). Mecoprop in particular injured shell formation with an increase of shell abnormalities following herbicide concentrations. The active substances were not toxic to metamorphosis processes, but 2-MCP was revealed to be more toxic to the success of metamorphosis (EC50: 7.20 mg L(-1)) than to embryo-larval development. However, the toxic concentrations were several orders of magnitude higher than environmental concentrations.
}, keywords = {2-Methyl-4-chlorophenoxyacetic Acid, Animals, Chlorophenols, Crassostrea, Embryo, Nonmammalian, Larva, Metamorphosis, Biological, Water Pollutants, Chemical}, issn = {1879-1514}, doi = {10.1016/j.aquatox.2013.11.008}, author = {Mottier, A and Kientz-Bouchart, Val{\'e}rie and Dubreule, Christelle and Antoine Serpentini and Jean-Marc Lebel and Katherine Costil} } @article {3414, title = {Effects of CO2, nutrients and light on coastal plankton: II. Metabolic rates. Aquatic Biology}, journal = {Aquatic Biology}, volume = {22}, year = {2014}, month = {11/20/14}, pages = {43-57}, abstract = {We conducted a microcosm experiment aimed at studying the interactive effects of high CO2, nutrient loading and irradiance on the metabolism of a planktonic community sampled in the Western Mediterranean near the coast of M{\'a}laga. Changes in the metabolism of phytoplankton and bacterioplankton were observed for 7 d under 8 treatment conditions, representing the full factorial combinations of 2 levels each of CO2, nutrient concentration and solar radiation exposure. The initial plankton sample was collected at the surface from a stratified water column, indicating that phytoplankton were naturally acclimated to high irradiance and low nutrient concentrations. Nutrient addition combined with high irradiance resulted in a significant increase in primary production. Nitrate uptake by phytoplankton was also stimulated under high nutrient conditions. High nutrients, high irradiance and the combination of low CO2 and high irradiance positively affected bacterial production. Light was the main factor affecting the respiration rates of the community, which were higher at the high light level. After 7 d of incubation, nutrient loading was the only factor that significantly affected the amount of particulate organic carbon (POC) accumulated in the microcosms. Therefore, the changes in metabolic rates produced at high CO2 had no effect on net production of particulate organic matter. If these results are extrapolated to the natural environment, it could be hypothesized that high levels of CO2 will have a limited impact on biological pump activity in the northern Alboran Sea since it is assumed that POC export towards deeper layers determines the potential for carbon sequestration.}, author = {Mercado, J. M. and Sobrino, C and Neale, P.J. and Segovia, M. and Reul, A. and Amorim, A.L. and Carrillo, P and Pascal Claquin and Cabrerizo, M.J and Le{\'o}n, P. and Lorenzo, M.R and Medina, J. M. and Montecino, V. and Napol{\'e}on, C and Prasil, 0. and Putzeys, S and Salles, S and Yebra, L} } @article {4132, title = {The effects of dietary arachidonic acid on bone in flatfish larvae: the last but not the least of the essential fatty acids}, journal = {Journal of Applied Ichthyology}, volume = {30}, year = {2014}, pages = {643{\textendash}651}, abstract = {Flatfish can provide a reliable model to study developmental disorders in bone tissues occurring during morphogenesis in response to nutritional imbalances. To date, most studies dealing with the effect of dietary essential fatty acids (EFA) on skeletogenesis in fish have focused their investigation on the role of docohexanoic (22:6n-3, DHA) and eicosapentaenoic (20:5n{\textendash}3, EPA) acids, but only a few have focused on investigating the effects of arachidonic acid (20:4n{\textendash}6, ARA) on bone during fish larval development. Bone development and composition at larval stage have been demonstrated to be highly sensitive to dietary levels of EFA, in particular the EPA and ARA acids, both precursors for highly bioactive eicosanoids presenting opposite effects on bone metabolism. Since fish are not able to synthesize EFA, they need to obtain them from the diet. However, dietary imbalances in EPA and ARA in flatfish larvae may disrupt bone formation and osteoblast differentiation in skeletal tissues, leading to the incidence of skeletal deformities, reduced mineralization and problems of bone remodelling in the cranial region associated with impaired eye migration. These anomalies in skeletal structures are one of the most important factors that affect flatfish larval quality and hamper their production. Thus, we have reviewed the current state of knowledge about the effects of dietary ARA contents on skeletogenesis in Senegalese sole (Solea senegalensis), one of the main flatfish species cultured in Europe. Their larval quality still suffers for a high incidence of skeletal anomalies induced by dietary imbalances during metamorphosis.
}, issn = {1439-0426}, doi = {10.1111/jai.12511}, url = {http://dx.doi.org/10.1111/jai.12511}, author = {Boglino, A and Darias, Maria and Andree, K B and Est{\'e}vez, A and Gisbert, E} } @article {4133, title = {The effects of dietary arachidonic acid on Senegalese sole morphogenesis: A synthesis of recent findings}, journal = {Aquaculture}, volume = {432}, year = {2014}, pages = {443 - 452}, abstract = {Abstract In this study we evaluated the effects of high dietary arachidonic acid (ARA) levels on prostaglandin \{E2\} (PGE2) and \{E3\} (PGE3) production and their effect on two morphogenetic processes occurring during metamorphosis: the establishment of the juvenile pigmentation pattern and eye migration and remodeling of cranial bones. In this sense, Senegalese sole larvae were fed from 2 to 50 days post-hatch (dph) with live prey enriched with an experimental emulsion containing high levels of \{ARA\} (ARA-H; 10.2 and 7.1\% \{TFA\} in enriched rotifer and Artemia, respectively) versus a reference commercial enriching product (Algamac 3050{\textregistered}, AGM; 1.0 and 1.4\% \{TFA\} in enriched rotifer and Artemia, respectively). High dietary \{ARA\} levels did not affect larval growth performance at 50 dph, but significantly induced malpigmentation (81.4 {\textpm} 7.5\%, versus 0.9 {\textpm} 0.3\% in larvae fed the \{AGM\} diet). This malpigmentation was linked to the higher prostaglandin \{E2\} (PGE2) levels observed in pseudo-albino fish as compared to normally pigmented individuals. The \{PGE2\} levels were higher in normally pigmented specimens fed the ARA-H diet than in those fed the \{AGM\} diet. The effects of \{ARA\} on normally pigmented fish fed the \{AGM\} diet and pseudo-albino specimens fed the ARA-H diet were evaluated by means of the density of melanophores and the texture and image segmentation analyses in the dorsal skin of post-metamorphic fish. The skin of pseudo-albino specimens had a more uniform and homogeneous melanophore pattern than normally pigmented fish. Melanophores in pseudo-albino specimens were less abundant and not so aggregated in patches as they were in normally pigmented ones, whereas their shape differed (round vs. dendritic) suggesting their inability to disperse melanin. In addition, fish fed the ARA-H diet presented a higher percentage of cranial deformities (95.1 {\textpm} 1.5\%) than those fed the control diet (1.9 {\textpm} 1.9\%) that was significantly and negatively correlated with the incidence of normally-pigmented animals (R2 = - 0.88, P \< 0.001). Cranial deformities in pseudo-albino fish were associated with an impaired migration of the eye from the ocular side (the right eye), whereas the left eye migrated from the blind side into the ocular side almost normally. The effects of high dietary \{ARA\} levels in the eye migration and cranial bone remodeling processes in post-metamorphic larvae were evaluated by means of the staining of cranial skeletal elements. Pseudo-albino fish showed higher interocular distance and head height than normally pigmented individuals, a different disposition of the eyes with regard to the vertebral column and mouth axes, and a distinct osteological development of some skeletal structures from the neuro- and splanchnocranium, in relation to high dietary \{ARA\} contents and high \{PGE2\} production. These results brought new information about possible nutritional forcing factors and physiological mechanisms of pigmentary disorders and impaired eye migration, which are current major bottlenecks in flatfish aquaculture.
}, keywords = {Skeletal deformities}, issn = {0044-8486}, doi = {http://dx.doi.org/10.1016/j.aquaculture.2014.05.007}, url = {http://www.sciencedirect.com/science/article/pii/S0044848614002233}, author = {Boglino, A and Wishkerman, A and Darias, Maria and de la Iglesia, P and Est{\'e}vez, A and Andree, K B and Gisbert, E} } @article {4155, title = {The effects of pool sediments on the egg morphology of Neotropical Eulimnadia (Branchiopoda: Limnadiidae)}, journal = {Journal of limnology}, volume = {737}, year = {2014}, month = {01/2014}, pages = {17-26}, type = {Research Article}, author = {Nicolas Rabet and D Montero and Sebastien Lacau} } @article {4157, title = {The effects of pool sediments on the egg morphology of Neotropical Eulimnadia (Branchiopoda: Limnadiidae)}, journal = {Journal of limnology}, volume = {737}, year = {2014}, pages = {17-26}, type = {Research Article}, author = {Nicolas Rabet and D Montero and Sebastien Lacau} } @article {3265, title = {Emergence of sensory structures in the developing epidermis in sepia officinalis and other coleoid cephalopods.}, journal = {J Comp Neurol}, volume = {522}, year = {2014}, month = {2014 Sep 1}, pages = {3004-19}, abstract = {Embryonic cuttlefish can first respond to a variety of sensory stimuli during early development in the egg capsule. To examine the neural basis of this ability, we investigated the emergence of sensory structures within the developing epidermis. We show that the skin facing the outer environment (not the skin lining the mantle cavity, for example) is derived from embryonic domains expressing the Sepia officinalis ortholog of pax3/7, a gene involved in epidermis specification in vertebrates. On the head, they are confined to discrete brachial regions referred to as "arm pillars" that expand and cover Sof-pax3/7-negative head ectodermal tissues. As revealed by the expression of the S. officinalis ortholog of elav1, an early marker of neural differentiation, the olfactory organs first differentiate at about stage 16 within Sof-pax3/7-negative ectodermal regions before they are covered by the definitive Sof-pax3/7-positive outer epithelium. In contrast, the eight mechanosensory lateral lines running over the head surface and the numerous other putative sensory cells in the epidermis, differentiate in the Sof-pax3/7-positive tissues at stages \~{}24-25, after they have extended over the entire outer surfaces of the head and arms. Locations and morphologies of the various sensory cells in the olfactory organs and skin were examined using antibodies against acetylated tubulin during the development of S. officinalis and were compared with those in hatchlings of two other cephalopod species. The early differentiation of olfactory structures and the peculiar development of the epidermis with its sensory cells provide new perspectives for comparisons of developmental processes among molluscs.
}, issn = {1096-9861}, doi = {10.1002/cne.23562}, author = {Buresi, Auxane and Croll, Roger P and Tiozzo, Stefano and Laure Bonnaud-Ponticelli and S{\'e}bastien Baratte} } @article {3399, title = {Epigenetic features in the oyster Crassostrea gigas suggestive of functionally relevant promoter DNA methylation in invertebrates.}, journal = {Frontiers in Physiology}, volume = {5}, year = {2014}, month = {04/2014}, type = {Research Perspective}, abstract = {DNA methylation is evolutionarily conserved. Vertebrates exhibit high, widespread DNA methylation whereas invertebrate genomes are less methylated, predominantly within gene bodies. DNA methylation in invertebrates is associated with transcription level, alternative splicing and genome evolution, but functional outcomes of DNA methylation remain poorly described in lophotrochozoans. Recent genome-wide approaches improve understanding in distant taxa such as molluscs, where the phylogenetic position and life traits of Crassostrea gigas make this bivalve an ideal model to study the physiological and evolutionary implications of DNA methylation. We review the literature about DNA methylation in invertebrates and focus on DNA methylation features in the oyster. Indeed, though our MeDIP-seq results confirm predominant intragenic methylation, the profiles depend on the oyster{\textquoteright}s developmental and reproductive stage. We discuss the perspective that oyster DNA methylation could be biased toward the 5{\textquoteright}-end of some genes, depending on physiological status, suggesting important functional outcomes of putative promoter methylation from cell differentiation during early development to sustained adaptation of the species to the environment.
}, doi = {10.3389/fphys.2014.00129}, author = {Guillaume Rivi{\`e}re} } @article {3451, title = {Estimating how many undescribed species have gone extinct.}, journal = {Conserv Biol}, volume = {28}, year = {2014}, month = {2014 Oct}, pages = {1360-70}, abstract = {Because both descriptions of species and modern human-driven extinctions started around the same time (i.e., eighteenth century), a logical expectation is that a large proportion of species may have gone extinct without ever having been recorded. Despite this evident and widely recognized assumption, the loss of undescribed species has never been estimated. We quantified this loss for several taxonomic groups and regions for which undescribed species extinctions are likely to have occurred. Across a wide range of taxonomic groups, we applied known extinction rates computed from recorded species losses to assumed exponential decay in the proportion of species remaining undiscovered. Because all previous modeling attempts to project total species richness implicitly assumed that undescribed species extinctions could be neglected, we also evaluated the effect of neglecting them. Finally, because we assumed constant description and extinction probabilities, we applied our model to simulated data that did not conform to this assumption. Actual species losses were severely underestimated by considering only known species extinctions. According to our estimates, the proportion of undiscovered extinct species over all extinctions ranged from 0.15 to 0.59, depending on the taxonomic group and the region considered. This means that recent extinctions may be up to twice as large as the number recorded. When species differed in their extinction or description probabilities, our model underestimated extinctions of undescribed species by up to 20\%.
}, issn = {1523-1739}, doi = {10.1111/cobi.12285}, author = {Pablo Tedesco and R{\'e}my Bigorne and Bogan, Arthur and Giam, Xingli and J{\'e}z{\'e}quel, C{\'e}line and Bernard Hugueny} } @article {Walker20141, title = {EU eeliad: Anguillid eels: Conserving a global fishery}, journal = {Ecology of Freshwater Fish}, volume = {23}, number = {1}, year = {2014}, note = {cited By 0}, pages = {1}, doi = {10.1111/eff.12104}, url = {https://onlinelibrary.wiley.com/toc/16000633/23/1}, author = {Walker, A.M. and Eric Feunteun and Metcalfe, J. and Poole, R. and Righton, D.} } @inbook {4149, title = {European Sea bass larval culture.}, booktitle = {Biology of European Seabass.}, year = {2014}, pages = {162-206}, publisher = {CRC Press}, organization = {CRC Press}, address = {Boca Raton}, author = {Gisbert, E and Fern{\'a}ndez, Ignacio and Villamizar, N and Darias, Maria and Zambonino-Infante, J and Est{\'e}vez, A}, editor = {S{\'a}nchez-V{\'a}zquez, F J and Mu{\~n}oz-Cueto, J A} } @article {Wahlberg201432, title = {Evidence of marine mammal predation of the European eel (Anguilla anguilla L.) on its marine migration}, journal = {Deep-Sea Research Part I: Oceanographic Research Papers}, volume = {86}, year = {2014}, note = {cited By 30}, pages = {32-38}, doi = {10.1016/j.dsr.2014.01.003}, url = {https://www.sciencedirect.com/science/article/pii/S0967063714000077}, author = {Wahlberg, M. and Westerberg, H. and Aarestrup, K. and Eric Feunteun and Gargan, P. and Righton, D.} } @article {3267, title = {Evolution of Vacuolar Pyrophosphatases and Vacuolar H+-Atpases in Diatoms}, journal = {Journal of Marine Science and Technology}, volume = {22}, year = {2014}, month = {Feb}, pages = {50-59}, abstract = {To cope with changing environments and maintain optimal metabolic conditions, the control of the intracellular proton gradients has to be tightly regulated. Among the important proton pumps, vacuolar H^+-ATPases (V-ATPases) and H^+-translocating pyrophosphatases (H^+-PPases) were found to be involved in a number of physiological processes, and shown to be regulated at the expression level and to exhibit specific sub-cellular localizations. Studies of the role of these transporters are relatively scarce in algae and nearly absent in diatoms. Phylogenetic analyses disclose that diatoms, with both K^+-dependent and K^+-independent membrane integral pyrophosphatases, including proteins with high homology with a novel class of Na^+,H^+-PPases. Analyses of Phaeodactylum tricornutum EST libraries show that the gene putatively encoding a Na^+,H^+-PPase is over-expressed in urea adapted condition. Genome-wide investigations of the reservoir of V-ATPases encoding subunits demonstrate that diatoms display an expended number of genes encoding for the proteolipid subunits c of the V0 subcomplex. Preliminary localization studies show that one of V0-c subunits is associated to the endoplasmic reticulum membrane in P. tricornutum. Altogether our data highlight that the combination of comparative and functional genomic approaches reach promises to provide new information to the roles of membrane proton pumps in diatoms.
}, keywords = {Algae, endoplasmic reticulum, H^+-PPases, V-ATPases, vacuole}, issn = {1023-2796}, doi = {10.6119/JMST-013-0829-1}, author = {Adrien Bussard and Pascal Jean Lopez} } @article {Carpentier201486, title = {Feeding ecology of Liza spp. in a tidal flat: Evidence of the importance of primary production (biofilm) and associated meiofauna}, journal = {Journal of Sea Research}, volume = {92}, year = {2014}, note = {cited By 25}, pages = {86-91}, doi = {10.1016/j.seares.2013.10.007}, url = {https://www.sciencedirect.com/science/article/pii/S1385110113002013}, author = {Alexandre Carpentier and Como, S. and Christine Dupuy and Lefran{\c c}ois, C. and Eric Feunteun} } @article {3290, title = {Fish-AMAZBOL: a database on freshwater fishes of the Bolivian Amazon}, journal = {Hyrobiologia}, volume = {732}, year = {2014}, month = {07/2014}, pages = {pp. 19-27}, abstract = {The Bolivian part of the Amazon Basin contains a mega diverse and well-preserved fish fauna. Since the last decade, this fish fauna has received an increasing attention from scientists and the national authorities as fishes represent one of the most important sources of proteins for local human communities. However, this fish fauna still remains poorly documented. Here, we present a database for fishes from the Bolivian Amazon. To build the database, we conducted an extensive literature survey of native and non-native (exotic) fishes inhabiting all major sub-drainages of the Bolivian Amazon. The database, named Fish-AMAZBOL, contains species lists for 13 Amazonian hydrological units, covering 100\% of the Bolivian Amazon and approximately 65\% (722,137 km2) of the all territory. Fish-AMAZBOL includes 802 valid species, 12 of them being non-native, that have been checked for systematic reliability and consistency. To put this number in perspective, this represents around 14\% of the all Neotropical ichthyofauna and around 6\% of all strictly freshwater fishes inhabiting the planet. This database is currently the most comprehensive database of native and non-native fish species richness available so far for the Bolivian Amazon.}, keywords = {Amazon River basin, Bolivia, Checklist, Freshwater fishes, Madera River, South America}, doi = {10.1007/s10750-014-1841-5}, url = {http://link.springer.com/article/10.1007/s10750-014-1841-5}, author = {Carvajal-Vallejos, F M and R{\'e}my Bigorne and Zeballos Fernandez, Am{\'e}rica J. and Sarmiento, Jaime and Barrera Soraya and Yunoki, T and Marc Pouilly and Zubieta Jos{\'e} and De La Barra, Evans and Michel J{\'e}gu and Maldonado, Mabel and Van Damme, Paul and C{\'e}spedes, Ricardo and Thierry Oberdorff} } @article {3244, title = {Forecasted climate and land use changes, and protected areas: the contrasting case of spiders}, journal = {Diversity and Distributions}, volume = {20}, year = {2014}, pages = {686-697}, keywords = {Arthropods, ensemble forecast, global changes, species distribution models, threatened species, uncertainty}, doi = {10.1111/ddi.12191}, author = {Leroy, Boris and Bellard, C{\'e}line and Dubos, Nicolas and Colliot, Arthur and Vasseur, Manon and Courtial, Cyril and Bakkenes, Michel and Canard, A and Fr{\'e}d{\'e}ric Ysnel} } @article {3395, title = {Functional characterization of a short neuropeptide F-related receptor in a lophotrochozoan, the mollusk Crassostrea gigas.}, journal = {J Exp Biol}, volume = {217}, year = {2014}, month = {2014 Aug 15}, pages = {2974-82}, abstract = {Members of the short neuropeptide F (sNPF) family of peptides and their cognate receptors play key roles in a variety of physiological processes in arthropods. In silico screening of GigasDatabase, a specific expressed sequence tag database from the Pacific oyster Crassostrea gigas, resulted in the identification of a receptor (Cg-sNPFR-like) phylogenetically closely related to sNPF receptors (sNPFRs) of insects. A reverse endocrinology approach was undertaken to identify the peptide ligand(s) of this orphan receptor. Though structurally distinct from insect sNPFs, three RFamide peptides derived from the same precursor, i.e. GSLFRFamide, SSLFRFamide and GALFRFamide, specifically activate the receptor in a dose-dependent manner, with respective EC50 values (half-maximal effective concentrations) of 1.1, 2.1 and 4.1 μmol l(-1). We found that both Cg-sNPFR-like receptor and LFRFamide encoding transcripts are expressed in the oyster central nervous system and in other tissues as well, albeit at lower levels. Mass spectrometry analysis confirmed the wide distribution of LFRFamide mature peptides in several central and peripheral tissues. The Cg-sNPFR-like receptor was more abundantly expressed in ganglia of females than of males, and upregulated in starved oysters. In the gonad area, highest receptor gene expression occurred at the start of gametogenesis, when storage activity is maximal. Our results suggest that signaling of LFRFamide peptides through the Cg-sNPFR-like receptor might play a role in the coordination of nutrition, energy storage and metabolism in C. gigas, possibly by promoting storage at the expense of reproduction.
}, issn = {1477-9145}, doi = {10.1242/jeb.104067}, author = {Bigot, Laetitia and Beets, Isabel and Marie-Pierre Dubos and Boudry, Pierre and Schoofs, Liliane and Pascal Favrel} } @article {3736, title = {G2Sd: a new R package for the statistical analysis of unconsolidated sediments}, journal = {G{\'e}omorphologie: relief, processus, environnement}, year = {2014}, month = {06/2014}, pages = {73-78}, abstract = {Modern depositional environment are mainly investigated in terms of internal sedimentary structures and associated grain-size characteristics. The latter are an intrinsic feature of sediments and hence essential for quantitative descriptions. It is therefore useful to have a tool available which allows direct and rapid calculation of numerous statistical parameters for a large number of samples. The G2Sd package gives full descriptive statistics and a physical description of sediments based on grain-size distributions derived from sieve analyses using a decadic log-transformation of the millimeter scale. Statistics are calculated either by using arithmetic and geometric methods of moments, or the graphic procedure of R.L. Folk and W.C. Ward (1957) to calculate mean grain-size, standard-deviation, skewness, and kurtosis based on the binary log-transformation of the mm scale. Numerical results are thus provided both in metric and phi units. The mode can be determined graphically by the user. Several percentiles and two common indices are calculated: D10, D50, D90, D90/D10, D90-D10, D75/D25, D75-D25, Trask Index (So) and Krumbein Index (Qd). A physical description of texture, sorting, skewness and kurtosis parameters is provided, based on the sediment nomenclature described in R.L. Folk (1966). The weight percentage of particles falling into each predefined size fraction is also included in the results. This package runs within the CRAN R-project.
}, author = {J{\'e}r{\^o}me Fournier and R{\'e}gis K. Gallon and Raphael Paris} } @article {3445, title = {Genetic structure in the Amazonian catfish Brachyplatystoma rousseauxii: influence of life history strategies.}, journal = {Genetica}, volume = {142}, year = {2014}, month = {2014 Aug}, pages = {323-36}, abstract = {The Dorado or Plateado (Gilded catfish) Brachyplatystoma rousseauxii (Pimelodidae, Siluriformes) is a commercially valuable migratory catfish performing the largest migration in freshwaters: from the Amazonian headwaters in the Andean foothills (breeding area) to the Amazon estuary (nursery area). In spite of its importance to inform management and conservation efforts, the genetic variability of this species has only recently begun to be studied. The aim of the present work was to determine the population genetic structure of B. rousseauxii in two regions: the Upper Madera Basin (five locations in the Bolivian Amazon) and the Western Amazon Basin (one regional sample from the Uyucal{\'\i}-Napo-Mara{\~n}on-Amazon basin, Peru). Length polymorphism at nine microsatellite loci (284 individuals) was used to determine genetic variability and to identify the most probable panmictic units (using a Bayesian approach), after a significant departure from Hardy-Weinberg equilibrium was observed in the overall dataset (Western Amazon\ +\ Upper Madera). Bayesian analyses revealed at least three clusters in admixture in the five locations sampled in the Bolivian Amazon, whereas only two of these clusters were observed in the Western Amazon. Considering the migratory behaviour of B. rousseauxii, different life history strategies, including homing, are proposed to explain the cluster distribution. Our results are discussed in the light of the numerous threats to the species survival in the Madera basin, in particular dam and reservoir construction.
}, issn = {1573-6857}, doi = {10.1007/s10709-014-9777-2}, author = {Carvajal-Vallejos, F M and Fabrice Duponchelle and Desmarais, E and Cerqueira, F and Sophie Qu{\'e}rouil and Jesus Nu{\~n}ez-Rodriguez and Garc{\'\i}a, C and Renno, J-F} } @article {3326, title = {Geographical origin of Amazonian freshwater fishes fingerprinted by $^{8}$$^{7}$Sr/$^{8}$$^{6}$Sr ratios on fish otoliths and scales.}, journal = {Environ Sci Technol}, volume = {48}, year = {2014}, month = {2014 Aug 19}, pages = {8980-7}, abstract = {Calcified structures such as otoliths and scales grow continuously throughout the lifetime of fishes. The geochemical variations present in these biogenic structures are particularly relevant for studying fish migration and origin. In order to investigate the potential of the (87)Sr/(86)Sr ratio as a precise biogeochemical tag in Amazonian fishes, we compared this ratio between the water and fish otoliths and scales of two commercial fish species, Hoplias malabaricus and Schizodon fasciatus, from three major drainage basins of the Amazon: the Madeira, Solim{\~o}es, and Tapaj{\'o}s rivers, displaying contrasted (87)Sr/(86)Sr ratios. A comparison of the (87)Sr/(86)Sr ratios between the otoliths and scales of the same individuals revealed similar values and were very close to the Sr isotopic composition of the local river where they were captured. This indicates, first, the absence of Sr isotopic fractionation during biological uptake and incorporation into calcified structures and, second, that scales may represent an interesting nonlethal alternative for (87)Sr/(86)Sr ratio measurements in comparison to otoliths. Considering the wide range of (87)Sr/(86)Sr variations that exist across Amazonian rivers, we used variations of (87)Sr/(86)Sr to discriminate fish origin at the basin level, as well as at the sub-basin level between the river and savannah lakes of the Beni River (Madeira basin).
}, issn = {1520-5851}, doi = {10.1021/es500071w}, author = {Marc Pouilly and Point, David and Sondag, Francis and Henry, Manuel and Santos, Roberto V} } @article {3252, title = {Global imprint of historical connectivity on freshwater fish biodiversity.}, journal = {Ecol Lett}, volume = {17}, year = {2014}, month = {2014 Sep}, pages = {1130-40}, abstract = {The relative importance of contemporary and historical processes is central for understanding biodiversity patterns. While several studies show that past conditions can partly explain the current biodiversity patterns, the role of history remains elusive. We reconstructed palaeo-drainage basins under lower sea level conditions (Last Glacial Maximum) to test whether the historical connectivity between basins left an imprint on the global patterns of freshwater fish biodiversity. After controlling for contemporary and past environmental conditions, we found that palaeo-connected basins displayed greater species richness but lower levels of endemism and beta diversity than did palaeo-disconnected basins. Palaeo-connected basins exhibited shallower distance decay of compositional similarity, suggesting that palaeo-river connections favoured the exchange of fish species. Finally, we found that a longer period of palaeo-connection resulted in lower levels of beta diversity. These findings reveal the first unambiguous results of the role played by history in explaining the global contemporary patterns of biodiversity.
}, keywords = {Animals, Biodiversity, Environment, Fishes, Fresh Water, Models, Biological}, issn = {1461-0248}, doi = {10.1111/ele.12319}, author = {Dias, Murilo S and Thierry Oberdorff and Bernard Hugueny and Leprieur, Fabien and J{\'e}z{\'e}quel, C{\'e}line and Cornu, Jean-Fran{\c c}ois and Brosse, S{\'e}bastien and Grenouillet, Gael and Pablo Tedesco} } @article {3251, title = {Ground-dwelling arthropod community across braided landscape mosaics: a Mediterraen perspective}, journal = {Freshwater Biology}, volume = {59}, year = {2014}, pages = {1308-1322}, keywords = {beta-diversity, chronosequence, floodplain, Lycosidae, natural flow regime}, doi = {10.1111/fwb.12350}, author = {Datry, Thibault and Corti, Roland and Belletti, Barbara and Pi{\'e}gay, Herv{\'e}} } @article {3508, title = {Hemocyte morphology and phagocytic activity in the common cuttlefish (Sepia officinalis).}, journal = {Fish Shellfish Immunol}, volume = {40}, year = {2014}, month = {2014 Oct}, pages = {362-73}, abstract = {Little is known about the immune system of cephalopods, in spite of their many highly derived characters within the molluscan clade, including a vertebrate-like high-pressure closed circulatory system. Further the economic importance of cephalopod fisheries, potential for aquaculture, and use as ecotoxicology models demand a thorough understanding of their immune system. In this study, we present a comprehensive characterization of hemocytes in the common cuttlefish Sepia officinalis. Cytological stainings, electron microscopy- and flow cytometry-observations highlight a single granulocyte population with various densities of eosinophilic granules and unstained vesicles. These hemocytes contain acid phosphatase-, lysozyme- and proPO system enzymes, and have high activity in bead phagocytosis assays. Interestingly, bead pre-incubation in plasma results in time-dependent aggregation perhaps resulting from hemocyanin-coating, and decrease in phagocytosis. This study provides the basis for understanding hemocyte-mediated immunity in the common cuttlefish, and essential background for future studies on cephalopod immunity.
}, issn = {1095-9947}, doi = {10.1016/j.fsi.2014.07.020}, author = {Le Pabic, C and Goux, Didier and Guillamin, Maryline and Safi, Georges and Jean-Marc Lebel and Sim{\'e}oni Koueta-Noussith{\'e} and Antoine Serpentini} } @article {3250, title = {Histological development of the digestive system of the Amazonian pimelodid catfish Pseudoplatystoma punctifer.}, journal = {Animal}, volume = {8}, year = {2014}, month = {2014 Nov}, pages = {1765-76}, abstract = {The organogenesis of the digestive system was described in the Amazonian pimelodid catfish species Pseudoplatystoma punctifer from hatching (3.5 mm total length, TL) to 41 days post-fertilization (dpf) (58.1 mm TL) reared at 28{\textdegree}C. Newly hatched larvae showed a simple digestive tract, which appeared as a straight undifferentiated and unfolded tube lined by a single layer of columnar epithelial cells (future enterocytes). During the endogenous feeding period, comprised between 20 and 96 h post-fertilization (3.5 to 6.1 mm TL), the larval digestive system experienced a fast transformation with the almost complete development and differentiation of most of digestive organs (buccopahrynx, oesophagus, intestine, liver and exocrine pancreas). Yolk reserves were not completely depleted at the onset of exogenous feeding (4 dpf, 6.1 mm TL), and a period of mixed nutrition was observed up to 6 to 7 dpf (6.8 to 7.3 mm TL) when yolk was definitively exhausted. The stomach was the organ that latest achieved its complete differentiation, characterized by the development of abundant gastric glands in the fundic stomach between 10 and 15 dpf (10.9 to 15.8 mm TL) and the formation of the pyloric sphincter at the junction of the pyloric stomach and the anterior intestine at 15 dpf (15.8 mm TL). The above-mentioned morphological and histological features observed suggested the achievement of a digestive system characteristic of P. punctifer juveniles and adults. The ontogeny of the digestive system in P. punctifer followed the same general pattern as in most Siluriform species so far, although some species-specific differences in the timing of differentiation of several digestive structures were noted, which might be related to different reproductive guilds, egg and larval size or even different larval rearing practices. According to present findings on the histological development of the digestive system in P. punctifer, some recommendations regarding the rearing practices of this species are also provided in order to improve the actual larval rearing techniques of this fast-growing Neotropical catfish species.
}, issn = {1751-732X}, doi = {10.1017/S1751731114001797}, author = {Gisbert, E and Moreira, C and Castro-Ruiz, D and Ozt{\"u}rk, S and Fern{\'a}ndez, C and Gilles, S and Jesus Nu{\~n}ez-Rodriguez and Fabrice Duponchelle and Salvador Tello and Renno, J F and Garc{\'\i}a-D{\'a}vila, C and Darias, Maria} } @article {3600, title = {Historical assemblage distinctiveness and the introduction of widespread non-native species explain worldwide change in freshwater fish taxonomic dissimilarity}, journal = {Global Ecology and Biogeography}, volume = {23}, year = {2014}, month = {05/2014}, pages = {574-584}, doi = {DOI: 10.1111/geb.12141}, author = {A. Toussaint and O. Beauchard and Thierry Oberdorff and S. Brosse} } @article {3599, title = {Historical assemblage distinctiveness and the introduction of widespread non-native species explain worldwide change in freshwater fish taxonomic dissimilarity}, journal = {Global Ecology and Biogeography}, volume = {23}, year = {2014}, month = {05/2014}, pages = {574-584}, doi = {DOI: 10.1111/geb.12141}, author = {A. Toussaint and O. Beauchard and Thierry Oberdorff and S. Brosse and S. Vill{\'e}ger} } @article {5051, title = {How does the resuspension of the biofilm alter the functioning of the benthos{\textendash}pelagos coupled food web of a bare mudflat in Marennes-Ol{\'e}ron Bay (NE Atlantic)?}, journal = {Journal of sea research}, volume = {92}, year = {2014}, pages = {144{\textendash}157}, author = {Saint-B{\'e}at, B and Christine Dupuy and Agogue, Helene and Alexandre Carpentier and Chalumeau, J and Como, Serena and David, Val{\'e}rie and Margot de Crignis and Duch{\^e}ne, J C and Fontaine, C and others} } @article {Saint-B{\'e}at2014144, title = {How does the resuspension of the biofilm alter the functioning of the benthos-pelagos coupled food web of a bare mudflat in Marennes-Ol{\'e}ron Bay (NE Atlantic)?}, journal = {Journal of Sea Research}, volume = {92}, year = {2014}, note = {cited By 17}, pages = {144-157}, doi = {10.1016/j.seares.2014.02.003}, url = {https://www.sciencedirect.com/science/article/pii/S138511011400029X}, author = {Saint-B{\'e}at, B. and Christine Dupuy and Agogu{\'e}, H. and Alexandre Carpentier and Chalumeau, J. and Como, S. and David, V. and De Crignis, M. and Duch{\^e}ne, J.-C. and Fontaine, C. and Eric Feunteun and Katell Guizien and Hartmann, H. and Lavaud, J. and S{\'e}bastien Lefebvre and Lefran{\c c}ois, C. and Mallet, C. and Montani{\'e}, H. and Mouget, J.-L. and Francis Orvain and Ory, P. and Pascal, P.-Y. and Radenac, G. and Richard, P. and V{\'e}zina, A.F. and Nathalie Niquil} } @article {4634, title = {In vitro effect of five pharmaceuticals on the viability of the European abalone hemocytes, Haliotis tuberculata}, journal = {J xenobiotics}, volume = {4}, year = {2014}, pages = {78-80}, keywords = {cell viability, Haliotis tuberculata, hemocyte, in vitro, pharmaceuticals}, doi = {10.4081/xeno.2014.4900}, author = {Letullier, Amandine and Minguez, Laetitia and Katherine Costil and Halm-Lemeille, Marie-Pierre and Jean-Marc Lebel and Antoine Serpentini} } @article {4108, title = {An integrated closed system for fish-plankton aquaculture in Amazonian fresh water.}, journal = {Animal}, volume = {8}, year = {2014}, month = {2014 Aug}, pages = {1319-28}, abstract = {A prototype of an integrated closed system for fish-plankton aquaculture was developed in Iquitos (Peruvian Amazonia) in order to cultivate the Tiger Catfish, Pseudoplatystoma punctifer (Castelnau, 1855). This freshwater recirculating system consisted of two linked sewage tanks with an intensive rearing unit (a cage) for P. punctifer placed in the first, and with a fish-plankton trophic chain replacing the filters commonly used in clear water closed systems. Detritivorous and zooplanktivorous fishes (Loricariidae and Cichlidae), maintained without external feeding in the sewage volume, mineralized organic matter and permitted the stabilization of the phytoplankton biomass. Water exchange and organic waste discharge were not necessary. In this paper we describe the processes undertaken to equilibrate this ecosystem: first the elimination of an un-adapted spiny alga, Golenkinia sp., whose proliferation was favored by the presence of a small rotifer, Trichocerca sp., and second the control of this rotifer proliferation via the introduction of two cichlid species, Acaronia nassa Heckel, 1840 and Satanoperca jurupari Heckel, 1840, in the sewage part. This favored some development of the green algae Nannochloris sp. and Chlorella sp. At that time we took the opportunity to begin a 3-month rearing test of P. punctifer. The mean specific growth rate and feed conversion ratio (FCR) of P. punctifer were 1.43 and 1.27, respectively, and the global FCR, including fish in the sewage part, was 1.08. This system has proven to be suitable for growing P. punctifer juveniles out to adult, and provides several practical advantages compared with traditional recirculating clear water systems, which use a combination of mechanical and biological filters and require periodic waste removal, leading to water and organic matter losses.
}, issn = {1751-732X}, doi = {10.1017/S1751731114001165}, author = {Gilles, S and Ismi{\~n}o, R and S{\'a}nchez, H and Frank David and Jesus Nu{\~n}ez-Rodriguez and Dugu{\'e}, R and Darias, Maria and R{\"o}mer, U} } @article {3598, title = {Interacting Regional Scale Regime Shifts for Biodiversity and Ecosystem Services}, journal = {BioScience}, volume = {64}, year = {2014}, month = {08/2014}, pages = {665-679}, doi = {doi: 10.1093/biosci/biu093}, author = {P. Leadley and V. Proen{\c c}a and Juan F. Fern{\'a}ndez-Manjarr{\'e}s and H.M. Pereira and R. Alkemade and R. Biggs and E. Bruley and W. Cheung and D. Cooper and J. Figueiredo and E. Gilman and S. Gu{\'e}nette and G. Hurtt and C. Mbow and Thierry Oberdorff and C. Revenga and J. Scharlemann and R. Scholes and M. Stafford-Smith and R. Sumaila and M. Walpole} } @article {3413, title = {Interactive effects of irradiance and temperature on growth and domoic acid production of the toxic diatom Pseudo-nitzschia australis (Bacillariophyceae)}, journal = {Harmful Algae}, volume = {39}, year = {2014}, pages = {232-241}, abstract = {The influence of temperature and light on the growth, physiology and domoic acid (DA) production of the pennate toxic diatom Pseudo-nitzschia australis isolated from the English Channel was studied in semicontinuous culture. The effects of eight irradiances (35{\textendash}400 mmol photons m2 s-1) and a temperature gradient (3.5{\textendash}25.5 8C) were investigated. The highest growth rates (0.47{\textendash}0.83 d-1) were observed between 18.6 and 13.5 8C, with an optimum irradiance for growth at 100 mmol photons m2 s-1. A decrease in the optimum growth temperature was observed with an increase in irradiance. Cell chlorophyll a content decreased at both low and high extreme temperatures and high irradiances. Stable and high values of Fv/Fm ratios below 21.8C highlight the great acclimation capacity of P. australis, which may explain its wide biogeographic distribution. The strain studied produced DA without nutrient limitation and during exponential growth although at lower levels than in other studies (0.15{\textendash} 2.0 pg DA cell-1). Results underline the importance of light{\textendash}temperature interactions for growth and DA production. Toxin production increased with increasing temperature and light, and DA production increased exponentially with the growth rate. These results show that DA is not only produced under nutrient stress or by unhealthy cells in P. australis. This study underlines the need to take the ability of P. australis to produce DA during the exponential growth into consideration to understand the link between toxin production and bloom dynamics. These results will not only help explore the processes involved, but also help parameterize future models of growth and DA production especially for P. australis.}, keywords = {Domoic acid, Growth Irradiance, Pseudo-nitzschia australis, Temperature}, author = {Thorel, Maxine and Juliette Fauchot and Morelle, J{\'e}r{\^o}me and Raimbault, V and Le Rou, B and Miossec, C and Kientz-Bouchard, V and Pascal Claquin} } @article {3661, title = {{Intra- and inter-specific variation in size and habitus of two sibling spider species (Araneae: Lycosidae): taxonomic and biogeographic insights from sampling across Europe}}, journal = {Biological Journal of the Linnean Society}, volume = {113}, year = {2014}, pages = {85{\textendash}96}, issn = {00244066}, doi = {10.1111/bij.12303}, url = {http://doi.wiley.com/10.1111/bij.12303}, author = {Puzin, C and Leroy, Boris and Petillon, J} } @article {3760, title = {The IPOCAMP pressure incubator for deep-sea fauna}, journal = {J Mar Sci Technol}, volume = {22}, year = {2014}, pages = {97-102}, doi = {10.6119/JMST-013-0718-3 }, url = {https://pdfs.semanticscholar.org/0804/23beebe022c1f0a644738e3ade83632322e8.pdf}, author = {Bruce Shillito and Fran{\c c}oise Gaill and Juliette Ravaux} } @article {6832, title = {Irreplaceable area extends marine conservation hotspot off Tunisia: insights from GPS-tracking Scopoli{\textquoteright}s shearwaters from the largest seabird colony in the Mediterranean}, journal = {Marine biology}, volume = {161}, year = {2014}, pages = {2669{\textendash}2680}, author = {Gr{\'e}millet, David and Clara P{\'e}ron and Pons, Jean-Baptiste and Ouni, Rhida and Authier, Matthieu and Th{\'e}venet, Matthieu and Fort, J{\'e}r{\^o}me} } @article {3394, title = {The Jumonji gene family in Crassostrea gigas suggests evolutionary conservation of Jmj-C histone demethylases orthologues in the oyster gametogenesis and development.}, journal = {Gene}, volume = {538}, year = {2014}, month = {2014 Mar 15}, pages = {164-75}, abstract = {Jumonji (Jmj) proteins are histone demethylases, which control the identity of stem cells. Jmj genes were characterized from plants to mammals where they have been implicated in the epigenetic regulation of development. Despite the Pacific oyster Crassostrea gigas representing one of the most important aquaculture resources worldwide, the molecular mechanisms governing the embryogenesis and reproduction of this lophotrochozoan species remain poorly understood. However, annotations in the C. gigas EST library suggested the presence of putative Jumonji genes, raising the question of the conservation of this family of histone demethylases in the oyster. Using Primer walking, 5{\textquoteright}-RACE PCR and in silico analyses, we characterized nine Jumonji orthologues in the oyster, called Cg-Jmj, bearing conserved domains critical for putative histone demethylase activity. Phylogenic analyses revealed that oyster Jumonji cluster into two distinct groups: {\textquoteright}single-domain Jmj{\textquoteright} and {\textquoteright}multi-domain Jmj{\textquoteright}, and define 8 subgroups corresponding to each cognate orthologues in metazoans. RT-qPCR investigations showed specific regulations of Cg-Jmj mRNAs during the early development and along the reproduction cycle. Furthermore, in situ and in toto hybridizations indicate that oyster Jumonji genes are transcribed mostly within the gonad in adult oysters whereas they display a ubiquitous expression during embryonic and larval development. Our study demonstrates the presence of nine Jumonji orthologues in the oyster C. gigas. Their domain conservation and their expression profile suggest an implication during reproduction and development, questioning about the epigenetic regulation by histone methylation in lophotrochozoans.
}, keywords = {Animals, Base Sequence, Conserved Sequence, Crassostrea, Evolution, Molecular, Gametogenesis, Gene Expression Regulation, Developmental, Jumonji Domain-Containing Histone Demethylases, Molecular Sequence Data, Multigene Family, RNA, Messenger}, issn = {1879-0038}, doi = {10.1016/j.gene.2013.12.016}, author = {Alexandre Fellous and Pascal Favrel and Guo, Ximing and Guillaume Rivi{\`e}re} } @article {5819, title = {{Large and local-scale influences on physical and chemical characteristics of coastal waters of Western Europe during winter}}, journal = {Journal of Marine Systems}, volume = {139}, year = {2014}, pages = {79{\textendash}90}, abstract = {There is now a strong scientific consensus that coastal marine systems of Western Europe are highly sensitive to the combined effects of natural climate variability and anthropogenic climate change. However, it still remains challenging to assess the spatial and temporal scales at which climate influence operates. While large-scale hydro-climatic indices, such as the North Atlantic Oscillation (NAO) or the East Atlantic Pattern (EAP) and the weather regimes such as the Atlantic Ridge (AR), are known to be relevant predictors of physical processes, changes in coastal waters can also be related to local hydro-meteorological and geochemical forcing. Here, we study the temporal variability of physical and chemical characteristics of coastal waters located at about 48{\textdegree}N over the period 1998-2013 using (1) sea surface temperature, (2) sea surface salinity and (3) nutrient concentration observations for two coastal sites located at the outlet of the Bay of Brest and off Roscoff, (4) river discharges of the major tributaries close to these two sites and (5) regional and local precipitation data over the region of interest. Focusing on the winter months, we characterize the physical and chemical variability of these coastal waters and document changes in both precipitation and river runoffs. Our study reveals that variability in coastal waters is connected to the large-scale North Atlantic atmospheric circulation but is also partly explained by local river influences. Indeed, while the NAO is strongly related to changes in sea surface temperature at the Brest and Roscoff sites, the EAP and the AR have a major influence on precipitations, which in turn modulate river discharges that impact sea surface salinity at the scale of the two coastal stations. {\textcopyright} 2014 Elsevier B.V.
}, keywords = {Climate variability, Coastal systems, Large-scale hydro-climatic indices, River inputs, Time-series, Weather regimes}, issn = {09247963}, author = {Paul Tr{\'e}guer and Goberville, Eric and Barrier, Nicolas and St{\'e}phane L{\textquoteright}Helguen and Morin, Pascal and Bozec, Yann and Rimmelin-Maury, Peggy and Czamanski, Marie and Emilie Grossteffan and Cariou, Thierry and R{\'e}p{\'e}caud, Michel and Qu{\'e}m{\'e}ner, Loic} } @article {3856, title = {Long-term studies of Crozet Island killer whales are fundamental to understanding the economic and demographic consequences of their depredation behaviour on the Patagonian toothfish fishery.}, journal = {ICES journal of marine science}, year = {2014}, author = {Tixier, P and Guinet, C and Nicolas Gasco} } @article {3631, title = {Looking for the bird Kiss: evolutionary scenario in sauropsids.}, journal = {BMC Evol Biol}, volume = {14}, year = {2014}, month = {2014}, pages = {30}, abstract = {BACKGROUND: The neuropeptide Kiss and its receptor KissR are key-actors in the brain control of reproduction in mammals, where they are responsible for the stimulation of the activity of GnRH neurones. Investigation in other vertebrates revealed up to 3 Kiss and 4 KissR paralogs, originating from the two rounds of whole genome duplication in early vertebrates. In contrast, the absence of Kiss and KissR has been suggested in birds, as no homologs of these genes could be found in current genomic databases. This study aims at addressing the question of the existence, from an evolutionary perspective, of the Kisspeptin system in birds. It provides the first large-scale investigation of the Kisspeptin system in the sauropsid lineage, including ophidian, chelonian, crocodilian, and avian lineages.
RESULTS: Sauropsid Kiss and KissR genes were predicted from multiple genome and transcriptome databases by TBLASTN. Phylogenetic and syntenic analyses were performed to classify predicted sauropsid Kiss and KissR genes and to re-construct the evolutionary scenarios of both gene families across the sauropsid radiation.Genome search, phylogenetic and synteny analyses, demonstrated the presence of two Kiss genes (Kiss1 and Kiss2 types) and of two KissR genes (KissR1 and KissR4 types) in the sauropsid lineage. These four genes, also present in the mammalian lineage, would have been inherited from their common amniote ancestor. In contrast, synteny analyses supported that the other Kiss and KissR paralogs are missing in sauropsids as in mammals, indicating their absence in the amniote lineage. Among sauropsids, in the avian lineage, we demonstrated the existence of a Kiss2-like gene in three bird genomes. The divergence of these avian Kiss2-like sequences from those of other vertebrates, as well as their absence in the genomes of some other birds, revealed the processes of Kiss2 gene degeneration and loss in the avian lineage.
CONCLUSION: These findings contribute to trace back the evolutionary history of the Kisspeptin system in amniotes and sauropsids, and provide the first molecular evidence of the existence and fate of a Kiss gene in birds.
}, keywords = {Amino Acid Sequence, Animals, Avian Proteins, Biological Evolution, Birds, Humans, Kisspeptins, Molecular Sequence Data, Phylogeny, Receptors, G-Protein-Coupled, Reptiles, Sequence Alignment, Synteny}, issn = {1471-2148}, doi = {10.1186/1471-2148-14-30}, author = {Pasquier, J{\'e}r{\'e}my and Anne-Gaelle Lafont and Karine Rousseau and Qu{\'e}rat, Bruno and Chemineau, Philippe and Sylvie Dufour} } @article {3497, title = {Maintenance of potential spermatogonial stem cells in vitro by GDNF treatment in a chondrichthyan model (Scyliorhinus canicula L.).}, journal = {Biol Reprod}, volume = {91}, year = {2014}, month = {2014 Oct}, pages = {91}, abstract = {Previous work in dogfish, Scyliorhinus canicula, has identified the testicular germinative area as the spermatogonial stem cell niche. In the present study, an in vitro co-culture system of spermatogonia and somatic cells from the germinative area was developed. Long-term maintenance of spermatogonia has been successful, and addition of GDNF has promoted the development of clones of spermatogonia expressing stem cell characteristics such as alkaline phosphatase activity and has allowed maintenance of self-renewal in spermatogonia for at least 5 mo under culture conditions, notably by decreasing cell apoptosis. Furthermore, clones of spermatogonia expressed the receptor of GDNF, GFRalpha1, which is consistent with the effect of GDNF on cells despite the lack of identification of a GDNF sequence in the dogfish{\textquoteright}s transcriptome. However, a sequence homologous to artemin has been identified, and in silico analysis supports the hypothesis that artemin could replace GDNF in the germinative area in dogfish. This study, as the first report on long-term in vitro maintenance of spermatogonia in a chondrichthyan species, suggests that the GFRalpha1 signaling function in self-renewal of spermatogonial stem cells is probably conserved in gnathostomes.
}, issn = {1529-7268}, doi = {10.1095/biolreprod.113.116020}, author = {Aude Gautier and Bosseboeuf, A and Auvray, P and Pascal Sourdaine} } @book {Chemin{\'e}e2014161, title = {Management of infralittoral habitats: Towards a seascape scale approach}, series = {Underwater Seascapes: From Geographical to Ecological Perspectives}, volume = {9783319034409}, year = {2014}, note = {cited By 8}, pages = {161-183}, doi = {10.1007/978-3-319-03440-9-11}, url = {https://link.springer.com/chapter/10.1007/978-3-319-03440-9_11}, author = {Chemin{\'e}e, A. and Eric Feunteun and Clerici, S. and Cousin, B. and Patrice Francour} } @article {5818, title = {{Marine biological shifts and climate}}, journal = {Proceedings of the Royal Society B: Biological Sciences}, volume = {281}, year = {2014}, pages = {20133350}, abstract = {Phenological, biogeographic and community shifts are among the reported responses of marine ecosystems and their species to climate change. However, despite both the profound consequences for ecosystem functioning and ser- vices, our understanding of the root causes underlying these biological changes remains rudimentary. Here, we show that a significant proportion of the responses of species and communities to climate change are determinis- tic at some emergent spatio-temporal scales, enabling testable predictions and more accurate projections of future changes.We propose a theory based on the concept of the ecological niche to connect phenological, biogeographic and long-term community shifts. The theory explains approximately 70{\%} of the phenological and biogeographic shifts of a key zooplankton Calanus finmarch- icus in the North Atlantic and approximately 56{\%} of the long-term shifts in copepods observed in the North Sea during the period 1958{\textendash}2009.
}, keywords = {environmental science}, issn = {1471-2954}, author = {Gr{\'e}gory Beaugrand and Goberville, Eric and Christophe Luczak and Richard R Kirby} } @article {3216, title = {A microbiological and biogeochemical investigation of the cold seep tubeworm Escarpia southwardae (Annelida: Siboglinidae): Symbiosis and trace element composition of the tube}, journal = {Deep-Sea Research Part I - Oceanographic Research Papers}, year = {2014}, doi = {10.1016/J.dsr.2014.05.006}, author = {S{\'e}bastien Duperron and Sylvie M Gaudron and Lema{\^\i}tre, Nolwenn and Bayon, Germain} } @article {Bultel201423, title = {Migration behaviour of silver eels (Anguilla anguilla) in a large estuary of Western Europe inferred from acoustic telemetry}, journal = {Estuarine, Coastal and Shelf Science}, volume = {137}, number = {1}, year = {2014}, note = {cited By 31}, pages = {23-31}, doi = {10.1016/j.ecss.2013.11.023}, url = {https://www.sciencedirect.com/science/article/pii/S0272771413005155}, author = {Bultel, E. and Lasne, E. and Anthony Acou and Guillaudeau, J. and Bertier, C. and Eric Feunteun} } @article {3855, title = { Mitigating killer whale depredation on demersal longline fisheries by changing fishing practice.}, journal = {ICES Journal of Marine Science}, year = {2014}, author = {Tixier, P and Vacquie-Garcia, J and Nicolas Gasco and Guinet, C} } @article {Trancart2014181, title = {Modeling marine shad distribution using data from French bycatch fishery surveys}, journal = {Marine Ecology Progress Series}, volume = {511}, year = {2014}, note = {cited By 6}, pages = {181-192}, doi = {10.3354/meps10907}, url = {http://www.int-res.com/abstracts/meps/v511/p181-192/}, author = {Thomas Trancart and Rochette, S. and Anthony Acou and Lasne, E. and Eric Feunteun} } @article {3211, title = {Molecular evolution of GPCRs: Kisspeptin/kisspeptin receptors.}, journal = {J. Mol. Endocrinol.}, volume = {52}, year = {2014}, pages = {101-117}, author = {Pasquier, J and Kamech, Nedia and Anne-Gaelle Lafont and H Vaudry and Karine Rousseau and Sylvie Dufour} } @article {3131, title = {Morphological and molecular evidence of three species of pikes Esox spp. (Actinopterygii, Esocidae) in France, including the description of a new species}, journal = {Comptes Rendus Biologies}, volume = {337}, year = {2014}, pages = {521-534}, abstract = {This integrative taxonomy study of French pikes compares morphological characters and molecular sequence data (mitochondrial COI and nuclear Plagl2 genes). In addition to the expected E.\ lucius, DNA sequences and morphology both support a new species in France, E.\ aquitanicus sp. nov. from the Charente to the Adour drainages. It is characterized by a color pattern of sides with narrow 1{\textendash}1.5-scale-wide oblique vertical bands, conferring it a marbled coat, a snout only 0.9 times larger than the postorbital length, an anal fin basis 1.1{\textendash}1.2 times larger than the caudal peduncle length, 101 to 121 lateral scales, 53 to 57 vertebrae, as well as 24 diagnostic sites in the COI gene and 3 in the Plagl2 gene. Partial COI sequences (131bp) from modern and historical specimens indicate also the presence of E.\ cisalpinus and E.\ lucius during the 19th century in Lake Geneva. Morphological and molecular data points to a possible hybridization between E.\ lucius with both other local pike species, representing a risk for them. Their endangerment status should be evaluated rapidly in order to take conservation measures.
}, keywords = {Cytochrome c oxidase subunit 1, Esox aquitanicus, Esox cisalpinus, France, Integrative taxonomy, New species, Pleiomorphic adenoma gene-like 2}, issn = {16310691}, doi = {10.1016/j.crvi.2014.07.002}, author = {Denys, Ga{\"e}l and Dettai, Agn{\`e}s and Persat, Henri and M{\'e}lyne Hautecoeur and Philippe Keith} } @article {4161, title = {A multilocus molecular phylogeny of combtooth blennies (Percomorpha: Blennioidei: Blenniidae): multiple invasions of intertidal habitats.}, journal = {Mol Phylogenet Evol}, volume = {70}, year = {2014}, month = {2014 Jan}, pages = {47-56}, abstract = {The combtooth blennies (f. Blenniidae) is a diverse family of primarily marine fishes with approximately 387 species that inhabit subtidal, intertidal, supralittoral habitats in tropical and warm temperate regions throughout the world. The Blenniidae has typically been divided into six groups based on morphological characters: Blenniini, Nemophini, Omobranchini, Phenablenniini, Parablenniini, and Salariini. There is, however, considerable debate over the validity of these groups and their relationships. Since little is known about the relationships in this group, other aspects of their evolutionary history, such as habitat evolution and remain unexplored. Herein, we use Bayesian and maximum likelihood analyses of four nuclear loci (ENC1, myh6, ptr, and tbr1) from 102 species, representing 41 genera, to resolve the phylogeny of the Blenniidae, determine the validity of the previously recognized groupings, and explore the evolution of habitat association using ancestral state reconstruction. Bayesian and maximum likelihood analyses of the resulting 3100bp of DNA sequence produced nearly identical topologies, and identified many well-supported clades. Of these clades, Nemophini was the only traditionally recognized group strongly supported as monophyletic. This highly resolved and thoroughly sampled blenniid phylogeny provides strong evidence that the traditional rank-based classification does not adequately delimit monophyletic groups with the Blenniidae. This phylogeny redefines the taxonomy of the group and supports the use of 13 unranked clades for the classification of blenniids. Ancestral state reconstructions identified four independent invasions of intertidal habitats within the Blenniidae, and subsequent invasions into supralittoral and freshwater habitats from these groups. The independent invasions of intertidal habitats are likely to have played an important role in the evolutionary history of blennies.
}, keywords = {Animals, Bayes Theorem, Ecosystem, Likelihood Functions, Perciformes, Phylogeny, Sequence Analysis, DNA}, issn = {1095-9513}, doi = {10.1016/j.ympev.2013.09.001}, author = {Hundt, Peter J and Samuel Iglesias and Hoey, Andrew S and Simons, Andrew M} } @article {3636, title = {Multiple thyrotropin β-subunit and thyrotropin receptor-related genes arose during vertebrate evolution.}, journal = {PLoS One}, volume = {9}, year = {2014}, month = {2014}, pages = {e111361}, abstract = {Thyroid-stimulating hormone (TSH) is composed of a specific β subunit and an α subunit that is shared with the two pituitary gonadotropins. The three β subunits derive from a common ancestral gene through two genome duplications (1R and 2R) that took place before the radiation of vertebrates. Analysis of genomic data from phylogenetically relevant species allowed us to identify an additional Tshβ subunit-related gene that was generated through 2R. This gene, named Tshβ2, present in cartilaginous fish, little skate and elephant shark, and in early lobe-finned fish, coelacanth and lungfish, was lost in ray-finned fish and tetrapods. The absence of a second type of TSH receptor (Tshr) gene in these species suggests that both TSHs act through the same receptor. A novel Tshβ sister gene, named Tshβ3, was generated through the third genomic duplication (3R) that occurred early in the teleost lineage. Tshβ3 is present in most teleost groups but was lostin tedraodontiforms. The 3R also generated a second Tshr, named Tshrb. Interestingly, the new Tshrb was translocated from its original chromosomic position after the emergence of eels and was then maintained in its new position. Tshrb was lost in tetraodontiforms and in ostariophysians including zebrafish although the latter species have two TSHs, suggesting that TSHRb may be dispensable. The tissue distribution of duplicated Tshβs and Tshrs was studied in the European eel. The endocrine thyrotropic function in the eel would be essentially mediated by the classical Tshβ and Tshra, which are mainly expressed in the pituitary and thyroid, respectively. Tshβ3 and Tshrb showed a similar distribution pattern in the brain, pituitary, ovary and adipose tissue, suggesting a possible paracrine/autocrine mode of action in these non-thyroidal tissues. Further studies will be needed to determine the binding specificity of the two receptors and how these two TSH systems are interrelated.
}, issn = {1932-6203}, doi = {10.1371/journal.pone.0111361}, author = {Gersende Maugars and Sylvie Dufour and Cohen-Tannoudji, Jo{\"e}lle and Qu{\'e}rat, Bruno} } @article {3487, title = {Multiscale patterns in the diversity and organization of benthic intertidal fauna among French Atlantic estuaries}, journal = {Journal of Sea Research}, volume = {90}, year = {2014}, month = {07/2014}, pages = {95 - 110}, abstract = {Based on a parallel sampling conducted during autumn 2008, a comparative study of the intertidal benthic macrofauna among 10 estuarine systems located along the Channel and Atlantic coasts of France was performed in order to assess the level of fauna similarity among these sites and to identify possible environmental factors involved in the observed pattern at both large (among sites) and smaller (benthic assemblages) scales. More precisely this study focused on unraveling the observed pattern of intertidal benthic fauna composition and diversity observed at among-site scale by exploring both biotic and abiotic factors acting at the among- and within-site scales. Results showed a limited level of similarity at the among-site level in terms of intertidal benthic fauna composition and diversity. The observed pattern did not fit with existing transitional water classification methods based on fish or benthic assemblages developed in the frame of the European Water Framework Directive (WFD). More particularly, the coastal plain estuaries displayed higher among-site similarity compared to ria systems. These coastal plain estuaries were characterized by higher influence of river discharge, lower communication with the ocean and high suspended particulate matter levels. On the other hand, the ria-type systems were more dissimilar and different from the coastal plain estuaries. The level of similarity among estuaries was mainly linked to the relative extent of the intertidal {\textquotedblleft}Scrobicularia plana{\textendash}Cerastoderma edule{\textquotedblright} and {\textquotedblleft}Tellina tenuis{\textquotedblright} or {\textquotedblleft}Venus{\textquotedblright} communities as a possible consequence of salinity regime, suspended matter concentrations and fine particles supply with consequences on the trophic functioning, structure and organization of benthic fauna. Despite biogeographical patterns, the results also suggest that, in the context of the WFD, these estuaries should only be compared on the basis of the most common intertidal habitat occurring throughout all estuarine systems and that the \{EUNIS\} biotope classification might be used for this purpose. In addition, an original inverse relation between γ-diversity and area was shown; however, its relevance might be questioned.
}, keywords = {Diversity, Estuaries, Macrozoobenthos, Structuring Factors, WFD}, issn = {1385-1101}, doi = {http://dx.doi.org/10.1016/j.seares.2014.02.014}, url = {http://www.sciencedirect.com/science/article/pii/S1385110114000495}, author = {Hugues Blanchet and Beno{\^\i}t Gouillieux and Sandrine Alizier and Jean-Michel Amouroux and Guy Bachelet and Anne-Laure Barill{\'e} and Jean-Claude Dauvin and Xavier de Montaudouin and Val{\'e}rie Derolez and Nicolas Desroy and Jacques Grall and Antoine Gr{\'e}mare and Pascal Hacquebart and J{\'e}r{\^o}me Jourde and C{\'e}line Labrune and Nicolas Lavesque and Antoine Meirland and Thiebaut Nebout and Fr{\'e}d{\'e}ric Olivier and Corine Pelaprat and Thierry Ruellet and Pierre-Guy Sauriau and S{\'e}bastien Thorin} } @article {3639, title = {Neuroendocrine gene expression reveals a decrease in dopamine D2B receptor with no changes in GnRH system during prepubertal metamorphosis of silvering in wild Japanese eel.}, journal = {Gen Comp Endocrinol}, volume = {206}, year = {2014}, month = {2014 Sep 15}, pages = {8-15}, abstract = {Silvering is a prepubertal metamorphosis preparing the eel to the oceanic reproductive migration. A moderate gonad development occurs during this metamorphosis from the sedentary yellow stage to the migratory silver stage. The aim of this study was to elucidate the molecular aspects of various endocrine parameters of BPG axis at different ovarian developmental stages in wild yellow and silver female Japanese eels. The GSI of the sampled female eels ranged between 0.18 and 2.3\%, corresponding to yellow, pre-silver and silver stages. Gonad histology showed changes from previtellogenic oocytes in yellow eels to early vitellogenic oocytes in silver eels. Both serum E2 and T concentrations significantly increased with ovarian development indicating a significant activation of steroidogenesis during silvering. In agreement with previous studies, significant increases in pituitary gonadotropin beta subunits FSH-β and LH-β transcripts were also measured by qPCR, supporting that the activation of pituitary gonadotropin expression is likely responsible for the significant ovarian development observed during silvering. We investigated for the first time the possible brain neuroendocrine mechanisms involved in the activation of the pituitary gonadotropic function during silvering. By analyzing the expression of genes representative of the stimulatory GnRH control and the inhibitory dopaminergic control. The transcript levels of mGnRH and the three GnRH receptors did not change in the brain and pituitary between yellow and silver stages, suggesting that gene expression of the GnRH system is not significantly activated during silvering. The brain transcript levels of tyrosine hydroxylase, limiting enzyme of DA synthesis did not change during silvering, indicating that the DA synthesis activity was maintained. In contrast, a significant decrease in DA-D2B receptor expression in the forebrain and pituitary was observed, with no changes in DA-D2A receptor. The decrease in the pituitary expression of DA-D2BR during silvering would allow a reduced inhibitory effect of DA. We may raise the hypothesis that this regulation of D2BR gene expression is one of the neuroendocrine mechanisms involved in the slight activation of the pituitary gonadotropin and gonadal activity that occur at silvering.
}, keywords = {Animals, Cells, Cultured, Dopamine, Eels, Female, Follicle Stimulating Hormone, beta Subunit, Gene Expression Regulation, Gonadotropin-Releasing Hormone, Immunoblotting, Immunoenzyme Techniques, Luteinizing Hormone, beta Subunit, Metamorphosis, Biological, Neurosecretory Systems, Oocytes, Ovary, Real-Time Polymerase Chain Reaction, Receptors, Dopamine D2, Reproduction, Reverse Transcriptase Polymerase Chain Reaction, RNA, Messenger, Sexual Maturation, Skin Pigmentation}, issn = {1095-6840}, doi = {10.1016/j.ygcen.2014.08.001}, author = {Jeng, Shan-Ru and Wen-Shiun Yueh and Pen, Yi-Ting and Lee, Yan-Horn and Chen, Guan-Ru and Sylvie Dufour and Chang, Ching-Fong} } @article {3392, title = {NEUROGENESIS IN CEPHALOPODS: {\textquotedblleft}ECO-EVO-DEVO{\textquotedblright} APPROACH IN THE CUTTLEFISH SEPIA OFFICINALIS (MOLLUSCA-CEPHALOPODA)}, journal = {Journal of Marine Science and Technology, Taiwan}, volume = {22}, year = {2014}, pages = {15-24}, abstract = {Cephalopods are new evolutionary and ecological models.
By their phylogenetic position (Lophotrochozoa, Mollusca),
they provide a missing master piece in the whole puzzle of
neurodevelopment studies. Their derived and specific nervous
system but also their convergence with vertebrates offer
abundant materials to question the evolution and development
of the nervous system of Metazoa (evo-devo studies). In
addition, their various adaptions to different modes of life
open new fields of investigation of developmental plasticity
according to ecological context (eco-evo-devo approach). In
this paper, we review the recent works on cephalopod nervous
developmental investigations. We show how cephalopods, and
especially Sepia officinalis, an animal of economical interest,
can be used as suitable models to extend our knowledge on
cephalopod ecology and on nervous system evolution among
molluscs.
BACKGROUND: Oysters impart significant socio-ecological benefits from primary production of food supply, to estuarine ecosystems via reduction of water column nutrients, plankton and seston biomass. Little though is known at the molecular level of what genes are responsible for how oysters reproduce, filter nutrients, survive stressful physiological events and form reef communities. Neuropeptides represent a diverse class of chemical messengers, instrumental in orchestrating these complex physiological events in other species.
RESULTS: By a combination of in silico data mining and peptide analysis of ganglia, 74 putative neuropeptide genes were identified from genome and transcriptome databases of the Akoya pearl oyster, Pinctata fucata and the Pacific oyster, Crassostrea gigas, encoding precursors for over 300 predicted bioactive peptide products, including three newly identified neuropeptide precursors PFGx8amide, RxIamide and Wx3Yamide. Our findings also include a gene for the gonadotropin-releasing hormone (GnRH) and two egg-laying hormones (ELH) which were identified from both oysters. Multiple sequence alignments and phylogenetic analysis supports similar global organization of these mature peptides. Computer-based peptide modeling of the molecular tertiary structures of ELH highlights the structural homologies within ELH family, which may facilitate ELH activity leading to the release of gametes.
CONCLUSION: Our analysis demonstrates that oysters possess conserved molluscan neuropeptide domains and overall precursor organization whilst highlighting many previously unrecognized bivalve idiosyncrasies. This genomic analysis provides a solid foundation from which further studies aimed at the functional characterization of these molluscan neuropeptides can be conducted to further stimulate advances in understanding the ecology and cultivation of oysters.
}, issn = {1471-2164}, doi = {10.1186/1471-2164-15-840}, author = {Stewart, Michael J and Pascal Favrel and Rotgans, Bronwyn A and Wang, Tianfang and Zhao, Min and Sohail, Manzar and O{\textquoteright}Connor, Wayne A and Elizur, Abigail and Jo{\"e}l Henry and Cummins, Scott F} } @inbook {3726, title = {New data on freshwater fish of New Caledonia}, booktitle = {in Guilbert {\'E}., Robillard T., Jourdan H., \& Grandcolas P.(eds), Zoologia Neocaledonica 8. Biodiversity studies in New Caledonia. }, number = {206}, year = {2014}, pages = {127-132 }, publisher = {Mus{\'e}um national d{\textquoteright}Histoire naturelle}, organization = {Mus{\'e}um national d{\textquoteright}Histoire naturelle}, edition = {M{\'e}moires du Mus{\'e}um national d{\textquoteright}Histoire naturelle }, address = {Paris }, abstract = {Since 1861, freshwater fishes have been studied at different periods in New Caledonia. The first list was published in 1915, but the
major inventories were done between 1998 and 2003. These inventories allowed the discovery of many new species and the publication,
in 2003, of the Atlas of Freshwater fish and crustaceans of New Caledonia, which listed 64 freshwater fish species. Between 2004
and 2010, additional specific surveys were conducted by the MNHN and 9 species were added. Among them, 3 were new for science.
Gobiidae family represents 30\% of the freshwater fishes of New Caledonia. This high percentage is explained by their particular life
cycle adapted to insular systems.
The Sicydiinae subfamily (Teleostei: Gobioidei) is the biggest contributor to the diversity of fish communities in river systems of tropical islands. These species are found in the Indo-Pacific area, the Caribbean region and West Africa. They spawn in freshwater, their planktotrophic larvae drift downstream to the sea where they develop, before returning to the rivers to grow and reproduce. Hence, they are called amphidromous. Their phylogeny has been explored using a total of 3545 sites from 5 molecular markers (mitochondrial DNA: 16S rDNA, cytochrome oxidase I, cytochrome b; nuclear DNA: rhodopsin gene and a nuclear marker specially developed for this study, the interferon regulatory factor 2 binding protein 1-IRF2PB1). Sequences were obtained for 59 Sicydiinae specimens of 9 known genera. The Bayesian and maximum likelihood analyses support the monophyly of the subfamily as well as the monophylyof all genera except Sicydium, which is paraphyletic. Five major clades were identified within this subfamily. One clade contained the genus Stiphodon. Another clade contained Sicyopterus, Sicydium and Parasicydium with Sicyopterus as sister genus of Sicydium. The non-monophyly of Sicydium subclade, because it includes the monotypic genus Parasicydium, challenged the validity of Parasicydium genus. Ancestral area reconstruction showed that the subfamily emerged in the Central West Pacific region implying that previous hypotheses proposing a dispersal route for Sicydiinae into the Atlantic Ocean are unsupported by the present analysis. Our results suggest that the hypotheses for the dispersal route of the genus Sicydium should be reconsidered.
}, keywords = {Animals, Bayes Theorem, Cell Nucleus, Cytochromes b, DNA, Mitochondrial, DNA, Ribosomal, Electron Transport Complex IV, Evolution, Molecular, Female, Mitochondria, Perciformes, Phylogeny, Sequence Analysis, DNA}, issn = {1095-9513}, doi = {10.1016/j.ympev.2013.09.026}, author = {Taillebois, Laura and Castelin, Magalie and Clara Lord and Chabarria, Ryan and Dettai, Agn{\`e}s and Philippe Keith} } @article {3724, title = {A new species of Sicyopus (Gobioidei) from Java and Bali}, journal = {Cybium}, volume = {38}, year = {2014}, pages = {173-178}, abstract = {Sicyopus rubicundus n. sp., a sicydiine goby, is described from specimens collected in streams of\ Java and Bali (Indonesia). It differs from other species of this amphidromous genus by a combination of characters\ including a first dorsal fin with five spines in both sexes, a second dorsal fin with one spine and nine segmented\ rays, an anal fin with one spine and nine segmented rays, and a distinctive body colour in male.
}, keywords = {Freshwater, Gobiidae, Indonesia, New species, Sicyopus rubicundus}, author = {Philippe Keith and Hadiaty, Renny and Fr{\'e}d{\'e}ric Busson and Hubert, Nicolas} } @article {3737, title = {Optimisation du marquage d{\textquoteright}oiseaux par la pose de bagues couleurs}, journal = {Alauda}, volume = {82}, year = {2014}, month = {06/2014}, pages = {161-170}, abstract = {How to optimize the number of coloured rings on birds? Coloured rings are commonly used to individualize birds. A combination of colour rings enables to find the unique number registered on the metal ring. These colour rings allow to remotely control birds instead of capturing them again. These rings designed to minimize any potential perturbation for the individuals in their movements, but several papers showed considerable effects on the mate choice, the reproduction or the predation. It is often not necessary or not possible to capture hundreds or thousands of individuals to study the biology or the ecology of birds. To study a small bird population, it is possible to get a big number of colour ring combinations without putting a big number of rings. To put fewer rings is more comfortable for the bird and less time consuming during its manipulation. This article proposes solutions to ringers who wish to optimize the number of colour rings. The mathematical propositions show that it is better to systematically use the metal ring as being a part of the combination. It enables to increase very significantly the number of combinations while reducing the number of rings. To put only two colour rings in addition to the metal ring offers enough
combinations for most of the field ornithological surveys.
The importance of facilitative interactions and organismal ecosystem engineering for establishing the structure of communities is increasingly being recognised for many different ecosystems. For example, soft-bottom tidal flats host a wide range of ecosystem engineers, probably because the harsh physico-chemical environmental conditions render these species of particular importance for community structure and function. These environments are therefore interesting when focusing on how ecosystem engineers interact and the consequences of these interactions on community dynamics. In this review, we initially detail the influence on benthic systems of two kinds of ecosystem engineers that are particularly common in tidal flats. Firstly, we examine species providing biogenic structures, which are often the only source of habitat complexity in these environments. Secondly, we focus on species whose activities alter sediment stability, which is a crucial feature structuring the dynamics of communities in tidal flats. The impacts of these engineers on both environment and communities were assessed but in addition the interaction between ecosystem engineers was examined. Habitat cascades occur when one engineer favours the development of another, which in turn creates or modifies and improves habitat for other species. Non-hierarchical interactions have often been shown to display non-additive effects, so that the effects of the association cannot be predicted from the effects of individual organisms. Here we propose the term of {\textquotedblleft}cooperative ecosystem engineering{\textquotedblright} when two species interact in a way which enhances habitat suitability as a result of a combined engineering effect. Finally, we conclude by describing the potential threats for ecosystem engineers in intertidal areas, potential effects on their interactions and their influence on communities and ecosystem function.
}, keywords = {Biogenic Structure, Cooperative Ecosystem Engineers, Habitat Cascade, Sediment stability, tidal flats}, doi = {10.1016/j.seares.2013.07.010}, author = {Passarelli, C and Fr{\'e}d{\'e}ric Olivier and Paterson, D M and Tarik Meziane and C{\'e}dric Hubas} } @article {5053, title = {Parasitic chytrids sustain zooplankton growth during inedible algal bloom}, journal = {Frontiers in microbiology}, volume = {5}, year = {2014}, author = {Rasconi, S and Grami, Boutheina and Nathalie Niquil and Jobard, Marl{\`e}ne and Sime-Ngando, T} } @book {3281, title = {Peces de Bolivia/Bolivian Fishes}, year = {2014}, pages = {211 pages}, publisher = {Plural editores}, organization = {Plural editores}, address = {La Paz, Bolivia}, abstract = {Desde la última década, el creciente interés por parte de científicos y autoridades nacionales ha dado lugar a avances considerables en el conocimiento de los peces de Bolivia, llegando a una lista de más de 900 especies. Esta riqueza representa el 7 \% de todas las especies de agua dulce descritas en el mundo, haciendo de Bolivia uno de los países con mayor diversidad de peces.
Este libro, primero de su categoría en Bolivia, presenta una compilación de informaciones sobre una centena de especies de peces, entre las más conocidas o notables, incluyendo fotos, informaciones sobre sus rasgos biológicos y mapas de distribución.
Está dirigido a quienes quieren descubrir o conocer más sobre los peces de Bolivia y la biodiversidad en general. Esperamos que el presente trabajo resalte la necesidad de preservar la singularidad que representan las aguas bolivianas con su diversa fauna, y que ayude al pueblo boliviano a conocer mejor y valorar su patrimonio natural.
\
Since the last decade, an increasing attention from scientists and national authorities has led to significant advances in our knowledge of Bolivian fishes. To date, more than 900 fish species are known to inhabit Bolivian waters. This richness represents 7 \% of all freshwater fish species described worldwide, making Bolivia one of the most species rich countries.
This book, first of its kind for Bolivia, presents a compilation of information on the most well-known species, including pictures, details on life history traits and maps of distribution. We hope this book will participate in demonstrating the need to preserve the uniqueness that represents the Bolivian waters and their diverse fish fauna, and helping Bolivian people in discovering their natural heritage.
}, issn = {9789995415747}, author = {Sarmiento, Jaime and R{\'e}my Bigorne and Carvajal-Vallejos, F M and Maldonado, Mabel and Leciak, Elisabeth and Thierry Oberdorff} } @article {3273, title = {Phytoplankton diversity and community composition along the estuarine gradient of a temperate macrotidal ecosystem: combined morphological and molecular approaches.}, journal = {PLoS One}, volume = {9}, year = {2014}, month = {2014}, pages = {e94110}, abstract = {Microscopical and molecular analyses were used to investigate the diversity and spatial community structure of spring phytoplankton all along the estuarine gradient in a macrotidal ecosystem, the Baie des Veys (eastern English Channel). Taxa distribution at high tide in the water column appeared to be mainly driven by the tidal force which superimposed on the natural salinity gradient, resulting in a two-layer flow within the channel. Lowest taxa richness and abundance were found in the bay where Teleaulax-like cryptophytes dominated. A shift in species composition occurred towards the mouth of the river, with the diatom Asterionellopsis glacialis dramatically accumulating in the bottom waters of the upstream brackish reach. Small thalassiosiroid diatoms dominated the upper layer river community, where taxa richness was higher. Through the construction of partial 18S rDNA clone libraries, the microeukaryotic diversity was further explored for three samples selected along the surface salinity gradient (freshwater - brackish - marine). Clone libraries revealed a high diversity among heterotrophic and/or small-sized protists which were undetected by microscopy. Among them, a rich variety of Chrysophyceae and other lineages (e.g. novel marine stramenopiles) are reported here for the first time in this transition area. However, conventional microscopy remains more efficient in revealing the high diversity of phototrophic taxa, low in abundances but morphologically distinct, that is overlooked by the molecular approach. The differences between microscopical and molecular analyses and their limitations are discussed here, pointing out the complementarities of both approaches, for a thorough phytoplankton community description.
}, issn = {1932-6203}, doi = {10.1371/journal.pone.0094110}, author = {Bazin, Pauline and Fabien Jouenne and Friedl, Thomas and Deton-Cabanillas, Anne-Flore and Bertrand Le Roy and Beno{\^\i}t V{\'e}ron} } @article {SakkaHlaili_etal2013, title = {Planktonic food webs revisited : reanalysis of results from the linear inverse approach}, journal = {Progress in Oceanography}, volume = {120}, year = {2014}, month = {01/2014}, pages = {216{\textendash}229}, abstract = {Identification of the trophic pathway that dominates a given planktonic assemblage is generally based on the distribution of biomasses among food-web compartments, or better, the flows of materials or energy among compartments. These flows are obtained by field observations and a posteriori analyses, including the linear inverse approach. In the present study, we re-analysed carbon flows obtained by inverse analysis at 32 stations in the global ocean and one large lake. Our results do not support two {\textquotedblleft}classical{\textquotedblright} views of plankton ecology, i.e. that the herbivorous food web is dominated by mesozooplankton grazing on large phytoplankton, and the microbial food web is based on microzooplankton significantly consuming bacteria; our results suggest instead that phytoplankton are generally grazed by microzooplankton, of which they are the main food source. Furthermore, we identified the {\textquotedblleft}phyto-microbial food web{\textquotedblright}, where microzooplankton largely feed on phytoplankton, in addition to the already known {\textquotedblleft}poly-microbial food web{\textquotedblright}, where microzooplankton consume more or less equally various types of food. These unexpected results led to a (re)definition of the conceptual models corresponding to the four trophic pathways we found to exist in plankton, i.e. the herbivorous, multivorous, and two types of microbial food web. We illustrated the conceptual trophic pathways using carbon flows that were actually observed at representative stations. The latter can be calibrated to correspond to any field situation. Our study also provides researchers and managers with operational criteria for identifying the dominant trophic pathway in a planktonic assemblage, these criteria being based on the values of two carbon ratios that could be calculated from flow values that are relatively easy to estimate in the field.
}, doi = {10.1016/j.pocean.2013.09.003}, author = {Sakka-Hlaili, A and Nathalie Niquil and Legendre, L} } @article {3306, title = {Prophenoloxidase system, lysozyme and protease inhibitor distribution in the common cuttlefish Sepia officinalis}, year = {2014}, author = {Le Pabic, C and Safi, Georges and Antoine Serpentini and Jean-Marc Lebel and Jean-Paul Robin and Sim{\'e}oni Koueta-Noussith{\'e}} } @article {3370, title = {Protecting honey bees: identification of a new varroacide by in silico, in vitro, and in vivo studies.}, journal = {Parasitol Res}, volume = {113}, year = {2014}, month = {2014 Dec}, pages = {4601-10}, abstract = {Varroa destructor is the main concern related to the gradual decline of honeybees. Nowadays, among the various acaricides used in the control of V. destructor, most presents increasing resistance. An interesting alternative could be the identification of existent molecules as new acaricides with no effect on honeybee health. We have previously constructed the first 3D model of AChE for honeybee. By analyzing data concerning amino acid mutations implicated in the resistance associated to pesticides, it appears that pirimicarb should be a good candidate for varroacide. To check this hypothesis, we characterized the AChE gene of V. destructor. In the same way, we proposed a 3D model for the AChE of V. destructor. Starting from the definition of these two 3D models of AChE in honeybee and varroa, a comparison between the gorges of the active site highlighted some major differences and particularly different shapes. Following this result, docking studies have shown that pirimicarb adopts two distinct positions with the strongest intermolecular interactions with VdAChE. This result was confirmed with in vitro and in vivo data for which a clear inhibition of VdAChE by pirimicarb at 10 μM (contrary to HbAChE) and a 100\% mortality of varroa (dose corresponding to the LD50 (contact) for honeybee divided by a factor 100) were observed. These results demonstrate that primicarb could be a new varroacide candidate and reinforce the high relationships between in silico, in vitro, and in vivo data for the design of new selective pesticides.
}, issn = {1432-1955}, doi = {10.1007/s00436-014-4150-z}, author = {Dulin, Fabienne and C{\'e}line Zatylny-Gaudin and Ballandonne, C{\'e}line and Guillet, Bertrand and Bonafos, Romain and Bureau, Ronan and Halm, Marie Pierre} } @article {3457, title = {Quantifying seasonality along a latitudinal gradient: from stream temperature to growth of invasive mosquitofish}, journal = {Ecosphere}, volume = {5}, year = {2014}, pages = {art134}, issn = {2150-8925}, doi = {10.1890/ES14-00163.1}, url = {http://www.esajournals.org/doi/abs/10.1890/ES14-00163.1}, author = {Carmona-Catot, Gerard and Santos, Alejandra F. G. N. and Pablo Tedesco and Garcia-Berthou, Emili} } @article {5050, title = {Reaction of an estuarine food web to disturbance: Lindeman{\textquoteright}s perspective}, journal = {Marine Ecology Progress Series}, volume = {512}, year = {2014}, pages = {141{\textendash}154}, author = {Nathalie Niquil and Baeta, Alexandra and Marques, Jo{\~a}o Carlos and Chaalali, Aur{\'e}lie and Lobry, Jeremy and Patr{\'\i}cio, Joana} } @article {3416, title = {Relevance of macrozoobenthic grazers to understand the dynamic behaviour of sediment erodibility and microphytobenthos resuspension in sunny summer conditions}, journal = {Journal of Sea Research}, volume = {92}, year = {2014}, month = {09/2014}, pages = {46-55}, author = {Francis Orvain and Katell Guizien and S{\'e}bastien Lefebvre and Martine Br{\'e}ret and Christine Dupuy} } @article {3419, title = {Seasonal dynamics of extracellular polymeric substances (EPS) in surface sediments of a diatom-dominated intertidal mudflat (Marennes{\textendash}Ol{\'e}ron, France)}, journal = {Journal of Sea Research}, volume = {92}, year = {2014}, month = {09/2014}, pages = {26-35}, author = {Guillaume Pierre and Jean-Michel Zhao and Francis Orvain and Christine Dupuy and G{\'e}raldine Klein and Marianne Graber and Thierry Maugard} } @article {3994, title = {Seasonal Pattern of the Biogeochemical Properties of Mangrove Sediments Receiving Shrimp Farm Effluents (New Caledonia)}, journal = {Journal of acquaculture research \& development}, volume = {05}, year = {2014}, issn = { 2155-9546}, author = {Cyril Marchand and Molnar, N and Deborde, J and Patrona, LC and Tarik Meziane} } @article {3309, title = {Seasonal variation of marine snow-associated and ambient water prokaryotic communities in the northern Adriatic Sea}, journal = {Aquatic Microbial Ecology}, volume = {73}, year = {2014}, month = {11/2014}, pages = {211-224}, author = {Vojvoda, Jana and Lamy, Dominique and Sintes, Eva and Garcia, Juan AL and Turk, Valentina and Gerhard J Herndl} } @article {4144, title = {Senegalese sole (Solea senegalensis) metamorphic larvae are more sensitive to pseudo-albinism induced by high dietary arachidonic acid levels than post-metamorphic larvae}, journal = {Aquaculture}, volume = {433}, year = {2014}, pages = {276 - 287}, abstract = {Abstract High dietary levels of arachidonic acid (ARA) and its relative proportions with eicosapentaenoic acid (EPA), fed during early larval stages, have been associated with malpigmentation in various flatfish species. This study investigated whether the nutritional induction of pigmentary disorders at larval stages was related to a specific larval period of increased sensitivity to \{ARA\} in Senegalese sole (Solea senegalensis Kaup, 1858). Senegalese sole larvae were fed high dietary \{ARA\} levels during pre- and pro-metamorphosis (2{\textendash}15 dph) and/or post-metamorphosis (15{\textendash}50 dph). Larval tissues reflected the dietary fatty acid composition. Malpigmentations were significantly related to elevated dietary and larval \{ARA\} contents and ARA/EPA ratio. This study reports evidence for a {\textquotedblleft}pigmentation window{\textquotedblright}, with a higher larval sensitivity to dietary \{ARA\} during pre- and pro-metamorphosis than post-metamorphosis. High dietary \{ARA\} fed to larvae during pre-metamorphosis enhanced survival, but did not affect growth nor eye migration. The aspect and density of melanophores in the skin of the ocular side of ARA-induced pseudo-albinos were significantly reduced in comparison to normally pigmented individuals, even more in the pseudo-albino fish fed high dietary \{ARA\} levels during the pre-metamorphic stage. Pseudo-albino fish fed high dietary \{ARA\} levels during post-metamorphosis showed higher concentrations of 2- and 3-series prostaglandins (PGE2 and PGE3) than normally pigmented specimens fed the same diets. An increased sensitivity to ARA-induced malpigmentations has been identified at pre-metamorphosis and early metamorphosis in Senegalese sole. Supplying high dietary \{ARA\} amounts imbalanced the dietary ARA/EPA ratio and disrupted the relative concentrations of derived \{PGE2\} and PGE3, resulting in 20 to 81.7\% pseudo-albino individuals, depending on the dietary treatment. The administration of high levels of dietary \{ARA\} at different developmental stages did not only affect the incidence of animals with pigmentary disorders, but it also affect the melanophore density and skin aspect in normally pigmented and pseudoalbino fish as image segmentation and texture analyses indicated.
}, keywords = {Prostaglandins}, issn = {0044-8486}, doi = {http://dx.doi.org/10.1016/j.aquaculture.2014.06.012}, url = {http://www.sciencedirect.com/science/article/pii/S0044848614003056}, author = {Boglino, A and Wishkerman, A and Darias, Maria and de la Iglesia, P and Andree, K B and Gisbert, E and Est{\'e}vez, A} } @article {3420, title = {Sequential resuspension of biofilm components (viruses, prokaryotes and protists) as measured by erodimetry experiments in the Brouage mudflat (French Atlantic coast)}, journal = {Journal of Sea Research}, volume = {92}, year = {2014}, month = {09/2014}, pages = {56-65}, author = {Christine Dupuy and Clarisse Mallet and Katell Guizien and H{\'e}l{\`e}ne Montani{\'e} and Martine Br{\'e}ret and Fran{\c c}oise Mornet and Camille Fontaine and Caroline N{\'e}rot and Francis Orvain} } @article {3427, title = {Shell extracts from the marine bivalve Pecten maximus regulate the synthesis of extracellular matrix in primary cultured human skin fibroblasts.}, journal = {PLoS One}, volume = {9}, year = {2014}, month = {2014}, pages = {e99931}, abstract = {Mollusc shells are composed of more than 95\% calcium carbonate and less than 5\% of an organic matrix consisting mostly of proteins, glycoproteins and polysaccharides. Previous studies have elucidated the biological activities of the shell matrices from bivalve molluscs on skin, especially on the expression of the extracellular matrix components of fibroblasts. In this work, we have investigated the potential biological activities of shell matrix components extracted from the shell of the scallop Pecten maximus on human fibroblasts in primary culture. Firstly, we demonstrated that shell matrix components had different effects on general cellular activities. Secondly, we have shown that the shell matrix components stimulate the synthesis of type I and III collagens, as well as that of sulphated GAGs. The increased expression of type I collagen is likely mediated by the recruitment of transactivating factors (Sp1, Sp3 and human c-Krox) in the -112/-61 bp COL1A1 promoter region. Finally, contrarily to what was obtained in previous works, we demonstrated that the scallop shell extracts have only a small effect on cell migration during in vitro wound tests and have no effect on cell proliferation. Thus, our research emphasizes the potential use of shell matrix of Pecten maximus for dermo-cosmetic applications.
}, issn = {1932-6203}, doi = {10.1371/journal.pone.0099931}, author = {Latire, T and Legendre, Florence and Bigot, Nicolas and Carduner, Ludovic and Kellouche, Sabrina and Bouyoucef, Mouloud and Carreiras, Franck and Marin, F and Jean-Marc Lebel and Gal{\'e}ra, Philippe and Antoine Serpentini} } @article {3430, title = {The skeleton of the staghorn coral Acropora millepora: molecular and structural characterization.}, journal = {PLoS One}, volume = {9}, year = {2014}, month = {2014}, pages = {e97454}, abstract = {The scleractinian coral Acropora millepora is one of the most studied species from the Great Barrier Reef. This species has been used to understand evolutionary, immune and developmental processes in cnidarians. It has also been subject of several ecological studies in order to elucidate reef responses to environmental changes such as temperature rise and ocean acidification (OA). In these contexts, several nucleic acid resources were made available. When combined to a recent proteomic analysis of the coral skeletal organic matrix (SOM), they enabled the identification of several skeletal matrix proteins, making A. millepora into an emerging model for biomineralization studies. Here we describe the skeletal microstructure of A. millepora skeleton, together with a functional and biochemical characterization of its occluded SOM that focuses on the protein and saccharidic moieties. The skeletal matrix proteins show a large range of isoelectric points, compositional patterns and signatures. Besides secreted proteins, there are a significant number of proteins with membrane attachment sites such as transmembrane domains and GPI anchors as well as proteins with integrin binding sites. These features show that the skeletal proteins must have strong adhesion properties in order to function in the calcifying space. Moreover this data suggest a molecular connection between the calcifying epithelium and the skeletal tissue during biocalcification. In terms of sugar moieties, the enrichment of the SOM in arabinose is striking, and the monosaccharide composition exhibits the same signature as that of mucus of acroporid corals. Finally, we observe that the interaction of the acetic acid soluble SOM on the morphology of in vitro grown CaCO3 crystals is very pronounced when compared with the calcifying matrices of some mollusks. In light of these results, we wish to commend Acropora millepora as a model for biocalcification studies in scleractinians, from molecular and structural viewpoints.
}, keywords = {Acetic Acid, Amination, Animals, Anthozoa, Bone and Bones, Calcium Carbonate, Crystallization, Gels, Monosaccharides, Proteins, Solubility, Spectroscopy, Fourier Transform Infrared, Spectrum Analysis, Raman}, issn = {1932-6203}, doi = {10.1371/journal.pone.0097454}, author = {Ramos-Silva, Paula and Kaandorp, Jaap and Herbst, Fr{\'e}d{\'e}ric and Plasseraud, Laurent and Alcaraz, G and Stern, Christine and Corneillat, Marion and Guichard, N and Durlet, Christophe and Gilles Luquet and Marin, F} } @article {3720, title = {Status and distribution of Smilosicyopus species (Teleostei, Gobioidei)}, journal = {Cybium}, volume = {38 }, year = {2014}, pages = {69-73}, abstract = {Status and distribution of Smilosicyopus species are unclear, as they are rare, difficult to sample and to distinguish. During thirteen years, many specimens were collected by the MNHN and collaborators in Pacific islands, including samples in all type localities. These specimens were compared and sequenced with COI gene. Seven species over the eight known were confirmed; indeed S.\ mystax is considered to be a synonym of S.\ leprurus. Further Smilosicyopus species have finally a broader distribution than thought and endemicity seems to be not the main rule in this genus. A key to species is given.
}, keywords = {Distribution, Gobiidae, Sicydiinae, Smilosicyopus}, author = {Philippe Keith and Taillebois, Laura} } @article {3417, title = {Structures of benthic prokaryotic communities and their hydrolytic enzyme activities resuspended from samples of intertidal mudflats: An experimental approach}, journal = {Journal of Sea Research}, volume = {92}, year = {2014}, month = {09/2014}, pages = {158-169}, author = {Clarisse Mallet and H{\'e}l{\`e}ne Agogu{\'e} and Fr{\'e}d{\'e}rique Bonnemoy and Katell Guizien and Francis Orvain and Christine Dupuy} } @article {5820, title = {{Synchronous response of marine plankton ecosystems to climate in the Northeast Atlantic and the North Sea}}, journal = {Journal of Marine Systems}, volume = {129}, year = {2014}, pages = {189{\textendash}202}, abstract = {Over the last few decades, global warming has accelerated both the rate and magnitude of changes observed in many functional units of the Earth System. In this context, plankton are sentinel organisms because they are sensitive to subtle levels of changes in temperature and might help in identifying the current effects of climate change on pelagic ecosystems. In this paper, we performed a comparative approach in two regions of the North Atlantic (i.e. the Northeast Atlantic and the North Sea) to explore the relationships between changes in marine plankton, the regional physico-chemical environment and large-scale hydro-climatic forcing using four key indices: the North Atlantic Oscillation (NAO), the Atlantic Multidecadal Oscillation (AMO), the East Atlantic (EA) pattern and Northern Hemisphere Temperature (NHT) anomalies. Our analyses suggest that long-term changes in the states of the two ecosystems were synchronous and correlated to the same large-scale hydro-climatic variables: NHT anomalies, the AMO and to a lesser extent the EA pattern. No significant correlation was found between long-term ecosystem modifications and the state of the NAO. Our results suggest that the effect of climate on these ecosystems has mainly occurred in both regions through the modulation of the thermal regime. {\textcopyright} 2013 Elsevier B.V.
}, keywords = {Climate Change, Large-scale hydro-climatic indices, Long-term changes, North Atlantic, Phytoplankton, Zooplankton}, author = {Goberville, Eric and Gr{\'e}gory Beaugrand and Martin Edwards} } @article {3396, title = {Temperature influences histone methylation and mRNA expression of the Jmj-C histone-demethylase orthologues during the early development of the oyster Crassostrea gigas.}, journal = {Mar Genomics}, year = {2014}, month = {2014 Sep 16}, abstract = {In many groups, epigenetic mechanisms influence developmental gene regulation under environmental inputs. The Pacific oyster Crassostrea gigas belongs to lophotrochozoans and its larval development is highly dependent on temperature, but the role of epigenetic mechanisms in this context is unknown despite high levels of the recently characterized Jumonji histone demethylase (JHDM) orthologues (Cg_Jumonji) suggesting a physiological relevance of histone methylation in the oyster development. Because in other species alterations of the histone methylation pattern have deleterious outcomes, we investigated the influence of temperature during the oyster larval life on histone methylation and JHDM expression. To shed light on this point, oyster embryonic and early larval development experiments were carried out at different temperatures (18{\textdegree}C, 25{\textdegree}C and 32{\textdegree}C). Histone methylation levels were investigated using fluorescent ELISA at 6 and 24h post-fertilization. When compared to the 25{\textdegree}C group, at 18{\textdegree}C H3K4, H3K9 and H3K27 residues were hypomethylated at 6h post fertilization (hpf) and hypermethylated at 24hpf. In contrast, at 32{\textdegree}C, 6hpf animals present a dramatic hypermethylation (ca. 4-fold) of all examined residues, which is minored but sustained at 24hpf. RT-qPCR investigations of the mRNA expression of the nine oyster JHDMs, showed gene- and stage-specific temperature sensitivities throughout the early life of oysters. This study provides evidence of the biological significance of histone methylation during development in a lophotrochozoan species. Our results also indicate that temperature influences histone methylation, possibly through the expression level of putative actors of its regulation, which might participate in developmental control. To our knowledge, this is the first report indicating a direct relationship between an epigenetic mark and an environmental parameter in marine molluscs. Such investigations could help better understand the molecular mechanisms of development and adaptation in lophotrochozoans.
}, issn = {1876-7478}, doi = {10.1016/j.margen.2014.09.002}, author = {Alexandre Fellous and Pascal Favrel and Guillaume Rivi{\`e}re} } @article {4512, title = {Temperature modulates the progression of vitellogenesis in the European eel}, journal = {Aquaculture}, volume = {434}, year = {2014}, pages = {38-47}, author = {Mazzeo, I and Penaranda, David S and Gallego, Victor and Sylvie Baloche and Nourizadeh-Lillabadi, R and Tveiten, Helge and Sylvie Dufour and Asturiano, Juan F and Weltzien, Finn-Arne and Perez, Luz} } @article {3723, title = {Three new species of Lentipes (Teleostei: Gobiidae) from Indonesia. }, journal = {Cybium}, volume = {38}, year = {2014}, pages = {133-146}, abstract = {Three new species of Lentipes (L. argenteus, L. ikeae and L. mekonggaensis), freshwater gobies, are
described from streams of Sumatra, Java, Bali and Sulawesi (Indonesia). They differ from other species of the
genus by a combination of characters including an urogenital papilla lacking lateral lobes and retractable into a
sheath-like groove, the number of pectoral fin rays, the number of scales, tricuspid teeth in the upper jaw, and a
specific body colour in males.
An RNAseq approach associated to mass spectrometry was conducted to assess the composition, molecular mass distribution and primary sequence of hydrolytic peptides issued from hydrolysates of white shrimp (Litopenaeus vannamei) by-products. High performance size exclusion chromatography (HPSEC) analyses indicated that 69.2\% of the 214-nm-absorbing components had apparent molecular masses below 1000 Da, and 88.3\% below 2000 Da. OFFGEL-nLC-MALDI-TOF/TOF and nLC-ESI-MS/MS analyses led to the identification of 808 peptides based on the NCBI EST databank (161,397 entries) completed by the new L. vannamei databank (58,508 entries) that we created from the RNAs of tissues used for hydrolysate production. Whereas most of hydrolytic peptides have a MW below 2000 Da, preliminary investigations of antimicrobial properties revealed three antibacterial fractions that demonstrate functional activities. The abundance of small peptides as well as the biological activities detected could imply very interesting applications for shrimp hydrolysate in the field of aquaculture feeding.
}, issn = {1873-4863}, doi = {10.1016/j.jbiotec.2014.06.020}, author = {Robert, Marie and C{\'e}line Zatylny-Gaudin and Fournier, Vincent and Corre, Erwan and Gildas Le Corguille and Bernay, Beno{\^\i}t and Jo{\"e}l Henry} } @article {3398, title = {Transcriptomic profiling of gametogenesis in triploid Pacific Oysters Crassostrea gigas: towards an understanding of partial sterility associated with triploidy.}, journal = {PLoS One}, volume = {9}, year = {2014}, month = {2014}, pages = {e112094}, abstract = {BACKGROUND: Triploidy can occur in many animal species but is often lethal. Among invertebrates, amphibians and fishes, triploids are viable although often sterile or infertile. Most triploids of the Pacific oyster Crassostrea gigas are almost sterile (named "3nβ") yet a low but significant proportion show an advanced gametogenesis (named "3nα"). These oysters thus constitute an interesting model to study the effect of triploidy on germ cell development. We used microarrays to compare the gonad transcriptomes of diploid 2n and the abovementioned triploid 3nβ and 3nα male and female oysters throughout gametogenesis.
RESULTS: All triploids displayed an upregulation of genes related to DNA repair and apoptosis and a downregulation of genes associated with cell division. The comparison of 3nα and 3nβ transcriptomes with 2n revealed the likely involvement of a cell cycle checkpoint during mitosis in the successful but delayed development of gonads in 3nα individuals. In contrast, a disruption of sex differentiation mechanisms may explain the sterility of 3nβ individuals with 3nβ females expressing male-specific genes and 3nβ males expressing female-specific genes.
CONCLUSIONS: The disruption of sex differentiation and mitosis may be responsible for the impaired gametogenesis of triploid Pacific oysters. The function of the numerous candidate genes identified in our study should now be studied in detail in order to elucidate their role in sex determination, mitosis/meiosis control, pachytene cell cycle checkpoint, and the control of DNA repair/apoptosis.
}, issn = {1932-6203}, doi = {10.1371/journal.pone.0112094}, author = {Dheilly, Nolwenn M and Jouaux, Aude and Boudry, Pierre and Pascal Favrel and Christophe Lelong} } @article {3212, title = {Trichoplaxin - a new membrane-active antimicrobial peptide from placozoan cDNA.}, journal = {Biochim. Biophys. Acta}, volume = {1838}, year = {2014}, pages = {1430-1438}, author = {Simunic, J and Petrov, D and Bouceba, T and Kamech, Nedia and Benincasa, M and Juretic, D} } @article {3721, title = {Tropical and temperate freshwater amphidromy: a comparison between life history characteristics of Sicydiinae, ayu, sculpins and galaxiids.}, journal = {Rev Fish Biol Fisheries}, volume = {24}, year = {2014}, pages = {1:14}, abstract = {Amphidromy is a distinctive form of
diadromy, but differences in the life histories of
tropical and temperate amphidromous fishes suggest
that there are two types of freshwater amphidromy.
The life histories of Sicydiinae gobies, ayu (Plecoglossus
altivelis), Japanese sculpins (Cottus) and galaxiids
(Galaxiidae), suggest that the Sicydiinae are
representatives of tropical freshwater amphidromy,
whereas ayu, sculpins and galaxiids are representatives
of temperate freshwater amphidromy. The Sicydiine
larval stage may be required to occur in the
ocean for all species, but ayu, sculpins and galaxiids
have landlocked or fluvial forms with larvae that do
not need to enter the ocean for larval feeding and
growth. This suggests that Sicydiine larvae have a high
oceanic dependency whereas ayu, sculpins and galaxiid
larvae have a low oceanic dependency. Freshwater
amphidromous fish in tropical and temperate zones
appear to have developed two different strategies in
the evolution of their life histories. It is likely that the
evolutionary direction of the larval stage of tropical
amphidromy is to remain in the sea and that of
temperate amphidromy is towards having the ability to
remain in freshwater if needed. Tropical and temperate
amphidromy appear to be biologically informative
categories and evaluations of this hypothesis will
facilitate better understanding of the various forms of
amphidromy in the future.
In this paper, we validate the doubtful species status of E. guianae, with redescriptions of (supposedly lost) type and holotype males, and a first description of the female. Both sexes are measured and illustrated by pictures of habitus and copulatory organs. Seventeen new salticid species for French Guiana are also reported and a detailed catalogue of all salticid species from the Trinit{\'e} National Nature Reserve is provided.
}, issn = {1313-2989}, doi = {10.3897/zookeys.420.6977}, author = {Courtial, Cyril and Picard, Lionel and Fr{\'e}d{\'e}ric Ysnel and P{\'e}tillon, Julien} } @article {3488, title = {Veliger Size at Metamorphosis and Temporal Variability in Prodissoconch II Morphometry in the Blue Mussel (Mytilus edulis): Potential Impact on Recruitment}, journal = {Journal of Shellfish Research}, volume = {33}, year = {2014}, month = {08/2014}, pages = {443-455}, abstract = {Examination of the larval shell (prodissoconch) of molluscs with planktotrophic development can provide valuable information on their planktonic and early benthic life. We examined temporal variability of abundance and size among 11,994 veligers of the blue mussel (Mytilus edulis) in a coastal lagoon during settling periods between 1995 and 2009. Size and date at metamorphosis during the recruitment season were determined for 1,925 postlarvae (shell length, 255{\textendash}900 {\textmu}m) with prodissoconch II (PII) measurements. Emphasizing the recurrence of metamorphosis delay in the field, our study reveals a net increase in mean size at metamorphosis through time, with means for PII size ranging from 255{\textendash}288 {\textmu}m early in summer (after peak spawning events) to 400{\textendash}422 {\textmu}m (PII) during late July to early September. By estimating the {\textquotedblleft}true{\textquotedblright} settlement date using the amount of dissoconch secreted after metamorphosis, such time-series analyses appropriately recapitulated the temporal pattern of mean pediveliger (competent larvae) size in the plankton. Our results demonstrate that greater settlement success rates were related to small size at metamorphosis{\textemdash}in particular, less than 320 {\textmu}m. Seasonal increase in mean PII size occurring during the latter part of the settling period may be explained by competent veligers remaining adrift and delayed metamorphosis as a result of the lack of favorable encounters with a suitable substrate or the absence of specific trophic signals, or cues, required for stimulating settlement, thus forcing larvae to continue planktonic growth. The difference between the smallest and largest means for PII size corresponds to 122 {\textmu}m of larval shell growth, or 47.8\%, potentially representing a 322\% difference in larval body mass at settlement.
}, keywords = {blue mussel, delayed metamorphosis, larval settlement, Mytilus edulis, prodissoconch II, recruitment, veligers}, doi = {http://dx.doi.org/10.2983/035.033.0213}, url = {http://www.bioone.org/doi/full/10.2983/035.033.0213}, author = {Martel, Andr{\'e} L. and R{\'e}jean Tremblay and Nicolas Toupoint and Fr{\'e}d{\'e}ric Olivier and Myrand, B} } @article {8137, title = {Vulnerability of biodiversity hotspots to global change}, journal = {Global Ecology and Biogeography}, volume = {23}, year = {2014}, month = {Jan-12-2014}, pages = {1376 - 1386}, issn = {1466-822X}, doi = {10.1111/geb.2014.23.issue-1210.1111/geb.12228}, url = {https://onlinelibrary.wiley.com/toc/14668238/23/12}, author = {Bellard, C{\'e}line and Leclerc, Camille and Leroy, Boris and Bakkenes, Michel and Veloz, Samuel and Thuiller, Wilfried and Courchamp, Franck} } @article {6834, title = {Windscape and tortuosity shape the flight costs of northern gannets}, journal = {Journal of Experimental Biology}, volume = {217}, year = {2014}, pages = {876{\textendash}885}, doi = {10.1242/jeb.097915 }, url = {https://jeb.biologists.org/content/217/6/876.short}, author = {Am{\'e}lineau, Fran{\c c}oise and Clara P{\'e}ron and Lescro{\"e}l, Am{\'e}lie and Authier, Matthieu and Provost, Pascal and Gr{\'e}millet, David} } @article {5826, title = {{Applying the concept of the ecological niche and a macroecological approach to understand how climate influences zooplankton: Advantages, assumptions, limitations and requirements}}, journal = {Progress in Oceanography}, volume = {111}, year = {2013}, pages = {75{\textendash}90}, abstract = {Ecosystem effects of climate change have been detected in all components of the Earth System. In the marine biosphere, climate-change responses have caused large and well-documented biogeographical and phenological shifts, which have in turn altered local dominance hierarchies, and also the structure, diversity and functional linkages within regional marine ecosystems. There is an urgent need to improve both our knowledge of the global-scale effects of climate change on marine biodiversity and our capacity to project future impacts. But extrapolation of previously estimated changes to additional places and to future conditions is complicated by non-linear responses to environmental variables, and also by complexities of multivariate interaction that can lead to tipping-points. In this paper, we show how observations from widely-spaced locations can be combined to characterise the ecological niche of a species, and how the concept of the niche can be used to understand and project how climate-induced changes in temperatures will alter marine zooplankton both locally and globally. As an example to illustrate our view, we apply this framework to the relatively well-known copepod Calanus finmarchicus. Our results suggest that climate change will strongly affect the local abundance of this species in the North Atlantic Ocean by the end of this century. Predicted changes are large (e.g. increase by ??6-10-fold of the temporal changes in the abundance of C. finmarchicus) and vary as a function of the magnitude of warming and the local sign and steepness of the thermal niche. Substantial rates of change hold even under optimistic climatic scenarii. After reviewing the main limitations of the niche concept in bioclimatological research, we argue that the application of this concept in ecology and bioclimatology might nevertheless represent the best tool currently available to scientists to discern and anticipate the effect of global climate change on species and ecosystems. The framework we proposed forces us however to think globally and to develop a worldwide coordinated macroecological approach, that includes global monitoring, new mathematical tools of detection and new types of modeling. ?? 2012 Elsevier Ltd.
}, issn = {00796611}, author = {Gr{\'e}gory Beaugrand and Mackas, Dave and Goberville, Eric} } @article {8587, title = {Beach morphological changes in response to marine turtles nesting: a preliminary study of Awala-Yalimapo beach, French Guiana (South America)}, journal = {Journal of Coastal Research}, volume = {65}, year = {2013}, month = {Feb-01-2013}, pages = {99 - 104}, issn = {0749-0208}, doi = {10.2112/SI65-018.1}, url = {http://www.bioone.org/doi/10.2112/SI65-018.1}, author = {P{\'e}ron, Christina and Chevallier, Damien and Galpin, Martin and Chatelet, Andy and Anthony, Edward J. and Le Maho, Yvon and Gardel, Antoine} } @article {5824, title = {{Climatic Facilitation of the Colonization of an Estuary by Acartia tonsa}}, journal = {PLoS ONE}, volume = {8}, year = {2013}, abstract = {Global change has become a major driving force of both terrestrial and marine systems. Located at the interface between these two realms, estuarine ecosystems are probably the place where both direct and indirect effects of human activities conspire together to affect biodiversity from phytoplankton to top predators. Among European estuarine systems, the Gironde is the largest estuary of Western Europe and many studies have provided evidence that it has been affected by a variety of anthropogenic stressors such as thermal and chemical pollution, physical alterations and exploitation, especially for maritime traffic. In such a context, species introduction is also a current major issue with the establishment of strong competitive species that could lead to ecosystem reorganization with potential decrease or even disappearance of native species. In the Gironde estuary, this hypothesis was proposed for the invasive shrimp species Palaemon macrodactylus as a decrease in the native species abundance was observed at the same time. Although species introduction often takes place via ballast water, the influence of climate-driven changes on the establishment of new species remains a key issue. The calanoid copepod Acartia tonsa, observed in the Gironde estuary for the first time in 1983, have since colonized most part of the estuary, reaching a level of abundance comparable to the dominant native species Eurytemora affinis. In this study, using both the concept of the ecological niche sensu Hutchinson (fundamental and realized niches) and statistical models, we reveal that the dynamics of the colonization of A. tonsa was facilitated by environmental conditions that have become closer to its environmental optimum with respect to temperature and salinity.
}, issn = {19326203}, author = {Chaalali, Aur{\'e}lie and Gr{\'e}gory Beaugrand and Virginie Raybaud and Goberville, Eric and David, Val{\'e}rie and Bo{\"e}t, Philippe and Benoit Sautour} } @article {5822, title = {{Decline in Kelp in West Europe and Climate}}, journal = {PLoS ONE}, volume = {8}, year = {2013}, abstract = {Kelp ecosystems form widespread underwater forests playing a major role in structuring the biodiversity at a regional scale. Some seaweeds such as Laminaria digitata are also economically important, being exploited for their alginate and iodine content. Although some studies have shown that kelp ecosystems are regressing and that multiple causes are likely to be at the origin of the disappearance of certain populations, the extent to which global climate change may play a role remains speculative. Here we show that many populations of L. digitata along European coasts are on the verge of local extinction due to a climate-caused increase in sea temperature. By modeling the spatial distribution of the seaweed, we evaluate the possible implications of global climate change for the geographical patterns of the species using temperature data from the Coupled Model Intercomparison Project phase 5 (CMIP5). Projections of the future range of L. digitata throughout the 21st century show large shifts in the suitable habitat of the kelp and a northward retreat of the southern limit of its current geographic distribution from France to Danish coasts and the southern regions of the United Kingdom. However, these projections depend on the intensity of warming. A medium to high warming is expected to lead to the extirpation of the species as early as the first half of the 21st century and there is high confidence that regional extinction will spread northwards by the end of this century. These changes are likely to cause the decline of species whose life cycle is closely dependent upon L. digitata and lead to the establishment of new ecosystems with lower ecological and economic values.
}, issn = {19326203}, author = {Virginie Raybaud and Gr{\'e}gory Beaugrand and Goberville, Eric and Delebecq, Gaspard and Destombe, Christophe and Valero, Myriam and Dominique Davoult and Morin, Pascal and Gevaert, Francois} } @article {6836, title = {Designing observational biologging studies to assess the causal effect of instrumentation}, journal = {Methods in Ecology and Evolution}, volume = {4}, year = {2013}, pages = {802{\textendash}810}, doi = { https://doi.org/10.1111/2041-210X.12075}, url = {https://besjournals.onlinelibrary.wiley.com/doi/full/10.1111/2041-210X.12075}, author = {Authier, Matthieu and Clara P{\'e}ron and Mante, Alain and Vidal, Patrick and Gr{\'e}millet, David} } @article {8455, title = {First assessment of effects of global change on threatened spiders: Potential impacts on Dolomedes plantarius (Clerck) and its conservation plans}, journal = {Biological Conservation}, volume = {161}, year = {2013}, month = {Jan-05-2013}, pages = {155 - 163}, issn = {00063207}, doi = {10.1016/j.biocon.2013.03.022}, url = {https://linkinghub.elsevier.com/retrieve/pii/S000632071300089X}, author = {Leroy, Boris and Paschetta, Mauro and Canard, Alain and Bakkenes, Michel and Isaia, Marco and Fr{\'e}d{\'e}ric Ysnel} } @article {7331, title = {Highly Dynamic Cellular-Level Response of Symbiotic Coral to a Sudden Increase in Environmental NitrogenABSTRACT}, journal = {mBio}, volume = {4}, year = {2013}, month = {Jan-07-2013}, doi = {10.1128/mBio.00052-13}, url = {https://mbio.asm.org/content/4/3/e00052-13}, author = {Kopp, C. and Pernice, M. and Domart-Coulon, I. and Djediat, C. and Spangenberg, J. E. and Alexander, D. T. L. and Hignette, M. and Tarik Meziane and Meibom, A.}, editor = {Orphan, Victoria and McFall-Ngai, Margaret J.} } @article {7333, title = {Impacts of shrimp farm effluent on water quality, benthic metabolism and~N-dynamics in a mangrove forest (New Caledonia)}, journal = {Estuarine, Coastal and Shelf Science}, volume = {117}, year = {2013}, month = {Jan-01-2013}, pages = {12 - 21}, issn = {02727714}, doi = {10.1016/j.ecss.2012.07.012}, url = {https://linkinghub.elsevier.com/retrieve/pii/S0272771412002739}, author = {Molnar, Nathalie and Welsh, David T. and Marchand, Cyril and Deborde, Jonathan and Tarik Meziane} } @article {6835, title = {Importance of coastal Marine Protected Areas for the conservation of pelagic seabirds: The case of Vulnerable yelkouan shearwaters in the Mediterranean Sea}, journal = {Biological conservation}, volume = {168}, year = {2013}, pages = {210{\textendash}221}, author = {Clara P{\'e}ron and Gr{\'e}millet, David and Prudor, Aur{\'e}lien and Pettex, Emeline and Saraux, Claire and Soriano-Redondo, Andrea and Authier, Matthieu and Fort, J{\'e}r{\^o}me} } @article {8586, title = {Importance of the connectivity of Spanish stopovers for Black Storks}, journal = {Bird Study}, volume = {60}, year = {2013}, month = {Jan-11-2013}, pages = {550 - 554}, issn = {0006-3657}, doi = {10.1080/00063657.2013.851643}, url = {http://www.tandfonline.com/doi/abs/10.1080/00063657.2013.851643}, author = {Chevallier, Damien and Baillon, Fran{\c c}ois and Le Maho, Yvon and Blanc, Stephane and Brossault, Paul and Massemin, Sylvie} } @article {5823, title = {{Long-term phenological shifts in raptor migration and climate}}, journal = {PLoS ONE}, volume = {8}, year = {2013}, abstract = {Climate change is having a discernible effect on many biological and ecological processes. Among observed changes, modifications in bird phenology have been widely documented. However, most studies have interpreted phenological shifts as gradual biological adjustments in response to the alteration of the thermal regime. Here we analysed a long-term dataset (1980-2010) of short-distance migratory raptors in five European regions. We revealed that the responses of these birds to climate-induced changes in autumn temperatures are abrupt and synchronous at a continental scale. We found that when the temperatures increased, birds delayed their mean passage date of autumn migration. Such delay, in addition to an earlier spring migration, suggests that a significant warming may induce an extension of the breeding-area residence time of migratory raptors, which may eventually lead to residency.
}, author = {Jaffre, Mikael and Gr{\'e}gory Beaugrand and Goberville, Eric and Jiguet, Fr{\'e}d{\'e}ric and Kjell{\'e}n, Nils and Troost, Gerard and Dubois, Philippe J. and Lepr{\^e}tre, Alain and Christophe Luczak} } @article {5825, title = {{Long-term responses of North Atlantic calcifying plankton to climate change}}, journal = {Nature Climate Change}, volume = {3}, year = {2013}, pages = {263{\textendash}267}, abstract = {The global increase in atmospheric carbon dioxide concentration is potentially threatening marine biodiversity in two ways. First, carbon dioxide and other greenhouse gases accumulating in the atmosphere are causing global warming1. Second, carbon dioxide is altering sea water chemistry, making the ocean more acidic2. Although temperature has a cardinal influence on all biological processes from the molecular to the ecosystem level3, acidification might impair the process of calcification or exacerbate dissolution of calcifying organisms4. Here, we show however that North Atlantic calcifying plankton primarily responded to climate-induced changes in temperatures during the period 1960{\textendash}2009, overriding the signal from the effects of ocean acidification. We provide evidence that foraminifers, coccolithophores, both pteropod and nonpteropod molluscs and echinoderms exhibited an abrupt shift circa 1996 at a time of a substantial increase in temperature5 and that some taxa exhibited a poleward movement in agreement with expected biogeographical changes under sea temperature warming6,7. Although acidification may become a serious threat to marine calcifying organisms, our results suggest that over the study period the primary driver of North Atlantic calcifying planktonwas oceanic temperature.
}, issn = {1758-678X}, url = {http://www.nature.com/doifinder/10.1038/nclimate1753}, author = {Gr{\'e}gory Beaugrand and McQuatters-Gollop, Abigail and Martin Edwards and Goberville, Eric} } @article {8461, title = {Optimization of an {\textquotedblleft}in situ{\textquotedblright} subtidal rocky-shore sampling strategy for monitoring purposes}, journal = {Marine Pollution Bulletin}, volume = {74}, year = {2013}, month = {Jan-09-2013}, pages = {253 - 263}, issn = {0025326X}, doi = {10.1016/j.marpolbul.2013.06.049}, url = {https://linkinghub.elsevier.com/retrieve/pii/S0025326X1300355X}, author = {Gallon, R.K. and Fr{\'e}d{\'e}ric Ysnel and Eric Feunteun} } @article {6890, title = {Oyster sex determination is influenced by temperature - First clues in spat during first gonadic differentiation and gametogenesis}, journal = {Comparative Biochemistry and Physiology - Part A: Molecular and Integrative Physiology}, volume = {165}, year = {2013}, pages = {61-69}, keywords = {Oyster spat, Sex determination pathway, Sex ratio, Temperature, TSD}, doi = {10.1016/j.cbpa.2013.02.007}, url = {https://hal-normandie-univ.archives-ouvertes.fr/hal-02296506}, author = {Santerre, Christelle and Sourdaine, Pascal and Marc, Nicolas and Mingant, Christian and Robert, Ren{\'e} and Anne-Sophie Martinez} } @article {7356, title = {Seasonal Variations in Maternal Provisioning of Crepidula fornicata (Gastropoda): Fatty Acid Composition of Females, Embryos and Larvae}, journal = {PLoS ONE}, volume = {8}, year = {2013}, month = {Dec-09-2014}, pages = {e75316}, doi = {10.1371/journal.pone.007531610.137}, url = {https://dx.plos.org/10.1371/journal.pone.0075316}, author = {Leroy, Fanny and Tarik Meziane and Riera, Pascal and Comtet, Thierry}, editor = {Anil, Arga~Chandrashekar} } @article {6837, title = {Space partitioning without territoriality in gannets}, journal = {Science}, volume = {341}, year = {2013}, pages = {68{\textendash}70}, doi = {10.1126/science.1236077 }, url = {https://science.sciencemag.org/content/341/6141/68}, author = {Wakefield, Ewan and Bodey, Thomas and Bearhop, Stuart and Blackburn, Jez and Colhoun, Kendrew and Davies, Rachel and Dwyer, Ross and Green, Jonathan and Gr{\'e}millet, David and Clara P{\'e}ron and others} } @article {6838, title = {Tracking through life stages: adult, immature and juvenile autumn migration in a long-lived seabird}, journal = {PloS one}, volume = {8}, year = {2013}, doi = {10.1371/journal.pone.0072713}, url = {https://journals.plos.org/plosone/article?id=10.1371/journal.pone.0072713}, author = {Clara P{\'e}ron and Gr{\'e}millet, David} } @article {7340, title = {Trophic resources of the bivalve, Venus verrucosa , in the Chausey archipelago (Normandy, France) determined by stable isotopes and fatty acids}, journal = {Aquatic Living Resources}, volume = {26}, year = {2013}, month = {Jan-01-2013}, pages = {229 - 239}, issn = {0990-7440}, doi = {10.1051/alr/2013058}, url = {http://www.alr-journal.org/10.1051/alr/2013058}, author = {Perez, V{\'e}ronique and Fr{\'e}d{\'e}ric Olivier and Tremblay, Rejean and Neumeier, Urs and Thebault, Julien and Chauvaud, Laurent and Tarik Meziane} } @article {8462, title = {Accuracy of pitfall traps for monitoring populations of the amphipod Orchestia gammarella (Pallas 1766) in saltmarshes}, journal = {Estuarine, Coastal and Shelf Science}, volume = {113}, year = {2012}, month = {Jan-11-2012}, pages = {314 - 316}, issn = {02727714}, doi = {10.1016/j.ecss.2012.07.022}, url = {https://linkinghub.elsevier.com/retrieve/pii/S0272771412002922}, author = {Mantzouki, Evanthia and Fr{\'e}d{\'e}ric Ysnel and Alexandre Carpentier and P{\'e}tillon, Julien} } @proceedings {8579, title = {The Black stork at the Nazinga ranch (Burkina Faso)}, year = {2012}, month = {2016}, pages = {224}, publisher = {Ornithos}, edition = {Ornithos}, address = {Ch{\^a}lons-en-Champagne, France}, issn = {ORNITHOS 1254-2962}, author = {Yameogo, Dieudonn{\'e} and Chevallier, Damien and Brossault, Paul} } @proceedings {8580, title = {Eco-ethology of the Black stork: characteristics of feeding sites}, year = {2012}, month = {2016}, pages = {224}, publisher = {Ornithos}, edition = {Ornithos}, address = {Ch{\^a}lons-en-Champagne, France}, issn = {ORNITHOS 1254-2962}, author = {{\textasciidieresis}Pruvost, Thomas and Chevallier, Damien} } @inbook {6895, title = {{\'E}valuation rapide des perturbations anthropiques: cas de l{\textquoteright}enrichissement en nutriments en milieux c{\^o}tiers}, booktitle = {Le 26{\`e}me Forum des Jeunes oc{\'e}anographes de France{\textquoteright}}, year = {2012}, pages = {89-95}, publisher = {Union des Oc{\'e}anographes de France}, organization = {Union des Oc{\'e}anographes de France}, abstract = {Alors que la connaissance des syst{\`e}mes naturels a consid{\'e}rablement augment{\'e}e au cours des derni{\`e}res d{\'e}cennies, la capacit{\'e} de mesurer et mod{\'e}liser ces syst{\`e}mes reste limit{\'e}e. Afin de r{\'e}pondre {\`a} cette probl{\'e}matique, nous proposons ici une nouvelle proc{\'e}dure de d{\'e}tection instantan{\'e}e et de quantification des perturbations anthropiques potentielles, {\`a} travers l{\textquoteright}exemple d{\textquoteright}un suivi de l{\textquoteright}enrichissement c{\^o}tier en nutriments.}, url = {https://hal.archives-ouvertes.fr/hal-00815758}, author = {Goberville, Eric and Gr{\'e}gory Beaugrand}, editor = {Fran{\c c}ois G Schmitt} } @article {6892, title = {Expression of a Natural Antisense Transcript of Cg-Foxl2 during the Gonadic Differentiation of the Oyster Crassostrea gigas : First Demonstration in the Gonads of a Lophotrochozoa Species}, journal = {Sexual Development}, volume = {6}, year = {2012}, pages = {210-221}, doi = {10.1159/000338085}, url = {https://hal-normandie-univ.archives-ouvertes.fr/hal-02296522}, author = {Santerre, C. and Sourdaine, P. and Anne-Sophie Martinez} } @article {8456, title = {Improving occurrence-based rarity metrics in conservation studies by including multiple rarity cut-off points}, journal = {Insect Conservation and Diversity}, volume = {5}, year = {2012}, month = {Jan-03-2012}, pages = {159 - 168}, doi = {10.1111/icad.2012.5.issue-210.1111/j.1752-4598.2011.00148.x}, url = {http://doi.wiley.com/10.1111/icad.2012.5.issue-2}, author = {Leroy, Boris and P{\'e}tillon, Julien and R{\'e}gis Gallon and Canard, Alain and Fr{\'e}d{\'e}ric Ysnel} } @article {7355, title = {New 2-Methyl-13-Icosenoic Acid from the Temperate Calcisponge Leuconia johnstoni}, journal = {Lipids}, volume = {47}, year = {2012}, month = {Jan-04-2012}, pages = {345 - 353}, issn = {0024-4201}, doi = {10.1007/s11745-011-3631-4}, url = {http://doi.wiley.com/10.1007/s11745-011-3631-4}, author = {Qu{\'e}vrain, Elodie and Barnathan, Gilles and Tarik Meziane and Domart-Coulon, Isabelle and Rabesaotra, Vony and Bourguet-Kondracki, Marie-Lise} } @article {7339, title = {Ontogenetic change in the lipid and fatty acid composition of scleractinian coral larvae}, journal = {Coral Reefs}, volume = {31}, year = {2012}, month = {Jan-06-2012}, pages = {613 - 619}, issn = {0722-4028}, doi = {10.1007/s00338-012-0874-3}, url = {http://link.springer.com/10.1007/s00338-012-0874-3}, author = {Figueiredo, J. and Baird, A. H. and Cohen, M. F. and Flot, J.-F. and Kamiki, T. and Tarik Meziane and Tsuchiya, M. and Yamasaki, H.} } @article {6839, title = {Projected poleward shift of king penguins{\textquoteright}(Aptenodytes patagonicus) foraging range at the Crozet Islands, southern Indian Ocean}, journal = {Proceedings of the Royal Society B: Biological Sciences}, volume = {279}, year = {2012}, pages = {2515{\textendash}2523}, doi = {10.1098/rspb.2011.2705}, url = {https://royalsocietypublishing.org/doi/full/10.1098/rspb.2011.2705}, author = {Clara P{\'e}ron and WEIMERSKIRCH, Henri and Bost, Charles-Andr{\'e}} } @article {7341, title = {Responses of juvenile sea bass, Dicentrarchus labrax, exposed to acute concentrations of crude oil, as assessed by molecular and physiological biomarkers}, journal = {Chemosphere}, volume = {87}, year = {2012}, month = {Jan-05-2012}, pages = {692 - 702}, issn = {00456535}, doi = {10.1016/j.chemosphere.2011.12.059}, url = {https://linkinghub.elsevier.com/retrieve/pii/S0045653511014287}, author = {Kerambrun, E. and Le Floch, S. and Sanchez, W. and Thomas Guyon, H. and Tarik Meziane and Henry, F. and Amara, R.} } @article {8589, title = {Sub-Saharan staging areas of a first-summer Short-toed Snake Eagle Circaetus gallicus}, journal = {Bird Study}, volume = {59}, year = {2012}, month = {Jan-02-2012}, pages = {102 - 104}, issn = {0006-3657}, doi = {10.1080/00063657.2011.648607}, url = {http://www.tandfonline.com/doi/abs/10.1080/00063657.2011.648607}, author = {Jiguet, Fr{\'e}d{\'e}ric and Chevallier, Damien and Baillon, Fran{\c c}ois and Ventroux, Julien and Cavallin, Pascal} } @article {7351, title = {Surface adhesion of microphytobenthic biofilms is enhanced under Hediste diversicolor (O.F. M{\"u}ller) trophic pressure}, journal = {Journal of Experimental Marine Biology and Ecology}, volume = {438}, year = {2012}, month = {Jan-12-2012}, pages = {52 - 60}, issn = {00220981}, doi = {10.1016/j.jembe.2012.10.005}, url = {https://linkinghub.elsevier.com/retrieve/pii/S0022098112003577}, author = {Passarelli, Claire and C{\'e}dric Hubas and Nicolas Segui, Audrey and Grange, Julie and Tarik Meziane} } @article {8588, title = {Testing a Global Positioning System on free-ranging badgers Meles meles}, journal = {Mammal Notes}, year = {2012}, month = {2012}, pages = {1-5}, type = {Short note}, url = {https://www.mammal.org.uk/wp-content/uploads/2016/04/Note-5-Brendel-MN-2012-1.pdf}, author = {Brendel, Carole and Helder, R{\'e}mi and Chevallier, Damien and Zaytoon, Janan and Georges, Jean-Yves and Handrich, Yves} } @proceedings {8578, title = {Threats on the wintering grounds of migratory species in West Africa}, year = {2012}, month = {2016}, pages = {224}, publisher = {Ornithos}, edition = {Ornithos}, address = {Ch{\^a}lons-en-Champagne, France}, issn = {ORNITHOS 1254-2962}, author = {Chevallier, Damien and Brossault, Paul and Gendre, Nicolas and Baillon, Fran{\c c}ois and Duponnois, Robin and Chapalain, Fr{\'e}d{\'e}ric and Strenna, Luc and Yameogo, Dieudonn{\'e} and Le Maho, Yvon} } @article {6840, title = {Conserving pelagic habitats: seascape modelling of an oceanic top predator}, journal = {Journal of applied ecology}, volume = {48}, year = {2011}, pages = {121{\textendash}132}, doi = {10.1111/j.1365-2664.2010.01910.x}, url = {https://besjournals.onlinelibrary.wiley.com/doi/full/10.1111/j.1365-2664.2010.01910.x}, author = {Louzao, Maite and Pinaud, David and Clara P{\'e}ron and Delord, K. and Wiegand, Thorsten and WEIMERSKIRCH, Henri} } @article {5827, title = {{Early evaluation of coastal nutrient over-enrichment: New procedures and indicators}}, journal = {Marine Pollution Bulletin}, volume = {62}, year = {2011}, pages = {1751{\textendash}1761}, abstract = {Recent studies have provided compelling evidence for an accelerated anthropogenic impact on coastal systems, resulting in intense inputs of materials and nutrients from the continent. This has led scientists and policymakers to encourage the implementation of monitoring programmes, which have resulted in the multiplicity of datasets. However surprisingly, only a few attempts have been made to couple observations with statistical and mathematical tools to detect, as soon as the data become available perturbations in coastal systems. Here, we propose new mathematical procedures to evaluate the state of a system, based on the building of relative reference state and indicators of nutrient over-enrichment. The techniques were tested in some French coastal systems using data from the programme SOMLIT. Applied to this dataset, the multivariate procedures rapidly identified and evaluated anthropogenic nutrient anomalies from the continent on three sites (Wimereux, Roscoff and Villefranche-sur-Mer) from 1997 onwards. {\textcopyright} 2011 Elsevier Ltd.
}, keywords = {Indicators, Monitoring, Multivariate statistical analyses, Nutrient over-enrichment, Relative reference states, SOMLIT}, author = {Goberville, Eric and Gr{\'e}gory Beaugrand and Benoit Sautour and Paul Tr{\'e}guer} } @article {5828, title = {{Evaluation of coastal perturbations: A new mathematical procedure to detect changes in the reference state of coastal systems}}, journal = {Ecological Indicators}, volume = {11}, year = {2011}, pages = {1290{\textendash}1300}, abstract = {The pressure exerted by human activities on living systems has become so intense that it is inspiring the inception of a global network of monitoring of the biosphere and the use of robust statistical procedures to detect potential changes. Here, we propose a new multivariate non-parametric procedure, based on the Mahalanobis generalised distance and a simplification of the multiple response permutation procedure to identify rapidly changes in any natural systems. The procedure can be virtually coupled on all monitoring programmes and is not influenced by missing data, a common feature found in many ecological databases. In France, physical, chemical and biological variability of coastal waters have been monitored since 1997 by the SOMLIT Network. Applied to this data set, this technique enabled a first quantification of the impacts of human disturbance through changes in the concentration of nutrients. Our results revealed how climate may interact with anthropogenic pressure to alter coastal marine systems and suggest a synergism between nutrient enrichment, human activities and local climatic conditions. Indeed some effects of climate (e.g. insolation duration - increase in duration of daylight) may attenuate the fertility of coastal systems, while some others (e.g. precipitation) amplify the human signals. {\textcopyright} 2011 Elsevier Ltd.
}, keywords = {Anthropogenic nutrient enrichment, Climate Change, Coastal systems, Monitoring, SOMLIT}, issn = {1470160X}, author = {Goberville, Eric and Gr{\'e}gory Beaugrand and Benoit Sautour and Paul Tr{\'e}guer} } @article {8590, title = {Predictive distribution models applied to satellite tracks: modelling the western African winter range of European migrant Black Storks Ciconia nigra}, journal = {Journal of Ornithology}, volume = {152}, year = {2011}, month = {Jan-01-2011}, pages = {111 - 118}, issn = {2193-7192}, doi = {10.1007/s10336-010-0555-3}, url = {http://link.springer.com/10.1007/s10336-010-0555-3}, author = {Jiguet, Fr{\'e}d{\'e}ric and Barbet-Massin, Morgane and Chevallier, Damien} } @article {8457, title = {Rehabilitation project of a managed marsh: Biodiversity assessment of different management measures}, journal = {Procedia Environmental Sciences}, volume = {9}, year = {2011}, month = {Jan-01-2011}, pages = {96 - 103}, issn = {18780296}, doi = {10.1016/j.proenv.2011.11.016}, url = {https://linkinghub.elsevier.com/retrieve/pii/S187802961100778X}, author = {Leroy, Boris and Morel, Lo{\"\i}s and Eybert, Marie-Christine and Fr{\'e}d{\'e}ric Ysnel and Georges, Anita} } @article {7343, title = {There{\textquoteright}s more to the picture than meets the eye: Sampling microphytobenthos in a heterogeneous environment}, journal = {Estuarine, Coastal and Shelf Science}, volume = {95}, year = {2011}, month = {Jan-12-2011}, pages = {470 - 476}, issn = {02727714}, doi = {10.1016/j.ecss.2011.10.021}, url = {https://linkinghub.elsevier.com/retrieve/pii/S0272771411004434}, author = {Spilmont, Nicolas and Seuront, Laurent and Tarik Meziane and Welsh, David T.} } @article {6856, title = {Un r{\'e}seau de surveillance des littoraux face au changement climatique en milieu insulaire tropical : l{\textquoteright}exemple de Mayotte}, journal = {VertigO}, year = {2011}, month = {Jul-01-2012}, doi = {10.4000/vertigo10.4000/vertigo.1047110.4000/vertigo.10512}, url = {http://vertigo.revues.org}, author = {Jeanson, Matthieu and Franck Dolique and Anthony, Edward J.} } @article {8591, title = {The use of stopover sites by Black Storks (Ciconia nigra) migrating between West Europe and West Africa as revealed by satellite telemetry}, journal = {Journal of Ornithology}, volume = {152}, year = {2011}, month = {Jan-01-2011}, pages = {1 - 13}, issn = {2193-7192}, doi = {10.1007/s10336-010-0536-6}, url = {http://link.springer.com/10.1007/s10336-010-0536-6}, author = {Chevallier, D. and Le Maho, Y. and Brossault, P. and Baillon, F. and Massemin, S.} } @article {6841, title = {At-sea distribution and diet of an endangered top predator: relationship between white-chinned petrels and commercial longline fisheries}, journal = {Endangered species research}, volume = {13}, year = {2010}, pages = {1{\textendash}16}, doi = {10.3354/esr00309 }, url = {https://www.int-res.com/abstracts/esr/v13/n1/p1-16/}, author = {Delord, K. and C{\'e}dric Cotte and Clara P{\'e}ron and MARTEAU, C{\'e}dric and Patrice Pruvost and Nicolas Gasco and Guy Duhamel and Cherel, Yves and WEIMERSKIRCH, Henri} } @article {5829, title = {{Climate-driven changes in coastal marine systems of western Europe}}, year = {2010}, abstract = {Coastal marine systems, the interface between the ocean and terrestrial realms, are among the most important systems on the planet both ecologically and economically because of their crucial role in earth system functioning. Although direct impacts of human activities on physical, chemical and biological components of these systems have been widely documented, the potential influence of climate variability is less well known. Here, we used data from Service d{\textquoteright}Observation en Milieu Littoral (SOMLIT), a marine monitoring programme that has since 1997 collected samples at 12 sites located along the French coasts from 42{\textdegree} to 51{\textdegree} N. Applying standardised principal component analysis (PCA), we documented the year-to-year fluctuations in these coastal systems and evaluated the potential influence of climate variability using data on atmospheric circulation (wind intensity and direction), precipitation and temperature. Our study revealed a pronounced sensitivity of these systems to climate variability. As the impact of climate change may become more prominent in the next decades, this study suggests that climate might strongly influence the marine coastal environment and act in synergism with other anthropogenic pressures to alter the state and functioning of biological and ecological systems and the services they provide. {\textcopyright} Inter-Research 2010 {\textperiodcentered} www.int-res.com.
}, doi = {10.3354/meps08564}, author = {Goberville, Eric and Gr{\'e}gory Beaugrand and Benoit Sautour and Paul Tr{\'e}guer and SOMLIT, Team} } @article {6897, title = {Cons{\'e}quences des changements climatiques en milieu oc{\'e}anique}, journal = {Vertigo}, volume = {Hors Serie}, year = {2010}, pages = {1-13}, abstract = {Le changement climatique a une influence grandissante sur l{\textquoteright}ensemble des composantes du syst{\`e}me terre. Cette contribution pr{\'e}sente l{\textquoteright}{\'e}volution des temp{\'e}ratures globales et montre que le changement climatique affecte les syst{\`e}mes biologiques et {\'e}cologiques de la plan{\`e}te, en particulier ceux de l{\textquoteright}Oc{\'e}an Atlantique Nord et de ses mers adjacentes. Les changements biologiques attribu{\'e}s au changement climatique affectent le phytoplancton, le zooplancton, les poissons et modifient la dominance de nombreuses esp{\`e}ces ainsi que la structure, le fonctionnement et la diversit{\'e} des {\'e}cosyst{\`e}mes. Les changements sont aussi per{\c c}us sur la biog{\'e}ographie et la ph{\'e}nologie des esp{\`e}ces et ont impliqu{\'e}, dans certaines r{\'e}gions, des changements {\'e}cosyst{\'e}miques abrupts appel{\'e}s aussi changements de r{\'e}gime. Ces alt{\'e}rations refl{\`e}tent un ajustement des syst{\`e}mes biologiques et {\'e}cologiques face au r{\'e}chauffement des temp{\'e}ratures. Les m{\'e}canismes impliqu{\'e}s sont complexes, pr{\'e}sentant des points de bifurcation et variant dans le temps et l{\textquoteright}espace. La sensibilit{\'e} des organismes vis-{\`a}-vis du r{\'e}chauffement est forte et de faibles fluctuations des temp{\'e}ratures peuvent avoir des effets prononc{\'e}s sur les syst{\`e}mes biologiques et {\'e}cologiques. Il est urgent de placer ces syst{\`e}mes sous surveillance et de d{\'e}velopper des indicateurs coupl{\'e}s {\`a} des outils statistico-math{\'e}matiques adapt{\'e}s afin de d{\'e}tecter, mieux comprendre et anticiper les modifications des syst{\`e}mes biologiques et {\'e}cologiques face au changement climatique global.}, url = {https://www.erudit.org/fr/revues/vertigo/2010-n8-vertigo3983/045530ar/}, author = {Gr{\'e}gory Beaugrand and Goberville, Eric} } @article {7889, title = {How Do Alterations in Habitat Structure by an Invasive Grass Affect Salt-Marsh Resident Spiders?}, journal = {Annales Zoologici Fennici}, volume = {47}, year = {2010}, month = {Jan-04-2010}, pages = {79 - 89}, issn = {0003-455X}, doi = {10.5735/086.047.0201}, url = {http://www.bioone.org/doi/abs/10.5735/086.047.0201}, author = {P{\'e}tillon, Julien and Lasne, Emilien and Lambeets, Kevin and Canard, Alain and Vernon, Philippe and Fr{\'e}d{\'e}ric Ysnel} } @article {8593, title = {Human activity and the drying up of rivers determine abundance and spatial distribution of Black Storks Ciconia nigra on their wintering grounds}, journal = {Bird Study}, volume = {57}, year = {2010}, month = {May-08-2012}, pages = {369 - 380}, issn = {0006-3657}, doi = {10.1080/00063651003678467}, url = {https://www.tandfonline.com/doi/full/10.1080/00063651003678467}, author = {Chevallier, Damien and Le Maho, Yvon and Baillon, Fran{\c c}ois and Duponnois, Robin and Dieulin, Claudine and Brossault, Paul and De Franclieu, Philippe and Lorge, Patric and Aurouet, Axel and Massemin, Sylvie} } @article {8594, title = {The Importance of Roosts for Black Storks Ciconia nigra Wintering in West Africa}, journal = {Ardea}, volume = {98}, year = {2010}, month = {Jan-03-2010}, pages = {91 - 96}, issn = {0373-2266}, doi = {10.5253/078.098.0111}, url = {http://www.bioone.org/doi/abs/10.5253/078.098.0111}, author = {Chevallier, D. and Duponnois, R. and Baillon, F. and Brossault, P. and Gr{\'e}goire, J-M. and Eva, H. and Maho, Y. Le and Massemin, S.} } @article {8592, title = {Influence of weather conditions on the flight of migrating black storks}, journal = {Proceedings of the Royal Society B: Biological Sciences}, volume = {277}, year = {2010}, month = {Oct-09-2011}, pages = {2755 - 2764}, issn = {0962-8452}, doi = {10.1098/rspb.2010.0422}, url = {https://royalsocietypublishing.org/doi/10.1098/rspb.2010.0422}, author = {Chevallier, D. and Handrich, Y. and Georges, J.-Y. and Baillon, F. and Brossault, P. and Aurouet, A. and Le Maho, Y. and Massemin, S.} } @article {6843, title = {Interdecadal changes in at-sea distribution and abundance of subantarctic seabirds along a latitudinal gradient in the Southern Indian Ocean}, journal = {Global Change Biology}, volume = {16}, year = {2010}, pages = {1895{\textendash}1909}, doi = {10.1111/j.1365-2486.2010.02169.x}, url = {https://onlinelibrary.wiley.com/doi/full/10.1111/j.1365-2486.2010.02169.x}, author = {Clara P{\'e}ron and Authier, Matthieu and Barbraud, C. and DELORD, Karine and Besson, Dominique and WEIMERSKIRCH, Henri} } @article {8595, title = {Satellite tracking of a Booted Eagle Aquila pennata during migration}, journal = {Ringing \& Migration}, volume = {25}, year = {2010}, month = {Jan-01-2010}, pages = {62 - 64}, issn = {0307-8698}, doi = {10.1080/03078698.2010.9674418}, url = {http://www.tandfonline.com/doi/abs/10.1080/03078698.2010.9674418}, author = {Chevallier, Damien and Jiguet, Fr{\'e}d{\'e}ric and Nore, Th{\'e}r{\`e}se and Baillon, Fran{\c c}ois and Cavallin, Pascal} } @article {6842, title = {Seasonal variation in oceanographic habitat and behaviour of white-chinned petrels Procellaria aequinoctialis from Kerguelen Island}, journal = {Marine Ecology Progress Series}, volume = {416}, year = {2010}, pages = {267{\textendash}284}, doi = {10.3354/meps08785}, url = {https://www.int-res.com/abstracts/meps/v416/p267-284/}, author = {Clara P{\'e}ron and Delord, K. and Phillips, Richard and Charbonnier, Yohan and MARTEAU, C{\'e}dric and Louzao, Maite and WEIMERSKIRCH, Henri} } @article {7352, title = {Fatty acid markers as an indicator for temporal changes in food sources of the bivalve Quidnipagus palatum}, journal = {Aquatic Ecosystem Health \& Management}, volume = {12}, year = {2009}, month = {Jun-11-2011}, pages = {390 - 400}, issn = {1463-4988}, doi = {10.1080/14634980903347589}, url = {http://www.tandfonline.com/doi/abs/10.1080/14634980903347589}, author = {Bachok, Zainudin and Tarik Meziane and Mfilinge, Prosper L. and Tsuchiya, Makoto} } @article {6889, title = {Identification and expression of a factor of the DM family in the oyster Crassostrea gigas}, journal = {Comparative Biochemistry and Physiology - Part A: Molecular and Integrative Physiology}, volume = {152}, year = {2009}, pages = {189-196}, keywords = {Crassostrea gigas, Dmrt1, Dmrt4, Dmrt5, Oyster, Sex determination}, doi = {10.1016/j.cbpa.2008.09.019}, url = {https://hal-normandie-univ.archives-ouvertes.fr/hal-02296545}, author = {Naimi, Amine and Anne-Sophie Martinez and Specq, Marie-Laure and Mrac, Abdellah and Diss, Blandine and Mathieu, Michel and Sourdaine, Pascal} } @article {7344, title = {Identification of the food sources of sympatric ghost shrimp ( Trypaea australiensis ) and soldier crab ( Mictyris longicarpus ) populations using a lipid biomarker, dual stable isotope approach}, journal = {Austral Ecology}, volume = {34}, year = {2009}, month = {Jan-12-2009}, pages = {878 - 888}, issn = {14429985}, doi = {10.1111/aec.2009.34.issue-810.1111/j.1442-9993.2009.01994.x}, url = {http://blackwell-synergy.com/doi/abs/10.1111/aec.2009.34.issue-8}, author = {Spilmont, Nicolas and Tarik Meziane and Seuront, Laurent and Welsh, David T.} } @article {6891, title = {Molecular cloning and gene expression of Cg-Foxl2 during the development and the adult gametogenetic cycle in the oyster Crassostrea gigas}, journal = {Comparative Biochemistry and Physiology - Part B: Biochemistry and Molecular Biology}, volume = {154}, year = {2009}, pages = {134-142}, keywords = {Adult gametogenetic cycle, Cg-DMl, Crassostrea gigas, Development, Foxl2, Gonad, Oyster, Sex determination}, doi = {10.1016/j.cbpb.2009.05.011}, url = {https://hal-normandie-univ.archives-ouvertes.fr/hal-02296548}, author = {Naimi, Amine and Anne-Sophie Martinez and Specq, Marie-Laure and Diss, Blandine and Mathieu, Michel and Sourdaine, Pascal} } @article {7345, title = {Oxygen and nutrient dynamics of the upside down jellyfish (Cassiopea sp.) and its influence on benthic nutrient exchanges and primary production}, journal = {Hydrobiologia}, volume = {635}, year = {2009}, month = {Jan-11-2009}, pages = {351 - 362}, issn = {0018-8158}, doi = {10.1007/s10750-009-9928-0}, url = {http://link.springer.com/10.1007/s10750-009-9928-0}, author = {Welsh, David T. and Dunn, Ryan J. K. and Tarik Meziane} } @article {7346, title = {Role of grapsid crabs, Parasesarma erythrodactyla, in entry of mangrove leaves into an estuarine food web: a mesocosm study}, journal = {Marine Biology}, volume = {156}, year = {2009}, month = {Jan-10-2009}, pages = {2343 - 2352}, issn = {0025-3162}, doi = {10.1007/s00227-009-1262-6}, url = {http://link.springer.com/10.1007/s00227-009-1262-6}, author = {Nerot, Caroline and Tarik Meziane and Provost-Govrich, Anais and Rybarczyk, Herv{\'e} and Lee, S. Yip} } @article {7342, title = {Opportunistic predation by small fishes on epibiota of jetty pilings in urban waterways}, journal = {Journal of Fish Biology}, volume = {72}, year = {2008}, month = {Jan-01-2008}, pages = {205 - 217}, doi = {10.1111/j.1095-8649.2007.01705.x}, url = {http://doi.wiley.com/10.1111/j.1095-8649.2007.01705.x}, author = {Moreau, S. and P{\'e}ron, C. and Pitt, K. A. and Connolly, R. M. and Lee, S. Y. and Tarik Meziane} } @article {8596, title = {Prey selection of the black stork in the African wintering area}, journal = {Journal of Zoology}, volume = {276}, year = {2008}, month = {Jan-11-2008}, pages = {276 - 284}, issn = {0952-8369}, doi = {10.1111/jzo.2008.276.issue-310.1111/j.1469-7998.2008.00488.x}, url = {https://onlinelibrary.wiley.com/toc/14697998/276/3}, author = {Chevallier, D. and Baillon, F. and Robin, J.-P. and Le Maho, Y. and Massemin-Challet, S.} } @article {6886, title = {Study of the potential spermatogonial stem cell compartment in dogfish testis, Scyliorhinus canicula L.}, journal = {Cell and Tissue Research}, volume = {332}, year = {2008}, pages = {533-542}, abstract = {In the lesser-spotted dogfish (Scyliorhinus canicula), spermatogenesis takes place within spermatocysts made up of Sertoli cells associated with stage-synchronized germ cells. As shown in testicular cross sections, cysts radiate in maturational order from the germinative area, where they are formed, to the opposite margin of the testis, where spermiation occurs. In the germinative zone, which is located in a specific area between the tunica albuginea of the testis and the dorsal testicular vessel, individual large spermatogonia are surrounded by elongated somatic cells. The aim of this study has been to define whether these spermatogonia share characteristics with spermatogonial stem cells described in vertebrate and non-vertebrate species. We have studied their ultrastructure and their mitotic activity by 5{\textquoteright}-bromo-2{\textquoteright}-deoxyuridine (BrdU) incorporation and proliferating cell nuclear antigen (PCNA) immunodetection. Additionally, immunodetection of c-Kit receptor, a marker of differentiating spermatogonia in rodents, and of alpha- and beta-spectrins, as constituents of the spectrosome and the fusome, has been performed. Ultrastructurally, nuclei of stage I spermatogonia present the same mottled aspect in dogfish as undifferentiated spermatogonia nuclei in rodents. Moreover, intercellular bridges are not observed in dogfish spermatogonia, although they are present in stage II spermatogonia. BrdU and PCNA immunodetection underlines their low mitotic activity. The presence of a spectrosome-like structure, a cytological marker of the germline stem cells in Drosophila, has been observed. Our results constitute the first step in the study of spermatogonial stem cells and their niche in the dogfish.}, keywords = {Lesser-spotted dogfish - Scyliorhinus canicula (Elasmobrachii), Spermatogenesis, Spermatogonia}, doi = {10.1007/s00441-008-0590-z}, url = {https://hal-normandie-univ.archives-ouvertes.fr/hal-02296550}, author = {Loppion, Geraldine and Crespel, Am{\'e}lie and Anne-Sophie Martinez and Auvray, Pierr{\"\i}ck and Sourdaine, Pascal} } @article {7325, title = {Growth and condition indices in juvenile sole Solea solea measured to assess the quality of essential fish habitat}, journal = {Marine Ecology Progress Series}, volume = {351}, year = {2007}, month = {Jun-12-2007}, pages = {201 - 208}, issn = {0171-8630}, doi = {10.3354/meps07154}, url = {http://www.int-res.com/abstracts/meps/v351/p201-208/}, author = {Amara, R and Tarik Meziane and Gilliers, C and Hermel, G and Laffargue, P} } @article {7337, title = {Inter-specific and geographical variations in the fatty acid composition of mangrove leaves: implications for using fatty acids as a taxonomic tool and tracers of organic matter}, journal = {Marine Biology}, volume = {150}, year = {2007}, month = {Jan-03-2007}, pages = {1103 - 1113}, issn = {0025-3162}, doi = {10.1007/s00227-006-0424-z}, url = {http://link.springer.com/10.1007/s00227-006-0424-z}, author = {Tarik Meziane and Lee, S. Y. and Mfilinge, P. L. and Shin, P. K. S. and Lam, M. H. W. and Tsuchiya, M.} } @article {7358, title = {Fate of mangrove organic matter along a subtropical estuary: small-scale exportation and contribution to the food of crab communities}, journal = {Marine Ecology Progress Series}, volume = {312}, year = {2006}, month = {Dec-04-2007}, pages = {15 - 27}, issn = {0171-8630}, doi = {10.3354/meps312015}, url = {http://www.int-res.com/abstracts/meps/v312/p15-27/}, author = {Tarik Meziane and dAgata, F and Lee, SY} } @article {7328, title = {Fatty acids as trophic tracers in an experimental estuarine food chain: Tracer transfer}, journal = {Journal of Experimental Marine Biology and Ecology}, volume = {336}, year = {2006}, month = {Jan-08-2006}, pages = {42 - 53}, issn = {00220981}, doi = {10.1016/j.jembe.2006.04.004}, url = {https://linkinghub.elsevier.com/retrieve/pii/S0022098106002012}, author = {Hall, David and Lee, S.Y. and Tarik Meziane} } @article {7330, title = {Litter dynamics and particulate organic matter outwelling from a subtropical mangrove in Okinawa Island, South Japan}, journal = {Estuarine, Coastal and Shelf Science}, volume = {63}, year = {2005}, month = {Jan-04-2005}, pages = {301 - 313}, issn = {02727714}, doi = {10.1016/j.ecss.2004.11.022}, url = {https://linkinghub.elsevier.com/retrieve/pii/S0272771404003543}, author = {Mfilinge, Prosper L. and Tarik Meziane and Bachok, Zainudin and Tsuchiya, Makoto} } @article {7349, title = {Total Lipid and Fatty Acid Classes in Decomposing Mangrove Leaves of Bruguiera gymnorrhiza and Kandelia candel: Significance with respect to Lipid Input}, journal = {Journal of Oceanography}, volume = {61}, year = {2005}, month = {Jan-06-2005}, pages = {613 - 622}, issn = {0916-8370}, doi = {10.1007/s10872-005-0069-4}, url = {http://link.springer.com/10.1007/s10872-005-0069-4}, author = {Mfilinge, Prosper L. and Tarik Meziane and Bachok, Zainudin and Tsuchiya, Makoto} } @article {8597, title = {Elephants as dispersal agents of mycorrhizal spores in Burkina Faso}, journal = {African Journal of Ecology}, volume = {42}, year = {2004}, month = {Jan-09-2004}, pages = {225 - 227}, issn = {0141-6707}, doi = {10.1111/aje.2004.42.issue-310.1111/j.1365-2028.2004.00524.x}, url = {http://www.blackwell-synergy.com/toc/aje/42/3}, author = {Paugy, M. and Baillon, F. and Chevallier, D. and Duponnois, R.} } @article {7336, title = {Fatty acids in decomposing mangrove leaves: microbial activity, decay and nutritional quality}, journal = {Marine Ecology Progress Series}, volume = {265}, year = {2003}, month = {Jan-01-2003}, pages = {97 - 105}, issn = {0171-8630}, doi = {10.3354/meps265097}, url = {http://www.int-res.com/abstracts/meps/v265/p97-105/}, author = {Mfilinge, PL and Tarik Meziane and Bachok, Z and Tsuchiya, M} } @article {7334, title = {Croissance de juv{\'e}niles de Nereis diversicolor nourris avec des d{\'e}tritus d{\textquoteright}halophytes}, journal = {Oceanologica Acta}, volume = {25}, year = {2002}, month = {Jan-05-2002}, pages = {119 - 124}, issn = {03991784}, doi = {10.1016/S0399-1784(02)01187-8}, url = {https://linkinghub.elsevier.com/retrieve/pii/S0399178402011878}, author = {Tarik Meziane and Retiere, Christian} } @article {7347, title = {Feeding deterrence of Azolla in relation to deoxyanthocyanin and fatty acid composition}, journal = {Aquatic Botany}, volume = {74}, year = {2002}, month = {Jan-10-2002}, pages = {181 - 187}, issn = {03043770}, doi = {10.1016/S0304-3770(02)00077-3}, url = {https://linkinghub.elsevier.com/retrieve/pii/S0304377002000773}, author = {Cohen, Michael F and Tarik Meziane and Tsuchiya, Makoto and Yamasaki, Hideo} } @article {7326, title = {Organic matter in a subtropical mangrove-estuary subjected to wastewater discharge: Origin and utilisation by two macrozoobenthic species}, journal = {Journal of Sea Research}, volume = {47}, year = {2002}, month = {Jan-02-2002}, pages = {1 - 11}, issn = {13851101}, doi = {10.1016/S1385-1101(01)00092-2}, url = {https://linkinghub.elsevier.com/retrieve/pii/S1385110101000922}, author = {Tarik Meziane and Tsuchiya, Makoto} } @article {7357, title = {Fatty acids as tracers of organic matter in the sediment and food web of a mangrove/intertidal flat ecosystem, Okinawa, Japan}, journal = {Marine Ecology Progress Series}, volume = {200}, year = {2000}, month = {Jan-01-2000}, pages = {49 - 57}, issn = {0171-8630}, doi = {10.3354/meps200049}, url = {http://www.int-res.com/abstracts/meps/v200/p49-57/}, author = {Tarik Meziane and Tsuchiya, M} } @article {7329, title = {The use of lipid markers to define sources of organic matter in sediment and food web of the intertidal salt-marsh-flat ecosystem of Mont-Saint-Michel Bay, France}, journal = {Journal of Sea Research}, volume = {38}, year = {1997}, month = {Jan-12-1997}, pages = {47 - 58}, issn = {13851101}, doi = {10.1016/S1385-1101(97)00035-X}, url = {https://linkinghub.elsevier.com/retrieve/pii/S138511019700035X}, author = {Tarik Meziane and Bodineau, Laurent and Retiere, Christian and Thoumelin, Guy} } @article {9185, title = {DNA barcoding of two amphidromous goby post-larvae (penja) morphotypes from Mandar River, West Sulawesi, Indonesia.}, volume = {45}, year = {201}, month = {08/2021}, pages = {243-249}, author = {Nurjirana and Philippe Keith and Burhanuddin, A I and Afrisal, Muhammad and Haris, A} }