@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 {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 {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 {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 {9649, title = {Testing for concordance between predicted species richness, past prioritization, and marine protected area designations in the western Indian Ocean}, journal = {Conservation Biology}, year = {2024}, month = {Apr-03-2026}, issn = {0888-8892}, doi = {10.1111/cobi.14256}, url = {https://conbio.onlinelibrary.wiley.com/doi/10.1111/cobi.14256}, author = {McClanahan, Tim R. and Friedlander, Alan M. and Wickel, Julien and Graham, Nicholas A. J. and Bruggemann, J. Henrich and Guillaume, Mireille M. M. and Chabanet, P. and Porter, Sean and Schleyer, Michael H. and Azali, M. Kodia and Muthiga, N. 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 {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 {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."

\ }, issn = {1541-5856}, doi = {10.1002/lom3.10527}, url = {https://onlinelibrary.wiley.com/doi/10.1002/lom3.10527}, author = {Olivier, Fr{\'e}d{\'e}ric and Gigot, Mathilde and Mathias, Delphine and J{\'e}z{\'e}quel, Youenn and Meziane, Tarik and L{\textquoteright}Her, Christophe and Chauvaud, Laurent and Bonnel, Julien} } @article {9321, title = {Beach erosion aggravates the drastic decline in marine turtle populations in French Guiana}, journal = {Regional Environmental Change}, volume = {23}, year = {2023}, month = {Jan-09-2023}, issn = {1436-3798}, doi = {10.1007/s10113-023-02105-3}, url = {https://link.springer.com/10.1007/s10113-023-02105-3}, author = {Chevallier, Damien and Girondot, Marc and P{\'e}ron, Christina and Martin, Jordan and Bonola, Marc and Chevalier, Johan and de Thoisy, Beno{\^\i}t and Kelle, Laurent and Le Maho, Yvon and Gardel, Antoine and Anthony, Edward J.} } @article {9524, title = {A benchmark for computational analysis of animal behavior, using animal-borne tags}, journal = {arXiv}, year = {2023}, month = {05/2023}, abstract = {Animal-borne sensors ({\textquoteleft}bio-loggers{\textquoteright}) can record a suite of kinematic and environmental data, which can elucidate animal ecophysiology and improve conservation efforts. Machine learning techniques are useful for interpreting the large amounts of data recorded by bio-loggers, but there exists no standard for comparing the different machine learning techniques in this domain. To address this, we present the Bio-logger Ethogram Benchmark (BEBE), a collection of datasets with behavioral annotations, standardized modeling tasks, and evaluation metrics. BEBE is to date the largest, most taxonomically diverse, publicly available benchmark of this type, and includes 1654 hours of data collected from 149 individuals across nine taxa. We evaluate the performance of ten different machine learning methods on BEBE, and identify key challenges to be addressed in future work. Datasets, models, and evaluation code are made publicly available at https://github.com/earthspecies/ BEBE, to enable community use of BEBE as a point of comparison in methods development.}, keywords = {Accelerometers, animal behavior, Bio-loggers, Clustering, Machine Learning, Time series}, author = {Benjamin Hoffman and Maddie Cusimano and Vittorio Baglione and Daniela Canestrari and Chevallier, Damien and Dominic L. DeSantis and Lor{\`e}ne Jeantet and Monique A. Ladds and Takuya Maekawa and Vicente Mata-Silva and V{\'\i}ctor Moreno-Gonz{\'a}lez and Eva Trapote and Outi Vainio and Antti Vehkaoja and Ken Yoda and Katherine Zacarian and Ari Friedlaender and Christian Rutz} } @article {9308, title = {Benchmarking global biodiversity of decapod crustaceans (Crustacea: Decapoda)}, journal = {Journal of Crustacean Biology}, volume = {43}, year = {2023}, month = {Aug-01-2023}, issn = {0278-0372}, doi = {10.1093/jcbiol/ruad042}, url = {https://academic.oup.com/jcb/article/doi/10.1093/jcbiol/ruad042/7234762}, author = {De Grave, Sammy and Decock, Wim and Dekeyzer, Stefanie and Davie, Peter J F and Fransen, Charles H J M and Boyko, Christopher B and Poore, Gary C B and Macpherson, Enrique and Ahyong, Shane T and Crandall, Keith A and de Mazancourt, Valentin and Osawa, Masayuki and Chan, Tin-Yam and Ng, Peter K L and Lemaitre, Rafael and van der Meij, Sancia E T and Santos, Sandro} } @article {9085, title = {Biogeographical snapshot of life-history traits of European silver eels: insights from otolith microchemistry}, journal = {Aquatic Sciences}, volume = {85}, year = {2023}, month = {Jan-04-2023}, abstract = {Life-history traits of eels display a high level of phenotypic plasticity in response to large-scale biogeographical drivers, as well as local conditions encountered during the continental phase. Here, we provided a biogeographical snapshot of the variability of life-history traits of eels (Anguilla anguilla), across a large proportion of their natural distribution range. Silver eels (n = 99) were collected across eleven European catchments to investigate how life-history traits vary along geographical and saline habitats, as it was inferred from the Sr:Ca ratio in otoliths. Among 13 life-history traits tested, 3 of them such as total length, body or liver weight were related to geographical coordinates. Overall, eels grow faster in southern Europe and migrate earlier suggesting that the silvering process is related to the local growth conditions more than fish age. The salinity profiles revealed by the otoliths{\textquoteright} Sr:Ca ratios indicate that eels with a brackish life-history generally grow faster, reach larger size-at-age, and have a better condition than eels living in freshwater. This observation associated with the lower abundance of the sanguivorous swimbladder nematode, Anguillicola crassus, confirms the importance of brackish areas for sustaining the eel production. A large proportion of the observed variation of life-history traits remained unexplained by the biogeographical trends and salinity condition, which suggests that other drivers act at the catchment scale.
}, keywords = {Anguilla anguilla, Biogeography, Brackish habitat, otolith, phenotypic plasticity, Sr:Ca ratio}, issn = {1015-1621}, doi = {10.1007/s00027-023-00940-4}, url = {https://link.springer.com/10.1007/s00027-023-00940-4}, author = {Teichert, Nils and Bourillon, Bastien and Suzuki, Kyoko and Acou, Anthony and Alexandre Carpentier and Kuroki, Mari and Righton, David and Thomas Trancart and Virag, Laure-Sarah and Walker, Alan and Otake, Tsuguo and Eric Feunteun} } @article {9513, title = {Comparative efects of trace metal elements released from dissolution of aluminum-based galvanic anodes, aluminum chloride, zinc chloride, and their mixture on the development of the Pacifc oyster D-larvae, Crassostrea gigas}, journal = {Environmental Science and Pollution Research }, volume = {30}, year = {2023}, pages = {101535-101545}, abstract = {As the most abundant metal in the earth{\textquoteright}s crust, aluminum (Al) is used in many sectors, and nowadays, there is an increase in anthropogenic releases to aquatic ecosystems. This is particularly true in the context of corrosion protection systems involving galvanic anodes, which are mostly made of Al. Corroded instead of the steel structures they protect, galvanic anodes are described as sacrifcial anodes. In contact with seawater, they undergo oxidation and release various metals in the form of ions or oxy-hydroxides into the marine environment, mainly Al and zinc (Zn). Several studies agree that Al increases the incidence of abnormal development in bivalve larvae from 150 μg L-1 which is close to the highest Al concentrations recorded in coastal waters. Therefore, we studied the impact of the cocktail of metals released by aluminum-based galvanic anodes on the development of Crassostrea gigas larvae, which we compared to the efects of aluminum chloride hexahydrate and zinc chloride alone and their mixture. The anode solution was realized thanks to an experimental device simulating the dissolution of a galvanic anode in the marine environment in order to reproduce the cocktail of metal species. We calculated an EC50 of 193.55 μg L-1 and 100.05 μg L-1 for Al and Zn chloride alone, respectively, and we highlighted an EC50 of 190.22 μg L-1 for the galvanic anode based on Al concentration. The mixture of the two metals in their chloride form resulted in the observation of additive and synergistic efects, which underlines the importance of considering the cocktail efect in ecotoxicological studies.}, author = {Levallois, A and Costil, K and Caplat, C and Basuyaux, O and Lebel, J.M. and Gu{\'e}gan, C and Serpentini, A.} } @article {9329, title = {Comparative effects of trace metal elements released from dissolution of aluminum-based galvanic anodes, aluminum chloride, zinc chloride, and their mixture on the development of the Pacific oyster D-larvae, Crassostrea gigas}, journal = {Environmental Science and Pollution Research}, year = {2023}, month = {Jul-08-2025}, doi = {10.1007/s11356-023-29566-7}, url = {https://link.springer.com/10.1007/s11356-023-29566-7}, author = {Levallois, Alexandre and Katherine Costil and Caplat, Christelle and Basuyaux, Olivier and Lebel, Jean-Marc and Guegan, Claire and Serpentini, Antoine} } @article {9276, title = {Comparative Proteome Analysis of Four Stages of Spermatogenesis in the Small-Spotted Catshark (Scyliorhinus canicula)}, journal = {Journal of Proteome Research}, volume = {22}, year = {2023}, month = {Jul-07-2023}, pages = {2477 - 2492}, issn = {1535-3893}, doi = {https://doi.org/10.1021/acs.jproteome.3c00206}, url = {https://pubs.acs.org/doi/10.1021/acs.jproteome.3c00206}, author = {Jeanne, Fabian and Bernay, Beno{\^\i}t and Pascal Sourdaine} } @article {9238, title = {Coral reef fish communities of natural habitats and man-made coastal structures in Bora-Bora (French Polynesia)}, journal = {Belgian Journal of Zoology}, volume = {153}, year = {2023}, month = {May-01-2023}, doi = {10.26496/bjz.2023.109}, url = {https://www.belgianjournalofzoology.eu/BJZ/article/view/109}, author = {Gairin, Emma and Minier, Lana and Claverie, Thomas and Charlotte R. Dromard and Maueau, Tehani and Collin, Antoine and Fr{\'e}d{\'e}rich, Bruno and Bertucci, Fr{\'e}d{\'e}ric and Lecchini, David} } @article {9192, title = {Data quality control considerations in multivariate environmental monitoring: experience of the French coastal network SOMLIT}, journal = {Frontiers in Marine Science}, volume = {10}, year = {2023}, month = {Feb-04-2025}, doi = {doi.org/10.3389/fmars.2023.1135446}, url = {https://www.frontiersin.org/articles/10.3389/fmars.2023.1135446/full}, author = {Breton, Elsa and Savoye, Nicolas and Rimmelin-Maury, Peggy and Sautour, Benoit and Goberville, Eric and Lheureux, Arnaud and Cariou, Thierry and Ferreira, Sophie and Agogue, Helene and Alliouane, Samir and Aubert, Fabien and Aubin, S{\'e}bastien and Berthebaud, Eric and Blayac, Hadrien and Blondel, Lucie and Boulart, C{\'e}dric and Bozec, Yann and Bureau, Sarah and Caillo, Arnaud and Cauvin, Arnaud and Cazes, Jean-Baptiste and Chasselin, L{\'e}o and Pascal Claquin and Conan, Pascal and Cordier, Marie-Ange and Costes, Laurence and Crec{\textquoteright}hriou, Romain and Crispi, Olivier and Crouvoisier, Muriel and David, Val{\'e}rie and Del Amo, Yolanda and De Lary, Hortense and Delebecq, Gaspard and Devesa, J{\'e}r{\'e}my and Domeau, Aur{\'e}lien and Durozier, Maria and Emery, Claire and Eric Feunteun and Juliette Fauchot and Gentilhomme, Val{\'e}rie and Geslin, Sandrine and Giraud, M{\'e}lanie and Granger{\'e}, Karine and Gr{\'e}gori, Gerald and Grossteffan, Emilie and Gueux, Aurore and Guillaudeau, Julien and Guillou, Ga{\"e}l and Harrewyn, Manon and Jolly, Orianne and Jude-Lemeilleur, Florence and Labatut, Paul and Labourdette, Nathalie and Lachauss{\'e}e, Nicolas and Lafont, Michel and Lagadec, V{\'e}ronique and Lambert, Christophe and Lamoureux, Jezebel and Lanceleur, Laurent and Lebreton, Beno{\^\i}t and Lecuyer, Eric and Lemeille, David and Leredde, Yann and Leroux, C{\'e}dric and Leynaert, Aude and L{\textquoteright}Helguen, St{\'e}phane and Li{\'e}nart, Camilla and Mac{\'e}, Eric and Maria, Eric and Marie, Barbara and Marie, Dominique and Mas, S{\'e}bastien and Mendes, Fabrice and Mornet, Line and Mostajir, Behzad and Mousseau, Laure and Nowaczyk, Antoine and Nunige, Sandra and Parra, Ren{\'e} and Paulin, Thomas and Pecqueur, David and Petit, Franck and Pineau, Philippe and Raimbault, Patrick and Rigaut-Jalabert, Fabienne and Salmeron, Christophe and Salter, Ian and Sauriau, Pierre-Guy and Seuront, Laurent and Sultan, Emmanuelle and Vald{\`e}s, R{\'e}mi and Vantrepotte, Vincent and Vidussi, Francesca and Voron, Florian and Vuillemin, Renaud and Zudaire, Laurent. and Garcia, Nicole} } @article {9302, title = {Discovery of a Digenean (Cryptogonimidae) Living in a Cleft-Lipped Goby, Sicyopterus cynocephalus (Teleostei: Gobiidae) from Ranongga Island, Solomon Islands: Analysis of Multiple Ribosomal DNA Regions}, journal = {Pathogens}, volume = {12}, year = {2023}, month = {Jan-07-2023}, pages = {923}, doi = {10.3390/pathogens12070923}, url = {https://www.mdpi.com/2076-0817/12/7/923}, author = {Mathews, Patrick D. and Nicolas Rabet and L. Espinoza, Luis and Vincent Ha{\"y} and Bonillo, C{\'e}line and Philippe Keith and Clara Lord and Audebert, Fabienne} } @article {9537, title = {Dynamics of the Benthic Communities of Pigeon Islets (Guadeloupe Island, Lesser Antilles) from 2012 to 2021 Monitored by a Photo-Quadrats Technique}, journal = {Gulf and Caribbean Research}, volume = {34}, year = {2023}, month = {12/2023}, pages = {GCFI1 - GCFI11}, abstract = {Since 2012, the benthic communities of the Pigeon Islets (Guadeloupe Island, Lesser Antilles) have been monitored biannually by the National Park of Guadeloupe using photo{\textemdash}quadrats. This monitoring was carried out at 12 coral reef stations distributed around the islets. The data collected from 2012 to 2021 highlight the significant events that disrupted the coral communities of Guadeloupe. Among these remarkable phenomena, an episode of coral bleaching occurred in 2019, followed by the appearance of a new coral disease, Stony Coral Tissue Loss Disease (SCTLD), in 2020. As a result of these threats, a drop of 54\% of coral cover was observed in the monitored sites, accompanied by a rise of 16\% of the surface occupied by macroalgae. The protocol set up by the National Park of Guadeloupe was found to be efficient to follow the temporal dynamics of benthic reef communities.}, keywords = {coral bleaching, Coral communities, coral disease, SCTLD, temporal dynamics}, issn = {2572-1410}, doi = {10.18785/gcr.3401.17}, url = {https://aquila.usm.edu/gcr/vol34/iss1/17/}, author = {Malahel, Hanna-May and Freschet, Camille and M{\`e}ge, Simone and Bouchon, Claude} } @article {9466, title = {An ecosystem-wide approach for assessing the spatialized cumulative effects of local and global changes on coastal ecosystem functioningAbstract}, journal = {ICES Journal of Marine Science}, volume = {80}, year = {2023}, month = {May-03-2025}, pages = {1129 - 1142}, issn = {1054-3139}, doi = {10.1093/icesjms/fsad043}, url = {https://academic.oup.com/icesjms/article/80/4/1129/7092991}, author = {Nogues, Quentin and Bourdaud, Pierre and Araignous, Emma and Halouani, Ghassen and Ben~Rais~Lasram, Frida and Dauvin, Jean-Claude and Le~Loc{\textquoteright}h, Fran{\c c}ois and Nathalie Niquil}, editor = {Coll, Marta} } @article {9512, title = {Efects on Growth of Juvenile Abalones Haliotis tuberculata Under Chronic Exposition to Metals Released from the Dissolution of an Aluminium-Based Galvanic Anode}, journal = {Archives of Environmental Contamination and Toxicology}, volume = {84}, year = {2023}, pages = {32-44}, abstract = {In the marine environment, the galvanic anode cathodic protection system (GACP) undergoes oxidation and releases metals in the forms of ions or oxy-hydroxides into the environment. The objective of the present study was to investigate the toxicity of a cocktail of metals released from the dissolution of an aluminium-based galvanic anode (~95\% Al,~5\% Zn) on the abalone Haliotis tuberculata. Juveniles were exposed for 16\ weeks (i.e. 12\ weeks of exposure and 4\ weeks of decontamination phase) and their growth, intake rate, conversion rate and metallic concentrations were monitored. A total of 6 conditions were tested: a control, 4 concentrations based on Al and a trophic control. Results showed that the mortality reached 57\% for individuals exposed to 1125\ {\textmu}g L-1 of Al, and the abalone growth signifcantly decreased for an Al concentration greater than 495\ {\textmu}g L-1. At the highest exposure concentration, intake rate measurements revealed that the appetite of abalones was afected, supported by the large increase in the conversion rate which was indicative of a poor feed efciency. The monitoring of metallic concentrations showed that H. tuberculata strongly bioconcentrated Al relative to zinc. The diet did not appear to be the primary pathway for metal entry. Concentrations that signifcantly impacted abalone growth and survival during the experiment were higher than those found in natural environment, but the bioconcentration of Al into the tissues of a primary consumer such as abalone may be a potential pathway for Al to enter food webs.}, author = {Nivelais, L and Levallois, A and Basuyaux, O and Costil, K and Lebel, J M and Larsonneur, S and Guichard, G and Serpentini, A. and Caplat, C} } @article {9114, title = {Effects of anthropogenic sounds on the behavior and physiology of the Eastern oyster (Crassostrea virginica)}, journal = {Frontiers in Marine Science}, volume = {10}, year = {2023}, month = {Apr-03-2024}, abstract = {Introduction: Noise pollution is a major stressor in the marine environment; however, responses of economically and ecologically important invertebrates, such as oysters, are largely unknown. Methods: Under laboratory conditions, we measured acute behavioral and physiological responses of eastern oysters (Crassostrea virginica) to sound treatments mimicking human activity in the environment.
Results: Oysters immediately reduced their valve gape under simulated pile driving sound, but not drilling or boating sound. Pile-driving sound also reduced adductor muscle glycogen, but not triglyceride. None of the sound treatments affected longer-term (12 hours) valve activity levels after the administration of sounds. Interestingly, neither acute nor longer-term valve gaping responses were correlated with glycogen content on the individual level, suggesting that the observed behavioral responses to sound were not mechanistically driven by energetic physiology.
Discussion: Our results suggest that C. virginica responds to some, but not all, anthropogenic sounds. Future studies assessing downstream effects on growth, reproduction, and survival in the wild are needed to better understand the effects of anthropogenic sounds on oyster populations and the biological communities they support.}, keywords = {animal behavior, coastal ecosystem, energetic physiology, environmental stressors, global change biology, noise pollution}, doi = {10.3389/fmars.2023.1104526}, url = {https://www.frontiersin.org/articles/10.3389/fmars.2023.1104526/full}, author = {Ledoux, Tamara and Clements, Jeff C. and Comeau, Luc A. and Cervello, Gauthier and Tremblay, Rejean and Olivier, Fr{\'e}d{\'e}ric and Chauvaud, Laurent and Bernier, Ren{\'e}e Y. and Lamarre, Simon G.} } @article {9327, title = {Effects on Growth of Juvenile Abalones Haliotis tuberculata Under Chronic Exposition to Metals Released from the Dissolution of an Aluminium-Based Galvanic Anode}, journal = {Archives of Environmental Contamination and Toxicology}, volume = {84}, year = {2023}, month = {Jan-01-2023}, pages = {32 - 44}, abstract = {In the marine environment, the galvanic anode cathodic protection system (GACP) undergoes oxidation and releases metals in the forms of ions or oxy-hydroxides into the environment. The objective of the present study was to investigate the toxicity of a cocktail of metals released from the dissolution of an aluminium-based galvanic anode (~95\% Al,~5\% Zn) on the abalone Haliotis tuberculata. Juveniles were exposed for 16\ weeks (i.e. 12\ weeks of exposure and 4\ weeks of decontamination phase) and their growth, intake rate, conversion rate and metallic concentrations were monitored. A total of 6 conditions were tested: a control, 4 concentrations based on Al and a trophic control. Results showed that the mortality reached 57\% for individuals exposed to 1125\ {\textmu}g L-1 of Al, and the abalone growth signifcantly decreased for an Al concentration greater than 495\ {\textmu}g L-1. At the highest exposure concentration, intake rate measurements revealed that the appetite of abalones was afected, supported by the large increase in the conversion rate which was indicative of a poor feed efciency. The monitoring of metallic concentrations showed that H. tuberculata strongly bioconcentrated Al relative to zinc. The diet did not appear to be the primary pathway for metal entry. Concentrations that signifcantly impacted abalone growth and survival during the experiment were higher than those found in natural environment, but the bioconcentration of Al into the tissues of a primary consumer such as abalone may be a potential pathway for Al to enter food webs.}, issn = {0090-4341}, doi = {10.1007/s00244-022-00975-y}, url = {https://link.springer.com/10.1007/s00244-022-00975-y}, author = {Nivelais, Laureen and Levallois, Alexandre and Basuyaux, Olivier and Katherine Costil and Lebel, Jean-Marc and Larsonneur, Solveig and Guichard, Gwendoline and Serpentini, Antoine and Caplat, Christelle} } @article {9237, title = {Evidence of backcross inviability and mitochondrial DNA paternal leakage in sea turtle hybrids}, journal = {Molecular Ecology}, volume = {32}, year = {2023}, month = {Jan-02-2023}, pages = {628 - 643}, abstract = {Hybridization is known to be part of many species{\textquoteright} evolutionary history. Sea turtles have a fascinating hybridization system in which species separated by as much as 43\ million years are still capable of hybridizing. Indeed, the largest nesting populations in Brazil of loggerheads (Caretta caretta) and hawksbills (Eretmochelys imbricata) have a high incidence of hybrids between these two species. A third species, olive ridleys (Lepidochelys olivacea), is also known to hybridize although at a smaller scale. Here, we used restriction site-associated DNA sequencing (RAD-Seq) markers, mitogenomes, and satellite-telemetry to investigate the patterns of hybridization and introgression in the Brazilian sea turtle population and their relationship with the migratory behaviours between feeding and nesting aggregations. We also explicitly test if the mixing of two divergent genomes in sea turtle hybrids causes mitochondrial paternal leakage. We developed a new species-specific PCR-assay capable of detecting mitochondrial DNA (mtDNA) inheritance from both parental species and performed ultra-deep sequencing to estimate the abundance of each mtDNA type. Our results show that all adult hybrids are first generation (F1) and most display a loggerhead migratory behaviour. We detected paternal leakage in F1 hybrids and different proportions of mitochondria from maternal and paternal species. Although previous studies showed no significant fitness decrease in hatchlings, our results support genetically-related hybrid breakdown possibly caused by cytonuclear incompatibility. Further research on hybrids from other populations in addition to Brazil and between different species will show if backcross inviability and mitochondrial paternal leakage is observed across sea turtle species.}, keywords = {Brazil, ddRAD, hybridization, introgression, Marine turtles, mitogenomes}, issn = {0962-1083}, doi = {10.1111/mec.v32.310.1111/mec.16773}, url = {https://onlinelibrary.wiley.com/toc/1365294x/32/3}, author = {Vila{\c c}a, Sibelle T. and Maroso, Francesco and Lara, Paulo and de Thoisy, Beno{\^\i}t and Chevallier, Damien and Arantes, Larissa Souza and Santos, Fabricio R. and Bertorelle, Giorgio and Mazzoni, Camila J.} } @article {9061, title = {Feeding ecology of two deep-sea skates bycaught on demersal longlines off Kerguelen Islands, Southern Indian Ocean}, journal = {Deep Sea Research Part I: Oceanographic Research Papers}, volume = {194}, year = {2023}, month = {Jan-04-2023}, pages = {103980}, issn = {09670637}, doi = {10.1016/j.dsr.2023.103980}, url = {https://linkinghub.elsevier.com/retrieve/pii/S0967063723000195}, author = {Faure, Johanna and Nicolas Gasco and C{\'e}line Bonillo and Munaron, Jean-Marie and Cherel, Yves and Clara P{\'e}ron} } @article {9279, title = {First isolation of Francisella halioticida strains from blue mussel (Mytilus edulis) in Normandy, France}, journal = {Journal of Invertebrate Pathology}, volume = {200}, year = {2023}, month = {09/2023}, pages = {107950}, issn = {00222011}, doi = {10.1016/j.jip.2023.107950}, url = {https://linkinghub.elsevier.com/retrieve/pii/S0022201123000678}, author = {Bouras, H{\'e}l{\`e}ne and Quesnelle, Yann and Barozet, Alix and Goux, Didier and Blin, Jean-Louis and Savary, Manuel and C{\'e}line Zatylny-Gaudin and Maryline Houssin} } @article {9361, title = {The goby fish Sicydium spp. as valuable sentinel species towards the chemical stress in freshwater bodies of West Indies}, journal = {Aquatic Toxicology}, volume = {261}, year = {2023}, month = {Jan-08-2023}, pages = {106623}, abstract = {Implementation of the European Water Framework Directive in tropical areas such as the French West Indies (FWI) requires to select relevant aquatic sentinel species for investigating the ecological status of surface waters. The present work aimed to study the biological response of the widespread fish Sicydium spp. towards river chemical quality in Guadeloupe island through a set of proper biomarkers. During a 2-year survey, the hepatic EROD activity, the micronucleus formation and the level of primary DNA strand breaks in erythrocytes were measured respectively as an enzymatic biomarker of exposure and genotoxicity endpoints in fish living upstream and downstream of two chemically-contrasted rivers. Hepatic EROD activity was shown to be variable along the time but always significantly higher in fish from the most contaminated river (Rivi{\`e}re aux Herbes) compared to the low contaminated one (Grande Rivi{\`e}re de Vieux-Habitants). Fish size did not influence EROD activity. Female fish exhibited a lower EROD activity compared to males depending on the catching period. We observed significant temporal variation in micronucleus frequency and primary DNA damage level measured in fish erythrocytes that did not depend on the fish size. Micronucleus frequency and to a lesser extent DNA damage were significantly higher in fish from the Rivi{\`e}re aux Herbes compared to the Grande Rivi{\`e}re de Vieux-Habitants. Our results argue for the interest of using Sicydium spp. as sentinel species to assess river quality and chemical pressures in FWI.}, issn = {0166445X}, doi = {10.1016/j.aquatox.2023.106623}, url = {https://linkinghub.elsevier.com/retrieve/pii/S0166445X23002266}, author = {Bony, S. and Labeille, M. and Lefrancois, E. and Noury, P. and Olivier, J.M. and Santos, R. and Teichert, Nils and Besnard, A. and Devaux, A.} } @article {9295, title = {Identifying global research and conservation priorities for Columbidae: a quantitative approach using random forest models}, journal = {Frontiers in Ecology and Evolution}, volume = {11}, year = {2023}, month = {Dec-07-2024}, abstract = {The family of Columbidae, including pigeons and doves, remains understudied despite their patrimonial value and high ecological and conservation relevance. Currently, 353 extant columbid species are listed in the IUCN red list, with about 20\% of them being threatened with extinction. However, there has been little effort so far to synthetize the available information on factors influencing extinction risk and the allocation of research effort among columbid species. In this context, using random forest models, the present study aims at quantitatively assessing to what extent environmental, life history and socio-political factors may drive the extinction risk of pigeons and doves and explain differences in scientific attention among species. We found that high risk of extinction in columbids is associated with small historical range, exposure to invasive alien mammals and living in isolated islands and/or at low altitudes, while the probability of population decline is associated with species body size, surrounding human density and narrow habitat breadth. We also evidenced a large disparity between species or population extinction risk and scientific interest. Indeed, most of the studies on columbids have been conducted by scientists from North America and Western Europe on their local species, whereas species from biodiversity hotspots, which are more at risk of extinction, have comparatively received little attention. This unequal acquisition of knowledge creates gaps that deserve to be filled in order to have a good appreciation of extinction risk in columbids and associated threats, through fair transnational cooperation, academic training and regional coordination in conservation-oriented research on columbids.}, doi = {10.3389/fevo.2023.114107210.3389/fevo.2023.1141072.s00110.3389/fevo.2023.1141072.s002}, url = {https://www.frontiersin.org/articles/10.3389/fevo.2023.1141072/full}, author = {Cambrone, Christopher and Jean-Pierre, Aur{\'e}lie and Bezault, Etienne and C{\'e}zilly, Frank} } @article {9326, title = {Impact assessment of metals realeased by aluminium-based galvanic anode on the physiology of the abalone Haliotis tuberculata in controlled conditions}, journal = {Ecotoxicology}, volume = {32}, year = {2023}, month = {Jan-05-2023}, pages = {438 - 450}, abstract = {To protect metal structures immersed in the sea from corrosion, the galvanic anode cathodic protection system (GACP) is often applied. However, this association leads to continuous oxidation of the galvanic anode and therefore to a release of a metal cocktail in the forms of ions or oxy-hydroxides. Therefore, the main objective of our study was to investigate the toxicity of elements released from the dissolution of an aluminium-based galvanic anode (\~{}95\% Al, \~{}5\% Zn, \<0.1\% for In, Cu, Cd, Mn, Fe) on a grazing gastropod, the abalone Haliotis tuberculata. The present study was carried out in complement to other research currently in submission. Gastropods were exposed for 16 weeks (12 weeks of exposure and 4 weeks of decontamination phase) to 6 conditions including a control, 4 concentrations based on total aluminium level (86, 425, 1096 and 3549 {\textmu}g L-1 ) and a trophic control, corresponding to abalones placed in non-contaminated natural seawater but fed with contaminated algae. The effects of metals on growth, glycogen levels, brix index of hemolymph, MDA levels in digestive gland and gills, hemocyte phagocytic activity, ROS production, lysosomal system and the progress of gametogenesis were investigated throughout the entire exposure allowing the realization of kinetics. The results revealed that the aluminiumbased anode does not seem to have an effect on the health status of the individuals for environmentally realistic concentrations. However, in extreme conditions strong effects were reported on the growth, immune system and reproduction of abalone.}, issn = {0963-9292}, doi = {10.1007/s10646-023-02652-9}, url = {https://link.springer.com/10.1007/s10646-023-02652-9}, author = {Alexandre Levallois and Nivelais, Laureen and Christelle Caplat and Jean-Marc Lebel and Basuyaux, Olivier and Katherine Costil and Antoine Serpentini} } @article {9393, title = {Influence of nutrient enrichment on colonisation and photosynthetic parameters of hard substrate marine microphytobenthos}, journal = {Biofouling}, year = {2023}, month = {Feb-10-2023}, pages = {1 - 18}, abstract = {This study aimed to assess the influence of nutrient enrichment on the development of microalgal biofilm on concrete and PVC cubes. Three mesocosms were utilized to create a nutrient gradient over a period of 28 days. Various parameters including biomass, photosynthetic activity, microtopography, and extracellular polymeric substances (EPS) were measured. Imaging PAM techniques were employed to obtain surface-wide data. Results revealed that nutrient availability had no significant impact on Chl a biomass and the maximum quantum efficiency of PSII (Fv/Fm). The photosynthetic capacity and efficiency were minimally affected by nutrient availability. Interestingly, the relationship between microphytobenthic (MPB) biomass and photosynthesis and surface rugosity exhibited distinct patterns. Negative reliefs showed a strong correlation with Fv/Fm, while no clear pattern emerged for biomass on rough concrete structures. Overall, our findings demonstrate that under conditions of heightened eutrophication, biofilm photosynthesis thrives in the fissures and crevasses of colonized structures regardless of nutrient levels. This investigation provides valuable insights into the interplay between nutrient availability and surface rugosity.}, issn = {0892-7014}, doi = {10.1080/08927014.2023.2261852}, url = {https://www.tandfonline.com/doi/full/10.1080/08927014.2023.2261852}, author = {Vivier, Baptiste and Faucheux-Bourlot, Caroline and Orvain, Francis and Chasselin, L{\'e}o and Jolly, Orianne and Navon, Maxime and Boutouil, Mohamed and Goux, Didier and Dauvin, Jean-Claude and Pascal Claquin} } @article {9468, title = {An integrated conceptual model to characterize the effects of offshore wind farms on ecosystem services}, journal = {Ecosystem Services}, volume = {60}, year = {2023}, month = {Jan-04-2023}, pages = {101513}, issn = {22120416}, doi = {10.1016/j.ecoser.2023.101513}, url = {https://linkinghub.elsevier.com/retrieve/pii/S2212041623000050}, author = {Baulaz, Yoann and Mouchet, Maud and Nathalie Niquil and Ben Rais Lasram, Frida} } @article {9523, title = {Key issues in assessing threats to sea turtles: knowledge gaps and future directions}, journal = {Endangered Species Research}, volume = {52}, year = {2023}, month = {Feb-12-2024}, pages = {303 - 341}, issn = {1863-5407}, doi = {10.3354/esr01278}, url = {https://www.int-res.com/abstracts/esr/v52/p303-341/}, author = {Fuentes, MMPB and McMichael, E and Kot, CY and Silver-Gorges, I and Wallace, BP and Godley, BJ and Brooks, AML and Ceriani, SA and Cort{\'e}s-G{\'o}mez, AA and Dawson, TM and Dodge, KL and Flint, M and Jensen, MP and Komoroske, LM and Kophamel, S and Lettrich, MD and Long, CA and Nelms, SE and Patr{\'\i}cio, AR and Robinson, NJ and Seminoff, JA and Ware, M and Whitman, ER and Chevallier, Damien and Clyde-Brockway, CE and Korgaonkar, SA and Mancini, A and Mello-Fonseca, J and Monsinjon, JR and Neves-Ferreira, I and Ortega, AA and Patel, SH and Pfaller, JB and Ramirez, MD and Raposo, C and Smith, CE and Abreu-Grobois, FA and Hays, GC} } @article {9070, title = {Local Food Systems under Global Influence: The Case of Food, Health and Environment in Five Socio-Ecosystems}, journal = {Sustainability}, volume = {15}, year = {2023}, month = {Jan-02-2023}, pages = {2376}, doi = {10.3390/su15032376}, url = {https://www.mdpi.com/2071-1050/15/3/2376}, author = {Rapinski, Michael and Raymond, Richard and Davy, Damien and Herrmann, Thora and Bedell, Jean-Philippe and Ka, Abdou and Odonne, Guillaume and Chanteloup, Laine and Pascal Jean Lopez and Foulquier, Eric and da Silva, Eduardo Ferreira and El Deghel, Nathalie and Bo{\"e}tsch, Gilles and Coxam, V{\'e}ronique and Joliet, Fabienne and Guihard-Costa, Anne-Marie and Tib{\`e}re, Laurence and Nazare, Julie-Anne and Duboz, Priscilla} } @article {9277, title = {Major declines in NE Atlantic plankton contrast with more stable populations in the rapidly warming North Sea}, journal = {Science of The Total Environment}, year = {2023}, month = {Jan-07-2023}, pages = {165505}, abstract = {Plankton form the base of marine food webs, making them important indicators of ecosystem status. Changes in the abundance of plankton functional groups, or lifeforms, can affect higher trophic levels and can indicate important shifts in ecosystem functioning. Here, we extend this knowledge by combining data from Continuous Plankton Recorder and fixed-point stations to provide the most comprehensive analysis of plankton time-series for the North-East Atlantic and North-West European shelf to date. We analysed 24 phytoplankton and zooplankton datasets from 15 research institutions to map 60-year abundance trends for 8 planktonic lifeforms. Most lifeforms decreased in abundance (e.g. dinoflagellates: -5 \%, holoplankton: -7 \% decade-1), except for meroplankton, which increased 12 \% decade-1, reflecting widespread changes in large-scale and localised processes. K-means clustering of assessment units according to abundance trends revealed largely opposing trend direction between shelf and oceanic regions for most lifeforms, with North Sea areas characterised by increasing coastal abundance, while abundance decreased in North-East Atlantic areas. Individual taxa comprising each phytoplankton lifeform exhibited similar abundance trends, whereas taxa grouped within zooplankton lifeforms were more variable. These regional contrasts are counterintuitive, since the North Sea which has undergone major warming, changes in nutrients, and past fisheries perturbation has changed far less, from phytoplankton to fish larvae, as compared to the more slowly warming North-East Atlantic with lower nutrient supply and fishing pressure. This more remote oceanic region has shown a major and worrying decline in the traditional food web. Although the causal mechanisms remain unclear, declining abundance of key planktonic lifeforms in the North-East Atlantic, including diatoms and copepods, are a cause of major concern for the future of food webs and should provide a red flag to politicians and policymakers about the prioritisation of future management and adaptation measures required to ensure future sustainable use of the marine ecosystem.}, issn = {00489697}, doi = {10.1016/j.scitotenv.2023.165505}, url = {https://linkinghub.elsevier.com/retrieve/pii/S0048969723041281}, author = {Holland, Matthew M. and Louchart, Arnaud and Artigas, Luis Felipe and Ostle, Clare and Atkinson, Angus and Rombouts, Isabelle and Graves, Carolyn A. and Devlin, Michelle and Heyden, Birgit and Machairopoulou, Margarita and Bresnan, Eileen and Schilder, Jos and Jakobsen, Hans H. and Llody-Hartley, Hannah and Tett, Paul and Best, Mike and Goberville, Eric and McQuatters-Gollop, Abigail} } @article {9108, title = {Marine invertebrates and noise}, journal = {Frontiers in Marine Science}, volume = {10}, year = {2023}, month = {March-07-2023}, abstract = {Within the set of risk factors that compromise the conservation of marine biodiversity, one of the least understood concerns is the noise produced by human operations at sea and from land. Many aspects of how noise and other forms of energy may impact the natural balance of the oceans are still unstudied. Substantial attention has been devoted in the last decades to determine the sensitivity to noise of marine mammals{\textemdash}especially cetaceans and pinnipeds{\textemdash} and fish because they are known to possess hearing organs. Recent studies have revealed that a wide diversity of invertebrates are also sensitive to sounds, especially via sensory organs whose original function is to allow maintaining equilibrium in the water column and to sense gravity. Marine invertebrates not only represent the largest proportion of marine biomass and are indicators of ocean health but many species also have important socio-economic values. This review presents the current scientific knowledge on invertebrate bioacoustics (sound production, reception, sensitivity), as well as on how marine invertebrates are affected by anthropogenic noises. It also critically revisits the literature to identify gaps that will frame future research investigating the tolerance to noise of marine ecosystems.}, keywords = {marine invertebrates, marine noise pollution, noise effects, particle motion, sound detection, sound pressure, sound production, statocyst}, doi = {10.3389/fmars.2023.1129057}, url = {https://www.frontiersin.org/articles/10.3389/fmars.2023.1129057/full}, author = {Sol{\'e}, Marta and Kaifu, Kenzo and Mooney, T. Aran and Nedelec, Sophie L. and Olivier, Fr{\'e}d{\'e}ric and Radford, Andrew N. and Vazzana, Mirella and Wale, Matthew A. and Semmens, Jayson M. and Simpson, Stephen D. and Buscaino, Giuseppa and Hawkins, Anthony and Aguilar de Soto, Natacha and Akamatsu, Tomoari and Chauvaud, Laurent and Day, Ryan D. and Fitzgibbon, Quinn and McCauley, Robert D. and Andr{\'e}, Michel} } @article {9252, title = {Marine pollution between gyres: plastic debris in marine turtles and dolphins in French Guiana, Equatorial Atlantic}, journal = {Latin American Journal of Aquatic Research}, volume = {51}, year = {2023}, month = {06/2023}, abstract = {Plastic pollution has not raised much attention until the 2000s, despite being manufactured for about a century. It is now considered one of the most substantial environmental issues. Here we investigate the presence of plastic contamination in 34 stranded animals on the coast of French Guiana, South America. Here we present information highlighting the magnitude of plastic contamination in marine coastal and pelagic tropical marine vertebrates on the Equatorial Atlantic coast of South America. All four species studied here are protected and emblematic vertebrates of the region, with a fragile conservation status, including the olive ridley turtle Lepidochelys olivacea, the green turtle Chelonia mydas and the leatherback turtle Dermochelys coriacea, and a small cetacean, the Guiana dolphin Sotalia guianensis. Macroplastics (polypropylene, polyethylene, terephthalate, and polystyrene) were detected in four juvenile green turtles. Microplastics (polypropylene, polyethylene, terephthalate, polystyrene, nylon, acrylates, polycarbonates) were found in 13 individuals (two dolphins, six olive ridleys, four green turtles, and the leatherback turtle). The sampled species have different diets, distribution patterns, and ages, suggesting widespread plastic pollution. The study area is located far from the oceanic gyres. However, they are influenced by the North Brazilian Current, the Amazon River, and other rivers of the Guianas.}, keywords = {Chelonia, Dermochelys, Lepidochelys, macroplastics, microplastics, Sotalia}, doi = {10.3856/vol51-issue3-fulltext-2923}, url = {http://lajar.cl/index.php/rlajar/article/view/vol51-issue3-fulltext-2923/1706}, author = {Flore Emmonot and Blandine Siegrist and Amandine Bordin and Virginie Dos Reis and Chevallier, Damien and Yannick Estevez and Benoit de Thoisy} } @article {9117, title = {New insights into the diversity of cryptobenthic Cirripectes blennies in the Mascarene Archipelago sampled using Autonomous Reef Monitoring Structures (ARMS)}, journal = {Ecology and Evolution}, volume = {13}, year = {2023}, month = {Jan-03-2023}, issn = {2045-7758}, doi = {10.1002/ece3.v13.310.1002/ece3.9850}, url = {https://onlinelibrary.wiley.com/toc/20457758/13/3}, author = {Marion Cou{\"e}del and Dettai, Agn{\`e}s and Mireille M.M. Guillaume and Bruggemann, Fleur and Bureau, Sophie and Baptiste Frattini and Verde~Ferreira, Am{\'e}lie and Azie, Jean-Lindsay and Bruggemann, J. Henrich} } @article {9245, title = {Physiological condition of the warty venus (Venus verrucosa L. 1758) larvae modulates response to pile driving and drilling underwater sounds}, journal = {Frontiers in Marine Science}, volume = {10}, year = {2023}, month = {Jul-06-2024}, abstract = {Noise is now recognized as a new form of pollution in marine coastal habitats. The development of marine renewable energies has introduced new sonorous perturbations, as the wind farm installation requires pile driving and drilling operations producing low frequency sounds at high sound pressure levels. Exponential expansion of offshore wind farms is occurring worldwide, making impact studies, particularly on benthic species highly abundant and diverse in the coastal area used for wind farming, a necessity. As larval recruitment is the basis for establishing a population, we conducted an experimental study to assess the interactive effects of pile driving or drilling sounds and larval rearing temperature on the endobenthic bivalve Venus verrucosa. In ectothermic animals, temperature modifies the organism{\textquoteright}s physiology, resulting in performance variability. We hypothesize that temperature modulation could change larval responses to noise and explore the potential interacting effects of temperature and noise. Using two distinct rearing temperatures, physiologically different batches of larvae were produced with contrasting fatty acid content and composition in the neutral and polar lipid fractions. Without defining any absolute audition threshold for the larvae, we demonstrate that the effects of temperature and noise were ontogenic-dependent and modulated larval performance at the peri-metamorphic stage, acting on the metamorphosis dynamic. At the pediveligers stage, a strong interaction between both factors indicated that the response to noise was highly related to the physiological condition of the larvae. Finally, we suggest that underwater noise reduces the compensatory mechanisms established to balance the temperature increase.}, keywords = {Anthropophony, energetic metabolism, fatty acids, larval recruitment, Metamorphosis trigger}, doi = {https://doi.org/10.3389/fmars.2023.1117431}, url = {https://www.frontiersin.org/articles/10.3389/fmars.2023.1117431/full}, author = {Gigot, Mathilde and Tremblay, Rejean and Bonnel, Julien and Chauvaud, Laurent and Olivier, Fr{\'e}d{\'e}ric} } @article {9200, title = {Pile driving and drilling underwater sounds impact the metamorphosis dynamics of Pecten maximus (L., 1758) larvae}, journal = {Marine Pollution Bulletin}, volume = {191}, year = {2023}, month = {Jan-06-2023}, pages = {114969}, abstract = {One of the biggest challenges of the 21st century is to reduce carbon emissions and offshore wind turbines seem to be an efficient solution. However, during the installation phase, high levels of noise are emitted whose impacts remain not well known, particularly on benthic marine invertebrates displaying a bentho-planktonic life-cycle. For one century, larval settlement and subsequent recruitment has been considered as a key topic in ecology as it determines largely population renewal. Whereas several recent studies have shown that trophic pelagic but also natural soundscape cues could trigger bivalve settlement, the role of anthropogenic noise remains poorly documented. Therefore, we conducted experiments to assess potential interacting effects of diet and pile driving or drilling sounds on the great scallop (Pecten maximus) larval settlement. We demonstrate here that pile driving noise stimulates both growth and metamorphosis as well as it increases the total lipid content of competent larvae. Conversely, drilling noise reduces both survival and metamorphosis rates. For the first time, we provide evidence of noise impacts associated to MREs installation on P. maximus larvae and discuss about potential consequences on their recruitment.}, keywords = {Anthropophony, larval settlement, Metamorphosis trigger, Pecten maximus, recruitment, Wind turbine}, issn = {0025326X}, doi = {10.1016/j.marpolbul.2023.114969}, url = {https://linkinghub.elsevier.com/retrieve/pii/S0025326X23004010}, author = {Gigot, Mathilde and Olivier, Fr{\'e}d{\'e}ric and Cervello, Gauthier and Tremblay, Rejean and Mathias, Delphine and Meziane, Tarik and Chauvaud, Laurent and Bonnel, Julien} } @book {9244, title = {Reference Module in Earth Systems and Environmental SciencesModelling species distribution, ecosystem structure and function and climate change}, year = {2023}, publisher = {Elsevier}, organization = {Elsevier}, abstract = {In recent decades, oceans have been increasingly stressed by human activities that induced significant changes in its abiotic properties. Temperature increase, acidification,\ deoxygenation, deregulation of ocean currents are some examples of the anthropogenic impact on our oceans. In addition, pollution and\ overexploitation\ of marine resources will lead to severe and possibly irreversible changes for marine life. As environmental conditions directly affect the physiology of species, changes in species distribution and\ trophic interactions\ have already been observed and are expected to increase in the near future. Predicting future oceans is currently a great challenge for scientists that work to maintain, as best as possible, the goods and services they provide. In this context, ecologists have developed several modeling approaches able to simulate changes in both species distribution (Ecological Niche Models {\textendash} ENMs) and interactions (static and dynamic food-web models). This chapter explains these two approaches in detail as well as the ways by which these two families of models can be coupled. In each part, the main existing algorithms will be reviewed, with their advantages and limitations, and some key examples retrieved from recent scientific literature will be presented. Finally, we will discuss the current issues of these methods and their potential improvement.}, isbn = {9780124095489}, doi = {10.1016/B978-0-323-90798-9.00028-7}, url = {https://linkinghub.elsevier.com/retrieve/pii/B9780323907989000287}, author = {Saint-B{\'e}at, Blanche and Nogues, Quentin and Nathalie Niquil and Bourdaud, Pierre and Virginie Raybaud and Goberville, Eric and Gr{\'e}gory Beaugrand and Ben Rais Lasram, Frida and Le Loc{\textquoteright}h, Fran{\c c}ois and Schickele, Alexandre} } @article {9473, title = {Seasonal lipid dynamics of four Arctic bivalves: Implications for their physiological capacities to cope with future changes in coastal ecosystemsAbstract}, journal = {Ecology and Evolution}, volume = {13}, year = {2023}, month = {Jan-11-2023}, abstract = {The Arctic is exposed to unprecedented warming, at least three times higher than the global average, which induces significant melting of the cryosphere. Freshwater inputs from melting glaciers will subsequently affect coastal primary production and organic matter quality. However, due to a lack of basic knowledge on the physiology of Arctic organisms, it remains difficult to understand how these future trophic changes will threaten the long-term survival of benthic species in coastal habitats. This study aimed to gain new insights into the seasonal lipid dynamics of four dominant benthic bivalves (Astarte moerchi, Hiatella arctica, Musculus discors, and Mya truncata) collected before and after sea ice break-up in a high-Arctic fjord (Young Sound, NE Greenland). Total lipid content and fatty acid composition of digestive gland neutral lipids were analyzed to assess bivalve energy reserves while the fatty acid composition of gill polar lipids was determined as a biochemical indicator of interspecies variations in metabolic activity and temperature acclimation. Results showed a decrease in lipid reserves between May and August, suggesting that bivalves have only limited access to fresh organic matter until sea ice break-up. The lack of seasonal variation in the fatty acid composition of neutral lipids, especially essential ω3 fatty acids, indicates that no fatty acid transfer from the digestive glands to the gonads occurs between May and August, and therefore, no reproductive investment takes place during this period. Large interspecies differences in gill fatty acid composition were observed, which appear to be related to differences in species life span and metabolic strategies. Such differences in gill fatty acid composition of polar lipids, which generally influence metabolic rates and energy needs, may imply that not all benthic species will be equally sensitive to future changes in primary production and organic matter quality in Arctic coastal habitats.}, keywords = {Arctic coastal ecosystems, Bivalve, Climate Change, energy reserves, fatty acids, homeoviscous adaptation, meltwater inputs, metabolic rate depression}, issn = {2045-7758}, doi = {10.1002/ece3.v13.1110.1002/ece3.10691}, url = {https://onlinelibrary.wiley.com/toc/20457758/13/11}, author = {Bridier, Guillaume and Olivier, Fr{\'e}d{\'e}ric and Grall, Jacques and Chauvaud, Laurent and Sejr, Mikael K. and Tremblay, Rejean} } @article {9215, title = {Sex-specific seasonal variations in the fatty acid and carotenoid composition of sea cucumber gonads and implications for aquaculture}, journal = {Marine Biology}, volume = {170}, year = {2023}, month = {Jan-04-2023}, issn = {0025-3162}, doi = {10.1007/s00227-023-04198-0}, url = {https://link.springer.com/10.1007/s00227-023-04198-0}, author = {Frank David and Herault, Gwen and Ameziane, Nadia and Tarik Meziane and Badou, Aicha and C{\'e}dric Hubas} } @article {9514, title = {Structural and functional characterization of an egg-laying hormone signaling system in a lophotrochozoan - The pacific oyster (Crassostrea gigas).}, journal = {Gen Comp Endocrinol}, volume = {346}, year = {2023}, month = {2023 Nov 28}, pages = {114417}, abstract = {

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 {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 {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 {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 {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 {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 {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 {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 {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 {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} } @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 {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} } @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 {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 {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 {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 {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.} } @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 {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 {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 {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 {8447, title = {Pull the trigger: interplay between benthic and pelagic cues driving the early recruitment of a natural bivalve assemblage}, journal = {Ecosphere}, volume = {13}, year = {2022}, month = {Jan-01-2022}, abstract = {Larval settlement and recruitment are crucial phases in the benthic-pelagic life cycle of marine benthic invertebrates that controls population dynamic and habitat connectivity. Our study investigated potential triggers driving the settlement of bivalve larvae in a highly dynamic intertidal coarse sand habitat. The early recruitment rate of five dominant bivalve families and abiotic conditions, particulate (\<20 {\textmu}m) organic matter and sediment organic matter, were monitored from May to October 2014. Pelagic particulate organic matter (\<20 {\textmu}m) was dominated by picoplankton throughout the sampling period, with a substantial diatom bloom in spring. Sediment was characterized by fresh organic matter in spring, as suggested by the dominant contribution of polyunsaturated fatty acids, and by a higher proportion of bacterial fatty acid markers during late summer. Different dynamics were also observed in early bivalve recruitment rates, with four different patterns observed over the sampling period. Multiple regression analysis on selected bivalve families showed species-specific responses to trophic settlement triggers. Indeed, the larva recruitment rate of Mytilidae paralleled pelagic concentration of picoeucaryotes, with the peak early recruitment rate occurring in spring. Surprisingly, the early recruitment rate of Mactridae larvae showed a significant relation to bacterial concentration in the surficial sediment at the end of summer. While the Mytilidae results in such a eutrophic system confirmed those of a previous study in oligotrophic lagoons, therefore supporting the trophic settlement trigger hypothesis, more work is needed to understand the potential role of bacteria in the early recruitment of Mactridae. These results highlight for the first-time inter-specific differences in trophic cues that potentially trigger primary settlement in natural bivalve assemblages.}, keywords = {bacteria, bivalves, Chausey Archipelago, early larval recruitment, fatty acids, picoeucaryotes, trophic settlement trigger}, issn = {2150-8925}, doi = {10.1002/ecs2.v13.110.1002/ecs2.3672}, url = {https://onlinelibrary.wiley.com/toc/21508925/13/1}, author = {Androuin, Thibault and Barbier, Pierrick and Foret, Martin and Tarik Meziane and Thomas, Mathilde and Archambault, Philippe and Winkler, Gesche and Tremblay, Rejean and Fr{\'e}d{\'e}ric Olivier} } @article {8948, title = {Rare earth elements and yttrium in suspension-feeding bivalves (dog cockle, Glycymeris glycymeris L.): Accumulation, vital effects and pollution}, journal = {Geochimica et Cosmochimica Acta}, volume = {339}, year = {2022}, month = {Jan-12-2022}, pages = {12 - 21}, issn = {00167037}, doi = {10.1016/j.gca.2022.10.033}, url = {https://linkinghub.elsevier.com/retrieve/pii/S001670372200583X}, author = {Barrat, Jean-Alix and Chauvaud, Laurent and Fr{\'e}d{\'e}ric Olivier and Poitevin, Pierre and Bayon, Germain and Ben Salem, Douraied} } @article {8995, title = {The response of microphytobenthos to physical disturbance, herbicide, and titanium dioxide nanoparticle exposure}, journal = {Marine Pollution Bulletin}, volume = {185}, year = {2022}, month = {Jan-12-2022}, pages = {114348}, abstract = {The microphytobenthos that form transient biofilms are important primary producers in intertidal, depositional habitats, yet we have only a limited understanding of how they respond to the cumulative impacts of the growing range of anthropogenic stressors to which they are exposed. We know even less about how the temporal alignment of exposure {\textendash} such as duration and exposure sequence {\textendash} may affect the response. Estuarine biofilms were cultured in mesocosms and exposed to the herbicide glyphosate and titanium dioxide (TiO2) nanoparticles in different sequences (glyphosate-first or TiO2-first), as well as in the presence and absence of physical disturbance. We found that at environmentally realistic chemical concentrations, the order of exposure was less important than the total stressor scenario in terms of impacts on key functional attributes and diatom community structure. Physical disturbance did not have an impact on functional attributes, regardless of exposure sequence.}, issn = {0025326X}, doi = {10.1016/j.marpolbul.2022.114348}, url = {https://linkinghub.elsevier.com/retrieve/pii/S0025326X2201030X}, author = {Rimmer, James E.V. and C{\'e}dric Hubas and Wyness, Adam J. and Bruno Jesus and Hartley, Morgan and Blight, Andrew J. and Prins, Antoine and Paterson, David M} } @article {8883, title = {On the road: Anthropogenic factors drive the invasion risk of a wild solitary bee species}, journal = {Science of The Total Environment}, volume = {827}, year = {2022}, month = {Jan-06-2022}, pages = {154246}, issn = {00489697}, doi = {10.1016/j.scitotenv.2022.154246}, url = {https://linkinghub.elsevier.com/retrieve/pii/S0048969722013389}, author = {Lanner, Julia and Dubos, Nicolas and Geslin, Beno{\^\i}t and Leroy, Boris and Hern{\'a}ndez-Castellano, Carlos and Dubai{\'c}, Jovana Bila and Bortolotti, Laura and Calafat, Joan Diaz and {\'C}etkovi{\'c}, Aleksandar and Flaminio, Simone and Le F{\'e}on, Violette and Margalef-Marrase, Jordi and Orr, Michael and Pachinger, B{\"a}rbel and Ruzzier, Enrico and Smagghe, Guy and Tuerlings, Tina and Vereecken, Nicolas J. and Meimberg, Harald} } @article {8898, title = {Seasonal and diel modulation of DOM in a mangrove-dominated estuary}, journal = {Science of The Total Environment}, year = {2022}, month = {Jan-09-2022}, pages = {159045}, issn = {00489697}, doi = {10.1016/j.scitotenv.2022.159045}, url = {https://linkinghub.elsevier.com/retrieve/pii/S0048969722061447}, author = {Vidal, L.O. and Lambert, T. and Cotovicz Jr., L.C. and Bernardes, M.C. and Sobrinho, R. and Thompson, F. and Garcia, G.D. and Knoppers, B.A. and Gatts, P.V. and R{\'e}gis, C.R. and Abril, G. and Rezende, C.E.} } @article {8696, title = {Seasonal dynamics of marine protist communities in tidally mixed coastal waters}, journal = {Molecular Ecology}, year = {2022}, month = {Aug-05-2023}, abstract = {Major seasonal community reorganizations and associated biomass variations are landmarks of plankton ecology. However, the processes of plankton community turnover rates have not been fully elucidated so far. Here, we analyse patterns of planktonic protist community succession in temperate latitudes, based on quantitative taxonomic data from both microscopy counts (cells \> 10 μm) and ribosomal DNA metabarcoding (size fraction \> 3 μm, 18S rRNA gene) from plankton samples collected biweekly over 8 years (2009-2016) at the SOMLIT-Astan station (Roscoff, Western English Channel). Based on morphology, diatoms were clearly the dominating group all year round and over the study period. Metabarcoding uncovered a wider diversity spectrum and revealed the prevalence of Dinophyceae and diatoms but also of Cryptophyta, Chlorophyta, Cercozoa, Syndiniales and Ciliophora in terms of read counts and or richness. The use of morphological and molecular analyses in combination allowed improving the taxonomic resolution and to identify the sequence of the dominant species and OTUs (18S V4 rDNA-derived taxa) that drive annual plankton successions. We detected that some of these dominant OTUs were benthic as a result of the intense tidal mixing typical of the French coasts in the English Channel. Our analysis of the temporal structure of community changes point to a strong seasonality and resilience. The temporal structure of environmental variables (especially Photosynthetic Active Radiation, temperature and macronutrients) and temporal structures generated by species life cycles and or species interactions, are key drivers of the observed cyclic annual plankton turnover.}, issn = {0962-1083}, doi = {10.1111/mec.16539}, url = {https://onlinelibrary.wiley.com/doi/10.1111/mec.16539}, author = {Caracciolo, Mariarita and Rigaut-Jalabert, Fabienne and Romac, Sarah and Mah{\'e}, Fr{\'e}d{\'e}ric and Forsans, Samuel and Gac, Jean-Philippe and Arsenieff, Laure and Manno, Maxime and Chaffron, Samuel and Cariou, Thierry and Hoebeke, Mark and Bozec, Yann and Goberville, Eric and Le Gall, Florence and Guilloux, Lo{\"\i}c and Baudoux, Anne-Claire and de Vargas, Colomban and Not, Fabrice and Thi{\'e}baut, Eric and Henry, Nicolas and Simon, Nathalie} } @article {8833, title = {Spatialized ecological network analysis for ecosystem-based management: effects of climate change, marine renewable energy, and fishing on ecosystem functioning in the Bay of SeineAbstract}, journal = {ICES Journal of Marine Science}, volume = {79}, year = {2022}, month = {Dec-02-2023}, pages = {1098 - 1112}, issn = {1054-3139}, doi = {10.1093/icesjms/fsac026}, url = {https://academic.oup.com/icesjms/article/79/4/1098/6535870}, author = {Nogues, Quentin and Araignous, Emma and Bourdaud, Pierre and Halouani, Ghassen and Raoux, Aurore and Foucher, Eric and Loc{\textquoteright}h, Fran{\c c}ois Le and Loew-Turbout, Fr{\'e}d{\'e}rique and Ben~Rais~Lasram, Frida and Dauvin, Jean-Claude and Nathalie Niquil} } @article {9037, title = {Spatio-temporal patterns in stable isotope composition of a benthic intertidal food web reveal limited influence from salt marsh vegetation and green tide}, journal = {Marine Environmental Research}, volume = {175}, year = {2022}, month = {Jan-03-2022}, pages = {105572}, issn = {01411136}, doi = {10.1016/j.marenvres.2022.105572}, url = {https://linkinghub.elsevier.com/retrieve/pii/S0141113622000174}, author = {Sturbois, A. and Riera, P. and Desroy, N. and Br{\'e}bant, T. and Alexandre Carpentier and Ponsero, A. and Schaal, G.} } @article {8643, title = {SPREADING EUTROPHICATION AND CHANGING CO2 FLUXES IN THE TROPICAL COASTAL OCEAN: A FEW LESSONS FROM RIO DE JANEIRO}, journal = {Arquivos de Ci{\^e}ncias do Mar}, volume = {55}, year = {2022}, month = {Sep-03-2023}, pages = {461 - 476}, issn = {0374-5686}, doi = {10.32360/acmar.v55iEspecial10.32360/acmar.v55iEspecial.78518}, url = {http://periodicos.ufc.br/arquivosdecienciadomar/issue/view/1159}, author = {Gwena{\"e}l Abril and C. Cotovicz Jr., Luiz and Nepomuceno, Aguinaldo and Erbas, Tha{\'\i}s and Costa, Suzan and V. Ramos, Vinicius and Moser, Gleyci and Fernandes, Alexandre and Negri, Eduardo and A. Knoppers, Bastiaan and Brandini, Nilva and Machado, Wilson and Bernardes, Marcelo and Vantrepotte, Vincent} } @article {8868, title = {Structural and Functional Characterization of Orcokinin B-like Neuropeptides in the Cuttlefish (Sepia officinalis)}, journal = {Marine Drugs}, volume = {20}, year = {2022}, month = {Jan-08-2022}, pages = {505}, doi = {10.3390/md20080505}, url = {https://www.mdpi.com/1660-3397/20/8/505}, author = {Endress, Maxime and C{\'e}line Zatylny-Gaudin and Leprince, J{\'e}r{\^o}me and Lefranc, Benjamin and Corre, Erwan and Le Corguill{\'e}, Gildas and Bernay, Beno{\^\i}t and Leduc, Alexandre and Rangama, Jimmy and Mouret, Liza and Lafont, Anne-Gaelle and Bondon, Arnaud and Jo{\"e}l Henry} } @article {8887, title = {Temporal characteristics of plankton indicators in coastal waters: High-frequency data from PlanktonScope}, journal = {Journal of Sea Research}, volume = {189}, year = {2022}, month = {Jan-11-2022}, pages = {102283}, abstract = {Plankton\ are excellent indicators of ecosystem status and fisheries because of their pivotal role in marine food webs and their core values in the integrated\ ecosystem assessment\ (IEA). Monitoring plankton is essential to understand their dynamics and underlying processes. Recent advances in imaging technologies have enabled in situ, high-frequency, real-time observations of plankton in coastal waters. While high-frequency plankton time series have provided unprecedented fundamental information about physical and biological processes, understanding and identifying the underlying mechanisms that influence plankton dynamic remains a major challenge. We use high-frequency plankton data from PlanktonScope as an example to examine the impacts of physical and biological processes on plankton dynamics at different temporal scales. Frequency patterns were identified for both environmental factors and different plankton groups that matched in time. Using logistic regression models on the selected daily peaks for different plankton groups, we found that diurnal cycle,\ monsoon\ season, and major\ episodic events, such as\ typhoons, had major impacts on the dynamics of plankton, as proxied by our indicators. We further synthesized, across multiple spatiotemporal scales in the study area, the impacts of various processes on plankton with different mobility. Our study demonstrates that the suite of plankton indicators simultaneously generated from PlanktonScope provides a robust holistic view of\ pelagic ecosystem\ status over a broad range of spatiotemporal scales. In situ imaging systems like PlanktonScope are promising tools for near real-time plankton monitoring and a deep understanding of plankton dynamics.}, issn = {13851101}, doi = {10.1016/j.seares.2022.102283}, url = {https://linkinghub.elsevier.com/retrieve/pii/S1385110122001216}, author = {Bi, Hongsheng and Song, Junting and Zhao, Jian and Liu, Hui and Cheng, Xuemin and Wang, Linlin and Cai, Zhonghua and Benfield, Mark C. and Otto, Saskia and Goberville, Eric and Keister, Julie and Yang, Yong and Yu, Xinglong and Cai, Jun and Ying, Kezhen and Alessandra Conversi} } @article {8769, title = {Temporal variations in the level of chlordecone in seawater and marine organisms in Martinique Island (Lesser Antilles)}, journal = {Environmental Science and Pollution Research}, year = {2022}, month = {Oct-06-2023}, abstract = {The present study, conducted in the Galion Bay in Martinique, aims to highlight the temporal and seasonal variations of chlordecone contamination (an organochlorine pollutant) in the ambient environment (seawater) but also in the marine organisms in three main coastal marine habitats (mangroves, seagrass beds and coral reefs). To this end, two methodologies were used to measure and compare the chemical contamination of seawater during 13 months (spot samplings and POCIS technique). In parallel, concentrations of chlordecone and isotopic ratios (C and N) were carried out on marine organisms, collected during two contrasting climatic periods (dry and rainy), to evidence seasonal variations. The results showed that the contamination of seawater displayed significant variations over time and depended on environmental factors such as water flows, which imply dilution and dispersion phenomena. Concerning the marine organisms, the level of contamination varied considerably between the two seasons in seagrass beds with higher levels of contamination during the rainy season. Reef organisms were more moderately affected by this pollution, while mangrove organisms showed a high level of chlordecone whatever the season. Finally, isotope analyses highlighted that bioamplification along marine food-webs occurs at each season and each station.}, keywords = {coral reef, Mangrove, organochlorine pollution, passive samplers, seagrass, Stable isotopes}, issn = {0944-1344}, doi = {10.1007/s11356-022-21528-9}, url = {https://link.springer.com/10.1007/s11356-022-21528-9}, author = {Charlotte R. Dromard and All{\'e}nou, Jean-Pierre and Tapie, Nathalie and Budzinski, H{\'e}l{\`e}ne and Cimmaterra, Nicolas and De Rock, Pauline and Arkam, Salim and Cordonnier, S{\'e}bastien and Gonzalez, Jean-Louis and Bouchon-Navaro, Yolande and Bouchon, Claude and Thouard, Emmanuel} } @article {8465, title = {Transient Receptor Potential-Vanilloid (TRPV1-TRPV4) Channels in the Atlantic Salmon, Salmo salar. A Focus on the Pineal Gland and Melatonin Production}, journal = {Frontiers in Physiology}, volume = {22}, year = {2022}, month = {01/2022}, pages = {15}, type = {original research}, abstract = {Fish are ectotherm, which rely on the external temperature to regulate their internal body temperature, although some may perform partial endothermy. Together with photoperiod, temperature oscillations, contribute to synchronizing the daily and seasonal variations of fish metabolism, physiology and behavior. Recent studies are shedding light on the mechanisms of temperature sensing and behavioral thermoregulation in fish. In particular, the role of some members of the transient receptor potential channels (TRP) is being gradually unraveled. The present study in the migratory Atlantic salmon, Salmo salar, aims at identifying the tissue distribution and abundance in mRNA corresponding to the TRP of the vanilloid subfamilies, TRPV1 and TRPV4, and at characterizing their putative role in the control of the temperature-dependent modulation of melatonin production{\textemdash}the time-keeping hormone{\textemdash}by the pineal gland. In Salmo salar, TRPV1 and TRPV4 mRNA tissue distribution appeared ubiquitous; mRNA abundance varied as a function of the month investigated. In situ hybridization and immunohistochemistry indicated specific labeling located in the photoreceptor cells of the pineal gland and the retina. Additionally, TRPV analogs modulated the production of melatonin by isolated pineal glands in culture. The TRPV1 agonist induced an inhibitory response at high concentrations, while evoking a bell-shaped response (stimulatory at low, and inhibitory at high, concentrations) when added with an antagonist. The TRPV4 agonist was stimulatory at the highest concentration used. Altogether, the present results agree with the known widespread distribution and role of TRPV1 and TRPV4 channels, and with published data on trout (Oncorhynchus mykiss), leading to suggest these channels mediate the effects of temperature on S. salar pineal melatonin production. We discuss their involvement in controlling the timing of daily and seasonal events in this migratory species, in the context of an increasing warming of water temperatures.}, keywords = {Atlantic salmon, melatonin, pineal organ, Temperature, transient receptor potential vanilloid (TRPV), TRPV1, TRPV4}, doi = {10.3389/fphys.2021.784416}, url = {https://www.frontiersin.org/articles/10.3389/fphys.2021.784416/full?\&utm_source=Email_to_authors_\&utm_medium=Email\&utm_content=T1_11.5e1_author\&utm_campaign=Email_publication\&field=\&journalName=Frontiers_in_Physiology\&id=784416}, author = {Nisembaum, Laura Gabriela and Loentgen, Guillaume and L{\textquoteright}Honor{\'e}, Thibault and Martin, Patrick and Paulin, Charles-Hubert and Fuent{\`e}s, Michael and Escoubeyrou, Karine and Delgado, Maria Jesus and Besseau, Laurence and Falc{\'o}n, Jack} } @article {8954, title = {West Side Story: A molecular and morphological study of Caridina longicarpus Roux, 1926 (Decapoda, Caridea, Atyidae) from New Caledonia reveals a new species}, journal = {Zoosystema}, volume = {44}, year = {2022}, pages = {463-474}, abstract = {Numerous specimens of freshwater shrimps identified as Caridina longicarpus Roux, 1926 were recently collected from New Caledonia. Following an integrative taxonomy approach, they were morphologi- cally and genetically studied. Results of a 16S mtDNA analysis showed that the specimens initially identified as C. longicarpus were distributed in two geographically structured clades. Morphological study showed that the shrimps found in rivers draining to the east coast of the island belonged to C. longicarpus sensu stricto, whereas those from rivers draining to the west coast belonged to a new species, here described as Caridina occidentalis n. sp. Detailed redescription of C. longicarpus is pro- vided and a lectotype is designated. The existence of both species in allopatry could be explained by local biogeographical factors such as the topography of the island or oceanic circulation impacting the dispersal of larvae during the planktonic stage.}, isbn = {0000753777}, doi = {10.5252/zoosystema2022v44a18}, url = {https://bioone.org/journals/zoosystema/volume-44/issue-18/zoosystema2022v44a18/West-Side-Story--A-molecular-and-morphological-study-of/10.5252/zoosystema2022v44a18.full}, author = {de Mazancourt, Valentin and Br{\'e}thiot, Julien and Marquet, G{\'e}rard and Keith, Philippe} } @article {9179, title = {West Side Story: A molecular and morphological study of Caridina longicarpus Roux, 1926 (Decapoda, Caridea, Atyidae) from New Caledonia reveals a new species}, journal = {Zoosystema}, volume = {44}, year = {2022}, month = {Jan-10-2022}, doi = {10.5252/zoosystema2022v44a18}, url = {https://bioone.org/journals/zoosystema/volume-44/issue-18/zoosystema2022v44a18/West-Side-Story--A-molecular-and-morphological-study-of/10.5252/zoosystema2022v44a18.full}, author = {Mazancourt, Valentin de and Br{\'e}thiot, Julien and Marquet, G{\'e}rard and Philippe Keith} } @article {7654, title = {Annual phytoplankton succession results from niche-environment interactionAbstract}, journal = {Journal of Plankton Research}, volume = {43}, year = {2021}, month = {12/2020}, pages = {85{\textendash}102}, abstract = {Annual plankton succession has been investigated for many decades with hypotheses ranging from abiotic to biotic mechanisms being proposed to explain these recurrent patterns. Here, using data collected by the Continuous Plankton Recorder (CPR) survey and models originating from the MacroEcological Theory on the Arrangement of Life, we investigate Annual Phytoplankton Succession (APS) in the North Sea at a species level. Our results show that this phenomenon can be predicted well by models combining photosynthetically active radiation, temperature and macro-nutrients. Our findings suggest that APS originates from the interaction between species{\textquoteright} ecological niches and the annual environmental fluctuations at a community level. We discuss our results in the context of traditional hypotheses formulated to explain this recurrent pattern in the marine field.}, issn = {0142-7873}, doi = {10.1093/plankt/fbaa060}, url = {https://academic.oup.com/plankt/advance-article/doi/10.1093/plankt/fbaa060/6043723}, author = {Caracciolo, Mariarita and Gr{\'e}gory Beaugrand and Pierre H{\'e}laou{\"e}t and Gevaert, Francois and Martin Edwards and Lizon, Fabrice and Kl{\'e}parski, Lo{\"\i}ck and Goberville, Eric} } @article {8707, title = {Are we ready to track climate-driven shifts in marine species across international boundaries? - A global survey of scientific bottom trawl data}, journal = {Global Change Biology}, volume = {27}, year = {2021}, month = {Jan-01-2021}, pages = {220 - 236}, issn = {1354-1013}, doi = {10.1111/gcb.v27.210.1111/gcb.15404}, url = {https://onlinelibrary.wiley.com/toc/13652486/27/2}, author = {Maureaud, Aurore and Frelat, Romain and P{\'e}cuchet, Laur{\`e}ne and Shackell, Nancy and M{\'e}rigot, Bastien and Pinsky, Malin L. and Amador, Kofi and Anderson, Sean C. and Arkhipkin, Alexander and Auber, Arnaud and Barri, I{\c c}a and Bell, Richard J. and Belmaker, Jonathan and Beukhof, Esther and Camara, Mohamed L. and Guevara-Carrasco, Renato and Choi, Junghwa and Christensen, Helle T. and Conner, Jason and Cubillos, Luis A. and Diadhiou, Hamet D. and Edelist, Dori and Emblemsv{\r a}g, Margrete and Ernst, Billy and Fairweather, Tracey P. and Fock, Heino O. and Friedland, Kevin D. and Garcia, Camilo B. and Gascuel, Didier and Gislason, Henrik and Goren, Menachem and Guitton, J{\'e}r{\^o}me and Jouffre, Didier and Hattab, Tarek and Hidalgo, Manuel and Kathena, Johannes N. and Knuckey, Ian and Kid{\'e}, Sa{\"\i}kou O. and Koen-Alonso, Mariano and Koopman, Matt and Kulik, Vladimir and Le{\'o}n, Jacqueline Palacios and Levitt-Barmats, Ya{\textquoteright}arit and Lindegren, Martin and Llope, Marcos and Massiot-Granier, F{\'e}lix and Masski, Hicham and McLean, Matthew and Meissa, Beyah and M{\'e}rillet, Laur{\`e}ne and Mihneva, Vesselina and Nunoo, Francis K. E. and O{\textquoteright}Driscoll, Richard and O{\textquoteright}Leary, Cecilia A. and Petrova, Elitsa and Ramos, Jorge E. and Refes, Wahid and Rom{\'a}n-Marcote, Esther and Siegstad, Helle and Sobrino, Ignacio and S{\'o}lmundsson, J{\'o}n and Sonin, Oren and Spies, Ingrid and Steingrund, Petur and Stephenson, Fabrice and Stern, Nir and Tserkova, Feriha and Tserpes, Georges and Tzanatos, Evangelos and Rijn, Itai and Zwieten, Paul A. M. and Vasilakopoulos, Paraskevas and Yepsen, Daniela V. and Ziegler, Philippe and Thorson, James} } @article {8097, title = {Assessment of ecological status of the lagoon of Bora-Bora Island (French Polynesia)}, journal = {Regional Studies in Marine Science}, volume = {43}, year = {2021}, month = {03/2021}, pages = {101687}, issn = {23524855}, doi = {10.1016/j.rsma.2021.101687}, url = {https://linkinghub.elsevier.com/retrieve/pii/S2352485521000797}, author = {Lecchini, David and Fr{\'e}d{\'e}ric Bertucci and Schneider, Denis and Berthe, C{\'e}cile and Gache, Camille and Fogg, Lily and Waqalevu, Viliame and Maueau, Tehani and Sturny, Vincent and Bambridge, Tamatoa and Tong Sang, Gaston} } @article {7580, title = {Bi-decadal variability in physico-biogeochemical characteristics of temperate coastal ecosystems: from large-scale to local drivers}, journal = {Marine Ecology Progress Series}, volume = {660}, year = {2021}, month = {Feb-18-2021}, pages = {19-35}, abstract = {Coastal marine ecosystems, which play a crucial role in the biogeochemical and ecological functioning of the earth system, are highly sensitive to the combined effects of climate and human activities. Because of their location, coastal ecosystems are directly influenced by human activities. Thus, it remains challenging to assess the spatial and temporal scales at which climate influences coastal ecosystems. Twelve sampling stations distributed in eight ecosystems of Western Europe were monitored during two decades for physico-biogeochemical parameters (temperature, salinity, concentrations of dissolved oxygen, nutrients and particulate material). The study encompasses a large diversity of temperate coastal ecosystems regarding geomorphology, trophic status, tidal regime, river influence, turbidity, and so on. Time-series analysis coupled with standardised 3-mode Principal Component Analyses, Partial Triadic Analyses and correlations were used to assess bi-decadal variability and ecosystems trajectories, and to detect the large-scale, regional and local drivers. Overall results highlight two abrupt changes in 2001 and 2005. The\ bi-decadal changes are related to changes in large-scale and regional climate; detected through proxies of temperature and atmospheric\ circulation, as well as through river\ discharge. Ecosystem trajectories usually move towards an increase in temperature, salinity and/or a decrease in chlorophyll-a, nutrients and particulate matter. However, the magnitude of change, the year-to-year variability and the sensitivity to the 2001 and 2005 changes vary among the ecosystems. This study highlights the need to perform long-term time series and combining data sets as well as multi-ecosystem and local studies to better understand long-term variability of coastal ecosystems and its associated drivers.}, issn = {0171-8630}, doi = {10.3354/meps13577}, url = {https://doi.org/10.3354/meps13577}, author = {Lheureux, Arnaud and Savoye, Nicolas and Del Amo, Yolanda and Goberville, Eric and Bozec, Yann and Elsa Breton and Conan, Pascal and L{\textquoteright}Helguen, St{\'e}phane and Mousseau, Laure and Raimbault, Patrick and Rimelin-Maury, Peggy and Seuront, Laurent and Vuillemin, Renaud and Caparros, Jocelyne and Cariou, Thierry and Cordier, MA and Corre, Anne-Marie and Costes, Laurence and Crispi, O. and Muriel Crouvoisier and de Latour, HdL and Derriennic, Herv{\'e} and Devesa, J{\'e}r{\'e}my and Durozier, Ma{\"\i}a and Ferreira, Sophie and Garcia, Nicole and Emilie Grossteffan and Gueux, Aurore and Lafont, M and Lagadec, V{\'e}ronique and Lecuyer, Eric and Leroux, C{\'e}dric and Mac{\'e}, Eric and Maria, E and Mornet, L and Antoine Nowaczyk and Parra, M and Petit, Fabienne and David, V} } @article {8654, title = {Biological invasions in France: Alarming costs and even more alarming knowledge gaps}, journal = {NeoBiota}, volume = {67}, year = {2021}, month = {May-07-2023}, pages = {191 - 224}, issn = {1619-0033}, doi = {10.3897/neobiota.67.59134}, url = {https://neobiota.pensoft.net/article/59134/}, author = {Renault, David and Manfrini, El{\'e}na and Leroy, Boris and Diagne, Christophe and Ballesteros-Mejia, Liliana and Angulo, Elena and Courchamp, Franck} } @article {8990, title = {Born With Bristles: New Insights on the K{\"o}lliker{\textquoteright}s Organs of Octopus Skin}, journal = {Frontiers in Marine Science}, volume = {8}, year = {2021}, doi = {10.3389/fmars.2021.645738}, url = {https://hal.archives-ouvertes.fr/hal-03326946}, author = {Villanueva, Roger and Coll-Llad{\'o}, Montserrat and Laure Bonnaud-Ponticelli and Carrasco, Sergio and Escolar, Oscar and Fern{\'a}ndez-{\'A}lvarez, Fernando {\'A}. and Gleadall, Ian and Nabhitabhata, Jaruwat and Ortiz, Nicol{\'a}s and Rosas, Carlos and S{\'a}nchez, Pilar and Voight, Janet and Swoger, Jim} } @article {8984, title = {C{\'E}PHALOPODES, EXP{\'E}RIMENTATION ANIMALE ET L{\'E}GISLATIONEUROP{\'E}ENNE}, journal = {Bulletin de l{\textquoteright}Acad{\'e}mie V{\'e}t{\'e}rinaire de France}, year = {2021}, doi = {10.3406/bavf .2021.70952}, url = {https://hal.archives-ouvertes.fr/hal-03326974}, author = {Laure Bonnaud-Ponticelli} } @article {8092, title = {Changes to an urban marina soundscape associated with COVID-19 lockdown in Guadeloupe}, journal = {Environmental Pollution}, volume = {289}, year = {2021}, month = {Jan-11-2021}, pages = {117898}, issn = {02697491}, doi = {10.1016/j.envpol.2021.117898}, url = {https://linkinghub.elsevier.com/retrieve/pii/S0269749121014809}, author = {Fr{\'e}d{\'e}ric Bertucci and Lecchini, David and Greeven, C{\'e}line and Brooker, Rohan M. and Minier, Lana and Cordonnier, S{\'e}bastien and Ren{\'e}-Trouillefou, Malika and Parmentier, Eric} } @article {7940, title = {Characteristics of sound production and associated pharyngeal jaws in the tomtate grunt Haemulon aurolineatum (Cuvier, 1830) in Caribbean reefs}, journal = {Belgian Journal of Zoology}, volume = {151}, year = {2021}, month = {Feb-02-2021}, doi = {10.26496/bjz.2021.84}, url = {https://www.belgianjournalofzoology.eu/BJZ/article/view/84}, author = {Millot, Morgane and Fr{\'e}d{\'e}ric Bertucci and Lecchini , David and Smeets, Sarah and Ren{\'e}-Trouillefou, Malika and Parmentier, Eric} } @article {9364, title = {Conservative route to genome compaction in a miniature annelidAbstract}, journal = {Nature Ecology \& Evolution}, volume = {5}, year = {2021}, month = {Jan-02-2021}, pages = {231 - 242}, doi = {10.1038/s41559-020-01327-6}, url = {https://www.nature.com/articles/s41559-020-01327-6}, author = {Mart{\'\i}n-Dur{\'a}n, Jos{\'e} M. and Vellutini, Bruno C. and Marl{\'e}taz, Ferdinand and Cetrangolo, Viviana and Cvetesic, Nevena and Thiel, Daniel and Henriet, Simon and Grau-Bov{\'e}, Xavier and Carrillo-Baltodano, Allan M. and Gu, Wenjia and Kerbl, Alexandra and Marquez, Yamile and Bekkouche, Nicolas and Chourrout, Daniel and G{\'o}mez-Skarmeta, Jose Luis and Irimia, Manuel and Lenhard, Boris and Worsaae, Katrine and Hejnol, Andreas} } @article {8886, title = {Detailed assessment of the reported economic costs of invasive species in Australia}, journal = {NeoBiota}, volume = {67}, year = {2021}, month = {May-07-2023}, pages = {511 - 550}, issn = {1619-0033}, doi = {10.3897/neobiota.67.5883410.3897/neobiota.67.58834.suppl1}, url = {https://neobiota.pensoft.net/article/58834/}, author = {Bradshaw, Corey J. A. and Hoskins, Andrew J. and Haubrock, Phillip J. and Cuthbert, Ross N. and Diagne, Christophe and Leroy, Boris and Andrews, Lindell and Page, Brad and Cassey, Phill and Sheppard, Andy W. and Courchamp, Franck} } @article {8357, title = {Development of robust assessment methods and harvest strategies for spatially complex, multi-jurisdictional toothfish fisheries in the Southern Ocean}, year = {2021}, month = {2021}, pages = {266 pp}, institution = {Fisheries Research and Development Corporation Project n{\textdegree}2013/013}, type = {Final report}, url = {http://ecite.utas.edu.au/143108}, author = {Philippe Ziegler and Burch, Paul and Clara P{\'e}ron and Welsford, Dirk and Bryn, Farmer and Yates, Peter and Potts, J. and Woodcock, Emma and Barnes, T. and Guy Duhamel and Gardner, C.} } @article {7700, title = {Dietary taurine improves vision in different age gilthead sea bream (Sparus aurata) larvae potentially contributing to increased prey hunting success and growth}, journal = {Aquaculture}, volume = {533}, year = {2021}, month = {Jan-02-2021}, pages = {736129}, issn = {00448486}, doi = {10.1016/j.aquaculture.2020.736129}, url = {https://linkinghub.elsevier.com/retrieve/pii/S0044848620338357}, author = {Gaon, A. and Nixon, O. and Tandler, A. and Falcon, J. and Besseau, L. and Escande, M. and El Sadin, S. and Allon, G. and Koven, W.} } @article {9116, title = {Do Hydrothermal Shrimp Smell Vents? }, journal = {Insects}, volume = {12(11)}, year = {2021}, pages = {1043}, abstract = {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 Rimicaris exoculata and Mirocaris fortunata, as well as of the coastal species Palaemon elegans and Palaemon serratus 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.}, keywords = {antennules; behavior; chemosensory perception; grooming; hydrothermal shrimp; olfaction; thermal detection}, doi = {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 {9115, title = {Do Hydrothermal Shrimp Smell Vents?}, journal = {Insects}, volume = {12}, year = {2021}, month = {2021 Nov 20}, abstract = {

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 {9057, title = {Do Hydrothermal Shrimp Smell Vents?}, journal = {Insects}, volume = {12}, year = {2021}, month = {Jan-11-2021}, pages = {1043}, doi = {10.3390/insects12111043}, url = {https://www.mdpi.com/2075-4450/12/11/1043}, author = {Juliette Ravaux 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 {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 {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 {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} } @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 {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 = {
Under climate change, many Arctic coastal ecosystems receive increasing amounts of freshwater, with ecological consequences that remain poorly understood. In this study, we investigated how freshwater inputs may affect the small-scale structure of benthic food webs in a low-production high-Arctic fjord (Young Sound, NE Greenland). We seasonally sampled benthic invertebrates from two stations receiving contrasting freshwater inputs: an inner station exposed to turbid and nutrient-depleted freshwater flows and an outer station exposed to lower terrestrial influences. Benthic food web structure was described using a stable isotope approach (δ13C and δ15N), Bayesian models, and community-wide metrics. The results revealed the spatially and temporally homogeneous structure of the benthic food web, characterized by high trophic diversity (i.e., a wide community isotopic niche). Such temporal stability and spatial homogeneity mirrors the high degree of trophic plasticity and omnivory of benthic consumers that allows the maintenance of several carbon pathways through the food web despite different food availability. Furthermore, potential large inputs of shelf organic matter together with local benthic primary production (i.e., macroalgae and presumably microphytobenthos) may considerably increase the stability of the benthic food web by providing alternative food sources to locally runoff-impacted pelagic primary production. Future studies should assess beyond which threshold limit a larger increase in freshwater inputs might cancel out these stability factors and lead to marked changes in Arctic benthic ecosystems.
}, doi = {https://doi.org/10.1002/lno.11688}, url = {https://aslopubs.onlinelibrary.wiley.com/doi/abs/10.1002/lno.11688}, author = {Bridier, Guillaume and Fr{\'e}d{\'e}ric Olivier and Chauvaud, Laurent and Sejr, Mikael K. and Grall, Jacques} } @book {8131, title = {Freshwater fish of Solomon Islands}, year = {2021}, pages = {174}, publisher = {Soci{\'e}t{\'e} Fran{\c c}aise d{\textquoteright}Ichtyologie}, organization = {Soci{\'e}t{\'e} Fran{\c c}aise d{\textquoteright}Ichtyologie}, address = {Paris}, author = {Philippe Keith and Boseto, David and Clara Lord} } @article {8133, title = {Gonadal transcriptomes associated with sex phenotypes provide potential male and female candidate genes of sex determination or early differentiation in Crassostrea gigas, a sequential hermaphrodite mollusc.}, journal = {BMC Genomics}, volume = {22}, year = {2021}, month = {2021 Aug 09}, pages = {609}, 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 {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 {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 {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 {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 {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 {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 {9183, title = {A new species of Schismatogobius (Teleostei: Gobiidae) from Sulawesi (Indonesia). }, journal = {Cybium}, volume = {45}, year = {2021}, month = {02/2021}, pages = {53-58}, author = {Philippe Keith and Sauri, S and Busson, Frederic and Delrieu-Trottin, Erwan} } @article {8002, title = {North Atlantic warming over six decades drives decreases in krill abundance with no associated range shiftAbstract}, journal = {Communications Biology}, volume = {4}, year = {2021}, month = {Jan-12-2021}, abstract = {In the North Atlantic, euphausiids (krill) form a major link between primary production and predators including commercially exploited fish. This basin is warming very rapidly, with species expected to shift northwards following their thermal tolerances. Here we show, however, that there has been a 50\% decline in surface krill abundance over the last 60 years that occurred in situ, with no associated range shift. While we relate these changes to the warming climate, our study is the first to document an in situ squeeze on living space within this system. The warmer isotherms are shifting measurably northwards but cooler isotherms have remained relatively static, stalled by the subpolar fronts in the NW Atlantic. Consequently the two temperatures defining the core of krill distribution (7{\textendash}13 {\textdegree}C) were 8{\textdegree} of latitude apart 60 years ago but are presently only 4{\textdegree} apart. Over the 60 year period the core latitudinal distribution of euphausiids has remained relatively stable so a {\textquoteleft}habitat squeeze{\textquoteright}, with loss of 4{\textdegree} of latitude in living space, could explain the decline in krill. This highlights that, as the temperature warms, not all species can track isotherms and shift northward at the same rate with both losers and winners emerging under the {\textquoteleft}Atlantification{\textquoteright} of the sub-Arctic.}, doi = {10.1038/s42003-021-02159-1}, url = {http://www.nature.com/articles/s42003-021-02159-1}, author = {Martin Edwards and Pierre H{\'e}laou{\"e}t and Goberville, Eric and Lindley, Alistair and Tarling, Geraint A. and Burrows, Michael T. and Angus Atkinson} } @article {8059, title = {Pelagic habitats under the MSFD D1: scientific advice of policy relevance : recommendations to frame problems and solutions for the pelagic habitats{\textquoteright} assessment.}, year = {2021}, institution = {Publications Office of the European Union}, abstract = {Pelagic habitats are a policy priority below Descriptor 1 (Biodiversity) of the Marine Strategy Framework Directive (MSFD). They are addressed under the D1C6 criterion, stating {\textquotedblleft}the condition of the habitat type, including its biotic and abiotic structure and its functions{\textellipsis}, is not adversely affected due to anthropogenic pressures{\textquotedblright}. The evaluation of pelagic habitats status is challenged by the functional and structural characteristics of pelagic habitat diversity and processes. To date, pelagic habitats assessments are lacking in common criteria and methodologies that characterize the habitat while accounting for the effects of anthropogenic pressures to achieve the Good Environmental Status (GES). It is therefore necessary to prioritise communication between scientific and policy communities and frame pelagic research to agree on common methods and approaches at regional or EU scale. This is key for achieving harmonised and comparable pelagic assessments for the MSFD. This report summarizes the outcomes on the assessment workflow of pelagic habitats of the JRC {\textquotedblleft}MSFD pelagic habitats{\textquotedblright} workshop (9th and 10th March 2021), and the need for coordinated evaluations of the scientific challenges of policy relevance. Recommendations on the MSFD implementation of D1C6, that were generated from the experts during the workshop, will be communicated to the MSFD policy groups and the EU Member States competent authorities to support future harmonised assessment of pelagic habitats.}, doi = {10.2760/081368}, url = {https://data.europa.eu/doi/10.2760/081368}, author = {Magliozzi, Chiara and Druon, Jean-Noel and Palialexis, Andreas and Aguzzi, Laura and Alexande, Brittany and Antoniadis, Konstantinos and Artigas, Luis Felipe and Azzellino, Arianna and Bisinicu, Elena and Boicenco, Laura and Bojanic, Natalia and Borrello, Patrizia and Boschetti, Simona and Carmo, Vanda and Cervantes, Pablo and Coll, Marta and Curmi, Marta and Del Amo, Yolanda and Dutz, Joerg and Franc{\'e}, Janja and Garces, Esther and Gea, Guillermo and Giannakourou, Antonia and Goberville, Eric and Goffart, Anne and Gomes Pereira, Jose Nuno and Gonzalez-Quiros, Rafael and Gorokhova, Elena and Guglielmo, Letterio and Pierre H{\'e}laou{\"e}t and Henriques, Filipe and Heyden, Birgit and Jaanus, Andres and Jakobsen, Hans and Johansen, Marie and Jurgensone, Iveta and Korpinen, Samuli and Kremp, Anke and Kuosa, Harri and Labayle, Lucille and Lazar, Luminita and Abigail McQuatters-Gollop and Nincevic, Zivana and Pagou, Popi and Penna, Antonella and Pettersson, Karin and Ruiter, Hans and Skejic, Sanda and Spada, Emanuela and Spinu, Alina and Tew-Kai, Emilie and Totti, Cecilia and Tunesi, Leonardo and Vadrucci, Maria Rosaria and Valavanis, Vasilis and Varkitzi, Ioanna and Vasiliades, Lavrendios and Veldeki, Georgia and Vidjak, Olja and Vincent, Doroth{\'e}e and Zervoudaki, Soultana} } @article {8083, title = {Photoperiodic regulation of pituitary thyroid-stimulating hormone and brain deiodinase in Atlantic salmon}, journal = {Molecular and Cellular Endocrinology}, volume = {519}, year = {2021}, month = {Jan-01-2021}, pages = {111056}, issn = {03037207}, doi = {10.1016/j.mce.2020.111056}, url = {https://linkinghub.elsevier.com/retrieve/pii/S0303720720303580}, author = {Irachi, Shotaro and Hall, Daniel J. and Fleming, Mitchell S. and Maugars, Gersende and Bj{\"o}rnsson, Bj{\"o}rn Thrandur and Sylvie Dufour and Uchida, Katsuhisa and McCormick, Stephen D.} } @article {8128, title = {Phylogenetic analysis and characterization of a new parasitic cnidarian (Myxosporea: Myxobolidae) parasitizing skin of the giant mottled eel from the Solomon Islands}, journal = {Infection, Genetics and Evolution}, volume = {94}, year = {2021}, month = {Jan-10-2021}, pages = {104986}, issn = {15671348}, doi = {10.1016/j.meegid.2021.104986}, url = {https://linkinghub.elsevier.com/retrieve/pii/S1567134821002835}, author = {Mathews, Patrick D. and Bonillo, C{\'e}line and Rabet, Nicolas and Clara Lord and Causse, Romain and Philippe Keith and Audebert, Fabienne} } @article {8430, title = {Pituitary Hormones mRNA Abundance in the Mediterranean Sea Bass Dicentrarchus labrax: Seasonal Rhythms, Effects of Melatonin and Water Salinity}, journal = {Frontiers in Physiology}, volume = {12}, year = {2021}, month = {12/15/2021}, pages = {774975}, type = {Research article}, abstract = {In fish, most hormonal productions of the pituitary gland display daily and/or seasonal
rhythmic patterns under control by upstream regulators, including internal biological
clocks. The pineal hormone melatonin, one main output of the clocks, acts at different
levels of the neuroendocrine axis. Melatonin rhythmic production is synchronized mainly
by photoperiod and temperature. Here we aimed at better understanding the role
melatonin plays in regulating the pituitary hormonal productions in a species of scientific
and economical interest, the euryhaline European sea bass Dicentrarchus labrax. We
investigated the seasonal variations in mRNA abundance of pituitary hormones in two
groups of fish raised one in sea water (SW fish), and one in brackish water (BW fish). The
mRNA abundance of three melatonin receptors was also studied in the SW fish. Finally,
we investigated the in vitro effects of melatonin or analogs on the mRNA abundance of
pituitary hormones at two times of the year and after adaptation to different salinities.
We found that (1) the reproductive hormones displayed similar mRNA seasonal profiles
regardless of the fish origin, while (2) the other hormones exhibited different patterns
in the SW vs. the BW fish. (3) The melatonin receptors mRNA abundance displayed
seasonal variations in the SW fish. (4) Melatonin affected mRNA abundance of most
of the pituitary hormones in vitro; (5) the responses to melatonin depended on its
concentration, the month investigated and the salinity at which the fish were previously
adapted. Our results suggest that the productions of the pituitary are a response to
multiple factors from internal and external origin including melatonin. The variety of the
responses described might reflect a high plasticity of the pituitary in a fish that faces
multiple external conditions along its life characterized by marked daily and seasonal
changes in photoperiod, temperature and salinity.}, keywords = {annual variations, hormones, melatonin, photoperiod, pituitary, salinity, sea bass}, doi = {10.3389/fphys.2021.774975}, url = {https://www.frontiersin.org/articles/10.3389/fphys.2021.774975/full?\&utm_source=Email_to_authors_\&utm_medium=Email\&utm_content=T1_11.5e1_author\&utm_campaign=Email_publication\&field=\&journalName=Frontiers_in_Physiology\&id=774975}, author = {Jack Falcon}, editor = {Maria-Jesus Herrero and Laura-Gabriela Nisembaum} } @article {8420, title = {Quantifying Cyanothece growth under DIC limitation}, journal = {Computational and Structural Biotechnology Journal}, year = {2021}, month = {Jan-11-2021}, issn = {20010370}, doi = {10.1016/j.csbj.2021.11.036}, url = {https://linkinghub.elsevier.com/retrieve/pii/S2001037021005018}, author = {Inomura, Keisuke and Masuda, Takako and Eichner, Meri and Rabouille, Sophie and Zav{\v r}el, Tomas and {\v C}erven{\'y}, Jan and Vancov{\'a}, Marie and Bern{\'a}t, Gabor and Armin, Gabrielle and Pascal Claquin and Kotabov{\'a}, Eva and Stephan, Susanne and Suggett, David J. and Deutsch, Curtis and Pr{\'a}{\v s}il, Ondrej} } @article {8389, title = {The rise and fall of the ancient northern pike master sex-determining gene}, journal = {eLife}, volume = {10}, year = {2021}, month = {Apr-01-2023}, doi = {10.7554/eLife.62858}, url = {https://elifesciences.org/articles/62858}, author = {Pan, Qiaowei and Feron, Romain and Jouanno, Elodie and Darras, Hugo and Herpin, Amaury and Koop, Ben and Rondeau, Eric and Goetz, Frederick W and Larson, Wesley A and Bernatchez, Louis and Tringali, Mike and Curran, Stephen S and Saillant, Eric and Denys, Ga{\"e}l and von Hippel, Frank A and Chen, Songlin and L{\'o}pez, J Andr{\'e}s and Verreycken, Hugo and Ocalewicz, Konrad and Guyomard, Rene and Eche, Camille and Lluch, Jerome and Roques, Celine and Hu, Hongxia and Tabor, Roger and DeHaan, Patrick and Nichols, Krista M and Journot, Laurent and Parrinello, Hugues and Klopp, Christophe and Interesova, Elena A and Trifonov, Vladimir and Schartl, Manfred and Postlethwait, John and Guiguen, Yann} } @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.
\ }, keywords = {Caribbean reef corals, chlororespiration-like, PAM, resilience}, url = {https://link.springer.com/article/10.1007/s00338-020-02023-4}, author = {Pascal Claquin and Ren{\'e}-Trouillefou, Malika and Pascal Jean Lopez and Japaud, Aur{\'e}lien and Yolande Bouchon-Navaro and S{\'e}bastien Cordonnier and Claude Bouchon} } @article {7593, title = {Sources, quality and transfers of organic matter in a highly-stratified sub-Arctic coastal system (Saint-Pierre-et-Miquelon, NW Atlantic)}, journal = {Progress in Oceanography}, year = {2021}, month = {Jan-11-2021}, pages = {102483}, abstract = {In response to ongoing global climate change, marine ecosystems in the northwest Atlantic are experiencing one of the most drastic increases in sea surface temperatures in the world. This warming can increase water column stratification and decrease surface nutrient concentrations, in turn impacting primary productivity and phytoplankton assemblages. However, the exact impacts of these changes on sources and quality of organic matter as well as its transfers to the benthic compartment remain uncertain. This survey characterized organic matter sources and quality within a highly-stratified sub-Arctic coastal system (Saint-Pierre and Miquelon) and described its transfer towards a biomass-dominant primary consumer, the sand dollar\ Echinarachnius parma. This study analyzed fatty acid and stable isotope (δ13C and δ15N) composition of surface and bottom Particulate Organic Matter (s-POM and b-POM, respectively), Sedimentary Organic Matter (SOM) and sand dollar tissue along a near shore to offshore gradient during two contrasting seasons associated either with sharp or weak water column stratification (i.e. High\ vs\ Low Stratification Periods). Results revealed high relative abundances of polyunsaturated fatty acids (notably macro- and microalgae markers) in POM during the Low Stratification Period while the High Stratification Period was characterized by elevated relative abundance of saturated fatty acids indicating a higher organic matter degradation state. In addition, strong seasonal differences were also observed in food availability with four-fold higher concentrations in total suspended solids during Low\ vs\ High Stratification Periods. These results suggested thus multiple negative effects of stratification on pelagic-benthic coupling and POM quality. Lower nutrient repletion of surface waters during period of sharp stratification diminishes pelagic-benthic coupling by reducing food availability, POM quality and vertical transfer of organic matter. By contrast, the sediment-based diet of\ E. parma\ showed a low spatiotemporal variability reflecting the homogenous composition of the SOM. This study suggests that intensified water column stratification due to increasing sea surface temperatures may modify the pelagic-benthic coupling and future quality and composition of POM pools.}, issn = {00796611}, doi = {10.1016/j.pocean.2020.102483}, url = {https://linkinghub.elsevier.com/retrieve/pii/S0079661120302184}, author = {Bridier, Guillaume and Tarik Meziane and Grall, Jacques and Chauvaud, Laurent and Donnet, S{\'e}bastien and Lazure, Pascal and Fr{\'e}d{\'e}ric Olivier} } @article {7853, title = {Temporal Patterns and Intra- and Inter-Cellular Variability in Carbon and Nitrogen Assimilation by the Unicellular Cyanobacterium Cyanothece sp. ATCC 51142Data_Sheet_1.pdfData_Sheet_2.XLSX}, journal = {Frontiers in Microbiology}, volume = {12}, year = {2021}, month = {Apr-02-2021}, doi = {10.3389/fmicb.2021.62091510.3389/fmicb.2021.620915.s00110.3389/fmicb.2021.620915.s002}, url = {https://www.frontiersin.org/articles/10.3389/fmicb.2021.620915/full}, author = {Polerecky, Lubos and Masuda, Takako and Eichner, Meri and Rabouille, Sophie and Vancov{\'a}, Marie and Kienhuis, Michiel V. M. and Bern{\'a}t, Gabor and Bonomi-Barufi, Jose and Campbell, Douglas Andrew and Pascal Claquin and {\v C}erven{\'y}, Jan and Giordano, Mario and Kotabov{\'a}, Eva and Kromkamp, Jacco and Lombardi, Ana Teresa and Luke{\v s}, Martin and Pr{\'a}{\v s}il, Ondrej and Stephan, Susanne and Suggett, David and Zav{\v r}el, Tomas and Halsey, Kimberly H.} } @article {8066, title = {Thermodynamic uptake of atmospheric CO2 in the oligotrophic and semiarid S{\~a}o Francisco estuary (NE Brazil)}, journal = {Marine Chemistry}, volume = {233}, year = {2021}, month = {01/2021}, pages = {103983}, issn = {03044203}, doi = {10.1016/j.marchem.2021.103983}, url = {https://linkinghub.elsevier.com/retrieve/pii/S0304420321000682}, author = {Gwena{\"e}l Abril and Libardoni, Bruno G. and Brandini, Nilva and Cotovicz, Luiz C. and Medeiros, Paulo R.P. and Cavalcante, Ge{\'o}rgenes H. and Knoppers, Bastiaan A.} } @article {9561, title = {Transcriptome Profiling of the Pacific Oyster Crassostrea gigas Visceral Ganglia over a Reproduction Cycle Identifies Novel Regulatory Peptides}, journal = {Marine Drugs}, volume = {19}, year = {2021}, month = {Jan-08-2021}, pages = {452}, doi = {10.3390/md19080452}, url = {https://www.mdpi.com/1660-3397/19/8/452}, author = {R{\'e}alis-Doyelle, Emilie and Schwartz, Julie and Cabau, C{\'e}dric and Le Franc, Lorane and Bernay, Beno{\^\i}t and Guillaume Rivi{\`e}re and Klopp, Christophe and Favrel, Pascal} } @article {8123, title = {Transcriptome Profiling of the Pacific Oyster Visceral Ganglia over a Reproduction Cycle Identifies Novel Regulatory Peptides.}, journal = {Mar Drugs}, volume = {19}, year = {2021}, month = {2021 Aug 07}, abstract = {

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 {8060, title = {Unraveling salinity extreme events in coastal environments: a winter focus on the Bay of Brest}, journal = {Frontiers in Marine Science}, volume = {8}, year = {2021}, pages = {966}, abstract = {Extreme weather events affect coastal marine ecosystems. The increase in intensity and occurrence of such events drive modifications in coastal hydrology and hydrodynamics. Here, focusing on the winter period (from December to March), we investigated long-term (2000-2018) changes in the hydrological properties of the Bay of Brest (French Atlantic coast) as an example of the response of a semi-enclosed bay to extreme weather episodes and large-scale atmospheric circulation patterns. The relationships between extreme weather events and severe low salinity conditions (as a proxy for changes in water density) were investigated using high-frequency in situ observations and high-resolution numerical simulations. The identification of intense episodes was based on the timing, duration and annual occurrence of extreme events. By examining the interannual variability of extreme low salinity events, we detect a patent influence of local and regional weather conditions on atmospheric and oceanic circulation patterns, precipitation and river runoff. We revealed that low salinity events in Brittany were controlled by large-scale forcings: they prevailed during the positive phase of the North Atlantic Oscillation and periods of low occurrences of the Atlantic Ridge weather regime. The increase in severe storms observed in western France since 2010 has led to a doubling of the occurrence and duration of extreme low salinity events in Brittany.}, url = {https://doi.org/10.3389/fmars.2021.705403}, author = {Poppeschi, Coline and Charria, Guillaume and Goberville, Eric and Rimmelin-Maury, Peggy and Barrier, Nicolas and Petton, S{\'e}bastien and Unterberger, Maximilian and Emilie Grossteffan and R{\'e}p{\'e}caud, Michel and Qu{\'e}m{\'e}ner, Loic and Theetten, S{\'e}bastien and Le roux, Jean-Fran{\c c}ois and Paul Tr{\'e}guer} } @article {8104, title = {Upstream/downstream food quality differences in a Caribbean Island River}, journal = {Aquatic Ecology}, year = {2021}, month = {Oct-08-2021}, issn = {1386-2588}, doi = {10.1007/s10452-021-09887-w}, url = {https://link.springer.com/10.1007/s10452-021-09887-w}, author = {Frott{\'e}, Lou and Alexandre Bec and C{\'e}dric Hubas and Perri{\`e}re, Fanny and Cordonnier, S{\'e}bastien and Bezault, Etienne and Monti, Dominique} } @article {6654, title = {Assessing the impact of toothed whale depredation on socio-ecosystems and fishery management in wide-ranging subantarctic fisheries}, journal = {Reviews in Fish Biology and Fisheries}, volume = {30}, year = {2020}, pages = {203-217}, abstract = {Marine predators feeding on fisheries catches directly on the fishing gear, a behaviour termed {\textquotedblleft}depredation{\textquotedblright}, has emerged as a major human-wildlife conflict globally, often resulting in substantial socio-economic and ecological impacts. This study investigated the extent of this conflict in commercial Patagonian toothfish (Dissostichus eleginoides) fisheries across subantarctic waters where both killer whales (Orcinus orca) and sperm whales (Physeter macrocephalus) feed on toothfish caught on longline hooks. Using long-term datasets from six major fishing areas, from southern Chile to the Indian Ocean sector of the Southern Ocean, statistical models were developed to quantify the catch removals due to whale depredation interactions. The results indicated that these removals were large, totalling more than 6600 t of toothfish between 2009 and 2016 with an annual mean of 837 t [95\% CI 480{\textendash}1195 t], comprised of 317 t [232{\textendash}403 t] and 518 t [247{\textendash}790 t] removed by killer whales and sperm whales, respectively. Catch removals greatly varied between areas, with the largest estimates found at Crozet, where on average 279 t [179{\textendash}379 t] of toothfish per year, equivalent to 30\% [21{\textendash}37\%] of the total catches. Together, these findings provide metrics to assess the impacts of depredation interactions on the fishing industry, whale populations, fish stocks and associated ecosystems. With an estimated $15\ M USD worth of fish depredated every year, this study highlights the large geographic scale and economic significance of the depredation issue and its potential to compromise the viability of some toothfish fisheries which are the primary socio-economic activity in subantarctic regions.}, doi = {10.1007/s11160-020-09597-w}, url = {https://link.springer.com/article/10.1007/s11160-020-09597-w}, author = {Tixier, Paul and Burch, Paul and Massiot-Granier, F{\'e}lix and Ziegler, Philippe and Welsford, Dirk and Lea, Mary-Anne and Hindell, Mark A and Guinet, Christophe and Wotherspoon, Simon and Nicolas Gasco and Clara P{\'e}ron and Guy Duhamel and Arangio, Rhys and Tascheri, Renzo and Somhlaba, Sobahle and Arnould, John P. Y.} } @article {7773, title = {Assessment of the quality of European silver eels and tentative approach to trace the origin of contaminants {\textendash} A European overview}, journal = {Science of The Total Environment}, volume = {743}, year = {2020}, month = {Jan-11-2020}, pages = {140675}, issn = {00489697}, doi = {10.1016/j.scitotenv.2020.140675}, url = {https://linkinghub.elsevier.com/retrieve/pii/S0048969720341978}, author = {Bourillon, Bastien and Anthony Acou and Thomas Trancart and Belpaire, Claude and Covaci, Adrian and Bustamante, Paco and Faliex, Elisabeth and Amilhat, Elsa and Malarvannan, Govindan and Virag, Laure and Aarestrup, Kim and Bervoets, Lieven and Boisneau, Catherine and Boulenger, Clarisse and Gargan, Paddy and Becerra-Jurado, Gustavo and Lob{\'o}n-Cervi{\'a}, Javier and Maes, Gregory E. and Pedersen, Michael Ingemann and Poole, Russell and Sj{\"o}berg, Niklas and Wickstr{\"o}m, H{\r a}kan and Walker, Alan and Righton, David and Eric Feunteun} } @article {8551, title = {Behavioural inference from signal processing using animal-borne multi-sensor loggers: a novel solution to extend the knowledge of sea turtle ecology}, journal = {Royal Society Open Science}, volume = {7}, year = {2020}, month = {Jan-05-2020}, pages = {200139}, doi = {10.1098/rsos.200139}, url = {https://royalsocietypublishing.org/doi/10.1098/rsos.200139}, author = {Jeantet, Lor{\`e}ne and Planas-Bielsa, V{\'\i}ctor and Benhamou, Simon and Geiger, S{\'e}bastien and Martin, Jordan and Siegwalt, Flora and Lelong, Pierre and Gresser, Julie and Etienne, Denis and Hielard, Ga{\"e}lle and Arqu{\'e}, Alexandre and R{\'e}gis, Sidney and Lecerf, Nicolas and Frouin, C{\'e}dric and Benhalilou, Abdelwahab and Murgale, C{\'e}line and Maillet, Thomas and Andreani, Lucas and Campistron, Guilhem and Delvaux, H{\'e}l{\`e}ne and Guyon, Christelle and Richard, Sandrine and Lefebvre, Fabien and Aubert, Nathalie and Habold, Caroline and Le Maho, Yvon and Chevallier, Damien} } @article {7047, title = {Biodiversity inventory of the grey mullets (Actinopterygii: Mugilidae) of the Indo-Australian Archipelago through the iterative use of DNA-based species delimitation and specimen assignment methods}, journal = {Evolutionary Applications}, year = {2020}, month = {Nov-02-2020}, abstract = {DNA barcoding opens new perspectives on the way we document biodiversity. Initially proposed to circumvent the limits of morphological characters to assign unknown individuals to known species, DNA barcoding has been used in a wide array of studies where collecting species identity constitutes a crucial step. The assignment of unknowns to knowns assumes that species are already well identified and delineated, making the assignment performed reliable. Here, we used DNA-based species delimitation and specimen assignment methods iteratively to tackle the inventory of the Indo-Australian Archipelago grey mullets, a notorious case of taxonomic complexity that requires DNA-based identification methods considering that traditional morphological identifications are usually not repeatable and sequence mislabeling is common in international sequence repositories. We first revisited a DNA barcode reference library available at the global scale for Mugilidae through different DNA-based species delimitation methods to produce a robust consensus scheme of species delineation. We then used this curated library to assign unknown specimens collected throughout the Indo-Australian Archipelago to known species. A second iteration of OTU delimitation and specimen assignment was then performed. We show the benefits of using species delimitation and specimen assignment methods iteratively to improve the accuracy of specimen identification and propose a workflow to do so.}, keywords = {Coral Triangle, Cryptic diversity, DNA barcoding, reference library, taxonomic gap}, issn = {1752-4571}, doi = {10.1111/eva.12926}, url = {https://onlinelibrary.wiley.com/doi/abs/10.1111/eva.12926}, author = {Delrieu-Trottin, Erwan and Durand, Jean-Dominique and Limmon, Gino and Sukmono, Tedjo and Kadarusman and Sugeha, Hagi Yulia and Chen, Wei-Jen and Busson, Frederic and Borsa, Philippe and Dahruddin, Hadi and Sauri, Sopian and Fitriana, Yuli and Zein, Mochamad Syamsul Arifin and Hocd{\'e}, R{\'e}gis and Pouyaud, Laurent and Philippe Keith and Wowor, Daisy and Steinke, Dirk and Hanner, Robert and Hubert, Nicolas} } @article {7203, title = {Carbon dioxide sources and sinks in the delta of the Para{\'\i}ba do Sul River (Southeastern Brazil) modulated by carbonate thermodynamics, gas exchange and ecosystem metabolism during estuarine mixing}, journal = {Marine Chemistry}, volume = {226}, year = {2020}, month = {Jan-10-2020}, pages = {103869}, issn = {03044203}, doi = {10.1016/j.marchem.2020.103869}, url = {https://linkinghub.elsevier.com/retrieve/pii/S0304420320301237}, author = {Cotovicz, Luiz C. and Vidal, Luciana O. and de Rezende, Carlos Eduardo and Bernardes, Marcelo C. and Knoppers, Bastiaan A. and Sobrinho, Rodrigo L. and Cardoso, Renan P. and Muniz, Marcelo and dos Anjos, Roberto Meigikos and Biehler, Antoine and Gwena{\"e}l Abril} } @article {7587, title = {Comparison of approaches for incorporating depredation on fisheries catches into Ecopath}, journal = {ICES Journal of Marine Science}, year = {2020}, month = {Jan-11-2022}, issn = {1054-3139}, doi = {10.1093/icesjms/fsaa219}, url = {https://academic.oup.com/icesjms/advance-article/doi/10.1093/icesjms/fsaa219/6000671}, author = {Clavareau, Lyndsay and Marzloff, Martin P and Trenkel, Verena M and Bulman, Catherine M and Gourguet, Sophie and Le Gallic, Bertrand and Hernvann, Pierre-Yves and Clara P{\'e}ron and Nicolas Gasco and Faure, Johanna and Tixier, Paul}, editor = {Northridge, Simon} } @article {8986, title = {Comparison of embryonic and adult shells of Sepia officinalis (Cephalopoda, Mollusca)}, journal = {Zoomorphology}, volume = {139}, year = {2020}, pages = {151-169}, doi = {10.1007/s00435-020-00477-2}, url = {https://hal.archives-ouvertes.fr/hal-02557254}, author = {Dauphin, Yannicke and Luquet, Gilles and Percot, Aline and Laure Bonnaud-Ponticelli} } @article {7101, title = {A database of freshwater fish species of the Amazon Basin}, journal = {Scientific data}, volume = {7}, year = {2020}, pages = {1{\textendash}9}, url = {https://www.nature.com/articles/s41597-020-0436-4}, author = {J{\'e}z{\'e}quel, C{\'e}line and Tedesco, Pablo A and Bigorne, Remy and Maldonado-Ocampo, Javier A and Ortega, Hernan and Hidalgo, Max and Martens, Koen and Torrente-Vilara, Gislene and Zuanon, Jansen and Acosta, Astrid and others} } @article {7164, title = {Deciphering mollusc shell production: the roles of genetic mechanisms through to ecology, aquaculture and biomimetics.}, journal = {Biol Rev Camb Philos Soc}, year = {2020}, month = {2020 Jul 31}, abstract = {

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.
In this study, an 11-year monitoring survey of Atlantic salmon smolts (Salmo salar\ ) from the Ourthe River, Belgium, was analysed within a European Special Area of Conservation to improve the understanding of environment-induced spring migration. A logistic model was fitted to forecast smolt migration and to calculate phenological indicators for management, i.e. the onset, end, and duration of migration, while accounting for the influence of photoperiod, water temperature, and hydrological conditions.
The results indicated that the photo-thermal units accumulated by smolts above a 7{\textdegree}C temperature threshold was a relevant proxy to reflect the synergistic effect between temperature and photoperiod on smolt migration. After integrating the effect of river flow pulses, the model accurately explained the inter-annual changes in migration timing (R2\ = 0.95). The model predictions provide decisive management information to identify sensitive periods during which mitigation measures (e.g. hydropower turbine shutdown, river discharge management) should be conducted to promote smolt survival.
The model was used to predict phenological characteristics under future scenarios of climate change. The results suggest a joint effect of hydrological alterations and water warming. Temperature increases of 1{\textendash}4{\textdegree}C were associated with earlier initiation of migration, 6{\textendash}51 days earlier, and spring flood events greatly influenced the duration of the migration period. Accordingly, the combined effects of human-induced modifications of the hydrological regimes and increasing temperatures could result in a mismatch between the smolt and favourable survival conditions in the marine environment.}, issn = {1052-7613}, doi = {10.1002/aqc.3382}, url = {https://onlinelibrary.wiley.com/doi/abs/10.1002/aqc.3382}, author = {Teichert, Nils and Benitez, Jean-Philippe and Dierckx, Arnaud and T{\'e}tard, St{\'e}phane and Oliveira, Eric and Thomas Trancart and Eric Feunteun and Ovidio, Micha{\"e}l} } @article {7534, title = {Dietary taurine improves vision in different age gilthead sea bream (Sparus aurata) larvae potentially contributing to increased prey hunting success and growth}, journal = {Aquaculture}, year = {2020}, month = {Jan-11-2020}, pages = {736129}, issn = {00448486}, doi = {10.1016/j.aquaculture.2020.736129}, url = {https://linkinghub.elsevier.com/retrieve/pii/S0044848620338357}, author = {Gaon, A. and Nixon, O. and Tandler, A. and Falcon, J. and Besseau, L. and Escande, M. and El Sadin, S. and Allon, G. and Koven, W.} } @article {7046, title = {Disentangling the taxonomy of the subfamily Rasborinae (Cypriniformes, Danionidae) in Sundaland using DNA barcodes}, journal = {Scientific Reports}, volume = {10}, year = {2020}, month = {Jan-12-2020}, abstract = {iodiversity 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}, doi = {10.1038/s41598-020-59544-9}, url = {http://www.nature.com/articles/s41598-020-59544-9}, author = {Sholihah, Arni and Delrieu-Trottin, Erwan and Sukmono, Tedjo and Dahruddin, Hadi and Risdawati, Renny and Elvyra, Roza and Wibowo, Arif and Kustiati, Kustiati and Busson, Frederic and Sauri, Sopian and Nurhaman, Ujang and Dounias, Edmond and Zein, Muhamad Syamsul Arifin and Fitriana, Yuli and Utama, Ilham Vemendra and Muchlisin, Zainal Abidin and Agn{\`e}se, Jean-Fran{\c c}ois and Hanner, Robert and Wowor, Daisy and Steinke, Dirk and Philippe Keith and R{\"u}ber, Lukas and Hubert, Nicolas} } @article {8987, title = {Diversity of Light Sensing Molecules and Their Expression During the Embryogenesis of the Cuttlefish (Sepia officinalis)}, journal = {Frontiers in Physiology}, volume = {11}, year = {2020}, pages = {521989}, keywords = {arrestin, cryptochrome, Development, Eye, opsin, Sepia officinalis}, doi = {10.3389/fphys.2020.521989}, url = {https://hal.sorbonne-universite.fr/hal-02989850}, author = {Bonad{\`e}, Morgane and Ogura, Atsushi and Corre, Erwan and Bassaglia, Yann and Laure Bonnaud-Ponticelli} } @article {7111, title = {Effects of a temperature rise on Atlantic salmon, Salmo salar, melatonin and thyroid hormones during smoltification}, journal = {Journal of Comparative Physiology B}, volume = {190}, year = {2020}, month = {09/2020}, pages = {731-748}, type = {ACL}, abstract = {Smoltification prepares juvenile Atlantic salmon (Salmo salar) for downstream migration. Dramatic changes characterize this crucial event in the fish life cycle, including gills{\textquoteright} Na+/K+-ATPase activity (NKA) and plasma hormonal levels. The triggering of smoltification relies on photoperiod and is modulated by temperature. Both provide reliable information, to which fish adapted for thousands of years, that allows deciphering daily and calendar time. Here we studied the impact of different photoperiod (natural, sustained winter solstice) and temperature (natural, ~ +4{\textdegree}C) combinations, on gills{\textquoteright} NKA, plasma free triiodothyronine (T3), thyroxine (T4) and melatonin (MEL; the time-keeping hormone), throughout smoltification. We also studied the impact of temperature history on pineal gland MEL production in vitro. The spring increase in gills{\textquoteright} NKA was less pronounced in smolts kept under sustained winter photoperiod and/or elevated temperature. Plasma thyroid hormones levels displayed day-night variations, which were affected by elevated temperature, either independently from photoperiod (decrease in T3 levels) or under natural photoperiod exclusively (increase in T4 nocturnal levels). Nocturnal MEL secretion was potentiated by the elevated temperature, which also altered MEL profile under sustained winter photoperiod. Temperature also affected pineal MEL production in vitro, a response that depended on previous environmental acclimation of the organ. The results support the view that the salmon pineal is a photoperiod and temperature sensor, highlight the complexity of the interaction of these environmental factors on S. salar endocrine system, and suggest that climate change might compromise salmon{\textquoteright}s time {\textquotedblleft}deciphering{\textquotedblright} and processes such as smoltification, downstream migration and seawater residence.}, keywords = {Atlantic salmon, melatonin, smoltification, Temperature, thyroid hormones}, doi = {10.1007/s00360-020-01304-2}, url = {https://link.springer.com/article/10.1007/s00360-020-01304-2}, author = {Nisembaum, Laura Gabriela and Martin, Patrick and Fuent{\`e}s, Michael and Besseau, Laurence and Magnanou, Elodie and McCormick, Stephen D and Jack Falcon} } @article {7193, title = {Effects of a temperature rise on melatonin and thyroid hormones during smoltification of Atlantic salmon, Salmo salar}, journal = { J Comp Physiol B}, year = {2020}, month = {03 September 202}, type = {Journal Article}, abstract = {Smoltification prepares juvenile Atlantic salmon (Salmo salar) for downstream migration. Dramatic changes characterize this crucial event in the salmon{\textquoteright}s life cycle, including increased gill Na+/K+-ATPase activity (NKA) and plasma hormone levels. The triggering of smoltification relies on photoperiod and is modulated by temperature. Both provide reliable information, to which fish have adapted for thousands of years, that allows deciphering daily and calendar time. Here we studied the impact of different photoperiod (natural, sustained winter solstice) and temperature (natural, ~ + 4{\textdegree} C) combinations, on gill NKA, plasma free triiodothyronine (T3) and thyroxine (T4), and melatonin (MEL; the time-keeping hormone), throughout smoltification. We also studied the impact of temperature history on pineal gland MEL production in vitro. The spring increase in gill NKA was less pronounced in smolts kept under sustained winter photoperiod and/or elevated temperature. Plasma thyroid hormone levels displayed day{\textendash}night variations, which were affected by elevated temperature, either independently from photoperiod (decrease in T3 levels) or under natural photoperiod exclusively (increase in T4 nocturnal levels). Nocturnal MEL secretion was potentiated by the elevated temperature, which also altered the\ MEL profile under sustained winter photoperiod. Temperature also affected pineal MEL production in vitro, a response that depended on previous environmental acclimation of the organ. The results support the view that the salmon pineal is a photoperiod and temperature sensor, highlight the complexity of the interaction of these environmental factors on the endocrine system of S. salar, and indicate that climate change might compromise salmon{\textquoteright}s time {\textquotedblleft}deciphering{\textquotedblright} during smoltification, downstream migration and seawater residence.}, keywords = {Atlantic salmon, melatonin, Temperature, thyroid hormones}, doi = {10.1007/s00360-020-01304-2}, url = {https://link.springer.com/article/10.1007\%2Fs00360-020-01304-2}, author = {Nisembaum, Laura Gabriela and Martin, Patrick and Fuent{\`e}s, M and Besseau, Laurence and Magnanou, Elodie and McCormick, Stephen and Falc{\'o}n, Jack} } @article {7042, title = {Exploring community assembly among Javanese and Balinese freshwater shrimps (Atyidae, Palaemonidae) through DNA barcodes}, journal = {Hydrobiologia}, volume = {847}, year = {2020}, month = {Jan-01-2020}, pages = {647 - 663}, abstract = {Species proliferate through evolutionary mechanisms but coexist through ecological dynamics. As such, it might be expected that mechanisms of speciation and species maintenance jointly influence the settlement of ecological communities, a process called community assembly. Disentangling the relative contribution of evolutionary and ecological dynamics might be a difficult task, particularly so for the tropical biotas due to their extreme diversity and large knowledge gaps. Here, we explore genetic diversity and distribution of 23 freshwater shrimp species of the genera Caridina and Macrobrachium in Sundaland to examine patterns of species co-occurrence based on 1583 observations across 19 sites in Java and Bali islands. DNA-based species delimitation methods applied to 204 cytochrome oxidase I sequences detected 30 operational taxonomic units and a few cases of deep intraspecific divergence. Species co-occurrence and phylogenetic community structure show no departure from expectations under a random distribution of species in landscapes and support a lottery model of community assembly. Species age estimates expand beyond the geological settlement of Sundaland, suggesting that species proliferation and community assembly are driven by mechanisms acting at distinct spatial and temporal scales.}, keywords = {Caridina, Dispersa, Lottery model, Macrobrachium, Phylogenetic community structure, Species delimitation}, issn = {0018-8158}, doi = {10.1007/s10750-019-04127-7}, url = {http://link.springer.com/10.1007/s10750-019-04127-7}, author = {Hernawati, Rena and Nurhaman, Ujang and Busson, Frederic and Suryobroto, Bambang and Hanner, Robert and Philippe Keith and Wowor, Daisy and Hubert, Nicolas} } @article {7533, title = {Exposure to Artificial Light at Night and the Consequences for Flora, Fauna, and Ecosystems}, journal = {Frontiers in Neuroscience}, volume = {14}, year = {2020}, month = {Apr-11-2021}, doi = {10.3389/fnins.2020.602796}, url = {https://www.frontiersin.org/articles/10.3389/fnins.2020.602796/full}, author = {Falc{\'o}n, Jack and Torriglia, Alicia and Attia, Dina and Vi{\'e}not, Fran{\c c}oise and Gronfier, Claude and Behar-Cohen, Francine and Martinsons, Christophe and Hicks, David} } @article {7185, title = {Food sources, digestive efficiency and resource allocation in the sea cucumber Holothuria forskali (Echinodermata: Holothuroidea): Insights from pigments and fatty acids}, journal = {Aquaculture Nutrition}, volume = {26}, year = {2020}, month = {Apr-08-2022}, pages = {1568-1583}, abstract = {Various research projects in Europe and North Africa have recently intended to breed temperate holothurians to alleviate fishing pressure on natural populations. However, to date little is known about the nutritional requirements of East Atlantic and Mediterranean species. In this study, we propose a {\textquotedblleft}natural population{\textquotedblright}-oriented approach to characterize food sources, digestive efficiency and resources allocation based on the composition of pigments and fatty acids (FA) in gut contents and tis- sues (muscles, gonads and digestive tract walls) of wild individuals of the species Holothuria (Panningothuria) forskali (Delle Chiaje, 1823) sampled in Brittany (France). Our study reveals that neither green nor red algae enter the diet of H. forskali in spring and that the only fresh vegetal material found in gut contents is brown algae (very likely diatoms). The high nutritional quality of gut contents however contrasts with the detrital nature of the ingested food sources, suggesting that a trophic up- grading of organic matter occurs before digestion. In addition, unusual FA (i.e. only present in a few groups of living species) such as long-chain monounsaturated FA (especially the FA 23:1ω9) were found in large proportions in muscles and gonad and their effect on sea cucumber fitness needs further investigation.}, keywords = {echinoderms, fatty acids, gut contents, Holothuria forskali, pigments, sea cucumbers}, issn = {1353-5773}, doi = {10.1111/anu.13103}, url = {https://onlinelibrary.wiley.com/doi/abs/10.1111/anu.13103}, author = {Frank David and C{\'e}dric Hubas and Laguerre, Hel{\`e}ne and Badou, Aicha and Herault, Gwen and Bordelet, Th{\'e}o and Ameziane, Nadia} } @article {7385, title = {Functional diversity of microboring Ostreobium algae isolated from corals}, journal = {Environmental Microbiology}, year = {2020}, month = {Dec-10-2020}, abstract = {The filamentous chlorophyte\ Ostreobium\ sp. dominates shallow marine carbonate microboring communities, and is one of the major agents of reef bioerosion. While its large genetic diversity has emerged, its physiology remains little known, with unexplored relationship between genotypes and phenotypes (endolithic\ versus\ free-living growth forms). Here, we isolated nine strains affiliated to two lineages of\ Ostreobium\ (\>8\% sequence divergence of the plastid gene\ rbcL), one of which was assigned to the family Odoaceae, from the fast-growing coral host\ Pocillopora acuta\ Lamarck 1816. Free-living isolates maintained their bioerosive potential, colonizing pre-bleached coral carbonate skeletons. We compared phenotypes, highlighting shifts in pigment and fatty acid compositions, carbon to nitrogen ratios and stable isotope compositions (δ13C and δ15N). Our data show a pattern of higher chlorophyll\ b\ and lower arachidonic acid (20:4ω6) content in endolithic\ versus\ free-living\ Ostreobium. Photosynthetic carbon fixation and nitrate uptake, quantified via 8 h pulse-labeling with\ 13C-bicarbonate and\ 15N-nitrate, showed lower isotopic enrichment in endolithic compared to free-living filaments. Our results highlight the functional plasticity of\ Ostreobium\ phenotypes. The isotope tracer approach opens the way to further study the biogeochemical cycling and trophic ecology of these cryptic algae at coral holobiont and reef scales.}, issn = {1462-2912}, doi = {10.1111/1462-2920.15256}, url = {https://onlinelibrary.wiley.com/doi/10.1111/1462-2920.15256}, author = {Mass{\'e}, Ana{\"\i}s and Tribollet, Aline and Tarik Meziane and Bourguet-Kondracki, Marie-Lise and Y{\'e}pr{\'e}mian, Claude and S{\`e}ve, Charlotte and Thiney, Najet and Longeon, Arlette and Cout{\'e}, Alain and Domart-Coulon, Isabelle} } @article {7279, title = {A functional m6 A-RNA methylation pathway in the oyster Crassostrea gigas assumes epitranscriptomic regulation of lophotrochozoan development}, journal = {The FEBS Journal}, year = {2020}, month = {Jan-09-2020}, issn = {1742-464X}, doi = {10.1111/febs.15500}, url = {https://onlinelibrary.wiley.com/doi/abs/10.1111/febs.15500}, author = {Le Franc, Lorane and Bernay, Beno{\^\i}t and Petton, Bruno and Since, Marc and Pascal Favrel and Guillaume Rivi{\`e}re} } @article {8285, title = {Giuris (Teleostei: Eleotridae) from Indonesia, with description of a new species}, journal = {Cybium}, volume = {44}, year = {2020}, pages = {331-349}, author = {Philippe Keith and Marion Mennesson and Sauri, S and Fr{\'e}d{\'e}ric Busson and Delrieu-Trottin, Erwan and Limmon, G and Sukomono, T and Jiran and Risdawati, Renny and Dahruddin, Hadi and Hubert, Nicolas} } @article {8548, title = {High fidelity of sea turtles to their foraging grounds revealed by satellite tracking and capture-mark-recapture: New insights for the establishment of key marine conservation areas}, journal = {Biological Conservation}, volume = {250}, year = {2020}, month = {Jan-10-2020}, pages = {108742}, issn = {00063207}, doi = {10.1016/j.biocon.2020.108742}, url = {https://linkinghub.elsevier.com/retrieve/pii/S0006320720308004}, author = {Siegwalt, Flora and Benhamou, Simon and Girondot, Marc and Jeantet, Lor{\`e}ne and Martin, Jordan and Bonola, Marc and Lelong, Pierre and Grand, Cl{\'e}ment and Chambault, Philippine and Benhalilou, Abdelwahab and Murgale, C{\'e}line and Maillet, Thomas and Andreani, Lucas and Campistron, Guilhem and Jacaria, Fran{\c c}ois and Hielard, Ga{\"e}lle and Arqu{\'e}, Alexandre and Etienne, Denis and Gresser, Julie and R{\'e}gis, Sidney and Lecerf, Nicolas and Frouin, C{\'e}dric and Lefebvre, Fabien and Aubert, Nathalie and Vedie, Fabien and Barnerias, Cyrille and Thieulle, Laurent and Guimera, Christelle and Bouaziz, Myriam and Pinson, Adrien and Flora, Fr{\'e}d{\'e}ric and George, Francis and Eggenspieler, Joffrey and Woignier, Thierry and All{\'e}nou, Jean-Pierre and Louis-Jean, Laurent and Chanteur, B{\'e}n{\'e}dicte and B{\'e}ranger, Christelle and Crillon, Jessica and Brador, Aude and Habold, Caroline and Le Maho, Yvon and Robin, Jean-Patrice and Chevallier, Damien} } @article {6900, title = {Histamine and histidine decarboxylase in the olfactory system and brain of the common cuttlefish Sepia officinalis (Linnaeus, 1758)}, journal = {Journal of Comparative Neurology}, volume = {528}, year = {2020}, month = {Feb-05-2020}, pages = {1095 - 1112}, issn = {0021-9967}, doi = {10.1002/cne.v528.710.1002/cne.24809}, url = {https://onlinelibrary.wiley.com/toc/10969861/528/7}, author = {Scaros, Alexia T. and Aude Andouche and S{\'e}bastien Baratte and Croll, Roger P.} } @article {7105, title = {How good is the evidence that light at night can affect human health?}, journal = {Graefe{\textquoteright}s Archive for Clinical and Experimental Ophthalmology}, volume = {258}, year = {2020}, month = {Jan-02-2020}, pages = {231 - 232}, issn = {0721-832X}, doi = {10.1007/s00417-019-04579-6}, url = {http://link.springer.com/10.1007/s00417-019-04579-6}, author = {Hicks, David and Attia, Dina and Behar-Cohen, Francine and Carr{\'e}, Samuel and Enouf, Olivier and Jack Falcon and Gronfier, Claude and Martinsons, Christophe and Metlaine, Arnaud and Tahkamo, Leena and Torriglia, Alicia and Fran{\c c}oiseVi{\'e}not} } @article {7131, title = {Identification and stable expression of vitellogenin receptor through vitellogenesis in the European eel}, journal = {animal}, volume = {14}, year = {2020}, month = {Jan-06-2020}, pages = {1213 - 1222}, issn = {1751-7311}, doi = {10.1017/S1751731119003355}, url = {https://www.cambridge.org/core/product/identifier/S1751731119003355/type/journal_article}, author = {Morini, M. and Lafont, A. G. and Maugars, G. and Baloche, S. and Sylvie Dufour and Asturiano, J. F. and P{\'e}rez, L.} } @article {7035, title = {Identification and structural characterization of the factors involved in vitellogenesis and its regulation in the African Osteoglossiforme of aquacultural interest Heterotis niloticus (Cuvier, 1829)}, journal = {General and Comparative Endocrinology}, year = {2020}, month = {Jan-06-2020}, pages = {113532}, issn = {00166480}, doi = {10.1016/j.ygcen.2020.113532}, url = {https://linkinghub.elsevier.com/retrieve/pii/S0016648020302859}, author = {Daniel Koua, N{\textquoteright}Zi and Jesus Nu{\~n}ez-Rodriguez and Orjuela, Julie and C{\'e}line Zatylny-Gaudin and Dubos, Marie-Pierre and Bernay, Beno{\^\i}t and Pontin, Julien and Corre, Erwan and Henry, Jo{\"e}l} } @article {7656, title = {In-Depth In Silico Search for Cuttlefish Antimicrobial Peptides Following Bacterial Challenge of Haemocytes}, journal = {Marine Drugs}, volume = {18}, year = {2020}, month = {Jan-09-2020}, pages = {439}, doi = {10.3390/md18090439}, url = {https://www.mdpi.com/1660-3397/18/9/439}, author = {Benoist, Louis and Houyvet, Baptiste and Henry, Jo{\"e}l and Corre, Erwan and Zanuttini, Bruno and C{\'e}line Zatylny-Gaudin} } @article {6916, title = {An integrated investigation of the effects of ocean acidification on adult abalone (Haliotis tuberculata)}, journal = {ICES Journal of Marine Science}, volume = {77}, year = {2020}, month = {Sep-01-2020}, pages = {757 - 772}, type = {research article}, abstract = {Ocean acidification (OA) and its subsequent changes in seawater carbonate chemistry are threatening the survival of calcifying organisms.Due to their use of calcium carbonate to build their shells, marine molluscs are particularly vulnerable. This study investigated the effect of CO2-induced OA on adult European abalone (Haliotis tuberculata) using a multi-parameter approach. Biological (survival, growth), physiological (pHT of haemolymph, phagocytosis, metabolism, gene expression), and structural responses (shell strength, nano-indentation measurements,Scanning electron microscopy imaging of microstructure) were evaluated throughout a 5-month exposure to ambient (8.0) and low (7.7) pH conditions. During the first 2 months, the haemolymph pH was reduced, indicating that abalone do not compensate for the pH decrease of their internal fluid. Overall metabolism and immune status were not affected, suggesting that abalone maintain their vital functions when facing OA. However, after 4 months of exposure, adverse effects on shell growth, calcification, microstructure, and resistance were highlighted, whereas the haemolymph pH was compensated. Significant reduction in shell mechanical properties was revealed at pH 7.7, suggesting that OA altered the biomineral architecture leading to a more fragile shell. It is concluded that under lower pH, abalone metabolism is maintained at a cost to growth and shell integrity. This may impact both abalone ecology and aquaculture.}, keywords = {Abalone, calcification, Gene Expression, Growth, mechanical properties, Ocean acidification, Physiology, shell microstructure}, issn = {1054-3139}, doi = {10.1093/icesjms/fsz257}, url = {https://academic.oup.com/icesjms/article/77/2/757/5699268}, author = {Avignon, Sol{\`e}ne and St{\'e}phanie Auzoux-Bordenave and Martin, Sophie and Dubois, Philippe and Badou, Aicha and Coheleach, Manon and Richard, Nicolas and Di Giglio, Sarah and Malet, Lo{\"\i}c and Servili, Arianna and Gaillard, Fanny and Huchette, Sylvain and Roussel, Sabine} } @article {8550, title = {A Lean and Performant Hierarchical Model for Human Activity Recognition Using Body-Mounted Sensors}, journal = {Sensors}, volume = {20}, year = {2020}, month = {Jan-06-2020}, pages = {3090}, doi = {10.3390/s20113090}, url = {https://www.mdpi.com/1424-8220/20/11/3090}, author = {Debache, Isaac and Jeantet, Lor{\`e}ne and Chevallier, Damien and Bergouignan, Audrey and Sueur, C{\'e}dric} } @article {6883, title = {Lipidome variations of deep-sea vent shrimps according to acclimation pressure: A homeoviscous response?}, journal = {Deep Sea Research Part I: Oceanographic Research Papers}, year = {2020}, month = {Jan-04-2020}, pages = {103285}, issn = {09670637}, doi = {10.1016/j.dsr.2020.103285}, url = {https://linkinghub.elsevier.com/retrieve/pii/S096706372030073X}, author = {Bruce Shillito and Desurmont, C. and Barthelemy, D. and Farabos, D. and Despr{\'e}s, G. and Juliette Ravaux and Zbinden, M. and Lamazi{\`e}re, A.} } @article {7173, title = {Matching zooplankton abundance and environment in the South Indian Ocean and Southern Ocean}, journal = {Deep Sea Research Part I: Oceanographic Research Papers}, year = {2020}, month = {Jan-08-2020}, pages = {103347}, issn = {09670637}, doi = {10.1016/j.dsr.2020.103347}, url = {https://linkinghub.elsevier.com/retrieve/pii/S0967063720301345}, author = {Godet, Claire and Robuchon, Marine and Leroy, Boris and Cott{\'e}, C{\'e}dric and Baudena, Alberto and Da Silva, Oph{\'e}lie and Fabri-Ruiz, Salom{\'e} and Lo Monaco, Claire and Sergi, Sara and Koubbi, Philippe} } @article {7020, title = {The mathematical influence on global patterns of biodiversity}, journal = {Ecology and Evolution}, volume = {10}, year = {2020}, pages = {6494-6511}, abstract = {Although we understand how species evolve, we do not appreciate how this process has filled an empty world to create current patterns of biodiversity. Here, we conduct a numerical experiment to determine why biodiversity varies spatially on our planet. We show that spatial patterns of biodiversity are mathematically constrained and arise from the interaction between the species{\textquoteright} ecological niches and environmental variability that propagates to the community level. Our results allow us to explain key biological observations such as (a) latitudinal biodiversity gradients (LBGs) and especially why oceanic LBGs primarily peak at midlatitudes while terrestrial LBGs generally exhibit a maximum at the equator, (b) the greater biodiversity on land even though life first evolved in the sea, (c) the greater species richness at the seabed than at the sea surface, and (d) the higher neritic (i.e., species occurring in areas with a bathymetry lower than 200\ m) than oceanic (i.e., species occurring in areas with a bathymetry higher than 200\ m) biodiversity. Our results suggest that a mathematical constraint originating from a fundamental ecological interaction, that is, the niche{\textendash}environment interaction, fixes the number of species that can establish regionally by speciation or migration.}, keywords = {Biodiversity, ecological niche, large-scale patterns in species richness, models, theory}, doi = {10.1002/ece3.6385}, url = {https://onlinelibrary.wiley.com/doi/abs/10.1002/ece3.6385}, author = {Gr{\'e}gory Beaugrand and Kirby, Richard R and Goberville, Eric} } @article {6482, title = {Modelling European small pelagic fish distribution: Methodological insights}, journal = {Ecological Modelling}, volume = {416}, year = {2020}, month = {Jan-01-2020}, pages = {108902}, abstract = {The distribution of marine organisms is strongly influenced by climatic gradients worldwide. The ecological niche (sensu Hutchinson) of a species, i.e. the combination of environmental tolerances and resources required by an organism, interacts with the environment to determine its geographical range. This duality between niche and distribution allows climate change biologists to model potential species{\textquoteright} distributions from past to future conditions. While species distribution models (SDMs) have been intensively used over the last years, no consensual framework to parametrise, calibrate and evaluate models has emerged. Here, to model the contemporary (1990{\textendash}2017) spatial distribution of seven highly harvested European small pelagic fish species, we implemented a comprehensive and replicable numerical procedure based on 8 SDMs (7 from the Biomod2 framework plus the NPPEN model). This procedure considers critical issues in species distribution modelling such as sampling bias, pseudo-absence selection, model evaluation and uncertainty quantification respectively through (i) an environmental filtration of observation data, (ii) a convex hull based pseudo-absence selection, (iii) a multi-criteria evaluation of model outputs and (iv) an ensemble modelling approach. By mitigating environmental sampling bias in observation data and by identifying the most ecologically relevant predictors, our framework helps to improve the modelling of fish species{\textquoteright} environmental suitability. Not only average temperature, but also temperature variability appears as major factors driving small pelagic fish distribution, and areas of highest environmental suitability were found along the north-western Mediterranean coasts, the Bay of Biscay and the North Sea. We demonstrate in this study that the use of appropriate data pre-processing techniques, an often-overlooked step in modelling, increase model predictive performance, strengthening our confidence in the reliability of predictions.}, keywords = {Convex hull, Pseudo-absence, Sampling bias, Small pelagic fish, species distribution models, uncertainty}, issn = {03043800}, doi = {10.1016/j.ecolmodel.2019.108902}, url = {https://linkinghub.elsevier.com/retrieve/pii/S0304380019304107}, author = {Schickele, Alexandre and Leroy, Boris and Gr{\'e}gory Beaugrand and Goberville, Eric and Hattab, Tarek and Patrice Francour and Virginie Raybaud} } @article {8523, title = {Needlepoint non-destructive internal sampling for precious fish specimens}, journal = {Cybium}, volume = {44}, year = {2020}, pages = {73-79}, abstract = {In this paper, we describe a new non-damaging internal tissue sampling method for preserved collection of teleostean specimens. It was tested on freshwater pipefish, as external tissue sampling is made difficult by the lack of scales, the lack of pelvic fins, the atrophy of pectoral and anal fins. The internal tissue is detached by scratching the inside of the urogenital papilla with a fine metallic probe. 95\% ethanol is injected using a fine syringe, and then sucked back into the syringe with the detached tissue. this protocol has been tested on 6 specimens from 5 species of pipefish. For each specimen DNA was extracted from the internal tissue, a caudal fin clip, and when possible, eggs sampled from the male brooding pouch. Partial Cytochrome c oxydase I (COI) was amplified and sequenced. For each specimen, the 582 bp long sequences obtained from the internal tissue, the fin clip and the eggs were identical. These results validate this non-damaging internal tissue sampling method, which leaves absolutely no trace on the specimen. Although this method was developed on pipefish, it could be applied to other teleostean, even precious museum collection specimens such as type specimens. the aim of this paper, using the example of freshwater pipefish, is to present this method, which aims at preserving precious collection specimens while still valorising them.}, doi = {https://doi.org/10.26028/cybium/2020-441-010}, author = {Vincent Ha{\"y} and Marion Mennesson and Agn{\`e}s Dettai and C{\'e}line Bonillo and Philippe Keith and Clara Lord} } @article {7573, title = {No way home: collapse in northern gannet survival rates point to critical marine ecosystem perturbation}, journal = {Marine Biology}, volume = {167}, year = {2020}, month = {Jan-12-2020}, issn = {0025-3162}, doi = {10.1007/s00227-020-03801-y}, url = {http://link.springer.com/10.1007/s00227-020-03801-y}, author = {Gr{\'e}millet, David and Clara P{\'e}ron and Lescro{\"e}l, Am{\'e}lie and Fort, J{\'e}r{\^o}me and Patrick, Samantha C. and Besnard, Aur{\'e}lien and Provost, Pascal} } @article {8288, title = {Objective record of Epinephelus marginatus (Serranidae: Epinephelinae) from the Sultanate of Oman (Arabian Sea)}, journal = {Cybium}, volume = {44}, year = {2020}, pages = {251-254}, author = {Bearez, Philippe and Marion Mennesson and Pell{\'e}, E} } @article {6915, title = {Ocean acidification impacts growth and shell mineralization in juvenile abalone (Haliotis tuberculata)}, journal = {Marine Biology}, volume = {167}, year = {2020}, month = {Jan-01-2020}, type = {research article}, abstract = {Ocean acidification is a major global driver that leads to substantial changes in seawater carbonate chemistry, with potentially serious consequences for calcifying organisms. Marine shelled molluscs are ecologically and economically important species, providing essential ecosystem services and food sources for other species. Due to their physiological characteristics and their use of calcium carbonate (CaCO3) to build their shells, molluscs are among the most vulnerable invertebrates with regard to ocean acidification, with early developmental stages being particularly sensitive to pH changes. This study investigated the effects of CO2-induced ocean acidification on juveniles of the European abalone Haliotis tuberculata, a commercially important gastropod species. Six-month-old juvenile abalones were cultured for 3 months at four pH levels (8.1, 7.8, 7.7, 7.6) representing current and predicted near-future conditions. Survival, growth, shell microstructure, thickness and strength were compared across the four pH treatments. After three months of exposure, significant reductions in juvenile shell length, weight and strength were revealed in the pH 7.6 treatment. SEM observations also revealed modified texture and porosity of the shell mineral layers as well as alterations of the periostracum at pH 7.6 which was the only treatment with an aragonite saturation state below 1. It is concluded that low pH induces both general effects on growth mechanisms and corrosion of deposited shell in H. tuberculata.
This will impact both the ecological role of this species and the costs of its aquaculture.}, keywords = {Abalone, Growth, Juvenile, Ocean acidification, Shell mineralization}, issn = {0025-3162}, doi = {10.1007/s00227-019-3623-0}, url = {http://link.springer.com/10.1007/s00227-019-3623-0}, author = {St{\'e}phanie Auzoux-Bordenave and Wessel, Nathalie and Badou, Aicha and Martin, Sophie and M{\textquoteright}Zoudi, Saloua and Avignon, Sol{\`e}ne and Roussel, Sabine and Huchette, Sylvain and Dubois, Philippe} } @article {7655, title = {-Omic Analysis of the Sepia officinalis White Body: New Insights into Multifunctionality and Haematopoiesis Regulation}, journal = {Journal of Proteome Research}, volume = {19}, year = {2020}, month = {Jul-08-2020}, pages = {3072 - 3087}, issn = {1535-3893}, doi = {10.1021/acs.jproteome.0c0010010.1021/acs.jproteome.0c00100.s00110.1021/acs.jproteome.0c00100.s002}, url = {https://pubs.acs.org/doi/10.1021/acs.jproteome.0c00100}, author = {Benoist, Louis and Corre, Erwan and Bernay, Beno{\^\i}t and Henry, Jo{\"e}l and C{\'e}line Zatylny-Gaudin} } @article {8141, title = {An open-source framework to model present and future marine species distributions at local scale}, journal = {Ecological Informatics}, volume = {59}, year = {2020}, month = {Jan-09-2020}, pages = {101130}, issn = {15749541}, doi = {10.1016/j.ecoinf.2020.101130}, url = {https://linkinghub.elsevier.com/retrieve/pii/S1574954120300807}, author = {Ben Rais Lasram, Frida and Hattab, Tarek and Nogues, Quentin and Beaugrand, Gr{\'e}gory and Dauvin, Jean Claude and Halouani, Ghassen and Le Loc{\textquoteright}h, Francois and Nathalie Niquil and Leroy, Boris} } @article {7092, title = {An open-source framework to model present and future marine species distributions at local scale}, journal = {Ecological Informatics}, volume = {59}, year = {2020}, abstract = {Species Distribution Models (SDMs) are useful tools to project potential future species distributions under climate change scenarios. Despite the ability to run SDMs in recent and reliable tools, there are some misuses and proxies that are widely practiced and rarely addressed together, particularly when dealing with marine species. In this paper, we propose an open-source framework that includes (i) a procedure for homogenizing occurrence data to reduce the influence of sampling bias, (ii) a procedure for generating pseudo-absences, (iii) a hierarchical-filter approach, (iv) full incorporation of the third dimension by considering climatic variables at multiple depths and (v) building of maps that predict current and potential future ranges of marine species. This framework is available for non-modeller ecologists interested in investigating future species ranges with a user-friendly script. We investigated the robustness of the framework by applying it to marine species of the Eastern English Channel. Projections were built for the middle and the end of this century under RCP2.6 and RCP8.5 scenarios. {\textcopyright} 2020 Elsevier B.V.}, keywords = {Climate Change, ecological modeling, English Channel, filter, future prospect, hierarchical system, marine ecosystem, sampling, scenario analysis, species diversity}, issn = {15749541}, doi = {10.1016/j.ecoinf.2020.101130}, url = {https://www.scopus.com/inward/record.uri?eid=2-s2.0-85086876945\&doi=10.1016\%2fj.ecoinf.2020.101130\&partnerID=40\&md5=0a5c308eac10a69880027d5de2e6fe98}, author = {Ben Rais Lasram, F. and Hattab, T. and Nogues, Quentin and Beaugrand, G. and Dauvin, J.C. and Halouani, G. and Le Loc{\textquoteright}h, F. and Nathalie Niquil and Leroy, B.} } @article {8449, title = {Passive rewilding may (also) restore phylogenetically rich and functionally resilient forest plant communities.}, journal = {Ecol Appl}, volume = {30}, year = {2020}, month = {2020 01}, pages = {e02007}, abstract = {

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 {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 {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 {6917, title = {Sex determination in the oyster Crassostrea gigas - A large longitudinal study of population sex ratios and individual sex changes}, journal = {Aquaculture}, volume = {515}, year = {2020}, pages = {734555}, keywords = {Crassostrea gigas, Hermaphroditism, Oysters, Sex change, sex-ratio}, doi = {10.1016/j.aquaculture.2019.734555}, url = {https://hal.archives-ouvertes.fr/hal-02559678}, author = {Broquard, Coralie and Anne-Sophie Martinez and Maurouard, Elise and Lamy, Jean-Baptiste and Degremont, Lionel} } @article {7187, title = {Shells of the bivalve Astarte moerchi give new evidence of a strong pelagic-benthic coupling shift occurring since the late 1970s in the North Water polynya}, journal = {Philosophical Transactions of the Royal Society A: Mathematical, Physical and Engineering Sciences}, volume = {378}, year = {2020}, month = {Feb-10-2020}, pages = {20190353}, abstract = {Climate changes in the Arctic may weaken the currently tight pelagic-benthic coupling. In response to decreasing sea ice cover, arctic marine systems are expected to shift from a {\textquoteleft}sea-ice algae{\textendash}benthos{\textquoteright} to a {\textquoteleft}phytoplankton-zooplankton{\textquoteright} dominance. We used mollusc shells as bioarchives and fatty acid trophic markers to estimate the effects of the reduction of sea ice cover on the food exported to the seafloor. Bathyal bivalve\ Astarte moerchi\ living at 600 m depth in northern Baffin Bay reveals a clear shift in growth variations and Ba/Ca ratios since the late 1970s, which we relate to a change in food availability. Tissue fatty acid compositions show that this species feeds mainly on microalgae exported from the euphotic zone to the seabed. We, therefore, suggest that changes in pelagic-benthic coupling are likely due either to local changes in sea ice dynamics, mediated through bottom-up regulation exerted by sea ice on phytoplankton production, or to a mismatch between phytoplankton bloom and zooplankton grazing due to phenological change. Both possibilities allow a more regular and increased transfer of food to the seabed.

This article is part of the theme issue {\textquoteleft}The changing Arctic Ocean: consequences for biological communities, biogeochemical processes and ecosystem functioning{\textquoteright}.}, issn = {1364-503X}, doi = {10.1098/rsta.2019.0353}, url = {https://royalsocietypublishing.org/doi/10.1098/rsta.2019.0353}, author = {Fr{\'e}d{\'e}ric Olivier and Gaillard, Blandine and Thebault, Julien and Tarik Meziane and Tremblay, Rejean and Dumont, Dany and B{\'e}langer, Simon and Gosselin, Michel and Jolivet, Aur{\'e}lie and Chauvaud, Laurent and Martel, Andr{\'e} L. and Rysgaard, S{\o}ren and Olivier, Anne-H{\'e}l{\`e}ne and Pettr{\'e}, Julien and Mars, J{\'e}r{\^o}me and Gerber, Silvain and Archambault, Philippe} } @article {Niquil202020190326, title = {Shifting levels of ecological network{\textquoteright}s analysis reveals different system properties}, journal = {Philosophical transactions of the Royal Society of London. Series B, Biological sciences}, volume = {375}, number = {1796}, year = {2020}, note = {cited By 0}, pages = {20190326}, publisher = {NLM (Medline)}, abstract = {Network analyses applied to models of complex systems generally contain at least three levels of analyses. Whole-network metrics summarize general organizational features (properties or relationships) of the entire network, while node-level metrics summarize similar organization features but consider individual nodes. The network- and node-level metrics build upon the primary pairwise relationships in the model. As with many analyses, sometimes there are interesting differences at one level that disappear in the summary at another level of analysis. We illustrate this phenomenon with ecosystem network models, where nodes are trophic compartments and pairwise relationships are flows of organic carbon, such as when a predator eats a prey. For this demonstration, we analysed a time-series of 16 models of a lake planktonic food web that describes carbon exchanges within an autumn cyanobacteria bloom and compared the ecological conclusions drawn from the three levels of analysis based on inter-time-step comparisons. A general pattern in our analyses was that the closer the levels are in hierarchy (node versus network, or flow versus node level), the more they tend to align in their conclusions. Our analyses suggest that selecting the appropriate level of analysis, and above all regularly using multiple levels, may be a critical analytical decision. This article is part of the theme issue {\textquoteright}Unifying the essential concepts of biological networks: biological insights and philosophical foundations{\textquoteright}.}, issn = {14712970}, doi = {10.1098/rstb.2019.0326}, url = {https://royalsocietypublishing.org/doi/abs/10.1098/rstb.2019.0326}, author = {Nathalie Niquil and Haraldsson, M. and Sime-Ngando, T. and Huneman, P. and Borrett, S.R.} } @article {8130, title = {Solomon{\textquoteright}s Gold Mine: Description or redescription of 24 species of Caridina (Crustacea: Decapoda: Atyidae) freshwater shrimps from the Solomon Islands, including 11 new species.}, journal = {European Journal of Taxonomy}, year = {2020}, month = {Apr-08-2020}, doi = {10.5852/ejt.2020.696}, url = {https://europeanjournaloftaxonomy.eu/index.php/ejt/article/view/1051}, author = {de Mazancourt, Valentin and Boseto, David and Marquet, G{\'e}rard and Philippe Keith} } @article {7000, title = {Sources of organic matter in an atypical phytoplankton rich coral ecosystem, Marquesas Islands: composition and properties}, journal = {Marine Biology}, volume = {167}, year = {2020}, month = {Jan-07-2020}, abstract = {The purpose of this work is to characterize several potential sources of organic matter (OM) in the Marquesas Islands, French Polynesia, and to understand how these sources contribute to OM pools. Stable isotope (δ13C and δ15N) and fatty acid (FA) compositions of OM potential sources (algal turf, benthic macroalgae, detrital terrestrial plants (DTP), phytoplankton) and OM pools (sediment (SOM) and particulate organic matter (POM)) were studied in coastal areas in Nuku Hiva Island. Isotope compositions of marine POM (δ13C = -22.5 {\textpm} 0.8 {\textperthousand}; δ15N = 12.1 {\textpm} 1.1 {\textperthousand}) and SOM (δ13C = -19.1 {\textpm} 0.9 {\textperthousand}; δ15N = 14.4 {\textpm} 0.5 {\textperthousand}) highlighted that OM sources at the base of the local food web had unusually high δ15N values. Potential FA markers of diatoms and/or cyanobacteria (20:5ω3 and 16:1ω7) were found in these two OM pools. In addition, coastal SOM also displayed FA markers of bacteria, macroalgae and terrestrial plants. Formarine POM, potential macroalgae FA markers were recorded (18:2ω6 and 16:2ω4). The stable isotope mixing model highlighted the major contribution of phyto-plankton to the coastal SOM (62\%), followed by benthic macroalgae (32\%), whereas marine POM was mainly composed of a mixture of algal turf and phytoplankton in similar averaged proportions (38\%) but presenting wide variations. Our results as a whole strongly suggest that pelagic-benthic coupled processes drive the characteristics and properties of OM sources.}, issn = {0025-3162}, doi = {10.1007/s00227-020-03703-z}, url = {http://link.springer.com/10.1007/s00227-020-03703-z}, author = {Fey, P. and Parravicini, V. and Lebreton, B. and Tarik Meziane and Ren{\'e} Galzin and Zubia, M. and Bӑnaru, D. and Letourneur, Y.} } @article {6723, title = {Stable species boundaries despite ten million years of hybridization in tropical eels}, journal = {Nature Communications}, volume = {11}, year = {2020}, month = {Jan-12-2020}, doi = {10.1038/s41467-020-15099-x}, url = {https://www.nature.com/articles/s41467-020-15099-x}, author = {Barth, Julia M. I. and Gubili, Chrysoula and Matschiner, Michael and T{\o}rresen, Ole K. and Watanabe, Shun and Egger, Bernd and Han, Yu-San and Eric Feunteun and Sommaruga, Ruben and Jehle, Robert and Robert Schabetsberger} } @article {7774, title = {Stable species boundaries despite ten million years of hybridization in tropical eels}, journal = {Nature Communications}, volume = {11}, year = {2020}, month = {Jan-12-2020}, doi = {10.1038/s41467-020-15099-x}, url = {http://www.nature.com/articles/s41467-020-15099-x}, author = {Barth, Julia M. I. and Gubili, Chrysoula and Matschiner, Michael and T{\o}rresen, Ole K. and Watanabe, Shun and Egger, Bernd and Han, Yu-San and Eric Feunteun and Sommaruga, Ruben and Jehle, Robert and Schabetsberger, Robert} } @article {7988, title = {Stock assessment and management of cephalopods: advances and challenges for short-lived fishery resourcesAbstract}, journal = {ICES Journal of Marine Science}, year = {2020}, month = {Mar-05-2020}, issn = {1054-3139}, doi = {10.1093/icesjms/fsaa038}, url = {https://academic.oup.com/icesjms/advance-article/doi/10.1093/icesjms/fsaa038/5828442}, author = {Arkhipkin, Alexander I and Hendrickson, Lisa C and Pay{\'a}, Ignacio and Pierce, Graham J and Roa-Ureta, Ruben H and Jean-Paul Robin and Winter, Andreas}, editor = {Browman, Howard} } @article {8553, title = {Survival and breeding interval of an endangered marine vertebrate, the leatherback turtle Dermochelys coriacea, in French Guiana}, journal = {Endangered Species Research}, volume = {41}, year = {2020}, month = {Jan-02-2021}, pages = {153 - 165}, issn = {1863-5407}, doi = {10.3354/esr01013}, url = {https://www.int-res.com/abstracts/esr/v41/p153-165/}, author = {Chevallier, Damien and Girondot, M and Berzins, R and Chevalier, J and de Thoisy, B and Fretey, J and Kelle, L and Lebreton, JD} } @inbook {6847, title = {Temperature and salinity changes in coastal waters of Western Europe: variability, trends and extreme events}, booktitle = {Evolution of Marine Coastal Ecosystems under the Pressure of Global Changes}, year = {2020}, publisher = {Springer Nature }, organization = {Springer Nature }, edition = {H.-J. Ceccaldi et al.}, chapter = {15}, address = {Switzerland}, abstract = {Coastal marine ecosystems worldwide are not only highly affected by the effects of human activities, but also by the influence of natural climate variability and global climate change. However, it is still a challenge to assess the spatial and temporal scales at which forcings operate and their persistence over time, to determine the vulnerability of coastal ecosystems to climate changes and climate extreme events, and therefore to anticipate the ecological and biological responses of these areas. By investigating these knowledge gaps, our recent studies have shown that the combination of large- and local-scale hydroclimatic influences have induced obvious changes in the physical and chemical characteristics of coastal waters in Western Europe. Because of the complex and non-linear climate-coastal ecosystem relationships, a thorough understanding of the underlying processes is still needed, while extending the spatial and temporal scales of inference. Here, using both high- and low-frequency observations collected from 1998 onwards at the outlet of the Bay of Brest and off Roscoff, we described and documented monthly changes in (1) sea surface temperature, (2) sea surface salinity, (3) river discharges and (4) precipitation patterns. By focusing on the winter period (from December to February), our study revealed that coastal waters of Western Europe are not only significantly connected to large-scale atmospheric conditions and patterns, but also to local-scale drivers such as river discharges. Current strong impacts of regional climate extreme events worldwide led us to devote more attention on understanding the possible impacts of such episodes on the long-term variability and trends of these ecosystems in coastal waters of Western Europe. The signature of extreme events in the Bay of Brest is described and the numerical simulations allowed us to highlight the link between local rivers and changes in salinity.}, keywords = {Climate variability, Coastal ecosystems, Extreme events, High- and low-frequency in situ sampling, Large and local forcings}, doi = {10.1007/978-3-030-43484-7_15}, url = {https://link.springer.com/chapter/10.1007\%2F978-3-030-43484-7_15}, author = {Charria, Guillaume and Rimmelin-Maury, Peggy and Goberville, Eric and St{\'e}phane L{\textquoteright}Helguen and Barrier, Nicolas and David-Beausire, Christine and Cariou, Thierry and Emilie Grossteffan and R{\'e}p{\'e}caud, Michel and Qu{\'e}m{\'e}ner, Loic and Theetten, S{\'e}bastien and Paul Tr{\'e}guer} } @article {7026, title = {Towards transferability in fish migration models: A generic operational tool for predicting silver eel migration in rivers}, journal = {Science of The Total Environment}, volume = {739}, year = {2020}, month = {Jan-10-2020}, pages = {140069}, abstract = {In the global context of river fragmentation, predicting fish migration is urgent to implement management actions aimed at protecting and promoting the free movement of diadromous fish. However, large-scale applicability of conservation measures requires transferable models that enable prediction of migration even in data-poor regions. Here, we surveyed 12 contrasted European river sites to predict the activity peaks of silver eels (Anguilla anguilla) during river migration towards spawning areas through an ensemble modelling approach. Site-specific Boosted Regression Tree (BRT) models were adjusted using standardized hydrological variables to predict migration probability, which were aggregated in consensus predictions. Results of independent cross-validations demonstrated that silver eel migration runs were accurately predicted in response to changes in river discharge. Transferability and predictive performance were improved by considering catchment-size dissimilarity between river sites (85 to 109 930 km{\texttwosuperior}) when combining the site-specific predictions. Nevertheless, we provided two examples for which the effects of human actions on flow conditions were so high that they prevented reliable predictions of migration runs. Further contributions should thus take advantage of the flexibility of our approach for updating model collection with new sites to extend the predictive performance under a larger range of ecological conditions. Our transferable hydrological-based modelling framework offers an opportunity to implement large-scale management strategies for eel conservation, even in rivers where eel monitoring data lack. The BRT models and prediction functions were compiled in an R package named {\textquoteleft}silvRpeak{\textquoteright} to facilitate operational implementation by end-user managers, which can determine when mitigation measures should be implemented to improve river continuity (e.g. turbine shutdown and sluice gate opening) and balance their economic activity towards eel conservation. The only input required is discharge records that are widely available across European hydrological stations.}, keywords = {eel runs prediction, ensemble modelling, European eel management, fish migration, model transferability, river obstacle}, issn = {00489697}, doi = {10.1016/j.scitotenv.2020.140069}, url = {https://linkinghub.elsevier.com/retrieve/pii/S0048969720335890}, author = {Teichert, Nils and T{\'e}tard, St{\'e}phane and Thomas Trancart and de Oliveira, Eric and Anthony Acou and Alexandre Carpentier and Bourillon, Bastien and Eric Feunteun} } @article {6709, title = {Transfer of elements released by aluminum galvanic anodes in a marine sedimentary compartment after long-term monitoring in harbor and laboratory environments}, journal = {Chemosphere}, volume = {239}, year = {2020}, pages = {124720}, abstract = {Cathodic protection by galvanic anodes (GACP) is often used to protect immerged metallic structures in harbor environments, especially GACP employing aluminum-based anodes. To follow a previous study that was performed in a laboratory on Al-anode, two monitoring periods were performed in parallel, one in an in situ environment (in the Port of Calais) for 42 months and the other in a laboratory for 18 months, to evaluate the transfer of metals constituting the Al-anode towards the sedimentary compartment. During each monitoring, two conditions of agitation of water (weak and strong) were compared, and different factors of sediment quality were used to assess the enrichment and potential toxic effects of these released metals. The results showed that the dissolution of Al-anode-induced a greater Zn enrichment of sediment than an Al enrichment. This is in contrast with the abundance of these elements present in the composition of the anode and suggested a potential toxic effect for marine organisms with regards to the discovered Zn level, especially in confined areas.}, keywords = {Aluminum, galvanic anode, Harbor, Marine sediments, Quality index, Zinc}, issn = {0045-6535}, doi = {10.1016/j.chemosphere.2019.124720}, url = {http://www.sciencedirect.com/science/article/pii/S0045653519319502}, author = {Christelle Caplat and Olivier Basuyaux and Pineau, S and Deborde, Jonathan and Grolleau, AM and S. Leglatin and Mahaut, Marie-Laure} } @article {7272, title = {Unravelling the changes during induced vitellogenesis in female European eel through RNA-Seq: What happens to the liver?}, journal = {PLOS ONE}, volume = {15}, year = {2020}, month = {Jan-08-2021}, pages = {e0236438}, doi = {10.1371/journal.pone.023643810}, url = {https://dx.plos.org/10.1371/journal.pone.0236438}, author = {Bertolini, Francesca and J{\o}rgensen, Michelle Grace Pinto and Henkel, Christiaan and Sylvie Dufour and Tomkiewicz, Jonna} } @proceedings {8401, title = {Upstream as a sanctuary for the French populations of catalan chub Squalius laietanus (Teleostei , Leuciscidae) threatened by the allochtonous European chub S. cephalus}, year = {2020}, abstract = {In the Pyr{\'e}n{\'e}es-Orientales department (France), three Mediterranean catchments (Agly, T{\^e}t and Tech) are subject to high variations in water levels during Cevenol-type events. In order to fight against the effects of these floods, dams and wiers were built along these rivers with consequences on aquatic fauna, eliminating the ecological continuum. The chub Squalius is a potamodromous fish occurring from the salmonids stream to close to the estuaries. Moreover, whereas the European chub S. cephalus was thought to be represented by a single species in France, another species, endemic to Catalonia, was described: the Catalan chub S. laietanus. However, S. cephalus was also introduced in the catchments of this area with possibly threats of hybridization. Samples from eight populations of Squalius spp coming from these rivers were genetically identified using a DNA Barcoding approach with a mitochondrial (COI) and a nuclear (RAG1) markers. Our results confirm the presence of both species in the three drainages as well as their hybridization, threatening S. laietanus by hybridization as in 70\% of Mediterrannean endemic species. There is also a downstream-upstream gradient in the presence of S. cephalus in the T{\^e}t and Tech catchments. S. laietanus seems less impacted by S. cephalus in headwaters than downstream. One of the explanations would be the numerous weirs between these areas. If the negative impacts of the absence of ecological continuum on the ichthyofauna are known and cannot be denied, these weirs might form in this case a barrier against the presence of S. cephalus in headwaters. As a consequence, S. laietanus has been evaluated as EN in the last French UICN Red List published in 2019. While the ecological parameters still need to be examined, our study brings additional information for better suited conservation actions regarding the ecological continuum.}, author = {Rose, Morgane and Dettai, Agn{\`e}s and Lef{\`e}bvre, St{\'e}phane and Blanc, Laurence and Poulet, Nicolas and Baudier, Olivier and Hautecoeur, M{\'e}lyne and Denys, Ga{\"e}l} } @article {7163, title = {Using Modern Conservation Tools for Innovative Management of Coral Reefs: The MANACO ConsortiumVideo_1.MP4}, journal = {Frontiers in Marine Science}, volume = {7}, year = {2020}, month = {Sep-07-2021}, doi = {10.3389/fmars.2020.0060910.3389/fmars.2020.00609.s001}, url = {https://www.frontiersin.org/article/10.3389/fmars.2020.00609/full}, author = {Selmoni, Oliver and Lecellier, Ga{\"e}l and Ainley, Lara and Collin, Antoine and Doucet, Raimana and Dubousquet, Vaimiti and Feremaito, Hudson and Ito Waia, Edouard and Kininmonth, Stuart and Magalon, H{\'e}l{\`e}ne and Malimali, Siola{\textquoteright}a and Maugateau, Ateliana and Meibom, Anders and Mosese, Stephen and Ren{\'e}-Trouillefou, Malika and Satoh, Noriyuki and van Oppen, Madeleine J. H. and Xozam{\'e}, Andr{\'e} and Y{\'e}kawene, Maxime and Joost, St{\'e}phane and Berteaux-Lecellier, V{\'e}ronique} } @article {7480, title = {What evidence exists on the impacts of chemicals arising from human activity on tropical reef-building corals? A systematic map protocol}, journal = {Environmental Evidence}, volume = {9}, year = {2020}, month = {Aug-03-2020}, abstract = {Background: Tropical coral reefs cover ca. 0.1\% of the Earth{\textquoteright}s surface but host an outstanding biodiversity and provide important ecosystem services to millions of people living nearby. However, they are currently threatened by both local (e.g. nutrient enrichment and chemical pollution of coastal reefs, arising from poor land management, agriculture and industry) and global stressors (mainly seawater warming and acidification, i.e. climate change). Global and local stressors interact together in different ways, but the presence of one stressor often reduces the tolerance to additional stress. While global stressors cannot be halted by local actions, local stressors can be reduced through ecosystem management, therefore minimizing the impact of climate change on reefs. To inform decision-makers, we propose here to systematically map the evidence of impacts of chemicals arising from anthropogenic activities on tropical reef-building corals, which are the main engineer species of reef ecosystems. We aim to identify the combinations of chemical and coral responses that have attracted the most attention and for which evidence can be further summarized in a systematic review that will give practical information to decision-makers.
Methods: The systematic map will follow the Collaboration for Environmental Evidence Guidelines and Standards for Evidence Synthesis in Environmental Management. We will search the relevant literature using English terms combined in a tested search string in two publication databases (Web Of Science Core Collection and Scopus). The search string will combine terms describing the population (tropical reef-building corals) and the exposure (chemicals). We will supplement this literature with some more obtained through search engines, specialist websites, and through a call to local stakeholders. Titles, abstracts, and full-texts will then be successively screened using pre-defined eligibility criteria. A list of pre-defined variables will then be extracted from full-texts. Finally, a database of all studies included in the map with coded metadata will be produced. The evidence will be described in a map report with text, figures and tables, and a matrix showing the distribution and frequency of included study into types of exposure and types of outcomes will be computed to identify potential knowledge gaps and knowledge clusters.}, keywords = {Contamination, Hermatypic, Nutrients, pollution, Scleractinian}, doi = {10.1186/s13750-020-00203-x}, url = {https://environmentalevidencejournal.biomedcentral.com/articles/10.1186/s13750-020-00203-x}, author = {Ou{\'e}draogo, Dakis-Yaoba and Sordello, Romain and Brugneaux, S. and Burga, K. and Calvayrac, C. and Castelin, Magalie and Domart-Coulon, Isabelle and Ferrier-Pages, C and Mireille M.M. Guillaume and H{\'e}douin, L. and Joannot, P. and Perceval, O. and Reyjol, Yorick} } @article {6879, title = {Are shallow-water shrimps proxies for hydrothermal-vent shrimps to assess the impact of deep-sea mining?}, journal = {Marine Environmental Research}, volume = {151}, year = {2019}, month = {Jan-10-2019}, pages = {104771}, issn = {01411136}, doi = {10.1016/j.marenvres.2019.104771}, url = {https://linkinghub.elsevier.com/retrieve/pii/S0141113619303216}, author = {Mestre, N.C. and Auguste, M. and de S{\'a}, L.C. and Fonseca, T.G. and Cardoso, C. and Brown, A. and Barthelemy, D. and Charlemagne, N. and Hauton, C. and Machon, J. and Juliette Ravaux and Bruce Shillito and Thatje, S. and Bebianno, M.J.} } @article {5810, title = {{Atlantic Multidecadal Oscillations drive the basin-scale distribution of Atlantic bluefin tuna}}, journal = {Science Advances}, volume = {5}, year = {2019}, pages = {eaar6993}, abstract = {

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 {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 {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 {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 {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 {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 {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 {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 {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 {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 = {Background

The early life of marine apex predators is poorly known, particularly for diving species. The orientation and foraging skills are presumably less developed in juveniles than in adults, especially during their first year at sea when juveniles might disperse further than adults.

Methods

Over two years of monitoring, we tracked the movements of 17 juvenile king penguins (Aptenodytes patagonicus,\ ~ 1 year old) using satellite relay tags from Crozet Archipelago (Southern Indian Ocean), starting when birds left their natal colony for the first time. For comparison we also tagged 6 non-breeding adults, which at that stage, similar to juveniles, are unhampered by reproductive constraints and might roam further than breeders. We used a combination of cluster analysis and habitat modelling to investigate and compare the movement patterns and habitat use of experienced (non-breeding adults) and non-experienced (juveniles) individuals.

Results

While juvenile penguins and non-breeding adults followed similar routes, the movements by adults started later in the season and ranged over a considerably smaller area than juveniles. Net squared displacement analysis revealed that both groups did not move to a specific wintering area. Changes in direction of juveniles in respect to their departure island were similar and synchronous for both years. Habitat models revealed that foraging behaviour was affected by environmental variables such as wind or current speeds, sea surface temperature, or oceanic productivity, for both stages. Analysis of tracks revealed that birds moved predominately perpendicular or against the main direction of the Antarctic Circumpolar Current and the prevailing wind during austral summer (juveniles only) and autumn (juveniles and non-breeding adults). However, both juveniles and adults were more likely to move against the prevailing winds if productivity increased along their trajectories.

Conclusions

The exceptional duration of our tracking study provided unprecedented insights into the distribution, habitat preferences and orientation of two poorly known life history stages of an expert avian diver. Our study suggests that juveniles might use both innate and learnt skills to reach profitable foraging areas during their first year at sea, which is critical in long-lived species.}, doi = {10.1186/s40462-019-0175-3}, url = {https://link.springer.com/article/10.1186/s40462-019-0175-3$\#$citeas}, author = {Orgeret, F. and Clara P{\'e}ron and Enstipp, M. R. and Delord, K. and Weimerskirch, H. and Bost, C. A.} } @article {6632, title = {Final report of the Madibenthos expedition 2016}, year = {2019}, abstract = {La grande exp{\'e}dition Madibenthos, men{\'e}e par le Mus{\'e}um national d{\textquoteright}Histoire naturelle, fait partie du programme d{\textquoteright}acquisition de connaissances sur le milieu marin de la Martinique (ACQUIMART), pilot{\'e} par l{\textquoteright}Agence des aires marines prot{\'e}g{\'e}es, la Direction de l{\textquoteright}Environnement de l{\textquoteright}Am{\'e}nagement et du Logement, l{\textquoteright}Office De l{\textquoteright}Eau, la Direction de la Mer et la Collectivit{\'e} Territoriale de Martinique. La connaissance du milieu naturel est le pr{\'e}alable {\`a} l{\textquoteright}identification des enjeux de gestion et de protection de celui-ci. L{\textquoteright}inventaire a pour but d{\textquoteright}enrichir les connaissances en mati{\`e}re de biodiversit{\'e} et de d{\'e}couvrir des esp{\`e}ces inconnues. Il illustre la convergence des savoirs et des savoir-faire du Mus{\'e}um national d{\textquoteright}Histoire naturelle et des besoins de protection et de valorisation du patrimoine naturel martiniquais. L{\textquoteright}ambition est de redonner leur place {\`a} toutes les composantes de la biodiversit{\'e} et permettre aux politiques de conservation de s{\textquoteright}asseoir sur des fondements plus solides et plus larges que les groupes taxonomiques traditionnellement {\'e}tudi{\'e}s (poissons, coraux{\textellipsis}). Les groupes taxonomiques principalement cibl{\'e}s sont les {\'e}ponges, les mollusques, les crustac{\'e}s, les {\'e}chinodermes, les ascidies et les algues, constituant le benthos. Sur le terrain, l{\textquoteright}exp{\'e}dition s{\textquoteright}est d{\'e}roul{\'e}e du 1er septembre au 13 octobre 2016. Les op{\'e}rations de collecte ont d{\'e}but{\'e} le 5 septembre et se sont termin{\'e}es le 10 octobre. Une soixantaine de personnes ont particip{\'e} {\`a} l{\textquoteright}exp{\'e}dition : chercheurs, {\'e}tudiants, amateurs de haut niveau ou soutien technique. Tous les types d{\textquoteright}habitats ont {\'e}t{\'e} {\'e}chantillonn{\'e}s (mangroves, fonds meubles, herbiers de phan{\'e}rogames, algueraies, communaut{\'e}s coralliennes bioconstructrices et non bioconstructrices {\textellipsis}), et ce sur les deux c{\^o}tes cara{\"\i}be et atlantique, tr{\`e}s diff{\'e}rentes. La c{\^o}te cara{\"\i}be est connue pour ses communaut{\'e}s coralliennes riches mais d{\'e}pourvues de constructions r{\'e}cifales {\`a} l{\textquoteright}exception de sa partie m{\'e}ridionale. Battue par la houle, la c{\^o}te atlantique, ou c{\^o}te {\guillemotleft} au vent {\guillemotright}, abrite quant {\`a} elle des r{\'e}cifs barri{\`e}res ou frangeants algo-coralliens, tr{\`e}s peu connus du fait de leur acc{\`e}s plus difficile. Les prospections se sont principalement concentr{\'e}es dans la tranche de 0 {\`a} 40 m{\`e}tres de profondeur. Diff{\'e}rentes m{\'e}thodes d{\textquoteright}exploration ont {\'e}t{\'e} d{\'e}ploy{\'e}es : la p{\^e}che {\`a} pied, des plong{\'e}es coupl{\'e}es {\`a} des m{\'e}thodes de pr{\'e}l{\`e}vement innovantes (paniers de brossage, aspirateur sous-marin), et le d{\'e}ploiement de petits engins de p{\^e}che (drague, nasses) pouvant aller jusqu{\textquoteright}{\`a} 100 m{\`e}tres. L{\textquoteright}objectif des ces op{\'e}rations {\'e}tait de r{\'e}colter puis de rapatrier les {\'e}chantillons au laboratoire, o{\`u} la cha{\^\i}ne de tri traite les sp{\'e}cimens vivants. Les organismes ont {\'e}t{\'e} tri{\'e}s par grands groupes zoologiques en fonction de leur taille puis photographi{\'e}s vivants, les couleurs {\'e}tant une aide essentielle {\`a} l{\textquoteright}identification. Suite {\`a} cette mission de terrain, le Mus{\'e}um a impliqu{\'e} son vaste r{\'e}seau international de sp{\'e}cialistes pour l{\textquoteright}identification des sp{\'e}cimens. L{\textquoteright}inventaire a permis de constituer des collections de r{\'e}f{\'e}rence de {\guillemotleft} nouvelle g{\'e}n{\'e}ration {\guillemotright}, incluant des collections de tissus et d{\textquoteright}ADN, banques de photos des animaux vivants et vouchers de tissus s{\'e}quenc{\'e}s. Les donn{\'e}es bancaris{\'e}es {\`a} mesure de l{\textquoteright}avancement des identifications sur les bases de donn{\'e}es nationales et internationales de biodiversit{\'e} (INPN, OBIS, GBIF). Les donn{\'e}es issues de l{\textquoteright}exp{\'e}dition ont permis et permettront ainsi d{\textquoteright}identifier les esp{\`e}ces marines pr{\'e}sentes en Martinique, de localiser les secteurs {\`a} forte diversit{\'e}, d{\textquoteright}identifier et de localiser les esp{\`e}ces rares ou encore de d{\'e}crire les communaut{\'e}s vivantes. L{\textquoteright}exp{\'e}dition Madibenthos a {\'e}galement {\'e}t{\'e} une tr{\`e}s belle occasion de communication et de sensibilisation autour de la biodiversit{\'e} marine de la Martinique. Pendant l{\textquoteright}exp{\'e}dition, pr{\`e}s d{\textquoteright}un millier d{\textquoteright}{\'e}l{\`e}ves ont {\'e}t{\'e} sensibilis{\'e}s directement au travers des actions p{\'e}dagogiques. L{\textquoteright}exp{\'e}dition a b{\'e}n{\'e}fici{\'e} 9 d{\textquoteright}une bonne couverture m{\'e}diatique. Un blog a {\'e}galement {\'e}t{\'e} tenu {\`a} jour, {\`a} la fois outils de communication et outil p{\'e}dagogique. Il reste accessible {\`a} l{\textquoteright}adresse : http://madibenthos.mnhn.fr/ A ce jour, tout le mat{\'e}riel collect{\'e} dans le cadre de Madibenthos n{\textquoteright}est pas encore pass{\'e} dans les mains de sp{\'e}cialistes. Ce rapport rend compte de l{\textquoteright}avancement du traitement des diff{\'e}rents groupes taxonmiques. Sur la base des groupes pour lesquels le travail d{\textquoteright}identification est termin{\'e}e, des premi{\`e}res analyses exploiratoires ont pu {\^e}tre men{\'e}es et sont pr{\'e}sent{\'e}es dans ce rapport. Ce travail de valorisation des donn{\'e}es de Madibenthos {\`a} destination des gestionnaires va se poursuivre {\`a} mesure que le travail des taxonomistes enrichit la base de donn{\'e}es, et {\^e}tre approfondi. Un projet en ce sens est en cours de conventionnement.}, url = {https://hal.archives-ouvertes.fr/hal-02473023/document}, author = {Bouchet, Philippe and Guillaume Dirberg and Laure Corbari and Leblond, Alice} } @article {8554, title = {Fine scale geographic residence and annual primary production drive body condition of wild immature green turtles ( Chelonia mydas ) in Martinique Island (Lesser Antilles)}, journal = {Biology Open}, year = {2019}, month = {Jan-01-2019}, doi = {10.1242/bio.048058}, url = {https://journals.biologists.com/bio/article/doi/10.1242/bio.048058/266150/Fine-scale-geographic-residence-and-annual-primary}, author = {Bonola, Marc and Girondot, Marc and Robin, Jean-Patrice and Martin, Jordan and Siegwalt, Flora and Jeantet, Lor{\`e}ne and Lelong, Pierre and Grand, Cl{\'e}ment and Chambault, Philippine and Etienne, Denis and Gresser, Julie and Hielard, Ga{\"e}lle and Alexandre, Arqu{\'e} and R{\'e}gis, Sidney and Nicolas, Lecerf and Frouin, C{\'e}dric and Lefebvre, Fabien and Sutter, Emmanuel and Vedie, Fabien and Barnerias, Cyrille and Laurent, Thieulle and Bordes, Robinson and Guimera, Christelle and Aubert, Nathalie and Bouaziz, Myriam and Pinson, Adrien and Fr{\'e}d{\'e}ric, Flora and Matthieu, Duru and Benhalilou, Abdelwahab and C{\'e}line, Murgale and Maillet, Thomas and Andreani, Lucas and Campistron, Guilhem and Sikora, Maxym and Rateau, Fabian and Francis, George and Joffrey, Eggenspieler and Woignier, Thierry and All{\'e}nou, Jean-Pierre and Louis-Jean, Laurent and Chanteur, B{\'e}n{\'e}dicte and B{\'e}ranger, Christelle and Crillon, Jessica and Brador, Aude and Habold, Caroline and Le Maho, Yvon and Chevallier, Damien} } @article {6046, title = {Freshwater fishing among Lapita people: The Sleepers (Teleostei: Eleotridae) of Teouma, Vanuatu}, journal = {Journal of Archaeological Science: Reports}, volume = {26}, year = {2019}, abstract = {

The 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 {7044, title = {Freshwater fishing among Lapita people: The Sleepers (Teleostei: Eleotridae) of Teouma, Vanuatu}, journal = {Journal of Archaeological Science: Reports}, volume = {26}, year = {2019}, month = {Jan-08-2019}, pages = {101894}, abstract = {The 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 multi-pronged 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}, issn = {2352409X}, doi = {10.1016/j.jasrep.2019.101894}, url = {https://linkinghub.elsevier.com/retrieve/pii/S2352409X19303347}, author = {Bouffandeau, Laurie and Bearez, Philippe and Philippe Keith and Bedford, Stuart and Spriggs, Matthew} } @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 {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 {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 {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 {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 {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} } @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 {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 {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 {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 {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.

}, author = {Ma{\"e}va Cherif{\textendash}Feildel and Clothilde Berthelin and B{\'e}atrice Adeline and Guillaume Rivi{\`e}re and Pascal Favrel and Kristell Kellner-Cousin} } @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 {8135, title = {Morphological and molecular criteria allow the identification of putative germ stem cells in a lophotrochozoan, the Pacific oyster Crassostrea gigas}, journal = {Histochemistry and Cell Biology}, volume = {151}, year = {2019}, month = {Jan-05-2019}, pages = {419 - 433}, issn = {0948-6143}, doi = {10.1007/s00418-018-1740-3}, url = {http://link.springer.com/10.1007/s00418-018-1740-3}, author = {Cherif-Feildel, Ma{\"e}va and Kellner, Kristell and Goux, Didier and Elie, Nicolas and Adeline, B{\'e}atrice and Lelong, Christophe and Clothilde Berthelin} } @article {8156, title = {Morphological and molecular criteria allow the identification of putative germ stem cells in a lophotrochozoan, the Pacific oyster Crassostrea gigas}, journal = {Histochemistry and cell biology}, volume = {151}, year = {2019}, pages = {419-433}, author = {Cherif Feildel Maeva and Kellner Kristell and Goux Didier and Elie Nicolas and Adeline Beatrice and Heude Berthelin Clothilde} } @article {6663, title = {Multi-trace-element sea surface temperature coral reconstruction for the southern Mozambique Channel reveals teleconnections with the tropical Atlantic}, journal = {Biogeosciences}, volume = {16}, year = {2019}, pages = {695-712}, abstract = {Here we report seasonally resolved sea surface temperatures for the southern Mozambique Channel in the SW Indian Ocean based on multi-trace-element temperature proxy records preserved in two Porites sp. coral cores. Particularly, we assess the suitability of both separate and combined Sr/Ca and Li/Mg proxies for improved multi-element SST reconstructions. Overall, geochemical records from Europa Island Porites sp. highlight the potential of Sr/Ca and Li/Mg ratios as high-resolution climate proxies but also show significant differences in their response at this Indian Ocean subtropical reef site. Our reconstruction from 1970 to 2013 using the Sr/Ca SST proxy reveals a warming trend of 0.58 {\textpm} 0.1 {\textbullet} C in close agreement with instrumental data (0.47 {\textpm} 0.07 {\textbullet} C) over the last 42 years (1970-2013). In contrast, the Li/Mg showed unrealistically large warming trends, most probably caused by uncertainties around different uptake mechanisms of the trace elements Li and Mg and uncertainties in their temperature calibration. In our study, Sr/Ca is superior to Li/Mg to quantify absolute SST and relative changes in SST. However, spatial correlations between the combined detrended Sr/Ca and Li/Mg proxies compared to instrumental SST at Europa revealed robust correlations with local climate variability in the Mozambique Channel and teleconnections to regions in the Indian Ocean and southeastern Pacific where surface wind variability appeared to dominate the underlying pattern of SST variability. The strongest correlation was found between our Europa SST reconstruction and instrumental SST records from the northern tropical Atlantic. Only a weak correlation was found with ENSO, with recent warm anomalies in the geochemical proxies coinciding with strong El Ni{\~n}o or La Ni{\~n}a. We identified the Pacific-North American (PNA) atmospheric pattern , which develops in the Pacific in response to ENSO, and the tropical North Atlantic SST as the most likely causes of the observed teleconnections with the Mozambique Channel SST at Europa.}, keywords = {Anthozoa, Atlantic Ocean, Atlantic Ocean (North), Atlantic Ocean (Tropical), climate variation, coral, El Nino, El Nino-Southern Oscillation, Europa Island, Indian Ocean, La Nina, Mascarene Islands, Mozambique Channel, Pacific Ocean, Pacific Ocean (Southeast), Porites, proxy climate record, reconstruction, Reunion, sea surface temperature, subtropical region, surface wind, teleconnection, trace element}, issn = {17264170}, doi = {10.5194/bg-16-695-2019}, url = {https://www.biogeosciences.net/16/695/2019/}, author = {Zinke, J. and D{\textquoteright}Olivo, J.P. and Gey, C.J. and McCulloch, M.T. and Henrich J Bruggemann and Lough, J.M. and Mireille M.M. Guillaume} } @article {9365, title = {Neuromuscular structure of the larva to early ancestrula stages of the cyclostome bryozoan Crisia eburnea}, journal = {Acta Zoologica}, volume = {100}, year = {2019}, month = {Jan-07-2019}, pages = {268 - 281}, issn = {0001-7272}, doi = {10.1111/azo.2019.100.issue-310.1111/azo.12252}, url = {https://onlinelibrary.wiley.com/toc/14636395/100/3}, author = {Nielsen, Claus and Bekkouche, Nicolas Tarik and Worsaae, Katrine} } @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 {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 {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 {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 {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 {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 {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 {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 {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 {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 {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 {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 {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 {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 {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 {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 {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 {6930, title = {Different transfer pathways of an organochlorine pesticide across marine tropical food webs assessed with stable isotope analysis}, journal = {PLOS ONE}, volume = {13}, year = {2018}, month = {Jan-02-2018}, pages = {e0191335}, doi = {10.1371/journal.pone.019133510.1371/journal.pone.0191335.g00110.1371/journal.pone.0191335.t00110.1371/journal.pone.0191335.t00210.1371/journal.pone.0191335.s001}, url = {https://dx.plos.org/10.1371/journal.pone.0191335}, author = {Charlotte R. Dromard and Bouchon-Navaro, Yolande and Cordonnier, S{\'e}bastien and Gu{\'e}n{\'e}, Mathilde and Harmelin-Vivien, Mireille and Bouchon, Claude} } @article {6744, title = {Dynamics of particulate organic matter composition in coastal systems: Forcing of spatio-temporal variability at multi-systems scale}, journal = {Progress in Oceanography}, volume = {162}, year = {2018}, month = {Jan-03-2018}, pages = {271 - 289}, issn = {00796611}, doi = {10.1016/j.pocean.2018.02.026}, url = {https://www.sciencedirect.com/science/article/abs/pii/S0079661117302100}, author = {Li{\'e}nart, Camilla and Savoye, Nicolas and David, Val{\'e}rie and Ramond, Pierre and Rodriguez Tress, Paco and Hanquiez, Vincent and Marieu, Vincent and Aubert, Fabien and Aubin, S{\'e}bastien and Bichon, Sabrina and Boinet, Christophe and Bourasseau, Line and Bozec, Yann and Br{\'e}ret, Martine and Elsa Breton and Caparros, Jocelyne and Cariou, Thierry and Claquin, Pascal and Conan, Pascal and Corre, Anne-Marie and Costes, Laurence and Muriel Crouvoisier and Del Amo, Yolanda and Derriennic, Herv{\'e} and Dindinaud, Fran{\c c}ois and Duran, Robert and Durozier, Ma{\"\i}a and Devesa, J{\'e}r{\'e}my and Ferreira, Sophie and Eric Feunteun and Garcia, Nicole and Geslin, Sandrine and Emilie Grossteffan and Gueux, Aurore and Guillaudeau, Julien and Guillou, Ga{\"e}l and Jolly, Orianne and Lachauss{\'e}e, Nicolas and Lafont, Michel and Lagadec, V{\'e}ronique and Lamoureux, J{\'e}zabel and Lauga, B{\'e}atrice and Lebreton, Beno{\^\i}t and Lecuyer, Eric and Lehodey, Jean-Paul and Leroux, C{\'e}dric and St{\'e}phane L{\textquoteright}Helguen and Mac{\'e}, Eric and Maria, Eric and Mousseau, Laure and Antoine Nowaczyk and Pineau, Philippe and Petit, Franck and Pujo-Pay, Mireille and Raimbault, Patrick and Rimmelin-Maury, Peggy and Rouaud, Vanessa and Sauriau, Pierre-Guy and Sultan, Emmanuelle and Susperregui, Nicolas} } @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 {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 {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 {5959, title = {Histology of the endothermic opah (Lampris sp.) suggests a new structure function relationship in teleost fish bone}, journal = {Biology Letters}, volume = {14}, year = {2018}, pages = {20180270}, 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} } @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 {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 {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 {5862, title = {Invasive Aquatic Plants as Ecosystem Engineers in an Oligo-Mesotrophic Shallow Lake}, journal = {Frontiers in Plant Science}, volume = {9}, year = {2018}, month = {dec}, doi = {10.3389/fpls.2018.01781}, url = {https://doi.org/10.3389/fpls.2018.01781}, author = {Cristina Ribaudo and Juliette Tison-Rosebery and Damien Buquet and Gwilherm Jan and Aur{\'e}lien Jamoneau and Gwena{\"e}l Abril and Pierre Anschutz and Vincent Bertrin} } @article {5364, title = {Latitudinal Patterns in European Seagrass Carbon Reserves: Influence of Seasonal Fluctuations versus Short-Term Stress and Disturbance Events}, journal = {Frontiers in Plant Science}, volume = {9}, year = {2018}, abstract = {

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.

}, doi = {doi: 10.3389/fpls.2018.00088}, author = {L.M. Soissons and E.P. Haanstra and M.M. van Katwijk and R. Asmus and I. Auby and L. Barill{\'e} 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 A. Puente and M. Recio and L. Rigouin and M. Valle and P.M.J. Herman and T.J. Bouma} } @article {5812, title = {{Marine biodiversity and the chessboard of life}}, journal = {PLoS ONE}, volume = {13}, year = {2018}, abstract = {

{\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.

}, doi = {doi:10.1093/icesjms/fsy095}, author = {Fran{\c c}ois Gaudin and Nicolas Desroy and Stanislas Dubois and Caroline Broudin and Louis Cabioch and J{\'e}r{\^o}me Fournier and Franck Gentil and Jacques Grall and C{\'e}line Houbin and Patrick Le Mao and Eric Thi{\'e}baut} } @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.} } @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 {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 {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 {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 {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 {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 {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} } @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}€œGRET{\^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 {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 {6708, title = {Toxicological effects of CdSe nanocrystals on the marine diatom Phaeodactylum tricornutum: The first mass spectrometry-based proteomic approach}, journal = {Ecotoxicology and Environmental Safety}, volume = {152}, year = {2018}, month = {Jan-05-2018}, pages = {78 - 90}, issn = {01476513}, doi = {10.1016/j.ecoenv.2018.01.043}, url = {https://www.sciencedirect.com/science/article/abs/pii/S0147651318300514?via\%3Dihub}, author = {Poirier, Isabelle and Pallud, Marie and Kuhn, Lauriane and Hammann, Philippe and Demorti{\`e}re, Arnaud and Jamali, Arash and Chicher, Johana and Christelle Caplat and Gallon, R{\'e}gis Kevin and Bertrand, Martine} } @article {8982, title = {Trophic cues promote secondary migrations of bivalve recruits in a highly dynamic temperate intertidal system}, journal = {Ecosphere}, volume = {9}, year = {2018}, month = {Apr-12-2018}, pages = {e02510}, issn = {2150-8925}, doi = {10.1002/ecs2.2018.9.issue-1210.1002/ecs2.2510}, url = {https://onlinelibrary.wiley.com/toc/21508925/9/12}, author = {Foret, Martin and Barbier, Pierrick and Tremblay, Rejean and Tarik Meziane and Neumeier, Urs and Duvieilbourg, Eric and Olivier, Fr{\'e}d{\'e}ric} } @article {8981, title = {Trophic cues promote secondary migrations of bivalve recruits in a highly dynamic temperate intertidal system}, journal = {Ecosphere}, volume = {9}, year = {2018}, month = {Apr-12-2018}, pages = {e02510}, issn = {2150-8925}, doi = {10.1002/ecs2.2018.9.issue-1210.1002/ecs2.2510}, url = {https://onlinelibrary.wiley.com/toc/21508925/9/12}, author = {Foret, Martin and Barbier, Pierrick and Tremblay, Rejean and Meziane, Tarik and Neumeier, Urs and Duvieilbourg, Eric and Olivier, Fr{\'e}d{\'e}ric} } @article {5923, title = {The unique functioning of a pre-Columbian Amazonian floodplain fishery}, journal = {Scientific Reports}, volume = {8}, year = {2018}, doi = {10.1038/s41598-018-24454-4}, url = {https://doi.org/10.1038/s41598-018-24454-4}, author = {Rumsa{\"\i}s Blatrix and Bruno Roux and Philippe B{\'e}arez and Gabriela Prestes-Carneiro and Marcelo Amaya and Jose Luis Aramayo and Leonor Rodrigues and Umberto Lombardo and Jose Iriarte and Jonas Gregorio de Souza and Mark Robinson and Cyril Bernard and Marc Pouilly and M{\'e}lisse Dur{\'e}cu and Carl F. Huchzermeyer and Mashuta Kalebe and Alex Ovando and Doyle McKey} } @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 {5628, 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}, pages = {2296-2304}, abstract = {

As\ 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 {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 {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 {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.

}, keywords = {aesthetascs, decapod, hydrothermal shrimp, IR25a, olfaction}, author = {Magali Zbinden and Berthod, C and Montagn{\'e}, N and Machon, J and L{\'e}ger, N and Chertemps, T and Rabet, N and Bruce Shillito and Juliette Ravaux} } @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.

Different results were obtained from PH1, PH2 and PH3 regarding dates characterized by atypical plankton community structures, stressing their complementarity. However, similar results were also found for some sampling dates, suggesting that the complementary information conveyed by the three PH indicators shows potential for generating a higher-level indicator.

This work has also evidenced a number of gaps and issues in the integration of the three PH indicators that we address with guidelines. In particular, efforts should be devoted to overcome technical difficulties in the integration the PH3 indicators, especially regarding differences in temporal resolution. Future development of the indicators could involve complementary techniques to classical methods to overcome taxonomic constraints. In the frame of this project, the access to data in certain format was identified also found problematic. Creating a central database of pre-formatted data managed by a group of experts could also benefit the regional calibration of the indicators for areas where appropriate data are available. Establishing a clear and easily accessible report which details all the monitoring guidelines concerning the metrics used for the OSPAR PH indicators could also be beneficial for homogenising the monitoring and inter-comparability of data among contracting parties in the goal of regional marine management.}, author = {Budria, Alexandre and Anais Aubert and Rombouts, Isabelle and Ostle, Clare and Angus Atkinson and Widdicombe, Claire and Goberville, Eric and Luis Felipe Artigas and Johns, David and Padegimas, Bernardas and Corcoran, Emily and McQuatters-Gollop, Abigail} } @article {4728, title = {Deep conservation of bivalve nacre proteins highlighted by shell matrix proteomics of the Unionoida Elliptio complanata and Villosa lienosa}, journal = {Journal of The Royal Society Interface}, volume = {14}, year = {2017}, abstract = {

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 {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 {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 {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 {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 {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} } @article {5970, title = {Histological characteristics of lower jaw bones and oral teeth of the short nose gar, Lepisosteus platostomus Rafinesque, 1820 (Lepisosteidae)}, year = {2017}, doi = {10.26028/cybium/2017-413-004}, url = {http://sfi-cybium.fr/fr/histological-characteristics-lower-jaw-bones-and-oral-teeth-short-nose-gar-lepisosteus-platostomus}, author = {Meunier, Francois J. and Brito, Paulo M.} } @article {5969, title = {The homology and function of the lung plates in extant and fossil coelacanths}, journal = {Scientific reports}, volume = {7}, year = {2017}, pages = {9244}, author = {Cupello, C and Meunier, Francois J. and Herbin, Marc and Janvier, Philippe and Cl{\'e}ment, Ga{\"e}l and Brito, Paulo M.} } @article {6820, title = {Identifying Toxic Impacts of Metals Potentially Released during Deep-Sea Mining{\textemdash}A Synthesis of the Challenges to Quantifying Risk}, journal = {Frontiers in Marine Science}, volume = {4}, year = {2017}, pages = {368}, abstract = {In January 2017, the International Seabed Authority released a discussion paper on the development of Environmental Regulations for deep-sea mining (DSM) within the Area Beyond National Jurisdiction (the {\textquotedblleft}Area{\textquotedblright}). With the release of this paper, the prospect for commercial mining in the Area within the next decade has become very real. Moreover, within nations{\textquoteright} Exclusive Economic Zones, the exploitation of deep-sea mineral ore resources could take place on very much shorter time scales and, indeed, may have already started. However, potentially toxic metal mixtures may be released at sea during different stages of the mining process and in different physical phases (dissolved or particulate). As toxicants, metals can disrupt organism physiology and performance, and therefore may impact whole populations, leading to ecosystem scale effects. A challenge to the prediction of toxicity is that deep-sea ore deposits include complex mixtures of minerals, including potentially toxic metals such as copper, cadmium, zinc, and lead, as well as rare earth elements. Whereas the individual toxicity of some of these dissolved metals has been established in laboratory studies, the complex and variable mineral composition of seabed resources makes the a priori prediction of the toxic risk of DSM extremely challenging. Furthermore, although extensive data quantify the toxicity of metals in solution in shallow-water organisms, these may not be representative of the toxicity in deep-sea organisms, which may differ biochemically and physiologically and which will experience those toxicants under conditions of low temperature, high hydrostatic pressure, and potentially altered pH. In this synthesis, we present a summation of recent advances in our understanding of the potential toxic impacts of metal exposure to deep-sea meio- to megafauna at low temperature and high pressure, and consider the limitation of deriving lethal limits based on the paradigm of exposure to single metals in solution. We consider the potential for long-term and far-field impacts to key benthic invertebrates, including the very real prospect of sub-lethal impacts and behavioral perturbation of exposed species. In conclusion, we advocate the adoption of an existing practical framework for characterizing bulk resource toxicity in advance of exploitation.}, issn = {2296-7745}, doi = {10.3389/fmars.2017.00368}, url = {https://www.frontiersin.org/article/10.3389/fmars.2017.00368}, author = {Hauton, Chris and Brown, Alastair and Thatje, Sven and Mestre, N{\'e}lia C. and Bebianno, Maria J. and Martins, In{\^e}s and Bettencourt, Raul and Canals, Miquel and Sanchez-Vidal, Anna and Bruce Shillito and Juliette Ravaux and Magali Zbinden and Duperron, S{\'e}bastien and Mevenkamp, Lisa and Vanreusel, Ann and Gambi, Cristina and Dell{\textquoteright}Anno, Antonio and Danovaro, Roberto and Gunn, Vikki and Weaver, Phil} } @article {5026, title = {The impact of suspended oyster farming on nitrogen cycling and nitrous oxide production in a sub-tropical Australian estuary}, journal = {Estuarine, Coastal and Shelf Science}, volume = {192}, year = {2017}, pages = {117 - 127}, abstract = {

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} } @proceedings {7892, title = {Le Mont-Saint-Michel et sa baie peuvent-ils se r{\'e}concilier ?}, volume = {12, s{\'e}rie 3}, year = {2017}, month = {2019}, pages = {103-112}, edition = {Documents Phytosociologiques}, author = {Canard, Alain and Prigent, Lionel and Fr{\'e}d{\'e}ric Ysnel and Robin, Thierry and Alexandre Carpentier and Lefeuvre, Jean-Claude and Bioret, Fr{\'e}d{\'e}ric} } @article {8571, title = {Marine Mammals Exploring the Oceans Pole to Pole: A Review of the MEOP Consortium}, journal = {Oceanography}, volume = {30}, year = {2017}, month = {Jan-06-2017}, pages = {132 - 138}, issn = {10428275}, doi = {10.5670/oceanog10.5670/oceanog.2017.234}, url = {https://tos.org/oceanography/}, author = {Treasure, Anne and Roquet, Fabien and Ansorge, Isabelle and Bester, Marth{\'a}n and Boehme, Lars and Bornemann, Horst and Charrassin, Jean-Beno{\^\i}t and Chevallier, Damien and Costa, Daniel and Fedak, Mike and Guinet, Christophe and Hammill, Mike and Harcourt, Robert and Hindell, Mark and Kovacs, Kit and Lea, Mary-Anne and Lovell, Phil and Lowther, Andrew and Lydersen, Christian and McIntyre, Trevor and McMahon, Clive and Muelbert, M{\^o}nica and Nicholls, Keith and Picard, Baptiste and Reverdin, Gilles and Trites, Andrew and Williams, Guy and de Bruyn, P.J. Nico} } @article {5231, title = {Mercury contamination level and speciation inventory in Lakes Titicaca and Uru-Uru (Bolivia): Current status and future trends}, journal = {Environmental Pollution}, volume = {231, Part 1}, year = {2017}, pages = {262 - 270}, abstract = {

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 {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 {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

}, author = {Pierrick Barbier and Tarik Meziane and For{\^e}t, M and R{\'e}jean Tremblay and Robert, R and Fr{\'e}d{\'e}ric Olivier} } @article {Thorel2017192, title = {Nutrient ratios influence variability in Pseudo-nitzschia species diversity and particulate domoic acid production in the Bay of Seine (France)}, journal = {Harmful Algae}, volume = {68}, year = {2017}, note = {cited By 15}, pages = {192-205}, publisher = {Elsevier B.V.}, abstract = {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. {\textcopyright} 2017 Elsevier B.V.}, keywords = {analogs and derivatives, analysis, Bay, Bays, Biodiversity, chemistry, Diatom, Diatoms, Domoic acid, France, Geography, kainic acid, Nitrates, nitric acid derivative, particulate matter, phosphate, Phosphates, Physiology, Phytoplankton, Principal Component Analysis, season, Seasons, species difference, Species Specificity, time factor, Time Factors}, issn = {15689883}, doi = {10.1016/j.hal.2017.07.005}, url = {https://www.scopus.com/inward/record.uri?eid=2-s2.0-85028543709\&doi=10.1016\%2fj.hal.2017.07.005\&partnerID=40\&md5=def23b37b0d16a1ae7ab65a7ef2b940b}, author = {Thorel, Maxine and Pascal Claquin and Mathilde Schapira and Romain Le Gendre and Riou, Philippe and Didier Goux and Bertrand Le Roy and Raimbault, V and Deton-Cabanillas, A.-F. and Bazin, Pauline and Kientz-Bouchart, Val{\'e}rie and Juliette Fauchot} } @article {5143, title = {Nutrient ratios influence variability in Pseudo-nitzschia species diversity and particulate domoic acid production in the Bay of Seine (France)}, journal = {Harmful Algae}, volume = {68}, year = {2017}, pages = {192 - 205}, abstract = {

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 {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 {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 {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 {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 {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 {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 {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 {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 {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 {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 {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} } @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 {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)
is a powerful tool for the high-precision measurement of the isotopic ratios of many elements in geological
samples, with the isotope ratio (11B/10B) of boron being used as an indicator of the pH of oceanic waters. Most geological
samples or standards are polished and ablation occurs on flat surfaces. However, the shape and the irregularities of
marine biocarbonates (e.g., corals, foraminifera) can make precise isotopic measurements of boron difficult. Even after
polishing, the porosity properties and the presence of holes or micro-fractures affect the signal and the isotopic ratio
when ablating the material, especially in raster mode.
METHODS: The effect of porosity and of the crater itself on the 11B signal and the isotopic ratio acquired by LA-MCICPMS
in both raster and spot mode was studied. Characterization of the craters was then performed with an optical
profilometer to determine their shapes and depths. Surface state effects were examined by analyzing the isotopic
fractionation of boron in silicate (NIST-SRM 612 and 610 standards) and in carbonate (corals).
RESULTS: Surface irregularities led to a considerable loss of signal when the crater depth exceeded 20 μm. The stability
and precision were degraded when ablation occurred in a deep cavity. The effect of laser focusing and of blank correction
was also highlighted and our observations indicate that the accuracy of the boron isotopic ratio does not depend on the
shape of the surface. After validation of the analytical protocol for boron isotopes, a raster application on a Porites coral,
which grew for 18 months in an aquarium after field sampling, was carried out.
CONCLUSIONS: This original LA-MC-ICPMS study revealed a well-marked boron isotope ratio temporal variability,
probably related to growth rate and density changes, irrespective of the pH of the surrounding seawater.}, doi = {10.1002/rcm.7448}, url = {http://doi.wiley.com/10.1002/rcm.7448}, author = {Thil, Fran{\c c}ois and Blamart, Dominique and Assailly, Caroline and Claire E. Lazareth and Leblanc, Thierry and Butsher, John and Douville, Eric} } @article {4493, title = {A developmental table of embryogenesis in Sepia officinalis}, journal = {Vie et Milieu}, volume = {66}, year = {2016}, month = {May 2016}, pages = {11-23}, abstract = {

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 {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 {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} } @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.

The new spiralian phylogeny reveals with high support that the deepest branches of Spiralia consist of meiofaunal representatives, that Gnathifera is the sister group of remaining Spiralia, that Gastrotricha+Platyhelminthes branches off next and that Lobatocerebrum is an Annelida. The morphological surveys of the musculature, nervous system, glands, and ciliation on three phylogenetically distinct taxa yield more insight into their evolution: Lobatocerebrum is an aberrant annelid showing only few common traits with Annelida, yet, our detailed studies unravel putative resemblances of muscular, nervous and glandular system to previous findings in annelids. Micrognathozoa shows more resemblances with Rotifera than Gnathostomulida (these three taxa together forming Gnathifera). Furthermore, we could infer possible plesiomorphic states of Gnathifera such as the paired ventro-lateral nerve chords (shared with many Spiralia) as well as recover putative Gnathifera apomorphies such as the pharyngeal ganglion; all adding new information on the evolution of this group. Diuronotus aspetos shows a unique combination of muscular traits not easily traceable, but in contrast the nervous system traits can be compared in high details, hereby bridging to other Chaetonotida (Gastrotricha). Moreover, we describe new gastrotrich characters such as the ciliary pattern or a system of pharyngeal canals of possible importance for future comparative approaches.

These different studies show that information on rare and phylogenetically isolated animals with their unique combination of neural and muscular characters are necessary to understand the evolution of Spiralia. Also, several organ systems should be considered for systematic comparisons, here emphasized with ciliary and glandular systems in Micrognathozoa, Gastrotricha and Lobatocerebrum showing potential phylogenetic information.}, author = {Nicolas Bekkouche} } @article {4412, title = {Extreme landscapes decrease taxonomic and functional bird diversity but promote the presence of rare species}, journal = {Acta Ornithologica}, volume = {51}, year = {2016}, abstract = {

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.

}, doi = {10.3161/00016454AO2016.51.1.003}, author = {Laurent Godet and Vincent Devictor and Fran{\c c}oise Burel and Jean-Guy Robin and Lo{\"\i}c M{\'e}nanteau and J{\'e}r{\^o}me Fournier} } @article {Boulenger2016947, title = {Factors determining survival of European eels in two unexploited sub-populations}, journal = {Freshwater Biology}, volume = {61}, number = {6}, year = {2016}, note = {cited By 3}, pages = {947-962}, doi = {10.1111/fwb.12759}, url = {https://onlinelibrary.wiley.com/doi/abs/10.1111/fwb.12759}, author = {Boulenger, C. and Anthony Acou and Gimenez, O. and Charrier, F. and Tremblay, J. and Eric Feunteun} } @article {4340, title = {The fate of C4 and C3 macrophyte carbon in central Amazon floodplain waters: Insights from a batch experiment}, journal = {Limnologica - Ecology and Management of Inland Waters}, volume = {59}, year = {2016}, pages = {90-98}, abstract = {

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 {5038, title = {From species distributions to ecosystem structure and function: A methodological perspective}, journal = {ECOLOGICAL MODELLING}, volume = {334}, year = {2016}, month = {08/2016}, pages = {78-90}, abstract = {

{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 {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 {4417, title = {Image analysis-based classification of pigmentation patterns in fish: A case study of pseudo-albinism in Senegalese sole}, journal = {Aquaculture}, volume = {464}, year = {2016}, pages = {303 - 308}, keywords = {Pseudo-albinism}, issn = {0044-8486}, doi = {http://dx.doi.org/10.1016/j.aquaculture.2016.06.040}, url = {http://www.sciencedirect.com/science/article/pii/S0044848616303441}, author = {Wishkerman, A and Boglino, A and Darias, Maria and Andree, K B and Est{\'e}vez, A and Gisbert, E} } @article {4269, title = {Influence of intertidal recreational fisheries and {\textquoteleft}bouchot{\textquoteright} mussel culture on bivalve recruitment}, journal = {Marine Environmental Research}, volume = {117}, year = {2016}, pages = {1 - 12}, abstract = {

Abstract 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 {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 {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 {4594, title = {Morphological review of the freshwater fairy shrimp Dendrocephalus brasiliensis Pesta, 1921 (Anostraca: Thamnocephalidae)}, journal = {Nauplius}, volume = {24}, year = {2016}, month = {08/2016}, pages = {1-10}, abstract = {

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 {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 {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 {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 {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 {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 {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 {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.

}, author = {Sobrinho, R L and Bernardes, Marcelo C and Gwena{\"e}l Abril and Kim, J-H and Zell, C and Jean-Michel Mortillaro and Tarik Meziane and Moreira-Turcq, P and J S Sinningh Damst{\'e}} } @article {4260, title = {Spatial and temporal dynamics of nano- and pico-size particulate organic matter (POM) in a coastal megatidal marine system}, journal = {Limnology and Oceanography}, volume = {61}, year = {2016}, month = {05/2016}, pages = {1087-1100}, abstract = {

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 {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 {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 {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 {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} } @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 {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} } @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 {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 {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 {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 {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 {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 {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 {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 {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 {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 {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 {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 {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 {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 {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 {4419, title = {GigaTON: an extensive publicly searchable database providing a new reference transcriptome in the pacific oyster Crassostrea gigas.}, journal = {BMC Bioinformatics}, volume = {16}, year = {2015}, month = {2015}, pages = {401}, abstract = {

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 {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 {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 {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 {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 {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 {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} } @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 {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 {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 {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 {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 {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 {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 {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 {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 {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.

}, author = {Pannard, A and P{\'e}dronon, J and Bormans, M and Briand, E and Pascal Claquin and Yvan Lagadeuc} } @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 {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 {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 {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 {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} } @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 {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 {3512, title = {Assessment of cytotoxic and immunomodulatory properties of four antidepressants on primary cultures of abalone hemocytes (Haliotis tuberculata).}, journal = {Aquat Toxicol}, volume = {153}, year = {2014}, month = {2014 Aug}, pages = {3-11}, abstract = {

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 {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.

}, url = {http://www.oapublishinglondon.com/oa-biology}, author = {Laure Bonnaud-Ponticelli and Yann Bassaglia} } @article {3264, title = {Cephalopods in neuroscience: regulations, research and the 3Rs.}, journal = {Invert Neurosci}, volume = {14}, year = {2014}, month = {2014 Mar}, pages = {13-36}, abstract = {

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} } @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 {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 {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 {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 {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 {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 {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 {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 {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 {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 {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 {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 {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 {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 {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 {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} } @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 {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 {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.

}, author = {Navet, S and S{\'e}bastien Baratte and Yann Bassaglia and Aude Andouche and Buresi, Auxane and Laure Bonnaud-Ponticelli} } @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} } @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 {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 {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 {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 {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 {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.

}, keywords = {Bali, Freshwater, Gobiidae, Java, Lentipes, New species, Sulawesi, Sumatra}, author = {Philippe Keith and Hadiaty, Renny and Hubert, Nicolas and Fr{\'e}d{\'e}ric Busson and Clara Lord} } @article {5052, title = {A toolbox to evaluate data reliability for whole-ecosystem models: application on the Bay of Biscay continental shelf food-web model}, journal = {Ecological modelling}, volume = {285}, year = {2014}, pages = {13{\textendash}21}, author = {G{\'e}raldine Lassalle and Bourdaud, Pierre and Saint-B{\'e}at, B and Rochette, S{\'e}bastien and Nathalie Niquil} } @article {3371, title = {Transcriptomic and peptidomic analysis of protein hydrolysates from the white shrimp (L. vannamei).}, journal = {J Biotechnol}, volume = {186}, year = {2014}, month = {2014 Sep 30}, pages = {30-7}, abstract = {

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} } @book {Musard20141, title = {Underwater seascapes: From geographical to ecological perspectives}, series = {Underwater Seascapes: From Geographical to Ecological Perspectives}, volume = {9783319034409}, year = {2014}, note = {cited By 5}, pages = {1-291}, doi = {10.1007/978-3-319-03440-9}, url = {https://www.springer.com/gp/book/9783319034393}, author = {Musard, O. and Le D{\^u}-Blayo, L. and Patrice Francour and Beurier, J.-P. and Eric Feunteun and Talassinos, L.} } @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 {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 {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 {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 {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 {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} } @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} } @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 {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 {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 {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 {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 {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 {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 {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 {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 {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 {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 {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} }