@article {9997, title = {Description of the behavioural contexts of underwater sound production in juvenile green turtles Chelonia mydasAbstract}, journal = {Behavioral Ecology and Sociobiology}, volume = {79}, year = {2025}, month = {Jan-02-2025}, abstract = {Green sea turtles Chelonia mydas have the ability to hear and produce sounds under water, with some of them potentially involved in social communication. To investigate the potential biological function of these sounds, we used a combination of acoustic, video and multi-sensor recordings of 23 free-ranging juvenile green turtles and we examined the co-occurrences of sounds with behaviours or external events. Our study revealed that most of the sounds were produced when the sea turtles were resting or swimming. However, four sound types were produced in more specific contexts. Long sequences of rumbles were recorded after sunset and mainly during resting. All these rumbles appear to have been produced by several individuals recorded simultaneously, suggesting that rumbles may be used for social interactions. The frequency modulated sound was highly associated with scratching behaviour. The grunt that was produced occasionally when green turtles were vigilant or approaching a conspecific. The long squeak was produced significantly by a small number of individuals in the presence of humans. The grunt and the long squeak may be the first evidence of an alarm or warning signal for intra-specific communication in green turtles. Our results mark a significant milestone in advancing the understanding of sound production in the behavioural ecology of sea turtles. Further experimental investigations (i.e., playback experiments) are now required to test the hypotheses suggested by our findings. Warning signals could be used to prevent sea turtles of a danger and may contribute to their conservation.}, keywords = {Behaviour, Chelonia mydas, Chelonians, juveniles, Underwater sound production}, issn = {0340-5443}, doi = {10.1007/s00265-025-03561-z}, url = {https://link.springer.com/article/10.1007/s00265-025-03561-z}, author = {Maucourt, L{\'e}o and Charrier, Isabelle and Huetz, Chlo{\'e} and Aubert, Nathalie and Bourgeois, Ouv{\'e}a and Jeantet, Lor{\`e}ne and Lecerf, Nicolas and Lefebvre, Fabien and Lelong, Pierre and Lepori, Muriel and Martin, Jordan and R{\'e}gis, Sidney and Chevallier, Damien} } @article {10000, title = {Fibropapillomatosis Dynamics, Severity and Demographic Effect in Caribbean Green Turtles}, journal = {EcoHealth}, year = {2025}, month = {May-02-2025}, doi = {10.1007/s10393-025-01701-5}, url = {https://doi.org/10.1007/s10393-025-01701-5}, 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 Fort, J{\'e}r{\^o}me and Bustamante, Paco and Dupont, Sophie M. and Vincze, Orsolya and Page, Annie and Perrault, Justin R. and de Thoisy, Beno{\^\i}t 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 Passalboni, Anne-Sophie and Jeantet, Lor{\`e}ne and Hielard, Ga{\"e}lle 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 Desnos, Ana{\"\i}s and Maceno, Myriane and Larcher, Eug{\`e}ne and Le Maho, Yvon and Chevallier, Damien} } @article {10037, title = {Migratory Connectivity and Non-Breeding Habitat Segregation Across Biogeographical Scales in Closely Related Seabird Taxa}, journal = {Diversity and Distributions}, volume = {31}, year = {2025}, month = {Jan-03-2025}, issn = {1366-9516}, doi = {10.1111/ddi.v31.310.1111/ddi.70013}, url = {https://onlinelibrary.wiley.com/toc/14724642/31/3https://onlinelibrary.wiley.com/doi/10.1111/ddi.70013https://onlinelibrary.wiley.com/doi/pdf/10.1111/ddi.70013}, author = {Morera-Pujol, Virginia and Catry, Paulo and Magalh{\~a}es, Maria and Clara P{\'e}ron and Reyes-Gonz{\'a}lez, Jos{\'e} Manuel and Granadeiro, Jos{\'e} Pedro and Milit{\~a}o, Teresa and Dias, Maria P. and Oro, Daniel and Igual, Jos{\'e} Manuel and Dell{\textquoteright}Omo, Giacomo and M{\"u}ller, Martina and Paiva, Vitor H. and Metzger, Benjamin and Neves, Ver{\'o}nica and Navarro, Joan and Karris, Georgios and Xirouchakis, Stavros and Cecere, Jacopo G. and Zamora-Mar{\'\i}n, Jos{\'e} Manuel and Forero, Manuela G. and Af{\'a}n, Isabel and Ouni, Ridha and Romdhane, Mohamed Salah and De Felipe, Fernanda and Zajkov{\'a}, Zuzana and Cruz-Flores, Marta and Gr{\'e}millet, David and Gonz{\'a}lez-Sol{\'\i}s, Jacob and Ramos, Ra{\"u}l} } @article {10010, title = {A summer in the greater Paris: trophic status of peri-urban lakes shapes prokaryotic community structure and functional potentialAbstract}, journal = {Environmental Microbiome}, volume = {20}, year = {2025}, month = {Jan-12-2025}, doi = {10.1186/s40793-025-00681-x}, url = {https://environmentalmicrobiome.biomedcentral.com/articles/10.1186/s40793-025-00681-x}, author = {Foucault, Pierre and Halary, S{\'e}bastien and Duval, Charlotte and Goto, Midoli and Marie, Benjamin and Sahima Hamlaoui and Jardillier, Ludwig and Lamy, Dominique and Lance, Emilie and Raimbault, Emmanuelle and Allouti, Fay{\c c}al and Troussellier, Marc and Bernard, C{\'e}cile and Leloup, Julie and Duperron, S{\'e}bastien} } @article {9577, title = {Amphidromous shrimps (Decapoda: Caridea): current knowledge and future research}, journal = {Journal of Crustacean Biology}, volume = {44}, year = {2024}, month = {Feb-09-2024}, type = {Review article}, issn = {0278-0372}, doi = {10.1093/jcbiol/ruae003}, url = {https://academic.oup.com/jcb/article-abstract/44/1/ruae003/7604398?redirectedFrom=fulltext\&login=false}, author = {de Mazancourt, Valentin and Ravaux, Juliette} } @article {9558, title = {Ancestors{\textquoteright} Gift: Parental Early Exposure to the Environmentally Realistic Pesticide Mixture Drives Offspring Phenotype in a Larger Extent Than Direct Exposure in the Pacific Oyster, Crassostrea gigas}, journal = {Environmental Science \& Technology}, year = {2024}, issn = {0013-936X}, doi = {10.1021/acs.est.3c0820110}, url = {https://pubs.acs.org/doi/10.1021/acs.est.3c08201}, author = {Sol-Dourdin, Thomas and Guyomard, Killian and Rabiller, Manuella and Houssais, Nina and Cormier, Alexandre and Le Monier, Pauline and Sussarellu, Rossana and Guillaume Rivi{\`e}re} } @article {9763, title = {Approaches and methods to study wildlife cancerAbstract}, journal = {Journal of Animal Ecology}, year = {2024}, month = {Mar-08-2026}, abstract = {The last few years have seen a surge of interest from field ecologists and evolutionary biologists to study neoplasia and cancer in wildlife. This contributes to the One Health Approach, which investigates health issues at the intersection of people, wild and domestic animals, together with their changing environments. Nonetheless, the emerging field of wildlife cancer is currently constrained by methodological limitations in detecting cancer using non-invasive sampling. In addition, the suspected differential susceptibility and resistance of species to cancer often make the choice of a unique model species difficult for field biologists.
Here, we provide an overview of the importance of pursuing the study of cancer in non-model organisms and we review the currently available methods to detect, measure and quantify cancer in the wild, as well as the methodological limitations to be overcome to develop novel approaches inspired by diagnostic techniques used in human medicine.
The methodology we propose here will help understand and hopefully fight this major disease by generating general knowledge about cancer, variation in its rates, tumour-suppressor mechanisms across species as well as its link to life history and physiological characters. Moreover, this is expected to provide key information about cancer in wildlife, which is a top priority due to the accelerated anthropogenic change in the past decades that might favour cancer progression in wild populations.}, issn = {0021-8790}, doi = {10.1111/1365-2656.14144}, url = {https://besjournals.onlinelibrary.wiley.com/doi/10.1111/1365-2656.14144https://besjournals.onlinelibrary.wiley.com/doi/pdf/10.1111/1365-2656.14144}, author = {Giraudeau, Mathieu and Vincze, Orsolya and Dupont, Sophie M. and Sepp, Tuul and Baines, Ciara and Lemaitre, Jean-Francois and Lemberger, Karin and Gent{\`e}s, Sophie and Boddy, Amy and Dujon, Antoine M. and Bramwell, Georgina and Harris, Valerie and Ujvari, Beata and Alix-Panabi{\`e}res, Catherine and Lair, Stephane and Sayag, David and Conde, Dalia A. and Colchero, Fernando and Harrison, Tara M. and Pavard, Samuel and Padilla-Morales, Benjamin and Chevallier, Damien and Hamede, Rodrigo and Roche, Benjamin and Malkocs, Tamas and Aktipis, Athena C. and Maley, Carlo and DeGregori, James and Le~Loc{\textquoteright}h, Guillaume and Thomas, Fr{\'e}d{\'e}ric} } @article {9939, title = {Comparative transcriptomics reveal a novel tardigrade-specific DNA-binding protein induced in response to ionizing radiation}, journal = {eLife}, volume = {13}, year = {2024}, month = {Sep-07-2024}, doi = {10.7554/eLife.92621.3}, url = {https://elifesciences.org/articles/92621}, author = {Anoud, Marwan and Delagoutte, Emmanuelle and Helleu, Quentin and Brion, Alice and Duvernois-Berthet, Evelyne and As, Marie and Marques, Xavier and Lamribet, Khadija and Senamaud-Beaufort, Catherine and Jourdren, Laurent and Adrait, Annie and Heinrich, Sophie and Toutirais, Geraldine and Sahima Hamlaoui and Gropplero, Giacomo and Giovannini, Ilaria and Ponger, Loic and Geze, Marc and Blugeon, Corinne and Cout{\'e}, Yohann and Guidetti, Roberto and Rebecchi, Lorena and Giovannangeli, Carine and De Cian, Anne and Concordet, Jean-Paul} } @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 {9888, title = {Efficient oxidation attenuates porewater-derived methane fluxes in mangrove watersAbstract}, journal = {Limnology and Oceanography}, volume = {69}, year = {2024}, month = {Jan-09-2024}, pages = {1997 - 2014}, issn = {0024-3590}, doi = {10.1002/lno.v69.910.1002/lno.12639}, url = {https://aslopubs.onlinelibrary.wiley.com/toc/19395590/69/9https://aslopubs.onlinelibrary.wiley.com/doi/10.1002/lno.12639https://aslopubs.onlinelibrary.wiley.com/doi/pdf/10.1002/lno.12639}, author = {Yau, Yvonne Y. Y. and Cabral, Alex and Reithmaier, Gloria and Cotovicz, Luiz C. and Barreira, Jo{\~a}o and Gwena{\"e}l Abril and Morana, Cedric and Borges, Alberto V. and Machado, Wilson and Godoy, Jos{\'e} M. and Bonaglia, Stefano and Santos, Isaac R.} } @article {10006, title = {Evaluation of a Nanopore Sequencing Strategy on Bacterial Communities From Marine Sediments}, journal = {Environmental DNA}, volume = {6}, year = {2024}, month = {Jan-09-2024}, abstract = {Following the development of high-throughput DNA sequencers, environmental prokaryotic communities were usually described by metabarcoding on short markers of the 16S domain. Among third-generation sequencers, that offered the possibility to sequence the full 16S domain, the portable MinION from Oxford Nanopore was undervalued for metabarcoding because of its relatively higher error rate per read. Here we illustrate the limits and benefits of Nanopore sequencing devices by comparing the prokaryotic community structure in a mock community and 52 sediment samples from mangrove sites, inferred from full-length 16S long-reads (16S-FL, ca. 1.5 kbp) on a MinION device, with those inferred from partial 16S short-reads (16S-V4V5, ca. 0.4 kbp, 16S-V4V5) on Illumina MiSeq.\ 16S-V4V5 and 16S-FL retrieved all the bacterial species from the mock, but Nanopore long-reads overestimated their diversity (56 species vs. 15). Whether these supplementary OTUs were artefactual or not, they only accounted for ca. 10\% of the reads. From the sediment samples, with a coverage-based rarefaction of reads and after singletons filtering, Mantel and Procrustean tests of co-inertia showed that bacterial community structures inferred from 16S-V4V5 and 16S-FL were significantly similar, showing both a comparable contrast between sites and a coherent sea-land orientation within sites. In our dataset, 84.7\% and 98.8\% of the 16S-V4V5 assigned reads were assigned strictly to the same species and genus, respectively, than those detected by 16S-FL. 16S-FL detected 92.2\% of the 309 families and 87.7\% of the 448 genera that were detected by the short 16S-V4V5. 16S-FL recorded 973 additional species and 392 genus not detected by 16S-V4V5 (31.5\% and 10.4\% of the 16S-FL reads, respectively, among which 67.8\% and 79.3\% were assigned), produced by both primer specificities and different error rates. Thus, our results concluded an overall similarity between 16S-V4V5 and 16S-FL sequencing strategies for this type of environmental samples.}, issn = {2637-4943}, doi = {10.1002/edn3.v6.510.1002/edn3.70009}, url = {https://onlinelibrary.wiley.com/toc/26374943/6/5https://onlinelibrary.wiley.com/doi/10.1002/edn3.70009https://onlinelibrary.wiley.com/doi/pdf/10.1002/edn3.70009}, author = {Lemoinne, Alice and Dirberg, Guillaume and Georges, Myriam and Robinet, Tony} } @article {9929, title = {Evolutionary genomics of the emergence of brown algae as key components of coastal ecosystems}, journal = {Cell}, volume = {187}, year = {2024}, month = {Jan-11-2024}, pages = {6943 - 6965.e39}, abstract = {Brown seaweeds are keystone species of coastal ecosystems, often forming extensive underwater forests, and are under considerable threat from climate change. In this study, analysis of multiple genomes has provided insights across the entire evolutionary history of this lineage, from initial emergence, through later diversification of the brown algal orders, down to microevolutionary events at the genus level. Emergence of the brown algal lineage was associated with a marked gain of new orthologous gene families, enhanced protein domain rearrangement, increased horizontal gene transfer events, and the acquisition of novel signaling molecules and key metabolic pathways, the latter notably related to biosynthesis of the alginate-based extracellular matrix, and halogen and phlorotannin biosynthesis. We show that brown algal genome diversification is tightly linked to phenotypic divergence, including changes in life cycle strategy and zoid flagellar structure. The study also showed that integration of large viral genomes has had a significant impact on brown algal genome content throughout the emergence of the lineage.}, issn = {00928674}, doi = {10.1016/j.cell.2024.10.049}, url = {https://www.cell.com/cell/fulltext/S0092-8674(24)01272-8}, author = {Denoeud, France and Godfroy, Olivier and Cruaud, Corinne and Heesch, Svenja and Nehr, Zofia and Tadrent, Nachida and Couloux, Arnaud and Brillet-Gu{\'e}guen, Loraine and Delage, Ludovic and Mckeown, Dean and Motomura, Taizo and Sussfeld, Duncan and Fan, Xiao and Maz{\'e}as, Lisa and Terrapon, Nicolas and Barrera-Redondo, Josu{\'e} and Petroll, Romy and Reynes, Lauric and Choi, Seok-Wan and Jo, Jihoon and Uthanumallian, Kavitha and Bogaert, Kenny and Duc, C{\'e}line and Ratchinski, P{\'e}lagie and Lipinska, Agnieszka and Noel, Benjamin and Murphy, Eleanor A. and Lohr, Martin and Khatei, Ananya and Hamon-Giraud, Pauline and Vieira, Christophe and Avia, Komlan and Akerfors, Svea Sanja and Akita, Shingo and Badis, Yacine and Barbeyron, Tristan and Belcour, Arnaud and Berrabah, Wahiba and Blanquart, Samuel and Bouguerba-Collin, Ahlem and Bringloe, Trevor and Cattolico, Rose Ann and Cormier, Alexandre and Cruz de Carvalho, Helena and Dallet, Romain and De Clerck, Olivier and Debit, Ahmed and Denis, Erwan and Destombe, Christophe and Dinatale, Erica and Dittami, Simon and Drula, Elodie and Faugeron, Sylvain and Got, Jeanne and Graf, Louis and Groisillier, Agn{\`e}s and Guillemin, Marie-Laure and Harms, Lars and Hatchett, William John and Henrissat, Bernard and Hoarau, Galice and Jollivet, Chlo{\'e} and Jueterbock, Alexander and Kayal, Ehsan and Knoll, Andrew H. and Kogame, Kazuhiro and Le Bars, Arthur and Leblanc, Catherine and Le Gall, Line and Ley, Ronja and Liu, Xi and LoDuca, Steven T. and Pascal Jean Lopez and Lopez, Philippe and Manirakiza, Eric and Massau, Karine and Mauger, St{\'e}phane and Mest, Laetitia and Michel, Gurvan and Monteiro, Catia and Nagasato, Chikako and N{\`e}gre, Delphine and Pelletier, Eric and Phillips, Naomi and Potin, Philippe and Rensing, Stefan A. and Rousselot, Ellyn and Rousvoal, Sylvie and Schroeder, Declan and Scornet, Delphine and Siegel, Anne and Tirichine, Leila and Tonon, Thierry and Valentin, Klaus and Verbruggen, Heroen and Weinberger, Florian and Wheeler, Glen and Kawai, Hiroshi and Peters, Akira F. and Yoon, Hwan Su and Herv{\'e}, C{\'e}cile and Ye, Naihao and Bapteste, Eric and Valero, Myriam and Markov, Gabriel V. and Corre, Erwan and Coelho, Susana M. and Wincker, Patrick and Aury, Jean-Marc and Cock, J. Mark} } @article {9764, title = {Fatty acids and Stable Isotopes distribution in the mangrove dominated Parna{\'\i}ba River Delta}, journal = {Estuarine, Coastal and Shelf Science}, volume = {308}, year = {2024}, month = {Jan-11-2024}, pages = {108934}, issn = {02727714}, doi = {10.1016/j.ecss.2024.108934}, url = {linkinghub.elsevier.com/retrieve/pii/S0272771424003226}, author = {Chielle, Raisa and Meziane, Tarik and Rezende, Carlos E. and Cotovicz, Luiz C. and Gwena{\"e}l Abril and Marins, Rozane V.} } @article {9696, title = {Genetic variability of New Caledonian Boeckella de Guerne \& Richard, 1889 (Copepoda: Calanoida), with the description of a new species}, journal = {Journal of Crustacean Biology}, volume = {44}, year = {2024}, pages = {1{\textendash}17}, abstract = {Thirteen new freshwater populations of the copepod genus Boeckella De Guerne \& Richard, 1889 were found during three expeditions to New Caledonia ( La Planete Revisitee, 2016-2018). The 12 populations from the Plaine des Lacs, which show remarkable genetic diversity among themselves, were identified as B. spinogibba Defaye, 1998, the only species of its genus known from New Caledonia until now. The sole exception, the population from Mont-Dore 22 km further east, appeared genetically and morphologically distinct from the others and is described herein as a new species. The two species are distinguished from each other by the shapes of the male and female P5, female Th5, and body colour. A previously published key is amended to separate the species. Our concatenated COI+28S phylogeny places the two New Caledonia species as a new branch within Boeckella, distinct from the branches consisting of South American, Antarctic and Australasian species. All 13 Boeckella populations inhabit the extreme south of New Caledonia, an area known for endemism and high heavy metal concentrations in the soil. Extensive mining activity in this metal-rich area, begun in 1873, is now leading to conflict with conservation goals. By using aerial photographs to trace the fate of the pond that is the type locality of B. spinogibba, we confirmed that it disappeared between 2007 and 2014 as a result of the expansion of the Goro nickel mine.}, keywords = {Boeckella spinogibba, Conservation, Crustacea, freshwater zooplankton, micro-endemism, mining perturbation, morphology, Phylogeny, population genetics}, issn = {1937240X}, doi = {10.1093/jcbiol/ruae001}, author = {Royaux, Coline and Charpin, Nicolas and Nicolas Rabet} } @article {9891, title = {A global database of dissolved organic matter (DOM) concentration measurements in coastal waters (CoastDOM v1)}, journal = {Earth System Science Data}, volume = {16}, year = {2024}, month = {Jan-01-2024}, pages = {1107 - 1119}, doi = {10.5194/essd-16-1107-2024}, url = {https://essd.copernicus.org/articles/16/1107/2024/https://essd.copernicus.org/articles/16/1107/2024/essd-16-1107-2024.pdf}, author = {L{\o}nborg, Christian and Carreira, C{\'a}tia and Gwena{\"e}l Abril and Agust{\'\i}, Susana and Amaral, Valentina and Andersson, Agneta and Ar{\'\i}stegui, Javier and Bhadury, Punyasloke and Bif, Mariana B. and Borges, Alberto V. and Bouillon, Steven and Calleja, Maria Ll. and Cotovicz Jr., Luiz C. and Cozzi, Stefano and Doval, Maryl{\'o} and Duarte, Carlos M. and Eyre, Bradley and Fichot, C{\'e}dric G. and Garc{\'\i}a-Mart{\'\i}n, E. Elena and Garzon-Garcia, Alexandra and Giani, Michele and Gon{\c c}alves-Araujo, Rafael and Gruber, Renee and Hansell, Dennis A. and Hashihama, Fuminori and He, Ding and Holding, Johnna M. and Hunter, William R. and Ib{\'a}nhez, J. Severino P. and Ibello, Valeria and Jiang, Shan and Kim, Guebuem and Klun, Katja and Kowalczuk, Piotr and Kubo, Atsushi and Lee, Choon-Weng and Lopes, Cl{\'a}udia B. and Maggioni, Federica and Magni, Paolo and Marrase, Celia and Martin, Patrick and McCallister, S. Leigh and McCallum, Roisin and Medeiros, Patricia M. and Mor{\'a}n, Xos{\'e} Anxelu G. and Muller-Karger, Frank E. and Myers-Pigg, Allison and Norli, Marit and Oakes, Joanne M. and Osterholz, Helena and Park, Hyekyung and Lund Paulsen, Maria and Rosentreter, Judith A. and Ross, Jeff D. and Rueda-Roa, Digna and Santinelli, Chiara and Shen, Yuan and Teira, Eva and Tinta, Tinkara and Uher, Guenther and Wakita, Masahide and Ward, Nicholas and Watanabe, Kenta and Xin, Yu and Yamashita, Youhei and Yang, Liyang and Yeo, Jacob and Yuan, Huamao and Zheng, Qiang and {\'A}lvarez-Salgado, Xos{\'e} Ant{\'o}n} } @article {9752, title = {Impact of environmental conditions on English Channel long-finned squid (Loligo spp.) recruitment strength and spatial location}, journal = {Frontiers in Marine Science}, volume = {11}, year = {2024}, month = {Aug-13-2024}, doi = {10.3389/fmars.2024.1433071}, url = {https://www.frontiersin.org/journals/marine-science/articles/10.3389/fmars.2024.1433071/full}, author = {Marcout, Anna and Foucher, Eric and Pierce, Graham J. and Robin, Jean-Paul} } @article {9864, title = {Opportunities for Earth Observation to Inform Risk Management for Ocean Tipping Points}, journal = {Surveys in Geophysics}, year = {2024}, month = {Jun-11-2024}, abstract = {As climate change continues, the likelihood of passing critical thresholds or tipping points increases. Hence, there is a need to advance the science for detecting such thresholds. In this paper, we assess the needs and opportunities for Earth Observation (EO, here understood to refer to satellite observations) to inform society in responding to the risks associated with ten potential large-scale ocean tipping elements: Atlantic Meridional Overturning Circulation; Atlantic Subpolar Gyre; Beaufort Gyre; Arctic halocline; Kuroshio Large Meander; deoxygenation; phytoplankton; zooplankton; higher level ecosystems (including fisheries); and marine biodiversity. We review current scientific understanding and identify specific EO and related modelling needs for each of these tipping elements. We draw out some generic points that apply across several of the elements. These common points include the importance of maintaining long-term, consistent time series; the need to combine EO data consistently with in situ data types (including subsurface), for example through data assimilation; and the need to reduce or work with current mismatches in resolution (in both directions) between climate models and EO datasets. Our analysis shows that developing EO, modelling and prediction systems together, with understanding of the strengths and limitations of each, provides many promising paths towards monitoring and early warning systems for tipping, and towards the development of the next generation of climate models.}, issn = {0169-3298}, doi = {10.1007/s10712-024-09859-3}, url = {https://link.springer.com/article/10.1007/s10712-024-09859-3}, author = {Wood, Richard A. and Baker, Jonathan A. and Gr{\'e}gory Beaugrand and Boutin, Jacqueline and Alessandra Conversi and Donner, Reik V. and Frenger, Ivy and Goberville, Eric and Hayashida, Hakase and Koeve, Wolfgang and Kvale, Karin and Landolfi, Angela and Maslowski, Wieslaw and Oschlies, Andreas and Romanou, Anastasia and Somes, Christopher J. and Stocker, Thomas F. and Swingedouw, Didier} } @article {9759, title = {The response of sea turtles to vocalizations opens new perspectives to reduce their bycatch}, journal = {Scientific reports}, volume = {14}, year = {2024}, month = {07/2024}, abstract = {Incidental capture of non-target species poses a pervasive threat to many marine species, with sometimes devastating consequences for both fisheries and conservation efforts. Because of the well-known importance of vocalizations in cetaceans, acoustic deterrents have been extensively used for these species. In contrast, acoustic communication for sea turtles has been considered negligible, and this question has been largely unexplored. Addressing this challenge therefore requires a comprehensive understanding of sea turtles{\textquoteright} responses to sensory signals. In this study, we scrutinized the avenue of auditory cues, specifically the natural sounds produced by green turtles (Chelonia mydas) in Martinique, as a potential tool to reduce bycatch. We recorded 10 sounds produced by green turtles and identified those that appear to correspond to alerts, flight or social contact between individuals. Subsequently, these turtle sounds{\textemdash}as well synthetic and natural (earthquake) sounds{\textemdash}were presented to turtles in known foraging areas to assess the behavioral response of green turtles to these sounds. Our data highlighted that the playback of sounds produced by sea turtles was associated with alert or increased the vigilance of individuals. This therefore suggests novel opportunities for using sea turtle sounds to deter them from fishing gear or other potentially harmful areas, and highlights the potential of our research to improve sea turtles populations{\textquoteright} conservation.}, keywords = {Acoustic, Bycatch, Conservation, Sea turtles, Vocalizations}, doi = {10.1038/s41598-024-67501-z }, url = {https://www.nature.com/articles/s41598-024-67501-z$\#$citeas}, author = {Chevallier, Damien and Maucourt, L{\'e}o and Charrier, Isabelle and Lelong, Pierre and Le Gall, Yves and Menut, Eric and Wallace, Bryan and Delvenne, Cyrielle and Vincze, Orsolya and Jeantet, Lor{\`e}ne and Girondot, Marc and Martin, Jordan and Bourgeois, Ouv{\'e}a and Lepori, Muriel and Fournier, Pascal and Fournier-Chambrillon, Christine and R{\'e}gis, Sidney and Lecerf, Nicolas and Lefebvre, Fabien and Aubert, Nathalie and Arthus, Mosiah and Pujol, Matthieu and Nalovic, Michel Anthony and Moulanier, Nicolas and Burg, Marie-Cl{\'e}mence and Chevallier, Pascale and Chevallier, Tao and Landreau, Anthony and Meslier, St{\'e}phane and Larcher, Eug{\`e}ne and Le Maho, Yvon} } @article {9557, title = {Structural and functional characterization of an egg-laying hormone signaling system in a lophotrochozoan {\textendash} The pacific oyster (Crassostrea gigas)}, journal = {General and Comparative Endocrinology}, volume = {346}, year = {2024}, month = {Jan-01-2024}, pages = {114417}, issn = {00166480}, doi = {10.1016/j.ygcen.2023.114417}, url = {https://linkinghub.elsevier.com/retrieve/pii/S0016648023002228}, author = {Favrel, P. and Dubos, M.P. and Bernay, B. and Pasquier, J. and Schwartz, J. and Lefranc, B. and Mouret, L. and Guillaume Rivi{\`e}re and Leprince, J. and Bondon, A.} } @article {9551, title = {Trace element variations in mussels{\textquoteright} shells from continent to sea: The St. Lawrence system, Canada}, journal = {Marine Pollution Bulletin}, volume = {199}, year = {2024}, month = {Jan-02-2024}, pages = {116034}, abstract = {Rare Earth Elements (REE) and several trace elements abundances in mussel{\textquoteright}s shells collected along the St. Lawrence River, the Estuary, and the Gulf of St. Lawrence (EGSL) reveal coherent chemical variations, with a sharp contrast between freshwater and seawater bivalves. In freshwater mussel{\textquoteright}s shells, Rare Earth Elements and Y (REY) patterns are rather flat. Their Mn and Ba concentrations are higher than those of EGSL mussel shells, which are much richer in Sr. Shale-normalized REY abundances in mussel{\textquoteright}s shells from the EGSL show positive anomalies in La and Y and well-marked negative anomalies in Ce, reflecting those of seawater. Prince Edward Island shells show light REE depletion relative to PAAS, positive La and Y anomalies, and negative Ce anomalies. Our data confirm the lack of detectable Gd pollution in the St. Lawrence River and in the EGSL, as well as Pb pollution at the mouth of the Saguenay Fjord and near Rimouski.}, keywords = {Rare earth elements Trace elements Estuary Bivalve Shell Environmental proxy Pollution}, issn = {0025326X}, doi = {10.1016/j.marpolbul.2024.116034}, url = {https://linkinghub.elsevier.com/retrieve/pii/S0025326X24000110}, author = {Guillot, Alice and Barrat, Jean-Alix and Fr{\'e}d{\'e}ric Olivier and Tremblay, Rejean and Saint-Louis, Richard and Rouget, Marie-Laure and Ben Salem, Douraied} } @article {9290, title = {Artificial reef effectiveness changes among types as revealed by underwater hyperspectral imagery}, journal = {Restoration Ecology}, year = {2023}, month = {Dec-07-2024}, pages = {e13978}, abstract = {Artificial reefs (ARs) are designed to mimic natural habitats and promote marine life. Their effectiveness is however debatable and can depend on factors such as structural complexity and construction material. Old artificial reefs (OARs) were made of concrete mold of simple geometric shapes, limiting their ability to mimic the complexity of natural reefs. Recent advancements in three-dimentional (3D)-printing technology have enabled the creation of 3D-printed artificial reefs (3DRs) with biocompatible material and complex structures that can better simulate the natural habitats. We employed underwater hyperspectral technology to estimate the performance of these reefs and compare the benthic photosynthetic signal of natural reefs (NATs) with those of ARs (OARs and 3DRs) in coastal area of the north-western Mediterranean (France and Monaco Principality). We expected differences in reflectance signals between OARs and NATs, and signals closer to NATs in 3DRs than OARs. Underwater hyperspectral technology was able to detect higher chlorophyll-a\ derived signals on NATs than OARs. Moreover, the magnitude of differences between 3DRs and NATs was smaller than that between OARs and NATs. Although ARs were not capable of mimicking natural reefs, the use of 3D-printed ARs might ameliorate their effectiveness for coastal reconciliation.}, issn = {1061-2971}, doi = {10.1111/rec.13978}, url = {https://onlinelibrary.wiley.com/doi/10.1111/rec.13978}, author = {Elisabeth Riera and C{\'e}dric Hubas and Ungermann, Mischa and Rigot, Guy and Pey, Alexis and Patrice Francour and Rossi, Fracesca} } @article {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 {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 {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 {9214, title = {Diet quality determines blue mussel physiological status: A long-term experimental multi-biomarker approach}, journal = {Journal of Experimental Marine Biology and Ecology}, volume = {563}, year = {2023}, month = {Jan-06-2023}, pages = {151894}, issn = {00220981}, doi = {10.1016/j.jembe.2023.151894}, url = {https://linkinghub.elsevier.com/retrieve/pii/S0022098123000266}, author = {Li{\'e}nart, Camilla and Tedengren, Michael and Garbaras, Andrius and Lim, Hwanmi and Chynel, Mathias and Robinson, Christophe and Tarik Meziane and Karlson, Agnes M.L.} } @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 C{\'e}line Bonillo and Philippe Keith and Clara Lord and Audebert, Fabienne} } @book {9396, title = {El Observatorio permanente del Lago Titicaca (OLT) {\textendash} Investigaci{\'o}n y monitoreo de la eutrofizaci{\'o}n del Lago Menor con estaciones limnol{\'o}gicas, boya HydroMet y teledetecci{\'o}n satelital.}, series = {IRD/BOREA, UMSA/IE \& UMSA/IIGEO.}, year = {2023}, pages = {370}, publisher = {Proyecto Piloto PNUD/GEF 05-B-05 (2019-2022). Concep Trazzos - Proyectos Gr{\'a}ficos, La Paz, Bolivia}, organization = {Proyecto Piloto PNUD/GEF 05-B-05 (2019-2022). Concep Trazzos - Proyectos Gr{\'a}ficos, La Paz, Bolivia}, edition = {Registro de Deposito Legal de Obras Impresas}, issn = {978-9917-0-3035-5}, author = {Xavier Lazzaro and Viviana Edith Cruz Hern{\'a}ndez and Marcela Andrea Ormachea Rojas and William Gustavo Lanza Aguilar and Javier Alberto Maldonado Alfaro and Javier N{\'u}{\~n}ez Villalba} } @article {10044, title = {The epitome of data paucity: Deep-sea habitats of the Southern Indian Ocean}, journal = {Biological Conservation}, volume = {283}, year = {2023}, month = {Jan-07-2023}, pages = {110096}, issn = {00063207}, doi = {10.1016/j.biocon.2023.110096}, url = {https://www.sciencedirect.com/science/article/pii/S0006320723001970$\#$f0010}, author = {Ramiro-S{\'a}nchez, Berta and Martin Alexis and Leroy, Boris} } @article {9275, title = {Global assessment of marine plastic exposure risk for oceanic birds}, journal = {Nature Communications}, volume = {14}, year = {2023}, month = {07/2023}, abstract = {Plastic pollution is distributed patchily around the world{\textquoteright}s oceans. Likewise, marine organisms that are vulnerable to plastic ingestion or entanglement have uneven distributions. Understanding where wildlife encounters plastic is crucial for targeting research and mitigation. Oceanic seabirds, particularly petrels, frequently ingest plastic, are highly threatened, and cover vast distances during foraging and migration. However, the spatial overlap between petrels and plastics is poorly understood. Here we combine marine plastic density estimates with individual movement data for 7137 birds of 77 petrel species to estimate relative exposure risk. We identify high exposure risk areas in the Mediterranean and Black seas, and the northeast Pacific, northwest Pacific, South Atlantic and southwest Indian oceans. Plastic exposure risk varies greatly among species and populations, and between breeding and non-breeding seasons. Exposure risk is disproportionately high for Threatened species. Outside the Mediterranean and Black seas, exposure risk is highest in the high seas and Exclusive Economic Zones (EEZs) of the USA, Japan, and the UK. Birds generally had higher plastic exposure risk outside the EEZ of the country where they breed. We identify conservation and research priorities, and highlight that international collaboration is key to addressing the impacts of marine plastic on wide-ranging species.}, doi = {10.1038/s41467-023-38900-z}, url = {https://www.nature.com/articles/s41467-023-38900-z}, author = {Clark, Bethany L. and Carneiro, Ana P.B. and Pearmain, Elisabeth J. and Rouyer, Marie-Morgane and ... and Clara P{\'e}ron and al.} } @article {9526, title = {Identification of microbial exopolymer producers in sandy and muddy intertidal sediments by compound-specific isotope analysis}, journal = {Peer Community Journal}, volume = {3}, year = {2023}, month = {Jan-01-2023}, abstract = {Extracellular polymeric substances (EPS) refer to a wide variety of high molecular weight molecules secreted outside the cell membrane by biofilm microorganisms. In the present study, EPS from marine microphytobenthic biofilms were extracted and their isotope ratios were analysed. A comparison of these ratios with the carbon isotope ratios of fatty acid biomarkers allowed the identification of the main EPS producers of two contrasting types of intertidal marine sediments. Our study reveals that EPS sources are more diverse in sandy sediments than in muddy sediments. We also found distinct patterns in the production and breakdown of EPS in sandy and muddy environments. The main difference observed was in how epipelic and epipsammic diatoms affected the chemistry of EPS, which had significant implications for the growth of bacteria specialized in utilizing EPS. These differences were likely linked to variations in the functioning of epipelic and epipsammic communities, specifically in how EPS was used either for motility or for cell attachment.}, doi = {10.24072/pcjournal.336}, url = {https://peercommunityjournal.org/articles/10.24072/pcjournal.336/}, author = {C{\'e}dric Hubas and Gaubert-Boussarie, Julie and D{\textquoteright}Hondt, An-Sofie and Bruno Jesus and Lamy, Dominique and Meleder, Vona and Prins, Antoine and Rosa, Philippe and Stock, Willem and Sabbe, Koen} } @article {9641, title = {Isotopic niches of diadromous fishes inform on interspecific competition in an obstructed catchment}, journal = {Frontiers in Ecology and Evolution}, volume = {11}, year = {2023}, month = {Apr-11-2025}, abstract = {Competition arises when species share a limited resource, but this can be avoided through niche partitioning. Despite the large body of literature on diadromous fishes, very few studies have focused on niche partitioning when competing for resources. Diadromous fishes are suffering a global decline throughout their range in part due to their peculiar life history traits as they migrate from the sea to freshwater to spawn or the reverse. They are particularly sensitive to river fragmentation induced by barriers. Dams for instance are expected to alter the spatial distribution and resource exploitation of diadromous fishes as well as other organisms. Here, we studied the ecological niche of six taxa of diadromous fishes, temporally co-occurring in the same land{\textendash}sea continuum obstructed by two river dams. We used Bayesian mixing models run on C and N isotopes to infer the various habitats used and the origin of the trophic carbon in muscle and scale tissues of diadromous fishes. Results showed that the sub-adults of\ Anguilla anguilla, juveniles of\ Petromyzon marinus, and\ Salmo trutta\ exploit mainly the freshwater, or marine part for adults of\ Lampetra fluviatilis, whereas juveniles of\ Platichthys flesus\ and Mugilidae use all the habitats of the land{\textendash}sea continuum. In the freshwater habitat, the microphytobenthos and biofilm are the main sources of carbon used, while in the marine habitat, the basal carbon sources are more diverse. The analyses of niche overlaps between diadromous fishes demonstrate that the widest isotopic niches, observed for\ A. anguilla\ and\ P. flesus, also have more impact within the community. Results are discussed in terms of intra- and interspecific competition between these diadromous fishes and their generalist/specialist strategies in an obstructed catchment.}, doi = {10.3389/fevo.2023.124245210.3389/fevo.2023.1242452.s001}, url = {https://www.frontiersin.org/articles/10.3389/fevo.2023.1242452/fullhttps://www.frontiersin.org/articles/10.3389/fevo.2023.1242452/fullhttps://www.frontiersin.org/articles/10.3389/fevo.2023.1242452/supplementary-material/10.3389/fevo.2023.1242452.s001}, author = {Liz{\'e}, Anne and Teichert, Nils and Roussel, Jean-Marc and Acou, Anthony and Feunteun, Eric and Carpentier, Alexandre} } @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 {9107, title = {Local scale high frequency monitoring of seaweed strandings along an intertidal shore of the English Channel (Luc-sur-Mer, Normandy France) {\textendash} Effect of biotic and abiotic factors}, journal = {Aquatic Botany}, volume = {186}, year = {2023}, month = {Jan-05-2023}, pages = {103616}, issn = {03043770}, doi = {10.1016/j.aquabot.2023.103616}, url = {https://linkinghub.elsevier.com/retrieve/pii/S0304377023000013}, author = {St{\'e}phanie Lemesle and Anne-Marie Rusig and Isabelle Mussio} } @article {9559, title = {m6A Profile Dynamics Indicates Regulation of Oyster Development by m6A-RNA Epitranscriptomes}, journal = {Genomics, Proteomics \& Bioinformatics}, volume = {21}, year = {2023}, month = {Jan-08-2023}, pages = {742 - 755}, issn = {16720229}, doi = {10.1016/j.gpb.2022.12.002}, url = {https://linkinghub.elsevier.com/retrieve/pii/S1672022922001516}, author = {Le Franc, Lorane and Petton, Bruno and Favrel, Pascal and Guillaume Rivi{\`e}re} } @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 Fr{\'e}d{\'e}ric Olivier 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} } @book {9244, title = {Modelling 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 {9560, title = {Molecular and phenotypic effects of early exposure to an environmentally relevant pesticide mixture in the Pacific oyster, Crassostrea gigas.}, journal = {Environmental Pollution}, volume = {326}, year = {2023}, month = {Jan-06-2023}, pages = {121472}, issn = {02697491}, doi = {10.1016/j.envpol.2023.121472}, url = {https://linkinghub.elsevier.com/retrieve/pii/S0269749123004748}, author = {Sol-Dourdin, Thomas and Guillaume Rivi{\`e}re and Cormier, Alexandre and Di Poi, Carole and Guyomard, Killian and Rabiller, Manuella and Akcha, Farida and Bah Sadialiou, Thierno and Le Monier, Pauline and Sussarellu, Rossana} } @article {9246, title = {Molecular ecology of the freshwater shrimp Caridina natalensis and comparative analysis with other amphidromous species (Decapoda, Teleostei, and Gastropoda)}, journal = {Hydrobiologia}, year = {2023}, month = {Jun-26-2023}, abstract = {Due to their life cycle shared between rivers and oceans, amphidromous organisms serve as intriguing models for studying biogeography. To investigate the implications of their unique life history, we examined the population structure of the amphidromous shrimp Caridina natalensis across its known range in the South Western Indian Ocean. A total of 118 specimens were collected from 7 islands (Mayotte, Moh{\'e}li, Mah{\'e}, Praslin, Silhouette, Mauritius and Madagascar) and the African mainland (South Africa), and their 16S rRNA and Cox1 mitochondrial genes were sequenced. Our findings reveal significant regional structure among archipelagos, suggesting complex patterns of dispersal involving successive events of extinction-recolonization. By conducting a comparative analysis with six other amphidromous species from the South Western Indian Ocean, based on literature sources, we were able to draw conclusions regarding the amphidromous biogeography of the area. Furthermore, we propose a novel classification of amphidromous species, considering their population structure and life history traits. We defined four categories of increasing dispersal abilities and decreasing genetic population structure: 1. Land-locked species; 2. Species with reduced or facultative amphidromy; 3. Species with common amphidromy; and 4. Super-amphidromous species. Lastly, we identified the Comoros Islands (namely Mayotte and Moh{\'e}li) as a critical area for the dispersal of amphidromous species, emphasizing the need for prioritizing conservation efforts in this region.}, issn = {0018-8158}, doi = {10.1007/s10750-023-05283-7}, url = {https://link.springer.com/10.1007/s10750-023-05283-7}, author = {de Mazancourt, Valentin and Ahmed Abdou and Castelin, Magalie and Ellien, C{\'e}line and Clara Lord and Marion Mennesson and Renneville, Cl{\'e}mentine and Marquet, G{\'e}rard and Philippe Keith} } @article {9222, title = {Nanopore long-reads reveal fine structure of prokaryotic communities in mangrove sediments, like Illumina short-reads but with twice more taxa}, journal = {bioRxiv}, volume = {10.1101/2023.06.06.541006}, year = {2023}, doi = {10.1101/2023.06.06.541006}, author = {Alice Lemoinne and Guillaume Dirberg and Myriam Georges and Tony Robinet} } @article {9111, title = {New species of Pavlovophyceae (Haptophyta) and revision of the genera Exanthemachrysis, Rebecca and Pavlova}, journal = {European Journal of Taxonomy}, volume = {861}, year = {2023}, month = {08-03-2023}, pages = {21 - 47}, abstract = {The justification of the 4 genera that currently compose the class Pavlovophyceae is based on a low number of species and a relative paucity of available, traceable and referenced cultures. Previous integrative phylogeny work revealed strains that can refine and strengthen our knowledge of the genera\ in the class. The application of multiple light and electron microscopy techniques allowed us to prioritize\ the cytomorphological characters (pyrenoid, thylakoid, stigma, knob-scales, life stage / life cycle) used for\ the taxonomy of these algae and to describe two new species:\ Exanthemachrysis fresneliae\ Véron sp. nov. and\ Rebecca billardiae\ Véron sp. nov. Consequently, revisions of the two genera\ Exanthemachrysis\ Lepailleur emend. Véron and\ Rebecca\ Green emend. Véron were made. In addition, the genus\ Pavlova\ Butcher emend Véron is revised in the light of these characters. Particular emphasis is placed on the life\ stages and habitat of the species.}, keywords = {habitats, Haptophytes, New species, Phytoplankton, pyrenoid.}, issn = {2118-9773}, doi = {10.5852/ejt.2023.861.2063}, url = {https://europeanjournaloftaxonomy.eu/index.php/ejt/article/view/2063}, author = {Beno{\^\i}t V{\'e}ron and Rougier, Etienne and Taylor, Anthony and Goux, Didier} } @article {9933, title = {Pesticide upsurge, cross-contamination and biodiversity: case studies from the Caribbean Coast Human-Environment Observatory}, journal = {Comptes Rendus. G{\'e}oscience}, volume = {356}, year = {2023}, month = {Nov-13-2023}, pages = {1 - 22}, doi = {10.5802/crgeos.236}, url = {https://comptes-rendus.academie-sciences.fr/geoscience/articles/10.5802/crgeos.236/https://comptes-rendus.academie-sciences.fr/geoscience/item/10.5802/crgeos.236.pdf}, author = {Herv{\'e}, Vincent and Sabatier, Pierre and Lambourdi{\`e}re, Josie and Raymond, Richard and Foulquier, Eric and Le Berre, Iwan and Pascal Jean Lopez} } @article {9469, title = {Socio-political acceptability of floating offshore wind farms in France: challenges and perspectives for marine governance towards sustainability}, journal = {Ocean \& Coastal Management}, volume = {236}, year = {2023}, month = {Jan-04-2023}, pages = {106513}, issn = {09645691}, doi = {10.1016/j.ocecoaman.2023.106513}, url = {https://linkinghub.elsevier.com/retrieve/pii/S0964569123000388}, author = {Fofack-Garcia, Rhoda and Maz{\'e}, Camille and Safi, Georges and Lejart, Morgane and Chauvac, Nathalie and Thermes, Maud and Ragueneau, Olivier and Le Loc{\textquoteright}h, Francois and Nathalie Niquil} } @article {9464, title = {Spatial and temporal variability of common cuttlefish, Sepia officinalis, L. spawning grounds off North Europe}, journal = {Fisheries Research}, volume = {263}, year = {2023}, month = {Jan-07-2023}, pages = {106688}, abstract = {Spatial and temporal dynamics of common cuttlefish,\ Sepia officinalis, spawning at north European shores was studied using data collected by the Cephalopod Citizen Science Project, Seasearch between 1995 and 2021 and a range of other internet sources for the same period. Reproduction begins in the western English Channel in March and gradually progresses eastward following water warming, attaining the Netherlands in May, when peripheral spawning grounds expand north to Norfolk and the Irish Sea. Despite a thermal regime favourable for egg development existing around the UK and Ireland, spawning is normally restricted to the English Channel and southernmost North Sea with egg masses occasionally observed as far north as Isle of Man and Norfolk.}, issn = {01657836}, doi = {10.1016/j.fishres.2023.106688}, url = {https://linkinghub.elsevier.com/retrieve/pii/S0165783623000814}, author = {Laptikhovsky, Vladimir and Cooke, Gavan and Drerup, Christian and Jackson, Angus and MacLeod, Eleanor and Jean-Paul Robin} } @article {9132, title = {Spatiotemporal variations of Chlamys islandica larval shell morphometry between 2000 and 2018 in a depleted coastal scallop fishing area}, journal = {Estuarine, Coastal and Shelf Science}, year = {2023}, month = {Jan-03-2023}, pages = {108322}, keywords = {Chlamys islandica, Icelandic scallop, larval morphometry, prodissoconch, recruitment}, issn = {02727714}, doi = {10.1016/j.ecss.2023.108322}, url = {https://linkinghub.elsevier.com/retrieve/pii/S0272771423001129}, author = {Poitevin, Pierre and Roy, Virginie and Cervello, Gauthier and Fr{\'e}d{\'e}ric Olivier and Tremblay, Rejean} } @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 {9274, title = {Threatened fish species in the Northeast Atlantic are functionally rare}, journal = {Global Ecology and Biogeography}, year = {2023}, month = {Dec-07-2023}, abstract = {The criteria used to define the International Union for Conservation of Nature (IUCN) Red List categories are essentially based on demographic parameters at the species level, but they do not integrate species{\textquoteright} traits or their roles in ecosystems. Consequently, current IUCN-based protection measures may not be sufficient to conserve ecosystem functioning and services. Some species may have a singular combination of traits associated with unique functions. Such functionally distinct species are increasingly recognized as a key facet of biodiversity since they are, by definition, functionally irreplaceable. The aim of this study is to investigate whether threatened species are also functionally rare and to identify which traits determine extinction risk.}, issn = {1466-822X}, doi = {10.1111/geb.13731}, author = {Coulon, No{\'e}mie and Lindegren, Martin and Goberville, Eric and Toussaint, Aur{\`e}le and Receveur, Aurore and Arnaud Auber} } @article {9322, title = {Trace elements in bivalve shells: How {\textquotedblleft}vital effects{\textquotedblright} can bias environmental studies}, journal = {Chemical Geology}, year = {2023}, month = {Jan-08-2023}, pages = {121695}, abstract = {We report on the concentrations of rare earths (REE), Y, Mg, Mn, Cu, Zn, Sr, Ba, Pb and U in a series of wild scallops (Placopecten magellanicus) collected alive on the same day in Saint Pierre et Miquelon (a French archipelago located south of Newfoundland) and ranging in age from 2 to about 20 years. We analyzed representative fragments from the entire last annual shell growth increment of each animal to assess changes in trace element incorporation with age. No correlation with the age of the animals was obtained for Sr and Mn concentrations, which are quite variable from one individual to another, even of similar age. On the other hand, for REE, Y, Cu, Zn, Ba and U, the concentrations measured in the last annual growth increment formed by animals aged 2 to 7 years are similar. From 8 years of age, the concentrations of these elements increased very strongly (for example for Yb, almost by an order of magnitude between 8 and 20 years of age), and possibly with some variation between individuals of the same age. Two elements show a different behavior: Mg concentrations in the shell margins increase continuously with the age of the animals; Pb concentrations are scattered but seem to decrease with the age of the animals.This turning point in the behavior of the elements from 8 years of age coincides with major metabolic changes, since at this age wild P. magellanicus from Newfoundland reduce their growth, in favor of gamete production. Our results demonstrate that metabolic activity of the animals largely controls the incorporation of many trace elements into the shells. These results demonstrate that the age of the animals must be taken into account when their shells are used to study pollution or (paleo)}, issn = {00092541}, doi = {10.1016/j.chemgeo.2023.121695}, url = {https://linkinghub.elsevier.com/retrieve/pii/S0009254123003959}, author = {Barrat, Jean-Alix and Chauvaud, Laurent and Fr{\'e}d{\'e}ric Olivier and Poitevin, Pierre and Rouget, Marie-Laure} } @article {9461, title = {Transcriptome wide analyses reveal intraspecific diversity in thermal stress responses of a dominant habitat-forming species}, journal = {Scientific Reports}, volume = {13}, year = {2023}, month = {2023}, doi = {https://doi.org/10.1038/s41598-023-32654-w}, author = {Nicastro, Katy R. and Pearson, G.A. and Ramos, X. and Vasco Pearson and Christopher Mc Quaid and Zardi, Gerardo I.} } @article {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 {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 {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 {8804, title = {Biologging of emperor penguins {\textendash} attachment techniques and associated deployment performance}, journal = {PLoS ONE}, year = {2022}, doi = {10.1101/2021.06.08.446548}, url = {https://hal.archives-ouvertes.fr/hal-03409952}, author = {Houstin, Aymeric and Zitterbart, Daniel and Winterl, Alexander and Richter, Sebastian and Planas-Bielsa, V{\'\i}ctor and Chevallier, Damien and Ancel, Andr{\'e} and Fournier, J{\'e}r{\^o}me and Fabry, Ben and Le Bohec, C{\'e}line} } @article {8692, title = {Can~artificial~magnetic~fields~alter the~functional~role~of~the blue mussel, Mytilus edulis?}, journal = {Marine Biology}, volume = {169}, year = {2022}, month = {Jan-06-2022}, abstract = {Along European coasts, the rapid expansion of marine renewable energy devices and their buried power cables, raises major societal concerns regarding the potential effects of their magnetic field emissions (MFs) on marine species and ecosystem functioning. MFs occur at a local spatial scale, which makes sessile species the primary target of chronic and high-intensity exposures. Some of them, as ecosystem engineers, have critical functions in coastal habitats whose behavioral alteration may drive profound consequences at the ecosystem level. In this context, the present experimental study explored the effects of short exposure to direct current MFs, on the feeding behavior of a widespread ecosystem engineer, the blue mussel (Mytilus edulis). A repeated measure design was carried out with adult mussels successively exposed to control treatment (ambient magnetic field of 47 μT) and artificial MF treatment (direct current of 300 μT produced by Helmholtz coils), as measured around power cables. The filtration activity was assessed through valve gap monitoring using an automated image analysis system. The clearance rate was estimated simultaneously by measuring the decrease in algal concentration using flow cytometry. Our findings revealed that mussels placed in MF treatment did not exhibit observable differences in valve activity and filtration rate, thus suggesting that, at such an intensity, artificial MFs do not significantly impair their feeding behavior. However, additional research is required to investigate the sensitivity of other life stages, the effects of mid to long-term exposure to alternative and direct current fields and to test various MF intensities.}, keywords = {Coastal environments, Ecosystem engineers, Filter-feeders, Magnetic fields, Mytilus edulis, Submarine power cables}, issn = {0025-3162}, doi = {10.1007/s00227-022-04065-4}, url = {https://link.springer.com/10.1007/s00227-022-04065-4}, author = {Albert, Luana and Maire, Olivier and Fr{\'e}d{\'e}ric Olivier and Lambert, Christophe and Romero-Ramirez, Alicia and Jolivet, Aur{\'e}lie and Chauvaud, Laurent and Chauvaud, Sylvain} } @article {8781, title = {Characterisation of long-term evolution (1950{\textendash}2016) and vulnerability of Mayotte{\textquoteright}s shoreline using aerial photographs and a multidisciplinary vulnerability index}, journal = {Regional Studies in Marine Science}, volume = {55}, year = {2022}, month = {Jan-09-2022}, pages = {102537}, issn = {23524855}, doi = {10.1016/j.rsma.2022.102537}, url = {https://linkinghub.elsevier.com/retrieve/pii/S2352485522001918}, author = {Courteille, Marine and Jeanson, Matthieu and Collin, Antoine and James, Doroth{\'e}e and Claverie, Thomas and Charpentier, Michel and Gairin, Emma and Ren{\'e}-Trouillefou, Malika and Giraud-Renard, El{\'e}a and Franck Dolique and Lecchini, David} } @article {8534, title = {Chlordecone-contaminated epilithic biofilms show increased adsorption capacities}, journal = {Science of The Total Environment}, volume = {825}, year = {2022}, month = {Jan-06-2022}, pages = {153942}, issn = {00489697}, doi = {10.1016/j.scitotenv.2022.153942}, url = {https://linkinghub.elsevier.com/retrieve/pii/S0048969722010348}, author = {C{\'e}dric Hubas and Monti, Dominique and Jean-Michel Mortillaro and Augagneur, Sylvie and Carbon, Anne and Duran, Robert and Karama, Solange and Tarik Meziane and Pardon, Patrick and Risser, Th{\'e}o and Tapie, Nathalie and Najet Thiney and Budzinski, H{\'e}l{\`e}ne and Lauga, B{\'e}atrice} } @article {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 {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 {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 {9178, title = {An integrative phylogenetic approach for inferring relationships of fossil gobioids}, journal = {PLOS ONE}, volume = {17}, year = {2022}, month = {Aug-07-2022}, pages = {e0271121}, doi = {10.1371/journal.pone.0271121}, url = {https://dx.plos.org/10.1371/journal.pone.0271121}, author = {Gierl, Christoph and Dohrmann, Martin and Philippe Keith and Humphreys, William and Esmaeili, Hamid R. and Vuki{\'c}, Jasna and {\v S}anda, Radek and Reichenbacher, Bettina}, editor = {Mirande, Juan Marcos} } @article {9024, title = {Interannual variability of the initiation of the phytoplankton growing period in two French coastal ecosystems}, journal = {Biogeosciences}, volume = {19}, year = {2022}, pages = {5667{\textendash}5687}, abstract = {Decadal time series of chlorophyll\ a\ concentrations sampled at high and low frequencies are explored to study climate-induced impacts on the processes inducing interannual variations in the initiation of the phytoplankton growing period (IPGP) in early spring. We specifically detail the IPGP in two contrasting coastal temperate ecosystems under the influence of rivers highly rich in nutrients: the Bay of Brest and the Bay of Vilaine. In both coastal ecosystems, we observed a large interannual variation in the IPGP influenced by sea temperature, river inputs, light availability (modulated by solar radiation and water turbidity), and turbulent mixing generated by tidal currents, wind stress, and river runoff. We show that the IPGP is delayed by around 30 d in 2019 in comparison with 2010. In situ observations and a one-dimensional vertical model coupling hydrodynamics, biogeochemistry, and sediment dynamics show that the IPGP generally does not depend on one specific environmental factor but on the interaction between several environmental factors. In these two bays, we demonstrate that the IPGP is mainly caused by sea surface temperature and available light conditions, mostly controlled by the turbidity of the system before first blooms. While both bays are hydrodynamically contrasted, the processes that modulate the IPGP are similar. In both bays, the IPGP can be delayed by cold spells and flood events at the end of winter, provided that these extreme events last several days.}, doi = {10.5194/bg-19-5667-2022}, url = {https://bg.copernicus.org/articles/19/5667/2022/}, author = {Poppeschi, Coline and Charria, Guillaume and Daniel, Anne and Verney, Romaric and Rimmelin-Maury, Peggy and Retho, Micha{\"e}l and Goberville, Eric and Emilie Grossteffan and Plus, Martin} } @book {9055, title = {La vie en milieu extr{\^e}me}, year = {2022}, pages = {144}, edition = {Editions Quae}, author = {Juliette Ravaux and S{\'e}bastien Duperron} } @article {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 {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 {9940, title = {Metagenome-Based Exploration of Bacterial Communities Associated with Cyanobacteria Strains Isolated from Thermal Muds}, journal = {Microorganisms}, volume = {10}, year = {2022}, month = {Jan-12-2022}, pages = {2337}, doi = {10.3390/microorganisms10122337}, url = {https://www.mdpi.com/2076-2607/10/12/2337}, author = {Halary, S{\'e}bastien and Duperron, S{\'e}bastien and Demay, Justine and Duval, Charlotte and Sahima Hamlaoui and Piquet, B{\'e}r{\'e}nice and Reinhardt, Anita and Bernard, C{\'e}cile and Marie, Benjamin} } @article {8959, title = {Methods to detect spatial biases in tracking studies caused by differential representativeness of individuals, populations and time}, journal = {Diversity and Distributions}, year = {2022}, month = {Mar-10-2024}, issn = {1366-9516}, doi = {10.1111/ddi.13642}, url = {https://onlinelibrary.wiley.com/doi/10.1111/ddi.13642}, author = {Morera-Pujol, Virginia and Catry, Paulo and Magalh{\~a}es, Maria and Clara P{\'e}ron and Reyes-Gonz{\'a}lez, Jos{\'e} Manuel and Granadeiro, Jos{\'e} Pedro and Milit{\~a}o, Teresa and Dias, Maria P. and Oro, Daniel and Dell{\textquoteright}Omo, Giacomo and M{\"u}ller, Martina and Paiva, Vitor H. and Metzger, Benjamin and Neves, Ver{\'o}nica and Navarro, Joan and Karris, Georgios and Xirouchakis, Stavros and Cecere, Jacopo G. and Zamora-L{\'o}pez, Antonio and Forero, Manuela G. and Ouni, Ridha and Romdhane, Mohamed Salah and De Felipe, Fernanda and Zajkov{\'a}, Zuzana and Cruz-Flores, Marta and Gr{\'e}millet, David and Gonz{\'a}lez-Sol{\'\i}s, Jacob and Ramos, Ra{\"u}l} } @article {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 {9027, title = {Myctobase, a circumpolar database of mesopelagic fishes for new insights into deep pelagic prey fields}, journal = {Scientific Data}, volume = {9}, year = {2022}, month = {Jan-12-2022}, doi = {10.1038/s41597-022-01496-y}, url = {https://www.nature.com/articles/s41597-022-01496-y}, author = {Woods, Briannyn and Trebilco, Rowan and Walters, Andrea and Hindell, Mark and Guy Duhamel and Flores, Hauke and Moteki, Masato and Patrice Pruvost and Reiss, Christian and Saunders, Ryan A. and Sutton, Caroline and Gan, Yi-Ming and Van de Putte, Anton} } @article {8797, title = {New Insights Into the Evolution of Corticotropin-Releasing Hormone Family With a Special Focus on Teleosts}, journal = {Frontiers in Endocrinology}, volume = {13}, year = {2022}, pages = {937218}, doi = {Doi: 10.3389/fendo.2022.937218}, author = {Maugars, Gersende and Mauvois, Xavier and Martin, Patrick and Rousseau, Karine and Aroua, Salima and Sylvie Dufour} } @article {9294, title = {Obtaining DNA Samples from Sensitive and Endangered Bird Species: A Comparison of Saliva and Blood Samples}, journal = {Ardeola}, volume = {69}, year = {2022}, month = {Jan-07-2022}, abstract = {Methods used to collect biological samples from birds for genetic analyses should allow high-quality DNA to be obtained in sufficient quantities, while limiting negative effects on sampled individuals. In this context, we assessed the potential use of saliva sampling (using buccal swabs) as an alternative to blood sampling (supposedly more stressful) in a near-threatened Caribbean-endemic, the White-crowned Pigeon Patagioenas leucocephala, a bird known to be highly sensitive to capture and handling, based on samples collected from 28 adults captured in the wild. We quantitatively and qualitatively compared DNA extracts, amplifications of two mitochondrial genes (\~{}430 bp and 1040 bp), and molecular sexing between saliva and blood samples. As expected, blood samples provided larger amounts of DNA of heavy molecular weight than buccal swabs. However, buccal swabs were as reliable as blood samples as a source of genetic material to sequence mtDNA. On the other hand, buccal swab samples might require an improved PCR protocol to sex all individuals successfully. We discuss the use of buccal swabs vs. blood sampling as a way to obtain DNA in relation to research objectives and minimising stress and harmful effects.}, doi = {10.13157/arla.69.2.2022.sc110.13157/arla.69.2.2022.sc1.s110.13157/arla.69.2.2022.sc1.s2}, url = {https://bioone.org/journals/ardeola/volume-69/issue-2/arla.69.2.2022.sc1/Obtaining-DNA-Samples-from-Sensitive-and-Endangered-Bird-Species/10.13157/arla.69.2.2022.sc1.full}, author = {Cambrone, Christopher and Motreuil, S{\'e}bastien and Reyes, Francis O. and Landestoy, Miguel A. and C{\'e}zilly, Frank and Bezault, Etienne} } @article {8635, title = {Organic Phosphorus Scavenging Supports Efficient Growth of Diazotrophic Cyanobacteria Under Phosphate DepletionData_Sheet_1.docx}, journal = {Frontiers in Microbiology}, volume = {13}, year = {2022}, month = {Jan-03-2024}, doi = {10.3389/fmicb.2022.84864710.3389/fmicb.2022.848647.s001}, url = {https://www.frontiersin.org/articles/10.3389/fmicb.2022.848647/full}, author = {Rabouille, Sophie and Tournier, Lauralie and Duhamel, Solange and Pascal Claquin and Crispi, Olivier and Talec, Am{\'e}lie and Landolfi, Angela and Oschlies, Andreas} } @article {8681, title = {Phylogeography of the veined squid, Loligo forbesii, in European watersAbstract}, journal = {Scientific Reports}, volume = {12}, year = {2022}, month = {Jan-12-2022}, doi = {10.1038/s41598-022-11530-z}, url = {https://www.nature.com/articles/s41598-022-11530-z}, author = {G{\"o}pel, Anika and Oesterwind, Daniel and Barrett, Christopher and Cannas, Rita and Caparro, Luis Silva and Carbonara, Pierluigi and Donnaloia, Marilena and Follesa, Maria Cristina and Larivain, Angela and Laptikhovsky, Vladimir and Lefkaditou, Evgenia and Jean-Paul Robin and Santos, Maria Bego{\~n}a and Sobrino, Ignacio and Valeiras, Julio and Valls, Maria and Vieira, Hugo C. and Wieland, Kai and Bastrop, Ralf} } @article {9005, title = {A possible strong impact of tidal power plant on silver eels{\textquoteright} migration}, journal = {Estuarine, Coastal and Shelf Science}, volume = {278}, year = {2022}, month = {Jan-11-2022}, pages = {108116}, abstract = {Very few\ tidal power\ plants exist in the world. The first one was built in the Rance\ estuary\ (Brittany, France) in 1966 and the second one in South Korea. However, with the increasing demand in renewable energy, other tidal power plant projects are being studied.

These power plants are larger than unidirectional fluvial hydropower plants and strongly modify the natural\ tidal cycle\ in estuarine systems. As such, their effect on megafaunal movements might strongly differ from those caused by unidirectional fluvial hydropower plants and should be specifically considered and studied before the development of similar constructions.

In this study, an acoustic\ telemetry\ array was deployed to track 25 silver eels released 16\ km upstream of the Rance tidal power dam. Only 1/3 of the tagged eels passed the dam and reached the sea. Data suggested that eels interrupted their migration up to 5\ km upstream of the dam. We assume that the noise and tidal disturbance generated by the dam could lead to a disruption of a high proportion of silver eels{\textquoteright} reproductive migration.}, issn = {02727714}, doi = {10.1016/j.ecss.2022.108116}, url = {https://linkinghub.elsevier.com/retrieve/pii/S0272771422003742}, author = {Trancart, Thomas and Teichert, Nils and Lamoureux, J{\'e}zabel and Gharnit, Elouana and Acou, Anthony and de Oliveira, Eric and Roy, Romain and Feunteun, Eric} } @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 {8540, title = {A review of methods and indicators used to evaluate the ecological modifications generated by artificial structures on marine ecosystems}, journal = {Journal of Environmental Management}, volume = {310}, year = {2022}, month = {Jan-05-2022}, pages = {114646}, issn = {03014797}, doi = {10.1016/j.jenvman.2022.114646}, url = {https://linkinghub.elsevier.com/retrieve/pii/S0301479722002195}, author = {Taormina, Bastien and Pascal Claquin and Vivier, Baptiste and Navon, Maxine and Pezy, Jean-Philippe and Raoux, Aurore and Dauvin, Jean-Claude} } @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 Gwena{\"e}l Abril 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 {9038, title = {Stable Isotope Trajectory Analysis ( SITA ): A new approach to quantify and visualize dynamics in stable isotope studies}, journal = {Ecological Monographs}, volume = {92}, year = {2022}, month = {Jan-05-2022}, issn = {0012-9615}, doi = {10.1002/ecm.v92.210.1002/ecm.1501}, url = {https://onlinelibrary.wiley.com/toc/15577015/92/2}, author = {Sturbois, Anthony and Cucherousset, Julien and De C{\'a}ceres, Miquel and Desroy, Nicolas and Riera, Pascal and Alexandre Carpentier and Quillien, Nolwenn and Grall, Jacques and Espinasse, Boris and Cherel, Yves and Schaal, Gauthier} } @article {9035, title = {Stomach content and stable isotope analyses provide complementary insights into the trophic ecology of coastal temperate bentho-demersal assemblages under environmental and anthropogenic pressures}, journal = {Marine Environmental Research}, volume = {182}, year = {2022}, month = {Jan-12-2022}, pages = {105770}, issn = {01411136}, doi = {10.1016/j.marenvres.2022.105770}, url = {https://linkinghub.elsevier.com/retrieve/pii/S014111362200215X}, author = {Sturbois, A. and Cozic, A. and Schaal, G. and Desroy, N. and Riera, P. and Le Pape, O. and Le Mao, P. and Ponsero, A. and Alexandre Carpentier} } @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 {9312, title = {Tachykinins, new players in the control of reproduction and food intake: A comparative review in mammals and teleosts}, journal = {Frontiers in Endocrinology}, volume = {13}, year = {2022}, month = {Apr-12-2023}, doi = {10.3389/fendo.2022.1056939}, url = {https://www.frontiersin.org/articles/10.3389/fendo.2022.1056939/full}, author = {Campo, Aurora and Sylvie Dufour and Rousseau, Karine} } @article {9953, title = {Anti-Inflammatory, Antioxidant, and Wound-Healing Properties of Cyanobacteria from Thermal Mud of Balaruc-Les-Bains, France: A Multi-Approach Study}, journal = {Biomolecules}, volume = {11}, year = {2021}, month = {Jan-01-2021}, pages = {28}, doi = {10.3390/biom11010028}, url = {https://www.mdpi.com/2218-273X/11/1/28}, author = {Demay, Justine and Halary, S{\'e}bastien and Knittel-Obrecht, Adeline and Villa, Pascal and Duval, Charlotte and Sahima Hamlaoui and Roussel, Th{\'e}otime and Y{\'e}pr{\'e}mian, Claude and Reinhardt, Anita and Bernard, C{\'e}cile and Marie, Benjamin} } @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 {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 {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 {7947, title = {Coupling high frequency monitoring and bioassay experiments to investigate a harmful algal bloom in the Bay of Seine (French-English Channel)}, journal = {Marine Pollution Bulletin}, volume = {168}, year = {2021}, month = {Jan-07-2021}, pages = {112387}, abstract = {Coastal ecosystems are increasingly threatened by eutrophication and dystrophy. In this context, the full pattern of a bloom dominated by the dinoflagellate, Lepidodinium chlorophorum, was investigated by a high frequency monitoring buoy equipped with sensors allowing nutrients and photosynthesis measurements. An increase of the N/P ratio affected phytoplankton physiology leading to bloom collapse with a slight oxygen depletion. In parallel, enrichment experiments were performed on the natural bloom population. After 5 days of incubation the community structure, using flow cytometry and several physiological parameters were analysed. The data reveal a potential N and P co-limitation and a decoupling between primary production and productivity in fully enriched conditions. Under unbalanced N/P inputs, high level of alkaline phosphatase activity and transparent exopolymeric particle production, which favour phytoplankton sedimentation, were observed. Nutrient inputs and their stoichiometry control phytoplankton growth, the community structure, physiological regulations, the fate of the bloom and consequences.}, issn = {0025326X}, doi = {10.1016/j.marpolbul.2021.112387}, url = {https://linkinghub.elsevier.com/retrieve/pii/S0025326X21004215}, author = {Serre-Fredj, L{\'e}on and Jacqueline, Franck and Navon, Maxime and Izabel, Guillaume and Chasselin, L{\'e}o and Jolly, Orianne and R{\'e}p{\'e}caud, Michel and Pascal Claquin} } @article {8143, title = {Cumulative effects of marine renewable energy and climate change on ecosystem properties: Sensitivity of ecological network analysis}, journal = {Ecological Indicators}, volume = {121}, year = {2021}, month = {Jan-02-2021}, pages = {107128}, issn = {1470160X}, doi = {10.1016/j.ecolind.2020.107128}, url = {https://linkinghub.elsevier.com/retrieve/pii/S1470160X20310670}, author = {Nogues, Quentin and Raoux, Aurore and Araignous, Emma and Chaalali, Aur{\'e}lie and Hattab, Tarek and Leroy, Boris and Ben Rais Lasram, Frida and David, Val{\'e}rie and Le Loc{\textquoteright}h, Francois and Dauvin, Jean-Claude and Nathalie Niquil} } @article {9962, title = {Diversity of cyanobacteria from thermal muds (Balaruc-Les-Bains, France) with the description of Pseudochroococcus coutei gen. nov., sp. nov.}, year = {2021}, doi = {10.1093/femsmc/xtab006}, url = {https://academic.oup.com/femsmicrobes/article/doi/10.1093/femsmc/xtab006/6245134}, author = {Duval, Charlotte and Sahima Hamlaoui and Piquet, B{\'e}r{\'e}nice and Toutirais, Geraldine and Y{\'e}pr{\'e}mian, Claude and Reinhardt, Anita and Duperron, S{\'e}bastien and Marie, Benjamin and Demay, Justine and Bernard, C{\'e}cile} } @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 {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 {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 {8144, title = {Economic costs of invasive alien species across Europe}, journal = {NeoBiota}, volume = {67}, year = {2021}, month = {May-07-2023}, pages = {153 - 190}, issn = {1619-0033}, doi = {10.3897/neobiota.67.58196}, url = {https://neobiota.pensoft.net/article/58196/}, author = {Haubrock, Phillip J. and Turbelin, Anna J. and Cuthbert, Ross N. and Novoa, Ana and Taylor, Nigel G. and Angulo, Elena and Ballesteros-Mejia, Liliana and Bodey, Thomas W. and Capinha, C{\'e}sar and Diagne, Christophe and Essl, Franz and Golivets, Marina and Kirichenko, Natalia and Kourantidou, Melina and Leroy, Boris and Renault, David and Verbrugge, Laura and Courchamp, Franck} } @article {8653, title = {Economic costs of invasive alien species in the Mediterranean basin}, journal = {NeoBiota}, volume = {67}, year = {2021}, month = {May-07-2023}, pages = {427 - 458}, issn = {1619-0033}, doi = {10.3897/neobiota.67.5892610.3897/neobiota.67.58926.suppl110.3897/neobiota.67.58926.suppl2}, url = {https://neobiota.pensoft.net/article/58926/}, author = {Kourantidou, Melina and Cuthbert, Ross N. and Haubrock, Phillip J. and Novoa, Ana and Taylor, Nigel G. and Leroy, Boris and Capinha, C{\'e}sar and Renault, David and Angulo, Elena and Diagne, Christophe and Courchamp, Franck} } @article {7915, title = {Electron \& Biomass Dynamics of Cyanothece Under Interacting Nitrogen \& Carbon Limitations}, journal = {Frontiers in Microbiology}, volume = {12}, year = {2021}, month = {04/2021}, doi = {10.3389/fmicb.2021.61780210.3389/fmicb.2021.617802.s001}, url = {https://www.frontiersin.org/articles/10.3389/fmicb.2021.617802/full}, author = {Rabouille, Sophie and Campbell, Douglas A. and Masuda, Takako and Zav{\v r}el, Tomas and Bern{\'a}t, Gabor and Polerecky, Lubos and Halsey, Kimberly and Eichner, Meri and Kotabov{\'a}, Eva and Stephan, Susanne and Luke{\v s}, Martin and Pascal Claquin and Bonomi-Barufi, Jose and Lombardi, Ana Teresa and {\v C}erven{\'y}, Jan and Suggett, David J. and Giordano, Mario and Kromkamp, Jacco C. and Pr{\'a}{\v s}il, Ondrej} } @article {8404, title = {Eleotris (Teleostei: Eleotridae) from Indonesia with description of three news species}, journal = {Pacific Science}, volume = {75}, year = {2021}, month = {11/2021}, pages = {469-496}, abstract = {The species of Eleotris from Indonesia are reviewed and compared to the known species described from the area. Nine species are recognized including three new species in the {\textquoteleft}melanosoma{\textquoteright} neuromast pattern group. These are described using genetic and morpho-meristic approaches. The new species differ by a high percentage of genetic divergence in partial COI gene (652 bp) and by several characters including the number of pectoral fin rays, the number of scales in lateral, predorsal, forward and zigzag series. The main characteristics of the other known species in the area in the {\textquoteleft}melanosoma{\textquoteright} group, Eleotris melanosoma Bleeker, 1853 and Eleotris macrolepis (Bleeker, 1875), both belonging to this group, are given for comparison. A key for Eleotris species from Indonesia is provided.}, doi = {https://doi.org/10.2984/75.4.2}, author = {Marion Mennesson and Philippe Keith and Hubert, Nicolas} } @article {8547, title = {Epizoic diatoms on sea turtles and their relationship to host species, behaviour and biogeography: a morphological approach}, journal = {European Journal of Phycology}, volume = {56}, year = {2021}, month = {Feb-10-2021}, pages = {359 - 372}, issn = {0967-0262}, doi = {10.1080/09670262.2020.1843077}, url = {https://www.tandfonline.com/doi/full/10.1080/09670262.2020.1843077}, author = {Riaux-Gobin, Catherine and Ashworth, Matt P. and Kociolek, J.Patrick and Chevallier, Damien and Saenz-Agudelo, Pablo and Witkowski, Andrzej and Daniszewska-Kowalczyk, Genowefa and Gaspar, Cecile and Lagant, Magali and Touron, Margaux and Carpentier, Alice and Stabile, Vie and Planes, Serge} } @proceedings {8068, title = {Establishing water sample protocols for radiocarbon analysis at LAC-UFF, Brazil}, year = {2021}, month = {09/2021}, pages = {1-8}, abstract = {Since the establishment of the first radiocarbon accelerator mass spectrometry facility in Latin America in 2009, the Radiocarbon Laboratory team of Universidade Federal Fluminense (LAC-UFF) has worked to improve sample preparation protocols and increase the range of environmental matrices to be analyzed. We now present the preliminary results for DIC sample preparation protocols. The first validation tests include background evaluation with pMC value (0.35 {\textpm} 0.04) using bicarbonate dissolved in water. We also analyzed surface seawater resulting in pMC value (101.38 {\textpm} 0.38) and a groundwater previously dated from LEMA AMS-Laboratory with pMC value (12.30 {\textpm} 0.15).}, issn = {0033-8222}, doi = {10.1017/RDC.2021.1}, url = {https://www.cambridge.org/core/product/identifier/S0033822221000011/type/journal_article}, author = {Bragan{\c c}a, Daniela and Oliveira, Fabiana and Macario, Kita and Nunes, Vinicius and Muniz, Marcelo and Lamego, Fernando and Gwena{\"e}l Abril and Nepomuceno, Aguinaldo and Sol{\'\i}s, Corina and Rodr{\'\i}guez-Ceja, Mar{\'\i}a} } @article {8466, title = {Estimating ecotoxicological effects of chemicals on tropical reef-building corals; a systematic review protocol}, journal = {Environmental Evidence}, volume = {10}, year = {2021}, month = {Dec-11-2021}, doi = {10.1186/s13750-021-00250-y}, url = {https://environmentalevidencejournal.biomedcentral.com/articles/10.1186/s13750-021-00250-y}, author = {Ou{\'e}draogo, Dakis-Yaoba and Perceval, Olivier and Ferrier-Pages, Christine and Domart-Coulon, Isabelle and H{\'e}douin, Laetitia and Burga, Karen and Mireille M.M. Guillaume and Calvayrac, Christophe and Castelin, Magalie and Reyjol, Yorick and Sordello, Romain} } @article {7412, title = {European small pelagic fish distribution under global change scenarios}, journal = {Fish and Fisheries}, volume = {22}, year = {2021}, month = {10/2020}, pages = {212-225}, abstract = {The spectre of increasing impacts on exploited fish stocks in consequence of warmer climate conditions has become a major concern over the last decades. It is now imperative to improve the way we project the effects of future climate warming on fisheries. While estimating future climate-induced changes in fish distribution is an important contribution to sustainable resource management, the impacts on European small pelagic fish{\textemdash}representing over 50\% of the landings in the Mediterranean and Black Sea between 2000 and 2013{\textemdash}are yet largely understudied. Here, we investigated potential changes in the spatial distribution of seven of the most harvested small pelagic fish species in Europe under several climate change scenarios over the 21st century. For each species, we considered eight Species Distribution Models (SDMs), five General Circulation Models (GCMs) and three emission scenarios (the IPCC Representative Concentration Pathways; RCPs). Under all scenarios, our results revealed that the environmental suitability for most of the seven species may strongly decrease in the Mediterranean and western North Sea while increasing in the Black and Baltic Seas. This potential northward range expansion of species is supported by a strong convergence among projections and a low variability between RCPs. Under the most pessimistic scenario (RCP8.5), climate-related local extinctions were expected in the south-eastern Mediterranean basin. Our results highlight that a multi-SDM, multi-GCM, multi-RCP approach is needed to produce more robust ecological scenarios of changes in exploited fish stocks in order to better anticipate the economic and social consequences of global climate change.}, issn = {1467-2960}, doi = {10.1111/faf.12515}, url = {https://onlinelibrary.wiley.com/doi/10.1111/faf.12515}, author = {Schickele, Alexandre and Goberville, Eric and Leroy, Boris and Gr{\'e}gory Beaugrand and Hattab, Tarek and Patrice Francour and Virginie Raybaud} } @article {8106, title = {Eutrophication overcoming carbonate precipitation in a tropical hypersaline coastal lagoon acting as a CO2 sink (Araruama Lagoon, SE Brazil)}, journal = {Biogeochemistry}, year = {2021}, month = {Jun-08-2022}, issn = {0168-2563}, doi = {10.1007/s10533-021-00842-3}, url = {https://link.springer.com/10.1007/s10533-021-00842-3}, author = {Cotovicz, Luiz C. and Knoppers, Bastiaan A. and R{\'e}gis, Carolina R. and Tremmel, Daniel and Costa-Santos, Suzan and Gwena{\"e}l Abril} } @article {8200, title = {Evidence on the impacts of chemicals arising from human activity on tropical reef-building corals; a systematic map}, journal = {Environmental Evidence}, volume = {10}, year = {2021}, month = {Sep-22-2021}, doi = {10.1186/s13750-021-00237-9}, url = {https://environmentalevidencejournal.biomedcentral.com/articles/10.1186/s13750-021-00237-9}, author = {Ou{\'e}draogo, Dakis-Yaoba and Delaunay, Mathilde and Sordello, Romain and H{\'e}douin, L. and Castelin, Magalie and Perceval, Olivier and Domart-Coulon, Isabelle and Burga, Karen and Ferrier-Pages, Christine and Multon, Romane and Mireille M.M. Guillaume and L{\'e}ger, Cl{\'e}ment and Calvayrac, Christophe and Joannot, Pascale and Reyjol, Yorick} } @article {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 {8349, title = {Four-Year Temporal Study of an Intertidal Artificial Structure in the English Channel}, journal = {Journal of Marine Science and Engineering}, volume = {9}, year = {2021}, month = {Jan-11-2021}, pages = {1174}, doi = {10.3390/jmse9111174}, url = {https://www.mdpi.com/2077-1312/9/11/1174}, author = {Dauvin, Jean-Claude and Deloor, Ma{\"e}l and Pezy, Jean-Philippe and Raoux, Aurore and Pascal Claquin and Foveau, Aur{\'e}lie} } @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 {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 {7823, title = {Influence of environmental conditions on the distribution of burrows of the mud crab, Scylla serrata, in a fringing mangrove ecosystem}, journal = {Regional Studies in Marine Science}, volume = {43}, year = {2021}, month = {Jan-03-2021}, pages = {101684}, abstract = {Mud crab, Scylla serrata, is a common mangrove species in the Indian Ocean. Over the last decades, fishing pressure has greatly increased especially in Madagascar. Therefore, improving the knowledge of mud crab biology and ecology is crucial to guide conservation and restoration plans. This study aimed at describing the distribution of burrows of the mud crab in a mangrove in southwestern Madagascar. Burrows fulfill an essential functional role by limiting the exposure of crab to environmental stress, such as desiccation during low tide, and predation. A total of 140 burrows were observed and available conditions were described at 168 random sampling points at low tide in three different mangrove zones, during the dry season (July 2014). Twelve environmental factors were recorded to reflect the position within the mangrove, the substrate composition and the surrounding floristic structure. A multivariate ordination analysis highlighted an overall association between burrows and specific habitat conditions. Boosted regression trees then indicated that the burrows distribution was predominantly explained by the avoidance of hard substrates. The occurrence of burrows was positively related to the upper intertidal zone of the mangrove where the water level was below 100 cm. Although the tree density had a positive effect, the occurrence of burrows was higher for low percentage of shade (\<40\%). These results provide insight for identifying mangrove areas that have an essential functional role for the conservation of mud crab populations.}, keywords = {Crustacean, Floristic structure, Habitat conditions, Mangrove crab, Substratum composition}, issn = {23524855}, doi = {10.1016/j.rsma.2021.101684}, url = {https://linkinghub.elsevier.com/retrieve/pii/S2352485521000761}, author = {Leoville, Alexandre and Lagarde, Rapha{\"e}l and Grondin, Henri and Faivre, La{\"e}titia and Rasoanirina, Elisa and Teichert, Nils} } @article {8798, title = {Interdependence of thyroid and corticosteroid signalling in vertebrate developmental transitions}, journal = {Frontiers in Ecology and Evolution}, volume = {9}, year = {2021}, pages = {735487}, doi = {10.3389/fevo.2021.735487}, author = {Karine Rousseau and Sylvie Dufour and Sachs, Laurent M} } @article {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 {8837, title = {The Merits of Loop Analysis for the Qualitative Modeling of Social-Ecological Systems in Presence of Offshore Wind Farms}, journal = {Frontiers in Ecology and Evolution}, volume = {9}, year = {2021}, month = {May-02-2022}, doi = {10.3389/fevo.2021.635798}, url = {https://www.frontiersin.org/articles/10.3389/fevo.2021.635798/full}, author = {Nathalie Niquil and Scotti, Marco and Fofack-Garcia, Rhoda and Haraldsson, Matilda and Thermes, Maud and Raoux, Aurore and Le Loc{\textquoteright}h, Francois and Maz{\'e}, Camille} } @article {7996, title = {Molecular and physiological characterization of a crustacean cardioactive signaling system in a lophotrochozoan - the Pacific oyster (Crassostrea gigas): a role in reproduction and salinity acclimation.}, journal = {J Exp Biol}, volume = {224}, year = {2021}, month = {2021 May 15}, abstract = {

The crustacean cardioactive peptide (CCAP) is an important neuropeptide involved in the regulation of a variety of physiological processes in arthropods. Although this family of peptides has an ancestral origin, its function remains poorly understood among protostome species - apart from arthropods. We functionally characterized three G protein-coupled receptors (GPCRs) in the oyster Crassostrea gigas, phylogenetically related to ecdysozoan CCAP receptors (CCAPRs) and to chordate neuropeptide S receptors (NPSRs). Cragi-CCAPR1 and Cragi-CCAPR2 were specifically activated by the Cragi-CCAP1 and Cragi-CCAP2 peptides, respectively, both derived from the same CCAP precursor. In contrast, Cragi-CCAPR3 was only partially activated by CCAP1 and CCAP2 at high concentrations. The Cragi-CCAPR1 and Cragi-CCAPR2 genes were expressed in various adult tissues. They are both most expressed in the gills, while Cragi-CCAPR3 is mainly expressed in the visceral ganglia (VG). Cragi-CCAP precursor transcripts are higher in the VG, the labial palps and the gills. Receptor and ligand-encoding transcripts are more abundantly expressed in the gonads in the first stages of gametogenesis, while the Cragi-CCAP precursor is upregulated in the VG in the last stages of gametogenesis. This suggests a role of the CCAP signaling system in the regulation of reproductive processes. A role in water and ionic regulation is also supported considering the differential expression of the CCAP signaling components in oysters exposed to brackish water.

}, issn = {1477-9145}, doi = {10.1242/jeb.241588}, author = {R{\'e}alis-Doyelle, Emilie and Julie Schwartz and Marie-Pierre Dubos and Pascal Favrel} } @inbook {8950, title = {New Insights on Biodiversity and Conservation of Amphidromous Shrimps of the Indo-Pacific islands (Decapoda: Atyidae: Caridina)}, booktitle = {Recent Advances in Freshwater Crustacean Biodiversity and Conservation}, year = {2021}, pages = {381{\textendash}404}, publisher = {CRC Press}, organization = {CRC Press}, chapter = {12}, abstract = {Amphidromous shrimps of the genus Caridina (Crustacea: Decapoda: Atyidae) are essential components of the tropical insular freshwater ecosystems. Due to an extremely confused taxonomy, their biodiversity is poorly known and their conservation status cannot be properly assessed. However, thanks to recent advances in integrative taxonomy, the systematics of this genus progressively becomes clearer, allowing us to draw conclusions about their biogeography and conservation biology. In this chapter, we (1) review the current state of knowledge of amphidromous Caridina diversity in the light of the latest results of integrative taxonomy, (2) review the threats faced by Caridina in Indo-Pacific Islands, and (3) discuss how integrative taxonomic approaches can inform and support programs designed to limit the impacts of threatening processes on the diversity of Caridina. Finally, we provide recommendations for the conservation of these species and their habitats.}, isbn = {9781003139560}, doi = {10.1201/9781003139560-12}, url = {https://www.taylorfrancis.com/chapters/new-insights-biodiversity-conservation-amphidromous-shrimps-indo-pacific-islands-decapoda-atyidae-caridina-de-mazancourt-klotz-marquet-mos-rogers-keith/e/10.1201/9781003139560-12}, author = {de Mazancourt, V. and Klotz, W. and Marquet, G. and Mos, B. and Rogers, D.C. and Keith, P.}, editor = {Kawai, Tadashi and Rogers, D. Christopher} } @inbook {8953, title = {New Insights on Biodiversity and Conservation of Amphidromous Shrimps of the Indo-Pacific islands (Decapoda: Atyidae: Caridina)}, booktitle = {Recent Advances in Freshwater Crustacean Biodiversity and Conservation}, year = {2021}, pages = {381{\textendash}404}, publisher = {CRC Press}, organization = {CRC Press}, chapter = {12}, abstract = {Amphidromous shrimps of the genus Caridina (Crustacea: Decapoda: Atyidae) are essential components of the tropical insular freshwater ecosystems. Due to an extremely confused taxonomy, their biodiversity is poorly known and their conservation status cannot be properly assessed. However, thanks to recent advances in integrative taxonomy, the systematics of this genus progressively becomes clearer, allowing us to draw conclusions about their biogeography and conservation biology. In this chapter, we (1) review the current state of knowledge of amphidromous Caridina diversity in the light of the latest results of integrative taxonomy, (2) review the threats faced by Caridina in Indo-Pacific Islands, and (3) discuss how integrative taxonomic approaches can inform and support programs designed to limit the impacts of threatening processes on the diversity of Caridina. Finally, we provide recommendations for the conservation of these species and their habitats.}, isbn = {9781003139560}, doi = {10.1201/9781003139560-12}, url = {https://www.taylorfrancis.com/chapters/new-insights-biodiversity-conservation-amphidromous-shrimps-indo-pacific-islands-decapoda-atyidae-caridina-de-mazancourt-klotz-marquet-mos-rogers-keith/e/10.1201/9781003139560-12}, author = {de Mazancourt, V. and Klotz, W. and Marquet, G. and Mos, B. and Rogers, D.C. and Keith, P.}, editor = {Kawai, Tadashi and Rogers, D. Christopher} } @article {8117, title = {A Novel Dop2/Invertebrate-Type Dopamine Signaling System Potentially Mediates Stress, Female Reproduction, and Early Development in the Pacific Oyster (Crassostrea gigas)}, journal = {Marine Biotechnology}, year = {2021}, month = {Jul-08-2021}, issn = {1436-2228}, doi = {10.1007/s10126-021-10052-5}, url = {https://link.springer.com/10.1007/s10126-021-10052-5}, author = {Schwartz, Julie and R{\'e}alis-Doyelle, Emilie and Le Franc, Lorane and Favrel, Pascal} } @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 {8249, title = {Photosynthesis from stolen chloroplasts can support sea slug reproductive fitness}, journal = {Proceedings of the Royal Society B: Biological Sciences}, volume = {288}, year = {2021}, month = {May-09-2023}, abstract = {Some sea slugs are able to steal functional chloroplasts (kleptoplasts) from their algal food sources, but the role and relevance of photosynthesis to the animal host remain controversial. While some researchers claim that kleptoplasts are slowly digestible {\textquoteleft}snacks{\textquoteright}, others advocate that they enhance the overall fitness of sea slugs much more profoundly. Our analysis shows light-dependent incorporation of\ 13C and\ 15N in the albumen gland and gonadal follicles of the sea slug\ Elysia timida, representing translocation of photosynthates to kleptoplast-free reproductive organs. Long-chain polyunsaturated fatty acids with reported roles in reproduction were produced in the sea slug cells using labelled precursors translocated from the kleptoplasts. Finally, we report reduced fecundity of\ E. timida\ by limiting kleptoplast photosynthesis. The present study indicates that photosynthesis enhances the reproductive fitness of kleptoplast-bearing sea slugs, confirming the biological relevance of this remarkable association between a metazoan and an algal-derived organelle.}, issn = {0962-8452}, doi = {10.1098/rspb.2021.1779}, url = {https://royalsocietypublishing.org/doi/10.1098/rspb.2021.1779}, author = {Cartaxana, Paulo and Rey, Felisa and LeKieffre, Charlotte and Lopes, Diana and C{\'e}dric Hubas and Spangenberg, Jorge E. and Escrig, St{\'e}phane and Bruno Jesus and Calado, Gon{\c c}alo and Domingues, Ros{\'a}rio and K{\"u}hl, Michael and Calado, Ricardo and Meibom, Anders and Cruz, S{\'o}nia} } @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 C{\'e}line Bonillo and Nicolas Rabet and Clara Lord and Causse, Romain and Philippe Keith and Audebert, Fabienne} } @article {7778, title = {Prokaryotic abundance, cell size and extracellular enzymatic activity in a human impacted and mangrove dominated tropical estuary (Can Gio, vietnam)}, journal = {Estuarine, Coastal and Shelf Science}, year = {2021}, month = {Jan-02-2021}, pages = {107253}, abstract = {Extracellular enzymatic activities constitute the first and limiting step of the whole process of organic matter (OM) cycling in aquatic ecosystems. This study aims to identify the factors controlling prokaryotes ability to hydrolyse OM in an Indo-Pacific tropical mangrove ecosystem (Can Gio, Vietnam). Prokaryotic abundance and leucine-aminopeptidase exo-proteolytic activity (EPA) were measured at vertical (from the sea-surface microlayer to bottom waters), spatial (along a transect within the estuary) and seasonal (wet and dry season) scales. Prokaryotic abundance ranged from 1.2 to 5.7\ {\texttimes}\ 109\ cells L-1\ and EPA ranged from 24 to 505\ nmol\ L-1\ h-1\ that was relatively similar to other highly productive ecosystems. The estuary was poorly stratified, most probably because of high water turbulence. Yet, exo-proteolytic activity was significantly higher in bottom waters, where higher loads of suspended particulate matter were measured. Seasonal and spatial differences in EPA suggest that the nature of OM transported by the Can Gio mangrove estuary affect EPA. The latter seems to be increased by two {\textquotedblleft}uncommon{\textquotedblright} situations: the input of fresh and labile OM (e.g.\ shrimp farm effluents) or the lack of labile OM and the need to hydrolyse refractory compounds (e.g.\ during the dry season).}, issn = {02727714}, doi = {10.1016/j.ecss.2021.107253}, url = {https://linkinghub.elsevier.com/retrieve/pii/S0272771421000895}, author = {Frank David and Tarik Meziane and Marchand, Cyril and Rolland, Guillaume and Pham, Aur{\'e}lie and Thanh-Nho, Nguyen and Lamy, Dominique} } @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} } @book {8127, title = {Recent Advances in Freshwater Crustacean Biodiversity and ConservationNew Insights on Biodiversity and Conservation of Amphidromous Shrimps of the Indo-Pacific islands (Decapoda: Atyidae: Caridina)}, year = {2021}, pages = {381 - 404}, publisher = {CRC Press}, organization = {CRC Press}, edition = {1}, doi = {10.1201/978100313956010.1201/9781003139560-12}, url = {https://www.taylorfrancis.com/books/9781000336184}, author = {Kawai, Tadashi and Rogers, D. Christopher and Mazancourt, V. de and Klotz, W. and Marquet, G. and Mos, B. and Rogers, D.C. and Philippe Keith}, editor = {Kawai, Tadashi and Rogers, D. Christopher} } @article {8145, title = {Revisiting species and areas of interest for conserving global mammalian phylogenetic diversity}, journal = {Nature Communications}, volume = {12}, year = {2021}, month = {Jan-12-2021}, doi = {10.1038/s41467-021-23861-y}, url = {http://www.nature.com/articles/s41467-021-23861-y}, author = {Robuchon, Marine and Pavoine, Sandrine and V{\'e}ron, Simon and Delli, Giacomo and Faith, Daniel P. and Mandrici, Andrea and Pellens, Roseli and Dubois, Gr{\'e}goire and Leroy, Boris} } @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 {9067, title = {Sargassum Differentially Shapes the Microbiota Composition and Diversity at Coastal Tide Sites and Inland Storage Sites on Caribbean Islands}, journal = {Frontiers in Microbiology}, volume = {12}, year = {2021}, month = {May-10-2023}, doi = {10.3389/fmicb.2021.701155}, url = {https://www.frontiersin.org/articles/10.3389/fmicb.2021.701155/full}, author = {Herv{\'e}, Vincent and Lambourdi{\`e}re, Josie and Ren{\'e}-Trouillefou, Malika and Devault, Damien Alain and Pascal Jean Lopez} } @article {8503, title = {Sargassum Differentially Shapes the Microbiota Composition and Diversity at Coastal Tide Sites and Inland Storage Sites on Caribbean Islands}, journal = {Front Microbiol}, volume = {12}, year = {2021}, month = {2021}, pages = {701155}, abstract = {

Rafts of drifting pelagic that are circulating across the Atlantic Ocean are complex ecosystems composed of a large number of associated species. Upon massive stranding, they lead to various socio-environmental issues including the inflow of contaminants and human health concerns. In this study, we used metabarcoding approaches to examine the differences in both the eukaryotic- and prokaryotic-associated communities from present in two islands of the Lesser Antilles, namely Guadeloupe and Martinique. We detected significant differences in microbial community structure and composition between landing , the surrounding seawater, and from inland storage sites. In total we identified 22,214 prokaryotic and 17,679 eukaryotic OTUs. Among them, functional prediction analyses revealed a number of prokaryotes that might contribute to organic matter decomposition, nitrogen cycling and gas production, including sulfate-reducing bacteria at coastal landing sites, and methanogenic archaea at inland storage sites. We also found that Metazoan was the most abundant group in samples, with nematode clades that presented exclusive or specific richness and abundance patterns depending on their substrate. Together, these molecular inventories of the micro- and meiofauna communities provide baseline information for further characterization of trophic interactions, algal organic matter decomposition and nutrient transfers at coastal and inland storage sites.

}, issn = {1664-302X}, doi = {10.3389/fmicb.2021.701155}, author = {Herv{\'e}, Vincent and Josie Lambourdi{\`e}re and Ren{\'e}-Trouillefou, Malika and Devault, Damien Alain and Pascal Jean Lopez} } @article {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 {8084, title = {Special features of neuroendocrine interactions between stress and reproduction in teleosts}, journal = {General and Comparative Endocrinology}, volume = {300}, year = {2021}, month = {Jan-01-2021}, pages = {113634}, issn = {00166480}, doi = {10.1016/j.ygcen.2020.113634}, url = {https://linkinghub.elsevier.com/retrieve/pii/S0016648020303877}, author = {Rousseau, Karine and Prunet, Patrick and Sylvie Dufour} } @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 {7824, title = {Temporary turbine and reservoir level management to improve downstream migration of juvenile salmon through a hydropower complex}, journal = {Knowledge \& Management of Aquatic Ecosystems}, year = {2021}, month = {Jan-01-2021}, pages = {4}, abstract = {Developing management rules to improve downstream migration of salmon smolts in large hydropower plants is essential to limit mortality and migration delay. A 2-year telemetry study was conducted to assess the efficiency of temporary measures to enhance the safety and speed of juvenile salmon passage through the Pout{\`e}s dam (Allier River, France). 124 smolts were tracked through the reservoir and downstream of the dam, during implementation of turbine modulation and/or shutdown during night and reservoir level lowering. Level lowering significantly reduced median residence time from 3.4 days to 4.4 hours. However, even with high spill during turbine modulation, the risk of smolt being drawn toward the turbines was increased at low reservoir level due to the site{\textquoteright}s configuration, greater proximity to the surface and weak repulsive effect of the rack. Moreover, results revealed that a substantial proportion of smolts can migrate during daytime and twilight during floods, even at the beginning of the migration period. Thus targeted turbine shutdown has a good potential to protect smolts, but implementation requires studies taking account of site specificities and a flexible approach.}, keywords = {Atlantic salmon, downstream migration, migratory delay, operational management, Turbine shutdown}, doi = {10.1051/kmae/2021004}, url = {https://www.kmae-journal.org/10.1051/kmae/2021004}, author = {T{\'e}tard, St{\'e}phane and Roy, Romain and Teichert, Nils and Rancon, Jocelyn and Courret, Dominique} } @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 {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 {7114, title = {The dance of the Cape gannet may contain social information on foraging behaviour}, journal = {Animal Behaviour}, volume = {166}, year = {2020}, pages = {95-108}, abstract = {Social information percolates through a variety of channels to influence animal decision making, with a notable effect on reproductive and feeding success. Colonial central place foragers can reduce time to locate ephemeral food patches and/or increase foraging rate by following their informed peers, parasitizing direction of returning successful foragers, or being intentionally informed on distant food locations at the colony (e.g. the waggle dance of the honey bee). Ceremonial behaviours may also deliver social foraging information between mates, which can spread inadvertently to neighbours. Here we tested for information display in Cape gannets, Morus capensis, a socially monogamous species, during the elaborate dance ceremony performed each time a partner returns to the nest during the breeding season. We tracked fine-scale foraging behaviour of gannets using bird-borne GPS recorders, and videorecorded their subsequent dance ceremony, which involved up to 14 different displays. As we hypothesized, dance characteristics were associated with foraging trip features. Notably, overall dance duration was negatively linked to foraging trip duration, which was highly positively correlated with foraging range, foraging path length and time spent foraging during the trip. Overall dance duration was also negatively linked with distance to the main foraging grounds. Additionally, the duration of preening behaviour was related to the bearing of the main feeding spot. The latter relationship was supported by a Bayesian model averaging analysis, allowing inferences robust to multiple comparisons. Overall, ceremonial behaviour may provide social foraging information on feeding locations, while evidence for further information transfer to the mate or neighbours was not tested here. Frequent updating on prey spatial distribution, inadvertently communicated or not, should be particularly valuable for predators tracking ephemeral prey patches, providing an additional advantage to colonial living. Our results may have strong implications for cultural evolution in animal societies.}, url = {https://www.sciencedirect.com/science/article/pii/S0003347220301718}, author = {Courbin, Nicolas and Chinho, Tendai and Pichegru, Lorien and Verma-Gr{\'e}millet, Ambalika and Clara P{\'e}ron and Ryan, Peter G and Gr{\'e}millet, David} } @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 {8080, title = {Differential Regulation of the Expression of the Two Thyrotropin Beta Subunit Paralogs by Salmon Pituitary Cells In Vitro}, journal = {Frontiers in Endocrinology}, volume = {11}, year = {2020}, month = {Mar-11-2022}, doi = {10.3389/fendo.2020.603538}, url = {https://www.frontiersin.org/articles/10.3389/fendo.2020.603538/full}, author = {Fleming, Mitchell Stewart and Maugars, Gersende and Martin, Patrick and Sylvie Dufour and Rousseau, Karine} } @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} } @inbook {7274, title = {Endocrinology: An evolutionary perspective on neuroendocrine axes in teleosts}, booktitle = {The Physiology of Fishes, Fifth Edition}, year = {2020}, pages = {105-116}, publisher = {CRC Press, Taylor \& Francis Group}, organization = {CRC Press, Taylor \& Francis Group}, edition = {Suzanne Curie and David H. Evans, Editors}, chapter = {8}, address = {Boca Raton,FL}, issn = {9781003036401}, doi = {10.1201/9781003036401 }, author = {Sylvie Dufour and Karine Rousseau} } @article {7189, title = {Establishment and population features of the non-native Atlantic rangia, Rangia cuneata (Mollusca: Bivalvia), in northwestern France}, volume = {15}, year = {2020}, pages = {367-381}, abstract = {The presence of shells of the Atlantic rangia, Rangia cuneata, a brackish-water species native from the Gulf of Mexico also known as gulf wedge clam, was reported in 2017 on the French coasts of the English Channel, in the waterway that connects Caen to the sea. However, no information was available on whether a population of this alien species had successfully established in the region. Here, only empty shells{\textemdash}except for one live individual{\textemdash}were sampled in that waterway, and the sampling was shifted to the nearby marina of Ouistreham, where water is mesohaline (6.89 {\textpm} SD 0.06 PSU). In spring 2017, the mean density in the marina reached 110.45 {\textpm} 86.08 ind\ m-2, largely dominating the benthos community. The population was mostly composed of fairly large individuals, with no young-of-the-year found inside the marina. The modal values of the size frequency distribution ranged between 35 and 40 mm shell length. The growth patterns determined from the annual rings suggest a maximum lifespan of eight completed years. Following the assumption that colonization occurred at the larval stage, as in other European countries, this population may have established in 2009, i.e. only four years after its first detection in Europe, in the Antwerp harbour. The specimens collected are the largest recorded in European waters, suggesting that a highly suitable environment for the species in the region. Given the invasive potential of Atlantic rangia within the last decade, a close monitoring of this population and of the spread of the species in French and European waters appears necessary to determine its impacts on these ecosystems.}, keywords = {Alien species, brackish waters, density, Growth, Normandy (F), Reproduction, The Atlantic rangia}, author = {Robin Faillettaz and Christophe Roger and Michel Mathieu and Jean-Paul Robin and Katherine Costil} } @article {7539, title = {Exploring brain diversity in crustaceans: sensory systems of deep vent shrimpsAbstract}, journal = {Neuroforum}, year = {2020}, month = {Nov-04-2021}, issn = {0947-0875}, doi = {10.1515/nf-2020-0009}, url = {https://www.degruyter.com/view/journals/nf/ahead-of-print/article-10.1515-nf-2020-0009/article-10.1515-nf-2020-0009.xml}, author = {Machon, Julia and Krieger, Jakob and Magali Zbinden and Juliette Ravaux and Harzsch, Steffen} } @article {8125, title = {Freshwater gobies 30 million years ago: New insights into character evolution and phylogenetic relationships of {\textdagger}Pirskeniidae (Gobioidei, Teleostei)}, journal = {PLOS ONE}, volume = {15}, year = {2020}, month = {Dec-08-2021}, pages = {e0237366}, doi = {10.1371/journal.pone.0237366}, url = {https://dx.plos.org/10.1371/journal.pone.0237366}, author = {Reichenbacher, Bettina and P{\v r}ikryl, Tom{\'a}{\v s} and Cerwenka, Alexander F. and Philippe Keith and Gierl, Christoph and Dohrmann, Martin}, editor = {Carnevale, Giorgio} } @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 {7134, title = {Gonadotropin-inhibitory hormone in teleosts: New insights from a basal representative, the eel}, journal = {General and Comparative Endocrinology}, volume = {287}, year = {2020}, month = {Jan-02-2020}, pages = {113350}, issn = {00166480}, doi = {10.1016/j.ygcen.2019.113350}, url = {https://linkinghub.elsevier.com/retrieve/pii/S0016648019303296}, author = {Maugars, G. and Pasquier, J. and Atkinson, C. and Lafont, A.-G. and Campo, A. and Kamech, Nedia and Lefranc, B. and Leprince, J. and Sylvie Dufour and Rousseau, K.} } @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 {7089, title = {How to model social-ecological systems? {\textendash} A case study on the effects of a future offshore wind farm on the local society and ecosystem, and whether social compensation matters}, journal = {Marine Policy}, volume = {119}, year = {2020}, abstract = {Models of social-ecological systems (SES) are acknowledged as an important tool to understand human-nature relations. However, many SES models fail to integrate adequate information from both the human and ecological subsystems. With an example model of a future Offshore Wind Farm development and its effects on both the ecosystem and local human population, we illustrate a method facilitating a {\textquotedblleft}balanced{\textquotedblright} SES model, in terms of including information from both subsystems. We use qualitative mathematical modeling, which allows to quickly analyze the structure and dynamics of a system without including quantitative data, and therefore to compare alternative system structures based on different understandings of how the system works. By including similar number of system variables in the two subsystems, we balanced the complexity between them. Our analyses show that this complexity is important in order to predict indirect and sometimes counterintuitive effects. We also highlight some conceptually important questions concerning social compensations during developmental projects in general, and wind farms in particular. Our results suggest that the more project holders get involved in various manner in the local socio-ecological system, the more society will benefit as a whole. Increased involvement through e.g. new projects or job-opportunities around the windfarm has the capacity to offset the negative effects of the windfarm on the local community. These benefits are enhanced when there is an overall acceptance and appropriation of the project. We suggest this method as a tool to support the decision-making process and to facilitate discussions between stakeholders, especially among local communities. {\textcopyright} The Authors}, keywords = {Acceptance, comparative study, Complexity, Decision making, development project, Eastern English channel, environmental impact assessment, future prospect, local participation, Network, numerical model, offshore structure, participatory approach, Perception, Qualitative modeling, quantitative analysis, Renewable energy, social impact assessment, stakeholder, wind farm}, issn = {0308597X (ISSN)}, doi = {10.1016/j.marpol.2020.104031}, url = {https://www.scopus.com/inward/record.uri?eid=2-s2.0-85085318224\&doi=10.1016\%2fj.marpol.2020.104031\&partnerID=40\&md5=9e69340af6d591878af0f943cd4bc347}, author = {Haraldsson, M. and Raoux, A. and Riera, F. and Hay, J. and Dambacher, J.M. and Nathalie Niquil} } @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 {8140, title = {InvaCost, a public database of the economic costs of biological invasions worldwideAbstract}, journal = {Scientific Data}, volume = {7}, year = {2020}, month = {Jan-12-2020}, doi = {10.1038/s41597-020-00586-z}, url = {http://www.nature.com/articles/s41597-020-00586-z}, author = {Diagne, C. and Leroy, B. and Gozlan, R. E. and Vaissi{\`e}re, A.-C. and Assailly, C. and Nuninger, L. and Roiz, D. and Jourdain, F. and Jari{\'c}, I. and Courchamp, F.} } @article {8652, title = {InvaCost, a public database of the economic costs of biological invasions worldwide}, journal = {Scientific Data}, volume = {7}, year = {2020}, month = {Jan-12-2020}, doi = {10.1038/s41597-020-00586-z}, url = {https://www.nature.com/articles/s41597-020-00586-z}, author = {Diagne, C. and Leroy, B. and Gozlan, R. E. and Vaissi{\`e}re, A.-C. and Assailly, C. and Nuninger, L. and Roiz, D. and Jourdain, F. and Jari{\'c}, I. and Courchamp, F.} } @article {7091, title = {Isotopic analyses, a good tool to validate models in the context of Marine Renewable Energy development and cumulative impacts}, journal = {Estuarine, Coastal and Shelf Science}, volume = {237}, year = {2020}, abstract = {As part of the energy transition, the French government is planning Offshore Wind Farm (OWF) constructions in the next decades. An integrated ecosystem approach of two future OWF sites of the Eastern English Channel (Courseulles-sur-mer and Dieppe-Le Tr{\'e}port) was developed to model the marine ecosystems before the OWF implementation. Such ecosystem models allow simulating the possible reef and reserve effects associated to the presence of the farm, and to character the overall changes in the food-web functioning. This holistic view of OWF effects could be replicated on other sites and form the basis of an ecosystem based management of marine renewable energies. However, to use these models for management purpose, they need to be validated. In order to do so, stable isotope ratios of nitrogen were used for determining the accuracy of the effective trophic levels computed in these two models. Results showed that trophic levels estimated by the two models were consistent with the trophic levels estimated by the independent isotopic data. In the context of OWF development and cumulative impacts analysis, this step of validation of the models is essential for developing their use by management actors and policy makers. {\textcopyright} 2020 Elsevier Ltd}, keywords = {alternative energy, detection method, Dieppe, Ecopath with Ecosim, ecosystem approach, English Channel, food web, France, Isotopic nitrogen analysis, marine ecosystem, model validation, Normandie, Offshore wind farm, policy making, Seine Maritime, trophic level, wind farm}, issn = {02727714 (ISSN)}, doi = {10.1016/j.ecss.2020.106690}, author = {Raoux, A. and Pezy, J.-P. and Ernande, B. and Nathalie Niquil and Dauvin, J.-C. and Granger{\'e}, K.} } @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 {6952, title = {Looking for environmental and endocrine factors inducing the transformation of Sicyopterus lagocephalus (Pallas 1770) (Teleostei: Gobiidae: Sicydiinae) freshwater prolarvae into marine larvae}, journal = {Aquatic Ecology}, volume = {54}, year = {2020}, month = {Jan-03-2020}, pages = {163 - 180}, issn = {1386-2588}, doi = {10.1007/s10452-019-09734-z}, url = {http://link.springer.com/10.1007/s10452-019-09734-z}, author = {Ellien, C{\'e}line and Causse, Romain and Werner, Ugo and Teichert, Nils and Rousseau, Karine} } @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 {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 {8549, title = {Navicula dermochelycola sp. nov., presumably an exclusively epizoic diatom on sea turtles Dermochelys coriacea and Lepidochelys olivacea from French Guiana}, journal = {Oceanological and Hydrobiological Studies}, volume = {49}, year = {2020}, month = {Jan-06-2020}, pages = {132 - 139}, doi = {10.1515/ohs-2020-0012}, url = {https://www.sciendo.com/article/10.1515/ohs-2020-0012}, author = {Riaux-Gobin, Catherine and Witkowski, Andrzej and Kociolek, John Patrick and Chevallier, Damien} } @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 {7132, title = {Origin and Evolution of the Neuroendocrine Control of Reproduction in Vertebrates, With Special Focus on Genome and Gene Duplications}, journal = {Physiological Reviews}, volume = {100}, year = {2020}, month = {Jan-04-2020}, pages = {869 - 943}, issn = {0031-9333}, doi = {10.1152/physrev.00009.2019}, url = {https://journals.physiology.org/doi/10.1152/physrev.00009.2019}, author = {Sylvie Dufour and Qu{\'e}rat, Bruno and Tostivint, Herv{\'e} and Pasqualini, Catherine and Vaudry, Hubert and Rousseau, Karine} } @article {9731, title = {Phylogeny and Biogeography of Spinicaudata (Crustacea: Branchiopoda).}, journal = {Zool Stud}, volume = {59}, year = {2020}, month = {2020}, pages = {e44}, abstract = {

Spinicaudata (spiny clam shrimp) is a taxon of Branchiopoda occurring since the Devonian and today it occurs nearly globally in temporary water bodies. We present the most species-rich phylogenetic analyses of this taxon based on four molecular loci: , , and . Our results support previous findings that Cyzicidae is paraphyletic. To render Cyzicidae monophyletic we establish a fourth extant spinicaudatan family to accommodate . Within Cyzicidae, none of the genera , or are monophyletic, and the morphological characters used to define these genera (condyle length and rostrum shape) are not associated with well-delimited clades within Cyzicidae. There is insufficient resolution to elucidate the relationships within Leptestheriidae. However, there is sufficient evidence to show that the leptestheriid genera and are non-monophyletic, and there is no support for the genus . Molecular clock analyses suggest that the wide geographic distribution of many spinicaudatan taxa across multiple continents is largely based on vicariance associated with the break-up of Pangea and Gondwana. Trans-oceanic dispersal has occurred in some taxa (, and within Leptestheriidae) but has been relatively rare. Our results highlight the need to revise the taxonomy of Cyzicidae and Leptestheriidae and provide evidence that the global spinicaudatan diversity may be underestimated due to the presence of numerous cryptic species. We establish Eocyzicidae fam. nov. to accommodate the genus . Consequently, Cyzicidae comprises only two genera - and . occurs also in Africa and Asia and new comb. is assigned to this genus.

}, issn = {1810-522X}, doi = {10.6620/ZS.2020.59-44}, author = {Schwentner, Martin and Nicolas Rabet and Richter, Stefan and Giribet, Gonzalo and Padhye, Sameer and Cart, Jean-Francois and C{\'e}line Bonillo and Rogers, D Christopher} } @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 {7088, title = {Quantitative food web modeling unravels the importance of the microphytobenthos-meiofauna pathway for a high trophic transfer by meiofauna in soft-bottom intertidal food webs.}, journal = {Ecological Modelling}, volume = {430}, year = {2020}, abstract = {Meiofauna are known to have an important role on many ecological processes, although, their role in food web dynamics is often poorly understood, partially as they have been an overlooked and under sampled organism group. Here, we used quantitative food web modeling to evaluate the trophic relationship between meiofauna and their food sources and how meiofauna can mediate the carbon flow to higher trophic levels in five contrasting soft-bottom intertidal habitats (including seagrass beds, mudflats and sandflats). Carbon flow networks were constructed using the linear inverse model-Markov chain Monte Carlo technique, with increased resolution of the meiofauna compartments (i.e. biomass and feeding ecology of the different trophic groups of meiofauna) compared to most previous modeling studies. These models highlighted that the flows between the highly productive microphytobenthos and the meiofauna compartments play an important role in transferring carbon to the higher trophic levels, typically more efficiently so than macrofauna. The pathway from microphytobenthos to meiofauna represented the largest flow in all habitats and resulted in high production of meiofauna independent of habitat. All trophic groups of meiofauna, except for selective deposit feeders, had a very high dependency on microphytobenthos. Selective deposit feeders relied instead on a wider range of food sources, with varying contributions of bacteria, microphytobenthos and sediment organic matter. Ecological network analyses (e.g. cycling, throughput and ascendency) of the modeled systems highlighted the close positive relationship between the food web efficiency and the assimilation of high-quality food sources by primary consumers, e.g. meiofauna and macrofauna. Large proportions of these flows can be attributed to trophic groups of meiofauna. The sensitivity of the network properties to the representation of meiofauna in the models leads to recommending a greater attention in ecological data monitoring and integrating meiofauna into food web models. {\textcopyright} 2020 Elsevier B.V.}, keywords = {Carbon, Carbon flow networks, deposit feeder, Deposits, Ecological network analysis, Ecological process, Ecosystems, Feeding, Feeding ecology, food web, Food web model, intertidal community, intertidal habitats, Inverse problems, linear inverse model, Linear inverse models, Markov chain Monte Carlo techniques, Markov chains, Meiofauna, Microphytobenthos, Monte Carlo methods, Phytobenthos, quantitative analysis, Sediment organic matters, soft-bottom environment, stable isotope mixing models, trophic level, Trophic relationships, Trophic structure}, issn = {03043800 (ISSN)}, doi = {10.1016/j.ecolmodel.2020.109129}, author = {van der Heijden, L.H. and Nathalie Niquil and Haraldsson, M. and Asmus, R.M. and Pacella, S.R. and Graeve, M. and Rzeznik-Orignac, J. and Asmus, H. and Saint-B{\'e}at, B. and Lebreton, B.} } @article {6469, title = {Realistic environmental exposure to microplastics does not induce biological effects in the Pacific oyster Crassostrea gigas}, journal = {Marine Pollution Bulletin}, volume = {150}, year = {2020}, month = {Jan-01-2020}, pages = {110627}, abstract = {The aim of the present study was to evaluate the presence and potential toxic effects of plastic fragments(\< 400μm) of polyethylene and polypropylene on the Pacific oysterCrassostrea gigas.Oysters were exposed toenvironmentally relevant concentrations (0, 0.008, 10, 100μg of particles/L) during 10 days, followed by adepuration period of 10 days in clean seawater. Effects of microplastics were evaluated on the clearance rate oforganisms, tissue alteration, antioxidant defense, immune alteration and DNA damage. Detection and quanti-fication of microplastics in oyster{\textquoteright}s tissues (digestive gland, gills and other tissues) and biodeposits using infraredmicroscopy were also conducted. Microplastics were detected in oyster{\textquoteright}s biodeposits following exposure to alltested concentrations: 0.003, 0.006 and 0.05 particles/mg of biodeposits in oysters exposed to 0.008, 10 and100μg of particles/L, respectively. No significant modulation of biological markers was measured in organismsexposed to microplastics in environmentally relevant conditions.}, keywords = {biodeposits, biomarkers, bivalves, Crassostrea gigas, microplastics}, issn = {0025326X}, doi = {10.1016/j.marpolbul.2019.110627}, url = {https://linkinghub.elsevier.com/retrieve/pii/S0025326X19307751}, author = {Revel, Messika and Ch{\^a}tel, Am{\'e}lie and Perrein-Ettajani, Hanane and Bruneau, M{\'e}lanie and Akcha, Farida and Sussarellu, Rossana and Rouxel, Julien and Katherine Costil and Decottignies, Priscilla and Cognie, Bruno and Lagarde, Fabienne and Mouneyrac, Catherine} } @article {6959, title = {Response of phytoplankton traits to environmental variables in French lakes: New perspectives for bioindication}, journal = {Ecological Indicators}, volume = {108}, year = {2020}, month = {Jan-01-2020}, pages = {105659}, abstract = {The restoration and the preservation of aquatics ecosystems is a critical issue in our contemporary society. In lake ecosystems, phytoplankton taxonomic-based indicators have been developed to evaluate water quality, but suffer of limited ecosystem ecological value. The recent development of functional approaches may allow to evaluate other aspects of ecosystem quality, and to develop new trait-based indicators responding to different environmental conditions. Here, our aim was to analyze the response of phytoplankton traits to numerous environmental variables and to identify relevant traits for the development of future indicator metrics. We used a French national database of 469 lakes, consisting in phytoplankton biovolumes and physicochemical values. The response of 84 morpho-functional traits towards environmental variables was tested with Machine Learning models, taking into account lake typology.
We identified 21 traits significantly related to environmental variables. Dissolved Organic Carbon, Nitrates and Total Suspend Solids were the physiochemical parameters which had the higher influence on our traits selection. However the response of phytoplanktonic traits to environmental variables did not change according to lake typology, advocating for a consistent response at the whole national scale contrary to the classical taxonomic approach. We finally identified several candidate traits that could be used for the development of new metrics for French lakes in a context of bio-assessment programs.}, issn = {1470160X}, doi = {10.1016/j.ecolind.2019.105659}, url = {https://linkinghub.elsevier.com/retrieve/pii/S1470160X19306521}, author = {Derot, J. and Jamoneau, A. and Teichert, Nils and Rosebery, J. and Morin, S. and Laplace-Treyture, C.} } @article {8662, title = {Revised Diagnoses, Nomenclature, Distribution and Key for Identification of the Species of the Indo-Pacific Genus Laeops (Bothidae)}, journal = {Journal of Ichthyology}, volume = {60}, year = {2020}, month = {Jan-11-2020}, pages = {801 - 827}, issn = {0032-9452}, doi = {10.1134/S0032945220060107}, url = {http://link.springer.com/10.1134/S0032945220060107}, author = {Voronina, E. P. and Maclaine, J. and Raredon, S. and Pruvost, P.} } @article {8151, title = {Seasonal variations of phytoplankton assemblages in relation to environmental factors in Mediterranean coastal waters of Morocco, a focus on HABs species}, journal = {Harmful Algae}, volume = {96}, year = {2020}, pages = {101819}, abstract = {Studies on phytoplankton and in particular Harmful Algal Blooms (HABs) species in southern Mediterranean waters are scarce. We performed from April 2008 to June 2009 weekly investigations on microphytoplankton community structure and abundance in two contrasted marine ecosystems located in the western Moroccan Mediterranean coast, M{\textquoteright}diq Bay and Oued Laou Estuary. Simultaneously, we measured the main physico-che- mical parameters. Globally, the two studied areas showed comparable values of the assessed abiotic environ- mental factors. Temperature and salinity followed seasonal variation with values ranging from 13.5 {\textdegree}C to 21.4 {\textdegree}C and 31 to 36.8, respectively. Average nutrient values in surface water ranged from 0.7 to 45.76\ μM for dissolved inorganic nitrogen, 0.02{\textendash}2.10\ μM for PO4\ and 0.23{\textendash}17.46\ μM for SiO4\ in the study areas. A total of 92 taxa belonging to 8 taxonomic classes were found. The highest number of microphytoplankton abundance reached 1.2\ {\texttimes}\ 106\ cells L-1\ with diatoms being the most abundant taxa. Factorial Discriminant Analysis (FDA) and Spearman correlation test showed a significant seasonal discrimination of dominant microphytoplankton spe- cies. These micro-organisms were associated with different environmental variables, in particular temperature and salinity. Numerous HABs species were encountered regularly along the year. Although\ Dinophysis\ species and\ Prorocentrum lima\ were present in both sites, no Lipophilic Shellfish Poisoning was detected for the analyzed bivalve mollusks. Domoic acid (DA), produced by toxic species of\ Pseudo-nitzschia\ was found with concentrations up to 18 μg DA g-1\ in the smooth clam\ Callista chione. Data showed that the observed persistent and dramatic Paralytic Shellfish Poisoning (PSP) intoxication of mollusks resulted probably of\ Gymnodinium catenatum\ pro- liferations in both studied areas. Contrary to\ C. chione, the cockle\ Achanthocardia tuberculatum\ showed a per- manent and extremely high toxicity level during the 15 months survey with up to 7545 μg Equivalent Saxitoxin kg-1\ flesh (ten times higher than the sanitary threshold of 800 μg eqSTX Kg-1flesh). The present work high- lights for the first time the dynamic of microphytoplankton including HABs species and their associated toxin accumulation in the commercially exploited shellfish in the southern western Mediterranean waters of Morocco. Furthermore, the acquired data will help us to improve the monitoring of HABs species and related toxins in these coastal marine systems.}, author = {Benlahcen Rijal Leblad and Rachid Amnhir and Sagou Reqia and Ferdaous Sitel and Mohamed Marhraoui and Mohamed Karim Ouelad Abdellah and Beno{\^\i}t V{\'e}ron and Hassan Er-Raioui and Mohamed Laabir} } @article {8116, title = {Seasonal variations of phytoplankton assemblages in relation to environmental factors in Mediterranean coastal waters of Morocco, a focus on HABs species}, journal = {Harmful Algae}, volume = {96}, year = {2020}, month = {Jan-06-2020}, pages = {101819}, issn = {15689883}, doi = {10.1016/j.hal.2020.101819}, url = {https://linkinghub.elsevier.com/retrieve/pii/S1568988320300986}, author = {Rijal Leblad, Benlahcen and Amnhir, Rachid and Reqia, Sagou and Sitel, Ferdaous and Daoudi, Mouna and Marhraoui, Mohamed and Ouelad Abdellah, Mohamed Karim and Beno{\^\i}t V{\'e}ron and Er-Raioui, Hassan and Laabir, Mohamed} } @article {7377, title = {Sediment stability: can we disentangle the effect of bioturbating species on sediment erodibility from their impact on sediment roughness?}, journal = {Marine Environmental Research}, volume = {162}, year = {2020}, month = {Jan-12-2020}, pages = {105147}, issn = {01411136}, doi = {10.1016/j.marenvres.2020.105147}, url = {https://linkinghub.elsevier.com/retrieve/pii/S0141113620305055}, author = {Dairain, Annabelle and Maire, Olivier and Meynard, Guillaume and Richard, Ana{\"\i}s and Rodolfo-Damiano, Tiffany and Francis Orvain} } @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 {7990, title = {A spatial food web model to investigate potential spillover effects of a fishery closure in an offshore wind farm}, journal = {Journal of Marine Systems}, volume = {212}, year = {2020}, month = {Jan-12-2020}, pages = {103434}, issn = {09247963}, doi = {10.1016/j.jmarsys.2020.103434}, url = {https://linkinghub.elsevier.com/retrieve/pii/S0924796320301305}, author = {Halouani, Ghassen and Villanueva, Ching-Maria and Raoux, Aurore and Dauvin, Jean Claude and Ben Rais Lasram, Frida and Foucher, Eric and Le Loc{\textquoteright}h, Francois and Safi, Georges and Araignous, Emma and Jean-Paul Robin and Nathalie Niquil} } @article {7219, title = {Spatial gradients of introgressed ancestry reveal cryptic connectivity patterns in a high gene flow marine fish}, journal = {Molecular Ecology}, year = {2020}, month = {Mar-08-2022}, abstract = {Assessing genetic connectivity among populations in high gene flow species is sometimes insufficient to evaluate demographic connectivity. Genetic differentiation quickly becomes zero as soon as a few dozen migrants are exchanged per generation. This provides little information to determine whether migration can ensure demographic coupling. The resulting difficulties in delineating conservation units for the management of commercially exploited marine fish species are well illustrated in the case of the European sea bass (Dicentrarchus labrax). Previous attempts to assess connectivity patterns in the northeast Atlantic have been hampered by a lack of spatial genetic structure. In contrast, mark-recapture data suggested low migration rates between regional spawning areas. Here, we show how a spatial gradient of introgressed Mediterranean ancestry across the northeast Atlantic reflects cryptic patterns of genetic and demographic connectivity. Using a 1K SNP chip data set in 827 individuals sampled from Portugal to the North Sea, we found null overall genetic differentiation across the northeast Atlantic. We however detected a subtle latitudinal admixture gradient originating at the edge of the contact zone with the Mediterranean sea bass lineage. Two significant breaks in the ancestry gradient at the tip of Galicia and northern Brittany indicated barriers to effective dispersal between demographically distinct units. Moreover, a northward expansion signal in Irish and North Seas was revealed by the surfing of rare Mediterranean alleles at the edge of the species range. Our results show that introgressed ancestry gradients offer a powerful alternative to assess genetic and demographic connectivity when the neutral migration-drift balance is not informative.}, issn = {0962-1083}, doi = {10.1111/mec.15611}, url = {https://onlinelibrary.wiley.com/doi/abs/10.1111/mec.15611}, author = {Robinet, Tony and Roussel, Val{\'e}rie and Cheze, Karine and Gagnaire, Pierre-Alexandre} } @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} } @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 {7273, title = {Unidirectional response to bidirectional selection on body size. I. Phenotypic, life-history, and endocrine responses}, journal = {Ecology and Evolution}, year = {2020}, month = {Jan-09-2021}, issn = {2045-7758}, doi = {10.1002/ece3.6713}, url = {https://onlinelibrary.wiley.com/doi/10.1002/ece3.6713}, author = {Renneville, Cl{\'e}mentine and Millot, Alexis and Agostini, Simon and Carmignac, David and Maugars, Gersende and Sylvie Dufour and Le Rouzic, Arnaud and Edeline, Eric} } @article {7100, title = {Unmasking continental natal homing in goliath catfish from the upper Amazon}, journal = {Freshwater Biology}, volume = {65}, year = {2020}, month = {Jul-02-2020}, pages = {325 - 336}, issn = {0046-5070}, doi = {10.1111/fwb.v65.210.1111/fwb.13427}, url = {https://onlinelibrary.wiley.com/toc/13652427/65/2}, author = {Hauser, Marilia and Duponchelle, Fabrice and Hermann, Theodore W. and Limburg, Karin E. and Castello, Leandro and Stewart, Donald J. and Torrente-Vilara, Gislene and Garc{\'\i}a-Vasquez, Aurea and Garc{\'\i}a-D{\'a}vila, Carmen and Marc Pouilly and Pecheyran, Christophe and Ponzevera, Emmanuel and Renno, Jean-Fran{\c c}ois and Moret, Arthur S. and Doria, Carolina R. C.} } @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 {7102, title = {Variacion de la amplitud del nicho isotopico de tres especies de peces en un gradiente de disponibilidad de recursos}, journal = {Ecologia en Bolivia}, volume = {55}, year = {2020}, pages = {6{\textendash}15}, author = {Echeverr{\'\i}a, Aldo and Marc Pouilly and Rejas, Danny} } @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 {6876, title = {Assessing a species thermal tolerance through a multiparameter approach: the case study of the deep-sea hydrothermal vent shrimp Rimicaris exoculata}, journal = {Cell Stress and Chaperones}, volume = {24}, year = {2019}, month = {Jan-05-2019}, pages = {647 - 659}, issn = {1355-8145}, doi = {10.1007/s12192-019-01003-0}, url = {http://link.springer.com/10.1007/s12192-019-01003-0}, author = {Juliette Ravaux and L{\'e}ger, Nelly and Hamel, G{\'e}rard and Bruce Shillito} } @article {LeGuen2019, title = {Assessing the ecological status of an estuarine ecosystem: linking biodiversity and food-web indicators}, journal = {Estuarine, Coastal and Shelf Science}, volume = {228}, year = {2019}, note = {cited By 0}, publisher = {Academic Press}, abstract = {During the last decades, the highly-anthropized Seine estuary has been impacted by modification of its habitats (building of a major extension of Le Havre harbour, i.e. Port2000) and a significant natural decrease in freshwater discharge. A Before/After analysis, using a toolbox of indicators, was applied to characterize the effects of both events on the estuarine ecosystem status. We selected from existing tool boxes several indicators derived from food web modelling or community composition data, such as biodiversity indicators, a guild-based index (i.e. Estuarine and Lagoon Fish Index ELFI) and ecological network analysis (ENA) indices. ENA and biodiversity indicators were applied on six spatial boxes describing the Seine estuary and its outlet. Results showed an increase in taxonomic and functional richness over time, mainly due to marinisation, and significant changes in food-web properties in relation to Port2000. ENA indices appeared as a promising method in ecological status assessment, especially for estuaries considered as inherently disturbed. {\textcopyright} 2019 Elsevier Ltd}, keywords = {Biodiversity, bioindicator, community composition, ecological approach, ecological modeling, ecosystem function, ecosystem health, environmental assessment, estuarine ecosystem, food web, France, habitat management, health status, human activity, Le Havre, Normandie, Seine Estuary, Seine Maritime}, issn = {02727714}, doi = {10.1016/j.ecss.2019.106339}, url = {https://www.sciencedirect.com/science/article/abs/pii/S0272771419300484}, author = {Le Guen, Camille and Samuele Tecchio and Jean-Claude Dauvin and De Roton, G. and Lobry, Jeremy and Lepage, Mario and Morin, Jocelyne and G{\'e}raldine Lassalle and Raoux, Aurore and Nathalie Niquil} } @article {6741, title = {Changes in marine phytoplankton diversity: Assessment under the Marine Strategy Framework Directive}, journal = {Ecological Indicators}, volume = {102}, year = {2019}, pages = {265 - 277}, abstract = {The Marine Strategy Framework Directive requires EU Member States to assess the Good Environmental Status (GES) of their marine waters in a coherent and strategic manner. For the regional assessment of biodiversity, the OSPAR Intersessional Coordination Group of Biodiversity Assessment and Monitoring (ICG-COBAM) provides substantial advice. Through expert working groups, phytoplankton indicators are currently being developed to measure the state and the change in pelagic diversity, to quantify food web dynamics and to measure the extent of eutrophication impacts. We developed a multi-metric indicator that is compliant with the common OSPAR indicator {\textquotedblleft}Changes in plankton diversity{\textquotedblright} (PH3). The aim was to describe the structure of the phytoplankton community (alpha diversity) and to detect significant temporal changes (beta diversity) to evaluate the health of pelagic habitats. In this pilot study, we used three coastal time-series in the Western Channel and the north of the Bay of Biscay (North Atlantic, France) to test the efficiency and the performance of several existing diversity indices. We validated two alpha diversity indices, namely the Menhinick Index (D) and the Hulburt Index (δ), based on their complementary ecological information, their strong relationship with habitat characteristics, and their relative ease of interpretation for stakeholders. Temporal shifts or rate of change in community structure were detected by the Local Contributions to Beta Diversity index (LCBD; a beta diversity measure). For the years where significantly high LCBD values were found, the Importance Value Index (IVI) was calculated to potentially identify the taxa (genus) responsible for the {\textquotedblleft}unusual{\textquotedblright} community structure. For example, at the Ouest Loscolo site in 2008, an elevated LCBD (0.45) coincided with a high dominance value (Hulburt{\textquoteright}s Index) caused by the occurrence of a monospecific bloom of Leptocylindrus spp. (IVI = 73\%) in July (2.22 {\texttimes} 106 cells L-1) and October (8 {\texttimes} 106 cells L-1). In this way, PH3 informs on different aspects of phytoplankton diversity from a community to a genus level. At the current stage of development, however, PH3 acts as a {\textquotedblleft}surveillance{\textquotedblright} rather than an operational indicator since the relationship to GES is not directly tracked. In the future, by additional testing of PH3 and extending the geographical scope, the robustness of the assessment could be further determined across the OSPAR Maritime Area.}, keywords = {community composition, Good environmental status, Indicators, Marine policy, MSFD, OSPAR, Pelagic habitat, Plankton}, issn = {1470-160X}, doi = {https://doi.org/10.1016/j.ecolind.2019.02.009}, url = {http://www.sciencedirect.com/science/article/pii/S1470160X19301190}, author = {Rombouts, I. and Nathalie Simon and Anais Aubert and T. Cariou and Eric Feunteun and Laurent Guerin and M. Hoebeke and A. McQuatters-Gollop and F. Rigaut-Jalabert and Luis Felipe Artigas} } @article {6796, title = {Characterization of an evolutionarily conserved calcitonin signalling system in a lophotrochozoan, the Pacific oyster (Crassostrea gigas) }, journal = {The Journal of Experimental Biology}, volume = {222}, year = {2019}, month = {Jan-07-2019}, pages = {jeb201319}, issn = {0022-0949}, doi = {10.1242/jeb.201319}, url = {http://jeb.biologists.org/lookup/doi/10.1242/jeb.201319}, author = {Julie Schwartz and R{\'e}alis-Doyelle, Emilie and Marie-Pierre Dubos and Lefranc, Benjamin and Leprince, J{\'e}r{\^o}me and Pascal Favrel} } @article {6116, title = {Characterization of an evolutionarily conserved calcitonin signalling system in a lophotrochozoan, the Pacific oyster ().}, journal = {J Exp Biol}, volume = {222}, year = {2019}, month = {2019 Jul 05}, abstract = {

In Protostoma, the diuretic hormone 31 (DH31) signalling system was long considered as the orthologue of the chordate calcitonin (CT) signalling system. Using the Pacific oyster () transcriptomic database GigaTON, we characterized seven G-protein-coupled receptors (GPCRs) named Cragi-CTR1-7 and phylogenetically related to chordate CT receptors (CTRs) and to protostome DH31 receptors. Two CT precursors (Cragi-CTP1 and Cragi-CTP2) containing two CT-type peptides and encoded by two distinct genes with a similar organization were also characterized. These oyster neuropeptides (Cragi-CT1/2) exhibit the two N-terminal paired cysteine residues and, except CTP2-derived peptide (Cragi-CTP2dp), show the C-terminal proline-amide motif typical of deuterostome CT-type peptides. All mature Cragi-CTs except Cragi-CTP2dp were detected in visceral ganglion extracts using mass spectrometry. Cell-based assays revealed that the previously characterized oyster receptors Cg-CT-R and Cragi-CTR2 were specifically activated by Cragi-CT1b and Cragi-CT2, respectively. This activation does not require the co-expression of receptor activity-modifying proteins (RAMPs). Thus, oyster CT signalling appears functionally more closely related to vertebrate CT/CTR signalling than to calcitonin gene-related peptide/calcitonin receptor-like receptor (CGRP/CLR) signalling. Gene expression profiles in different adult tissues and in oysters acclimated to brackish water suggest the potential implication of both Cg-CT-R/Cragi-CT1b and Cragi-CTR2/Cragi-CT2 in water and ionic regulations, although with apparently opposite effects. The present study represents the first comprehensive characterization of a functional CT-type signalling system in a protostome and provides evidence for its evolutionarily ancient origin and its early role in osmotic homeostasis.

}, issn = {1477-9145}, doi = {10.1242/jeb.201319}, author = {Julie Schwartz and R{\'e}alis-Doyelle, Emilie and Marie-Pierre Dubos and Lefranc, Benjamin and Leprince, J{\'e}r{\^o}me and Pascal Favrel} } @article {5930, title = {The complex study of complexes: The first well-supported phylogeny of two species complexes within genus Caridina (Decapoda: Caridea: Atyidae) sheds light on evolution, biogeography, and habitat}, journal = {Molecular Phylogenetics and Evolution}, volume = {131}, year = {2019}, pages = {164-180}, abstract = {

Atyid shrimps, a key component of tropical freshwater ecosystems, face multiple anthropogenic threats and thus

need special attention. With more than 300 described species, the genus Caridina is the most speciose of all the

Caridea infra-order. Caridina spp. occupy diverse habitats in tropical freshwaters of the Indo-West Pacific region.

Several species complexes have been recognized, based on common morphological features, but little is known

about how well these morphological characteristics align with phylogenetic characteristics. Furthermore, no

phylogeny of the genus Caridina published so far has provided well-resolved and supported relationships among

different species, thus impeding the possibility of proposing evolutionary hypotheses. In this study we used next

generation sequencing (NGS) to provide new insights into the phylogenetic relationships among the genus

Caridina, focusing on two complexes: {\textquoteleft}Caridina nilotica{\textquoteright} and {\textquoteleft}Caridina weberi{\textquoteright}. We collected 92 specimens belonging

to these two groups from most of their known geographical range, representing 50 species, for which we

sequenced seven mitochondrial genes and two nuclear markers using ion torrent NGS. We performed a phylogenetic

analysis, which yielded the first well-supported tree for the genus Caridina. On this tree were mapped the

geographic ranges and the habitats used by the different species, and a time calibration was tested. We found the

driving factors that most likely account for separation of clades are differences in habitat and to a lesser extent

geography. This work provides new insights into the taxonomy of this group and identifies opportunities for

further studies in order to fill knowledge gaps that currently impede the management and conservation of atyid

species.

1. Introduction

}, keywords = {amphidromy, freshwater shrimp, Indo-Pacific, Mitochondrial genome, Molecular systematics, taxonomy}, author = {de Mazancourt, Valentin and Klotz, Werner and Marquet, G{\'e}rard and Mos, B and Rogers, C and Philippe Keith} } @article {6014, title = {Contrasting biodiversity of eel larvae across the central Indian Ocean subtropical gyre}, journal = {Deep Sea Research Part II: Tropical Studies in Oceanography}, volume = {161}, year = {2019}, pages = {120{\textendash}131}, abstract = {The unique semi-enclosed Indian Ocean basin includes large Mascarene\ Plateau\ banks, offshore\ coral-reef\ islands, seasonal equatorial current jets, and cross-basin westward South Equatorial Current (SEC) flow, making it interesting for studying long larval-duration eel larvae (leptocephali) and regional eel biodiversity. Three surveys for\ leptocephali\ (in 2003, 2006, 2010) included sampling west of the Mascarene Plateau (west), a major survey and other stations off Sumatra and Java (east), and 2 cross-basin transects across the SEC. The highest numbers of leptocephali species were observed along Sumatra (2003: ~143 species; 2006: 72 species) and south of Java (2010: 69), with intermediate numbers being collected in the western Indian Ocean (2006: 71; 2010: 53) compared to low numbers in the hydrographically variable offshore zones (2006, 2010: 3{\textendash}27). The larger\ continental shelf\ areas along Sumatra including the Mentawai Islands provide more coral reef and other habitats for species such as congrid, muraenid, ophichthid, and chlopsid eels compared to the Mascarene Plateau banks. Some larvae in these areas get transported offshore, but the majority of offshore larvae were of Nemichthyidae and Serrivomeridae mesopelagic eels that were spawning across the basin. Habitat differences between the southern Mascarene Plateau and Sumatra and southern Indonesia along the edge of the high biodiversity Coral Triangle likely explain the higher biodiversity of eel larvae observed along the western side of the basin, which for the Congridae and Ophichthidae included more species than observed previously within the central Indonesian Seas. In addition to local spawning, seasonal currents likely transport larger larvae towards Sumatra from the north or west and larvae may enter the basin from the Indonesian\ Throughflow\ in the east, but it is unknown if equatorial jets or the SEC can transport larvae across the whole basin.}, doi = {doi.org/10.1016/j.dsr2.2018.02.012}, url = {https://www.sciencedirect.com/science/article/pii/S0967064517304393}, author = {Miller, Michael J and Wouthuyzen, Sam and Eric Feunteun and Aoyama, Jun and Watanabe, Shun and Syahailatua, Augy and Kuroki, Mari and Robinet, Tony and Hagihara, Seishi and Otake, Tsuguo and others} } @article {6688, title = {Correlations between broad-scale taxonomic and genetic differentiations suggest a dominant imprint of historical processes on beta diversities}, journal = {Journal of Biogeography}, volume = {46}, year = {2019}, month = {Jan-05-2020}, pages = {1083 - 1095}, issn = {0305-0270}, doi = {10.1111/jbi.2019.46.issue-510.1111/jbi.13559}, url = {https://onlinelibrary.wiley.com/doi/abs/10.1111/jbi.13559}, author = {Robuchon, Marine and Leroy, Boris and J{\'e}z{\'e}quel, C{\'e}line and Hugueny, Bernard} } @article {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 {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} } @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 {6018, title = {Functional divergence of thyrotropin beta-subunit paralogs gives new insights into salmon smoltification metamorphosis}, journal = {Scientific Reports}, volume = {9}, year = {2019}, pages = {4561}, author = {Fleming, Mitchell S and Maugars, Gersende and Lafont, Anne-Gaelle and Rancon, Jocelyn and Fontaine, Romain and Nourizadeh-Lillabadi, Rasoul and Weltzien, Finn-Arne and Santidrian Yebra-Pimentel, Elena and Dirks, Ron and McCormick, Stephen D and Rousseau, Karine and Martin, Patrick and Sylvie Dufour} } @article {5844, title = {Functional traits unravel temporal changes in fish biomass production on artificial reefs}, journal = {Marine Environmental Research}, volume = {145}, year = {2019}, pages = {137-146}, abstract = {

Artificial reefs (ARs) are deployed worldwide as they are expected to support fisheries management. While the underlying mechanisms remain widely debated, production was recently determined as the most probable cause of increases in fish biomass. Changes in fish biomass in a temperate AR system were investigated from December 2008 to November 2015 by considering seven distinct functional groups, and isotopic functional indices were used to identify how these changes may have affected organic matter (OM) fluxes. Contrasting patterns of change were observed between functional trophic groups, highlighting that combining the biomass of all species present in a community is inappropriate for assessing AR-induced effects. Benthic sedentary species predominated (\>75\% of the total biomass) through massive production, with a 68-fold increase in mean biomass over the study period. Mobile species tended to vary seasonally, suggesting only a slight influence of AR. Zooplanktivores biomass decreased over the 6-year period, as a possible result of changes in environmental conditions. Isotopic indices helped to reveal both the community maturation and the importance of local OM sources not only in supporting fish biomass production but also in attracting pelagic species. Our results corroborate that production and attraction are two extremes of a range of contrasting patterns and highlight the importance of considering the specific responses of functional components of fish communities to accurately describe changes in AR functioning. Functional attributes such as trophic traits, habitat use and dispersal abilities must not be overlooked as they modulate fish species responses to the deployment of man-made rocky substrates.

}, keywords = {Artificial reefs, Fish biomass production, Isotopic functional indices, Mediterranean sea}, issn = {0141-1136}, doi = {https://doi.org/10.1016/j.marenvres.2019.02.018}, url = {http://www.sciencedirect.com/science/article/pii/S0141113618307979}, author = {Cresson, Pierre and Le Direach, Laurence and Rouanet, Elodie and Goberville, Eric and Astruch, Patrick and Ourgaud, M{\'e}lanie and Mireille Harmelin-Vivien} } @article {7095, title = {The Genomic Substrate for Adaptive Radiation: Copy Number Variation across 12 Tribes of African Cichlid Species}, journal = {Genome Biology and Evolution}, volume = {11}, year = {2019}, month = {Jan-10-2019}, pages = {2856 - 2874}, abstract = {The initial sequencing of five cichlid genomes revealed an accumulation of genetic variation, including extensive copy number variation in cichlid lineages particularly those that have undergone dramatic evolutionary radiation. Gene duplication has the potential to generate substantial molecular substrate for the origin of evolutionary novelty. We use array-based comparative heterologous genomic hybridization to identify copy number variation events (CNVEs) for 168 samples representing 53 cichlid species including the 5 species for which full genome sequence is available. We identify an average of 50-100 CNVEs per individual. For those species represented by multiple samples, we identify 150-200 total CNVEs suggesting a substantial amount of intraspecific variation. For these species, only \~{}10\% of the detected CNVEs are fixed. Hierarchical clustering of species according to CNVE data recapitulates phylogenetic relationships fairly well at both the tribe and radiation level. Although CNVEs are detected on all linkage groups, they tend to cluster in "hotspots" and are likely to contain and be flanked by transposable elements. Furthermore, we show that CNVEs impact functional categories of genes with potential roles in adaptive phenotypes that could reasonably promote divergence and speciation in the cichlid clade. These data contribute to a more complete understanding of the molecular basis for adaptive natural selection, speciation, and evolutionary radiation.}, keywords = {adaptive radiation, cichlid, copy number variation, gene duplication, genomic architecture}, doi = {10.1093/gbe/evz185}, url = {https://academic.oup.com/gbe/article/11/10/2856/5556293}, author = {Faber-Hammond, Joshua J and Bezault, Etienne and Lunt, David H and Joyce, Domino A and Renn, Suzy C P} } @article {6887, title = {High rates of apoptosis visualized in the symbiont-bearing gills of deep-sea Bathymodiolus mussels}, journal = {PLOS ONE}, volume = {14}, year = {2019}, month = {Apr-02-2019}, pages = {e0211499}, doi = {10.1371/journal.pone.021149910.1371}, url = {http://dx.plos.org/10.1371/journal.pone.0211499}, author = {Piquet, B{\'e}r{\'e}nice and Bruce Shillito and Lallier, Fran{\c c}ois H. and Duperron, S{\'e}bastien and Andersen, Ann C.}, editor = {Rodrigues, Clara F.} } @article {6117, title = {Histone Methylation Participates in Gene Expression Control during the Early Development of the Pacific Oyster .}, journal = {Genes (Basel)}, volume = {10}, year = {2019}, month = {2019 09 10}, abstract = {

Histone methylation patterns are important epigenetic regulators of mammalian development, notably through stem cell identity maintenance by chromatin remodeling and transcriptional control of pluripotency genes. But, the implications of histone marks are poorly understood in distant groups outside vertebrates and ecdysozoan models. However, the development of the Pacific oyster is under the strong epigenetic influence of DNA methylation, and histone-demethylase orthologues are highly expressed during . early life. This suggests a physiological relevance of histone methylation regulation in oyster development, raising the question of functional conservation of this epigenetic pathway in lophotrochozoan. Quantification of histone methylation using fluorescent ELISAs during oyster early life indicated significant variations in monomethyl histone H3 lysine 4 (H3K4me), an overall decrease in H3K9 mono- and tri-methylations, and in H3K36 methylations, respectively, whereas no significant modification could be detected in H3K27 methylation. Early in vivo treatment with the JmjC-specific inhibitor Methylstat induced hypermethylation of all the examined histone H3 lysines and developmental alterations as revealed by scanning electronic microscopy. Using microarrays, we identified 376 genes that were differentially expressed under methylstat treatment, which expression patterns could discriminate between samples as indicated by principal component analysis. Furthermore, Gene Ontology revealed that these genes were related to processes potentially important for embryonic stages such as binding, cell differentiation and development. These results suggest an important physiological significance of histone methylation in the oyster embryonic and larval life, providing, to our knowledge, the first insights into epigenetic regulation by histone methylation in lophotrochozoan development.

}, issn = {2073-4425}, doi = {10.3390/genes10090695}, author = {Alexandre Fellous and Lefranc, Lorane and Jouaux, Aude and Goux, Didier and Pascal Favrel and Riviere, Guillaume} } @article {6849, title = {Histone Methylation Participates in Gene Expression Control during the Early Development of the Pacific Oyster Crassostrea gigas}, journal = {Genes}, volume = {10}, year = {2019}, month = {Jan-09-2019}, pages = {695}, doi = {10.3390/genes10090695}, url = {https://www.mdpi.com/2073-4425/10/9/695}, author = {Fellous, Alexandre and Le Franc, Lorane and Jouaux, Aude and Goux, Didier and Pascal Favrel and Guillaume Rivi{\`e}re} } @article {6085, title = {Local changes in copepod composition and diversity in two coastal systems of Western Europe}, journal = {Estuarine, Coastal and Shelf Science}, year = {2019}, pages = {106304}, author = {Richirt, Julien and Goberville, Eric and Ruiz-Gonzalez, Vania and Benoit Sautour} } @article {8114, title = {Low-diversity bacterial microbiota in Southern Ocean representatives of lanternfish genera Electrona, Protomyctophum and Gymnoscopelus (family Myctophidae)}, journal = {PLOS ONE}, volume = {14}, year = {2019}, month = {Nov-12-2019}, pages = {e0226159}, doi = {10.1371/journal.pone.0226159}, url = {https://dx.plos.org/10.1371/journal.pone.0226159}, author = {Gallet, Alison and Koubbi, Philippe and L{\'e}ger, Nelly and Scheifler, Mathilde and Ruiz-Rodriguez, Magdalena and Suzuki, Marcelino T. and Desdevises, Yves and Duperron, S{\'e}bastien}, editor = {Achal, Varenyam} } @article {Raoux2019728, title = {Measuring sensitivity of two OSPAR indicators for a coastal food web model under offshore wind farm construction}, journal = {Ecological Indicators}, volume = {96}, year = {2019}, note = {cited By 2}, pages = {728-738}, publisher = {Elsevier B.V.}, abstract = {A combination of modelling tools was applied to simulate the impacts of the future Courseulles-sur-mer offshore wind farm (OWF) construction (Bay of Seine, English Channel) on the ecosystem structure and functioning. To do so, food-web models of the ecosystem under three scenarios were constructed to investigate the effect caused by the OWF of added substrate (reef effect), fishing restriction (reserve effect), and their combined effect. Further, Ecological Network Analysis indices and Mean Trophic Level were derived to investigate their suitability for detecting changes in the ecosystem state. Our analysis suggests changes in the ecosystem structure and functioning after the OWF construction, the ecosystem maturity was predicted to increase, but no alterations in its overall resilience capacity. {\textcopyright} 2018 Elsevier Ltd}, keywords = {Barium compounds, Bay of Seine, coastal zone, Ecological network analysis, Ecopath with Ecosim, ecosystem function, ecosystem structure, Ecosystems, Electric utilities, English Channel, food web, France, in situ measurement, Marine environment, Marine renewable energy, measurement method, model, Offshore wind farms, Reefs, Reserve effect, sensitivity analysis, trophic level, wind farm}, issn = {1470160X}, doi = {10.1016/j.ecolind.2018.07.014}, url = {https://www.sciencedirect.com/science/article/abs/pii/S1470160X1830534X}, author = {Raoux, Aurore and G{\'e}raldine Lassalle and Pezy, Jean-Philippe and Samuele Tecchio and Safi, Georges and Ernande, Bruno and Maz{\'e}, C. and Le Loc{\textquoteright}h, Francois and Lequesne, Justine and Girardin, Valerie and Jean-Claude Dauvin and Nathalie Niquil} } @article {6668, title = {Modelling the functioning of a coupled microphytobenthic-EPS-bacterial system in intertidal mudflats}, journal = {Marine Environmental Research}, volume = {150}, year = {2019}, abstract = {A mechanistic and biogeochemical model was developed to analyze the interactions between microphytobenthos (MPB), bacteria and nutrients in a tidal system. Behavioral vertical migration was hypothesized as being controlled by exogenous factors (tide and light) but also by endogenous factors (carbon and nitrogen requirements). The secretion of Extracellular Polymeric Substances (EPS) during photosynthesis (overflow metabolism) and migration of diatoms was also formulated. Similarities in MPB dynamics between observations and simulations support the assumption that carbon and nitrogen ratios are additional key processes behind the vertical migration of diatoms in the sediment. The model satisfactorily reproduced the three growth phases of the MPB development observed in a mesocosm (the lag phase, the logarithmic growth, and the plateau). Besides, nutrient availability, which could be induced by faunal bioturbation, significantly determined the extent of MPB biomass and development. The plateau phase observed in the last days of simulations appeared to be attributed to a nutrient depletion in the system, emphasizing the importance of nutrient availability. The model, although improvable especially on the formulation of the EPS excretion and bacteria development, already updated understanding of several aspects of benthic-system functioning during experimental conditions. {\textcopyright} 2019 Elsevier Ltd}, keywords = {Bacillariophyta, bacteria, Bacteria (microorganisms), bacterial growth, bacterium, Biogeochemical modeling, biogeochemistry, Biomass, Carbon, Carbon and nitrogen, Carbon and nitrogen ratios, Diatom, diel vertical migration, exopolymer, Experimental conditions, Extracellular polymeric substances, intertidal environment, intertidal zone, light, mesocosm, microbial community, Microphytobenthos, Migration, modeling, mudflat, Nitrogen, nonhuman, Nutrient availability, Nutrients, nutritional requirement, organic carbon, organismal interaction, Photosynthesis, Phytobenthos, Phytoplankton, polymer, Review, simulation, tide, vertical migration}, issn = {01411136}, doi = {10.1016/j.marenvres.2019.104754}, url = {https://www.sciencedirect.com/science/article/abs/pii/S0141113619300704}, author = {Rakotomalala, C and Katell Guizien and Karine Granger{\'e} and S{\'e}bastien Lefebvre and Christine Dupuy and Francis Orvain} } @article {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 {6816, title = {Neuroanatomy of a hydrothermal vent shrimp provides insights into the evolution of crustacean integrative brain centers}, journal = {eLife}, volume = {8}, year = {2019}, month = {Jun-08-2019}, abstract = {Alvinocaridid shrimps are emblematic representatives of the deep hydrothermal vent
fauna at the Mid-Atlantic Ridge. They are adapted to a mostly aphotic habitat with extreme
physicochemical conditions in the vicinity of the hydrothermal fluid emissions. Here, we
investigated the brain architecture of the vent shrimp Rimicaris exoculata to understand possible
adaptations of its nervous system to the hydrothermal sensory landscape. Its brain is modified from
the crustacean brain ground pattern by featuring relatively small visual and olfactory neuropils that
contrast with well-developed higher integrative centers, the hemiellipsoid bodies. We propose that
these structures in vent shrimps may fulfill functions in addition to higher order sensory processing
and suggest a role in place memory. Our study promotes vent shrimps as fascinating models to
gain insights into sensory adaptations to peculiar environmental conditions, and the evolutionary
transformation of specific brain areas in Crustacea.}, doi = {10.7554/eLife.47550.001}, url = {https://elifesciences.org/articles/47550}, author = {Machon, Julia and Krieger, Jakob and Meth, Rebecca and Magali Zbinden and Juliette Ravaux and Montagn{\'e}, Nicolas and Chertemps, Thomas and Harzsch, Steffen} } @article {6664, title = {Patterns of at-sea behaviour at a hybrid zone between two threatened seabirds}, journal = {Scientific Reports}, volume = {9}, year = {2019}, month = {Jan-12-2019}, doi = {10.1038/s41598-019-51188-8}, url = {http://www.nature.com/articles/s41598-019-51188-8}, author = {Austin, Rhiannon E. and Wynn, Russell B. and Votier, Stephen C. and Trueman, Clive and McMinn, Miguel and Rodr{\'\i}guez, Ana and Suberg, Lavinia and Maurice, Louise and Newton, Jason and Genovart, Meritxell and Clara P{\'e}ron and Gr{\'e}millet, David and Guilford, Tim} } @article {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 {5929, title = {Resurrection of Caridina natalensis De Man, 1908 (Crustacea: Decapoda: Atyidae) in the South Western Indian Ocean}, journal = {Zootaxa}, volume = {4543}, year = {2019}, pages = {375-387}, abstract = {

Numerous specimens of a freshwater shrimp with small eggs belonging to the Caridina nilotica complex collected in the South Western Indian Ocean were studied and compared with recent and old collection specimens genetically (16S mito-chondrial analysis for recent and type specimens) and morphologically. The results revealed that, in the Indian Ocean, what has been identified by several authors under various species names of the complex C. nilotica, was in fact C. natal-ensis De Man, 1908. This valid species is re-described and compared with closely related species, often confused with it in this area: C. brachydactyla De Man, 1908, C. brevidactyla Roux, 1920, C. gracilipes De Man, 1892 and C. longirostris H. Milne Edwards, 1837.

}, keywords = {16S, Caridina, Comoros, Integrative taxonomy, Madagascar, Mayotte, morphology, Seychelles, South Africa}, author = {de Mazancourt, Valentin and Mlambo, MC and Castelin, Magalie and Renneville, C and Marquet, G{\'e}rard and Philippe Keith} } @article {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 {6689, title = {Species splitting increases estimates of evolutionary history at risk}, journal = {Biological Conservation}, volume = {235}, year = {2019}, month = {Jan-07-2019}, pages = {27 - 35}, issn = {00063207}, doi = {10.1016/j.biocon.2019.03.041}, url = {https://www.sciencedirect.com/science/article/pii/S0006320718312400}, author = {Robuchon, Marine and Faith, Daniel P. and Julliard, Romain and Leroy, Boris and Pellens, Roseli and Robert, Alexandre and Th{\'e}venin, Charles and V{\'e}ron, Simon and Pavoine, Sandrine} } @article {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 {5860, title = {The transformation of macrophyte-derived organic matter to methane relates to plant water and nutrient contents}, journal = {Limnology and Oceanography}, year = {2019}, month = {mar}, doi = {10.1002/lno.11148}, url = {https://doi.org/10.1002/lno.11148}, author = {Charlotte Grasset and Gwena{\"e}l Abril and Raquel Mendon{\c c}a and Fabio Roland and Sebastian Sobek} } @article {vanderHeijden201950, title = {Trophic importance of microphytobenthos and bacteria to meiofauna in soft-bottom intertidal habitats: A combined trophic marker approach}, journal = {Marine Environmental Research}, volume = {149}, year = {2019}, note = {cited By 2}, pages = {50-66}, publisher = {Elsevier Ltd}, abstract = {Meiofauna can play an important role in the carbon fluxes of soft-bottom coastal habitats. Investigation of their feeding behavior and trophic position remains challenging due to their small size. In this study, we determine and compare the food sources used by nematodes and benthic copepods by using stable isotope compositions, fatty acid profiles and compound specific isotope analyses of fatty acids in the mudflats, seagrass beds and a sandflat of the Marennes-Ol{\'e}ron Bay, France, and the Sylt-R{\o}m{\o} Bight, Germany. Suspended particulate organic matter was much more 13C-depleted than other food sources and meiofauna, highlighting its poor role in the different studied habitats. The very low proportions of vascular plant fatty acid markers in meiofauna demonstrated that these consumers did not rely on this food source, either fresh or detrital, even in seagrass beds. The combined use of stable isotopes and fatty acids emphasized microphytobenthos and benthic bacteria as the major food sources of nematodes and benthic copepods. Compound specific analyses of a bacteria marker confirmed that bacteria mostly used microphytobenthos as a substrate. {\textcopyright} 2019 Elsevier Ltd}, keywords = {Article, Bacillariophyta, bacteria, bacterium, Benthic copepods, Benthic diatoms, Biological materials, biomarker, Biomass, carbon 13, coastal zone, controlled study, Copepoda, delta carbon 13, delta nitrogen 15, Diatom, Ecosystems, fatty acids, Feeding Behavior, food supply, France, Free livings, Freeze Drying, Frisian Islands, Germany, high performance liquid chromatography, intertidal environment, isotope analysis, Isotopes, lipid composition, Marennes-Oleron Bay, Meiofauna, microbial activity, Microphytobenthos, mudflat, Mudflats, Nematoda, nitrogen 15, nonhuman, North Frisian Islands, Nouvelle-Aquitaine, Organic matter, Phytobenthos, Plants (botany), Sandflats, seagrass, Seagrass beds, Sediment, soft-bottom environment, species habitat, substrate, suspended particulate organic matter, Sylt-Romo Bight, trophic environment, Trophic markers, Trophic structure, unclassified drug}, issn = {01411136}, doi = {10.1016/j.marenvres.2019.05.014}, url = {https://www.sciencedirect.com/science/article/abs/pii/S0141113618304744}, author = {van der Heijden, L.H. and Graeve, M. and R. Asmus and Rzeznik-Orignac, J. and Nathalie Niquil and Bernier, Q. and Guillou, G. and H Asmus and Lebreton, B.} } @article {Safi2019116, title = {Vitamine ENA: A framework for the development of ecosystem-based indicators for decision makers}, journal = {Ocean and Coastal Management}, volume = {174}, year = {2019}, note = {cited By 5}, pages = {116-130}, publisher = {Elsevier Ltd}, abstract = {The Water Framework Directive (article 2, paragraph 21) as well as the Marine Strategy Framework Directive (MSFD, Descriptor 4) stress the need for assessing the quality of the structure and the functioning of ecosystems. The MSFD also underlines the urgent need for development, testing, and validation of ecosystem state indicators. Holistic function-based criteria and indicators as provided by Ecological Network Analysis (ENA) could be used to define and assess the {\textquoteleft}Good Environmental Status{\textquoteright} of marine ecosystems. This approach also feeds Ecosystem Based Management (EBM). ENA generally analyses the fluxes{\textquoteright} quality of a single medium such as here the carbon fluxes in a food web and produces a number of useful metrics that indicate, inter alia, the total carbon flow through the system, the quality of the functioning of the system or the trophic efficiency of system. A short list of indices [i.e. Detritivory over Herbivory ratio (D/H), Connectance Index (CI), Transfer Efficiency (TE) over trophic levels, System Omnivory Index (SOI), Finn{\textquoteright}s Cycling Index (FCI), relative Redundancy (R/DC), Average Mutual Information (AMI) and Interaction Strength (IS)] is proposed for practical use. This paper presents a first framework for OSPAR Regional Sea Convention food web indicators based on ENA. These are presented here focusing on their applicability and what is needed for implementation, illustrating their potential use by case studies. {\textcopyright} 2019 Elsevier Ltd}, keywords = {Average mutual information, Carbon, Carbon flux, Criteria and indicators, Decision making, Ecological network analysis, ecosystem function, ecosystem management, ecosystem structure, Ecosystem-based management, Ecosystems, Efficiency, environmental indicator, Environmental management, Environmental regulations, food web, Good environmental status, holistic approach, Interaction strength, marine ecosystem, Marine pollution, Marine strategy framework directives, Water conservation, Water Framework Directives}, issn = {09645691}, doi = {10.1016/j.ocecoaman.2019.03.005}, url = {https://www.sciencedirect.com/science/article/abs/pii/S096456911830591X}, author = {Safi, Georges and Giebels, D. and Arroyo, N.-L. and Heymans, J.J. and Preciado, I and Raoux, Aurore and Sch{\"u}ckel, U. and Samuele Tecchio and de Jonge, V.N. and Nathalie Niquil} } @article {5630, title = {Age and growth of the Amazonian migratory catfish Brachyplatystoma rousseauxii in the Madeira River basin before the construction of dams}, journal = {Neotropical Ichthyology}, volume = {16}, year = {2018}, pages = {e170130, 2018}, abstract = {

The goliath catfish Brachyplatystoma rousseauxii has crucial economical and ecological functions in the Amazon basin. Although its life history characteristics have been studied in the Amazon, there is little information in the Madeira River basin, which holds genetically distinct populations and where dams were recently built. Using fish collected in Bolivia, Brazil and Peru, this study provides a validation of growth rings deposition and details the growth patterns of B. rousseauxii in the Madeira before the dams{\textquoteright} construction. Age structure and growth parameters were determined from 497 otolith readings. The species exhibits two growth rings per year and sampled fish were between 0 and 16 years old. In the Brazilian portion of the basin, mainly young individuals below 5 years old were found, whereas older fish (\> 5 years) were caught only in the Bolivian and Peruvian stretches, indicating that after migrating upstream to reproduce, adults remain in the headwaters of the Madeira River. Comparing with previous publications, B. rousseauxii had a slower growth and 20 cm lower maximum standard length in the Madeira River than in the Amazon River. This study provides a baseline for future evaluation of changes in population dynamics of the species following dams closure.

Palabras clave:\ Amazon; Biannual rings; Goliath catfish; Life cycle; Otolith

}, doi = {10.1590/1982-0224-20170130}, author = {Hauser, Marilia and Doria, C R C and Melo, L and Santos, A and Ayala, D and Nogueira, L and Amadio, S. A. and Fabr{\'e}, N and Torrente-Vilara, Gislene and Garc{\'\i}a V{\'a}squez, A and Renno, Jean-Francois and Carvajal-Vallejos, F M and Alonso, J-C and N{\'u}{\~n}ez-Rodr{\'\i}guez, Jes{\'u}s and Fabrice Duponchelle} } @article {5428, title = {Annual Phytoplankton Primary Production Estimation in a Temperate Estuary by Coupling PAM and Carbon Incorporation Methods}, journal = {Estuaries and Coasts}, year = {2018}, month = {02/2018}, abstract = {

Phytoplankton primary production varies considerably with environmental parameters especially in dynamic ecosystems like estuaries. The aimof this study was to investigate short-term primary production along the salinity gradient of a temperate estuary over the course of 1 year. The combination of carbon incorporation and fluorescence methods enabled primary production estimation at short spatial and temporal scales. The electron requirement for carbon fixation was investigated in relation with physical-chemical parameters to accurately estimate primary production at high frequency. These results combined with the variability of the photic layer allowed the annual estimation of primary production along the estuary. Phytoplankton dynamics was closely related to salinity and turbidity gradients, which strongly influenced cells physiology and photoacclimatation. The number of electrons required to fix 1 mol of carbon (C) was ranged between 1.6 and 25 mol electron mol C-1 with a mean annual value of 8 {\textpm} 5 mol electron mol C-1. This optimum value suggests that in nutrient replete conditions like estuaries, alternative electron flows are low, while electrons transfer from photosystem II to carbon fixation is highly efficient. A statistical model was used to improve the estimation of primary production from electron transport rate as a function of significant environmental parameters. Based on this model, daily carbon production in the Seine estuary (France) was estimated by considering light and photic zone variability. A mean annual daily primary production of 0.12 {\textpm} 0.18 g C m-2 day-1 with a maximum of 1.18 g C m-2 day-1 in summer was estimated which lead to an annual mean of 64.75 g C m-2 year-1. This approach should be applied more frequently in dynamic ecosystems such as estuaries or coastal waters to accurately estimate primary production in those valuable ecosystems.

}, keywords = {High frequency . Electron requirement for carbon fixation . Electron transport rate (ETR) . Seine estuary}, author = {Morelle, J{\'e}r{\^o}me and Mathilde Schapira and Francis Orvain and Riou, Philippe and Pascal Jean Lopez and Duplessix, Olivier and Rabiller, Emilie and Maheux, Franc and Simon, Benjamin and Pascal Claquin} } @article {Raoux201811, title = {Assessing cumulative socio-ecological impacts of offshore wind farm development in the Bay of Seine (English Channel)}, journal = {Marine Policy}, volume = {89}, year = {2018}, note = {cited By 2}, pages = {11-20}, publisher = {Elsevier Ltd}, abstract = {As part of the energy transition, the French government is planning the construction of Offshore Wind Farms (OWFs) in Normandy. These OWFs will be integrated into an ecosystem already facing multiple anthropogenic disturbances. A holistic view of cumulated impacts (OWF construction, global warming and fisheries) were developed on the Courseulles-sur-Mer{\textquoteright} ecosystem through the use of a qualitative mathematical modelling approach. This modelling approach provides the mean to consider alternative hypotheses about how the ecosystem structure and function affects its dynamics. Alternative models were constructed to address the different hypotheses regarding the behaviour of top predator (whether the top predators will be scared away by the OWF or attracted by the reef effect), impacts of global warming and changes in fisheries activities. Key findings from these analyses are that the OWF construction could lead to an increase in benthos species and fish benthos feeders whatever the perturbation scenario, while the predicted response of top predators was ambiguous across all perturbation scenario. Qualitative modelling results can play a vital role in decision making by improving long term planning for the marine environment but also as a tool for communication with the public and so contribute to a better acceptability of the Marine Renewable Energy (MRE) project. {\textcopyright} 2017 Elsevier Ltd}, keywords = {alternative energy, Bay of Seine, development project, ecological impact, ecosystem management, English Channel, environmental impact assessment, environmental planning, France, Marine environment, offshore structure, qualitative analysis, social impact, wind farm}, issn = {0308597X}, doi = {10.1016/j.marpol.2017.12.007}, url = {https://www.sciencedirect.com/science/article/pii/S0308597X1730444X}, author = {Raoux, Aurore and Dambacher, J.M. and Pezy, Jean-Philippe and Maz{\'e}, C. and Jean-Claude Dauvin and Nathalie Niquil} } @article {6943, title = {Assessing the impacts of several algae-based diets on cultured European abalone ( Haliotis tuberculata )}, journal = {Aquatic Living Resources}, volume = {31}, year = {2018}, month = {Jan-01-2018}, pages = {28}, doi = {10.1051/alr/2018018}, url = {https://www.alr-journal.org/10.1051/alr/2018018}, author = {Basuyaux, Olivier and Blin, Jean-Louis and Katherine Costil and Richard, Olivier and Lebel, Jean-Marc and Antoine Serpentini} } @article {5531, title = {Biofilm monitoring as a tool to assess the efficiency of artificial reefs as substrates: Toward 3D printed reefs}, journal = {Ecological Engineering}, volume = {120}, year = {2018}, pages = {230 - 237}, abstract = {

Habitat destruction is one of the main causes of the decline of biodiversity and of fishery resources in the marine environment. An artificial reef (AR) could be a tool for protecting or restoring these habitats and their declining biodiversity, and also help to enhance sustainable fisheries. The goal is to design non-polluting structures that best mimic the complexity of natural habitats in order to improve their service to the community. To date, the assessment of reef performance has been mostly focused on fish assemblages and species of ecological and/or socio-economic interest, and has disregarded the biofilm communities that determine the first level of an AR{\textquoteright}s trophic network. In this work, we used biofilm formation to compare the quality of substrates used as building parts for an AR, in order to optimize an eco-friendly material that will be used to design a new generation of \{ARs\} produced by giant 3D printers. The structure of the photosynthetic communities has been identified using pigment biomarkers and their production of exudates has been analysed. These polymeric substances were quantified in terms of total sugar and protein concentrations. They were further analysed in terms of amino acid content. We found no significant differences between the micro-algae communities developed on the different substrates. These photosynthetic communities were mainly composed of diatoms, prasinophytes, haptophytes, and dinoflagellates. However, we showed that the material for \{ARs\} is crucial for biofilm development, especially with regard to its secretions of sugar. The choice of an appropriate substrate for \{AR\} construction is thus of particular importance since biofilm secretions determine the organic substrate on which sessile macro-organisms will settle.

}, keywords = {Artificial reef substrates}, issn = {0925-8574}, doi = {https://doi.org/10.1016/j.ecoleng.2018.06.005}, url = {https://www.sciencedirect.com/science/article/pii/S0925857418302167}, author = {Elisabeth Riera and Lamy, Dominique and Christophe Goulard and Francour, P and C{\'e}dric Hubas} } @article {6818, title = {Blow Your Nose, Shrimp! Unexpectedly Dense Bacterial Communities Occur on the Antennae and Antennules of Hydrothermal Vent Shrimp}, journal = {Frontiers in Marine Science}, volume = {5}, year = {2018}, month = {Aug-10-2018}, abstract = {In crustaceans, as in other animals, perception of environmental cues is of key importance for a wide range of interactions with the environment and congeners. Chemoreception involves mainly the antennae and antennules, which carry sensilla that detect water-borne chemicals. The functional importance of these as exchange surfaces in the shrimp{\textquoteright}s sensory perception requires them to remain free of any microorganism and deposit that could impair the fixation of odorant molecules on sensory neurons. We report here the occurrence of an unexpected dense bacterial colonization on surface of the antennae and antennules of four hydrothermal vent shrimp species. Microscopic observation, qPCR and 16S rRNA barcoding reveal the abundance, diversity and taxonomic composition of these bacterial communities, that are compared with those found on a related coastal shrimp. Bacterial abundances vary among species. Bacteria are almost absent in coastal shrimp, meanwhile they fully cover the antennal flagella in some hydrothermal vent species. Epsilon- and Gammaproteobacteria dominate the hydrothermal shrimp-associated communities, whereas Alphaproteobacteria and Bacteroidetes are dominant in the coastal ones. Bacteria associated with vent shrimp species are most similar to known chemoautotrophic sulfur-oxidizers. Potential roles of these bacteria on the hydrothermal shrimp antennae and antennules and on sensory functions are discussed.}, doi = {10.3389/fmars.2018.00357}, url = {https://www.frontiersin.org/article/10.3389/fmars.2018.00357/full}, author = {Magali Zbinden and Gallet, Alison and Szafranski, Kamil M. and Machon, Julia and Juliette Ravaux and L{\'e}ger, Nelly and Duperron, S{\'e}bastien} } @article {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 {6819, title = {Comparison of Chemoreceptive Abilities of the Hydrothermal Shrimp Mirocaris fortunata and the Coastal Shrimp Palaemon elegans}, journal = {Chemical Senses}, volume = {43}, year = {2018}, month = {06}, pages = {489-501}, abstract = {Chemoreception might play an important role for endemic shrimp that inhabit deep and dark hydrothermal vents to find food sources and to locate active edifices that release specific chemicals. We compared the chemosensory abilities of the hydrothermal shrimp Mirocaris fortunata and the coastal related species, Palaemon elegans. The detection of diverse ecologically relevant chemical stimuli by the antennal appendages was measured with electroantennography. The 2 species can detect food-related odor and sulfide, a short-distance stimulus, via both their antennae and antennules. Neither iron nor manganese, considered as long-distance stimuli, was detected by the antennal appendages. Investigation of the ultrastructure of aesthetasc sensilla revealed no specific features of the hydrothermal species regarding innervation by olfactory sensory neurons. Pore-like structures occurring in the aesthetasc cuticle and dense bacterial covering seem to be unique to hydrothermal species, but their potential link to chemoreception remains elusive.}, issn = {0379-864X}, doi = {10.1093/chemse/bjy041}, url = {https://doi.org/10.1093/chemse/bjy041}, author = {Machon, Julia and Lucas, Philippe and Juliette Ravaux and Magali Zbinden} } @article {8557, title = {Connecting paths between juvenile and adult habitats in the Atlantic green turtle using genetics and satellite tracking}, journal = {Ecology and Evolution}, volume = {8}, year = {2018}, month = {Jan-12-2018}, pages = {12790 - 12802}, issn = {2045-7758}, doi = {10.1002/ece3.2018.8.issue-2410.1002/ece3.4708}, url = {https://onlinelibrary.wiley.com/toc/20457758/8/24}, author = {Chambault, Philippine and de Thoisy, Beno{\^\i}t and Huguin, Ma{\"\i}lis and Martin, Jordan and Bonola, Marc and Etienne, Denis and Gresser, Julie and Hielard, Ga{\"e}lle and Mailles, Julien and Vedie, Fabien and Barnerias, Cyrille and Sutter, Emmanuel and Guillemot, Blandine and Dumont-Dayot, {\'E}milie and R{\'e}gis, Sidney and Lecerf, Nicolas and Lefebvre, Fabien and Frouin, C{\'e}dric and Aubert, Nathalie and Guimera, Christelle and Bordes, Robinson and Thieulle, Laurent and Duru, Matthieu and Bouaziz, Myriam and Pinson, Adrien and Flora, Fr{\'e}d{\'e}ric and Queneherve, Patrick and Woignier, Thierry and Allenou, Jean-Pierre and Cimiterra, Nicolas and Benhalilou, Abdelwahab and Murgale, C{\'e}line and Maillet, Thomas and Rangon, Luc and Chanteux, No{\'e}mie and Chanteur, B{\'e}n{\'e}dicte and B{\'e}ranger, Christelle and Le Maho, Yvon and Petit, Odile and Chevallier, Damien} } @article {5779, title = {Copper induces expression and methylation changes of early development genes in Crassostrea gigas embryos}, journal = {Aquat Toxicol}, volume = {196}, year = {2018}, pages = {70-78}, keywords = {Oyster Embryotoxicity Copper Gene expression DNA methylation}, doi = {doi: 10.1016/j.aquatox.2018.01.001}, url = {https://www.sciencedirect.com/science/article/pii/S0166445X18300018?via\%3Dihub}, author = {Sussarellu, Rossana and Lebreton Morgane and Rouxel Julien and Akcha Farida and Guillaume Rivi{\`e}re} } @article {5440, title = {Crustacean cardioactive peptides: Expression, localization, structure, and a possible involvement in regulation of egg-laying in the cuttlefish Sepia officinalis.}, journal = {Gen. Comp. Endocrinol.}, volume = {1}, year = {2018}, pages = {67-79}, abstract = {

The cuttlefish (Sepia officinalis) is a cephalopod mollusk distributed on the western European coast, in the West African Ocean and in the Mediterranean Sea. On the Normandy coast (France), cuttlefish is a target species of professional fishermen, so its reproduction strategy is of particular interest in the context of stock management. Egg-laying, which is coastal, is controlled by several types of regulators among which neuropeptides. The cuttlefish neuropeptidome was recently identified by\ Zatylny-Gaudin\ et al. (2016). Among the 38 neuropeptide families identified, some were significantly overexpressed in egg-laying females as compared to mature males. This study is focused on crustacean cardioactive peptides (CCAPs), a highly expressed neuropeptide family strongly suspected of being involved in the control of egg-laying. We investigated the functional and structural characterization and tissue mapping of CCAPs, as well as the expression patterns of their receptors. CCAPs appeared to be involved in oocyte transport through the oviduct and in mechanical secretion of capsular products. Immunocytochemistry revealed that the neuropeptides were localized throughout the central nervous system (CNS) and in the nerve endings of the glands involved in egg-capsule synthesis and secretion, i.e. the oviduct gland and the main nidamental glands. The CCAP receptor was expressed in these glands and in the subesophageal mass of the CNS. Multiple sequence alignments revealed a high level of conservation of CCAP protein precursors in Sepia officinalis and Loligo pealei, two cephalopod decapods. Primary sequences of CCAPs from the two species were fully conserved, and cryptic peptides detected in the nerve endings were also partially conserved, suggesting biological activity that remains unknown for the time being.

}, doi = {10.1016/j.ygcen.2017.12.009}, author = {Endress, Maxime and C{\'e}line Zatylny-Gaudin and Corre, Erwan and Le Corguill{\'e}, Gildas and Benoist, Louis and Leprince, J{\'e}r{\^o}me and Lefranc, Benjamin and Bernay, Beno{\^\i}t and Leduc, Alexandre and Rangama, Jimmy and Anne-Gaelle Lafont and Bondon, Arnaud and Jo{\"e}l Henry} } @article {5344, title = {Description of a new species of Caridina (Crustacea: Decapoda: Atyidae) from two Micronesian islands (Guam and Babeldaob)}, journal = {Zootaxa}, volume = {4377}, year = {2018}, pages = {039{\textendash}050}, abstract = {

During field trips to Guam and Babeldaob Islands in Micronesia, freshwater shrimps were sampled and assigned either to Caridina brachydactyla De Man, 1908 or C. mertoni J. Roux, 1911 (Decapoda: Atyidae), following previous inventories. In combining morphological data with a genetical analysis, it appeared that all the specimens belonged to a new species, Caridina variabilis sp. nov., here described with its distribution. The status of this new species is clarified and finally, neither C. brachydactyla, nor C. mertoni occur in these two islands. DNA sequences of 16S were obtained from the syntypes of C. mertoni.

}, author = {de Mazancourt, Valentin and Marquet, G{\'e}rard and Rogers, D Christopher and Philippe Keith} } @article {5499, title = {Dietary aquaculture by-product hydrolysates: impact on the transcriptomic response of the intestinal mucosa of European seabass (Dicentrarchus labrax) fed low fish meal diets}, journal = {BMC Genomics}, volume = {19}, year = {2018}, abstract = {

Aquaculture production is expected to double by 2030, and demands for aquafeeds and raw materials are expected to increase accordingly. Sustainable growth of aquaculture will require the development of highly nutritive and functional raw materials to efficiently replace fish meal. Enzymatic hydrolysis of marine and aquaculture raw materials could bring new functionalities to finished products. The aim of this study was to determine the zootechnical and transcriptomic performances of protein hydrolysates of different origins (tilapia, shrimp, and a combination of the two) in European seabass (Dicentrarchux labrax) fed a low fish meal diet (5\%), for 65\ days.

Results

Results were compared to a positive control fed with 20\% of fish meal. Growth performances, anterior intestine histological organization and transcriptomic responses were monitored and analyzed. Dietary inclusion of protein hydrolysates in the low fish meal diet restored similar growth performances to those of the positive control. Inclusion of dietary shrimp hydrolysate resulted in larger villi and more goblet cells, even better than the positive control. Transcriptomic analysis of the anterior intestine showed that dietary hydrolysate inclusion restored a pattern of intestinal gene expression very close to the pattern of the positive control. However, as compared to the low fish meal diet and depending on their origin, the different hydrolysates did not modulate metabolic pathways in the same way. Dietary shrimp hydrolysate inclusion modulated more metabolic pathways related to immunity, while nutritional metabolism was more impacted by dietary tilapia hydrolysate. Interestingly, the combination of the two hydrolysates enhanced the benefits of hydrolysate inclusion in diets: more genes and metabolic pathways were regulated by the combined hydrolysates than by each hydrolysate tested independently.

Conclusions

Protein hydrolysates manufactured from aquaculture by-products are promising candidates to help replace fish meal in aquaculture feeds without disrupting animal metabolism and performances.

}, keywords = {Aquaculture, Aquafeed, By-products, European seabass, Fishmeal replacement, Hydrolysate, Illumina RNA-sequencing, Intestinal organization, Metabolic pathways}, doi = {doi.org/10.1186/s12864-018-4780-0}, author = {Leduc, Alexandre and C{\'e}line Zatylny-Gaudin and Robert, Marie and Corre, Erwan and Le Corguill{\'e}, Gildas and Castel, H{\'e}l{\`e}ne and Lefevre-Scelles, Antoine and Fournier, Vincent and Gisbert, Enric and Andree, Karl B. and Jo{\"e}l Henry} } @article {6665, title = {Digestive enzyme ratios are good indicators of hatchling yolk reserve and digestive gland maturation in early life stages of cuttlefish Sepia officinalis L.: application of these new tools in ecology and aquaculture}, journal = {Journal of Comparative Physiology B: Biochemical, Systemic, and Environmental Physiology}, volume = {188}, year = {2018}, pages = {57-76}, abstract = {In Sepia officinalis (Linnaeus, 1758), the digestive gland matures during the first month post-hatching, while a shift from intracellular acid to extracellular alkaline digestion occurs. The purpose of this study was to investigate the possibility of using enzymatic ratios for the description of digestive system maturation in early life stages of S. officinalis. Second, it is intended to apply these new tools as eco-physiological indicators for understanding the impact of cuttlefish eggs{\textquoteright} life history from different spawning sites of the English Channel on digestive performance of juveniles. An experimental rearing was performed over 35\ days after hatching (DAH) on juveniles from wild collected eggs in 2010 and 2011. Four digestive enzyme activities and their ratios [i.e., trypsin, cathepsin, acid (ACP), and alkaline (ALP) phosphatase, ALP/ACP, and trypsin/cathepsin] were studied along with histological features (e.g., internal yolk surface and digestive gland development). The two enzyme ratios were good indicators of digestive system maturation allowing the study of the digestive gland{\textquoteright}s development. They were highly correlated to juveniles{\textquoteright} weight increase and histological features of the gland in early DAH. These ratios described more accurately the shift occurring between the intracellular acid and the extracellular alkaline modes of digestion in S. officinalis and were more specific than separated enzyme activities. Their application as eco-physiological tools revealed that enzyme ratios reflected yolk content and digestive gland development in new hatching juveniles. Finally, ALP/ACP ratio was shown to be a powerful tool to describe growth performance of S. officinalis which is useful for aquaculture optimization. {\textcopyright} 2017, Springer-Verlag GmbH Germany.}, keywords = {Acid Phosphatase, alkaline phosphatase, anatomy and histology, animal, Animals, Aquaculture, cathepsin, Cathepsins, cuttlefish, Gastrointestinal Tract, Physiology, Sepia, Trypsin}, issn = {01741578}, doi = {10.1007/s00360-017-1115-4}, url = {https://link.springer.com/article/10.1007\%2Fs00360-017-1115-4}, author = {Safi, Georges and Anne-Sophie Martinez and Le Pabic, Charles and Estelle Le Bihan and Jean-Paul Robin and Koueta, Noussith{\'e}} } @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 {5421, title = {Eel Kisspeptins: identification, functional activity, and inhibition on both pituitary LH and GnRH receptor expression}, journal = {Frontiers in Endocrinology}, volume = {8}, year = {2018}, pages = {353}, abstract = {

The European eel (Anguilla anguilla) presents a blockade of sexual maturation at a prepubertal stage due to a deficient production of gonadotropins. We previously initiated, in the eel, the investigation of the kisspeptin system, one of the major gatekeepers of puberty in mammals, and we predicted the sequence of two Kiss genes. In the present study, we cloned and sequenced Kiss1 and Kiss2 cDNAs from the eel brain. The tissue distributions of Kiss1 and Kiss2 transcripts, as investigated by quantitative real-time PCR, showed that both genes are primarily expressed in the eel brain and pituitary. The two 10-residue long sequences characteristic of kisspeptin, eel Kp1(10) and Kp2(10), as well as two longer sequences, predicted as mature peptides, eel Kp1(15) and Kp2(12), were synthesized and functionally analyzed. Using rat Kiss1 receptor-transfected Chinese hamster ovary cells, we found that the four synthesized eel peptides were able to induce [Ca2+]i responses, indicating their ability to bind mammalian KissR-1 and to activate second messenger pathways. In primary culture of eel pituitary cells, all four peptides were able to specifically and dose-dependently inhibit lhβ expression, without any effect on fshβ, confirming our previous data with heterologous kisspeptins. Furthermore, in this eel in vitro system, all four peptides inhibited the expression of the type 2 GnRH receptor (gnrh-r2). Our data revealed a dual inhibitory effect of homologous kisspeptins on both pituitary lhβ and gnrh-r2 expression in the European eel.

}, doi = {10.3389/fendo.2017.00353}, author = {Pasquier, J and Anne-Gaelle Lafont and Florian, D and Lefranc, B and Dubessy, C and Moreno-Herrera, A and Vaudry, H and Leprince, J and Sylvie Dufour and Karine Rousseau} } @article {8704, title = {How do fishing practices influence sperm whale (Physeter macrocephalus) depredation on demersal longline fisheries?}, journal = {Fisheries Research}, volume = {206}, year = {2018}, month = {Jan-10-2018}, pages = {14 - 26}, issn = {01657836}, doi = {10.1016/j.fishres.2018.04.019}, url = {https://linkinghub.elsevier.com/retrieve/pii/S0165783618301255}, author = {Janc, Ana{\"\i}s and Richard, Ga{\"e}tan and Guinet, Christophe and Arnould, John P.Y. and Villanueva, Maria Ching and Guy Duhamel and Nicolas Gasco and Tixier, Paul} } @article {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 {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 {6013, title = {Life history and morphology of Eel Larvae in the Gulf of Guinea of western Africa: revisiting Jacques Blache{\textquoteright}s research (1960{\textendash}1977) 40 years later}, journal = {Reviews in Fish Biology and Fisheries}, volume = {28}, year = {2018}, pages = {355{\textendash}379}, author = {Miller, Michael J and Robinet, Tony} } @article {7037, title = {Metabarcoding by capture using a single COI probe (MCSP) to identify and quantify fish species in ichthyoplankton swarms}, journal = {PLOS ONE}, volume = {13}, year = {2018}, month = {Dec-09-2018}, pages = {e0202976}, doi = {10.1371/journal.pone.0202976}, url = {https://dx.plos.org/10.1371/journal.pone.0202976}, author = {Mariac, C. and Vigouroux, Y. and Duponchelle, F. and Garc{\'\i}a-D{\'a}vila, C and Jesus Nu{\~n}ez-Rodriguez and Desmarais, E. and Renno, J.F.}, editor = {Hajibabaei, Mehrdad} } @article {5632, title = {Metabarcoding by Capture using a Single COI Probe (MCSP) to identify and quantify fish species in plankton swarms}, journal = {PLoS ONE }, volume = {13}, year = {2018}, pages = {e0202976}, abstract = {

The ability to determine the composition and relative frequencies of fish species in large ichthyoplankton swarms could have extremely important ecological applications However, this task is currently hampered by methodological limitations. We proposed a new method for Amazonian species based on hybridization capture of the COI gene DNA from a distant species (Danio rerio), absent from our study area (the Amazon basin). The COI sequence of this species is approximately equidistant from all COI of Amazonian species available. By using this sequence as probe we successfully facilitated the simultaneous identification of fish larvae belonging to the order Siluriformes and to the Characiformes represented in our ichthyoplankton samples. Species relative frequencies, estimated by the number of reads, showed almost perfect correlations with true frequencies estimated by a Sanger approach, allowing the development of a quantitative approach. We also proposed a further improvement to a previous protocol, which enables lowering the sequencing effort by 40 times. This new Metabarcoding by Capture using a Single Probe (MCSP) methodology could have important implications for ecology, fisheries management and conservation in fish biodiversity hotspots worldwide. Our approach could easily be extended to other plant and animal taxa.

}, doi = {https://doi.org/10.1371/journal.pone.0202976}, url = {https://journals.plos.org/plosone/article?id=10.1371/journal.pone.0202976}, author = {Mariac, C{\'e}dric and Vigouroux, Y. and Fabrice Duponchelle and Garc{\'\i}a-D{\'a}vila, C and Nu{\~n}ez L. and Desmarais, E and Renno, Jean-Francois} } @article {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} } @book {5650, title = {Peces de consumo de la Amazon{\'\i}a Peruana}, year = {2018}, pages = {218}, edition = {Instituto de Investigaciones de la Amazon{\'\i}a Peruana (IIAP), Iquitos, Per{\'u}}, author = {Garc{\'\i}a-D{\'a}vila, C and Sanchez, H. and Flores, M and Mejia, J. and Angulo, C. and Castro-Ruiz, D. and Estivals, G. and Garcia, Aurea and Vargas, G. and Nolorbe, C. and Jesus Nu{\~n}ez-Rodriguez and Mariac, C{\'e}dric and Fabrice Duponchelle and Renno, Jean-Francois} } @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 {8407, title = {Presence of larvae of lampreys, Lampetra sp. (Cephalaspidomorphi, Petromyzontiformes), in a French Catalan basin}, journal = {Cybium}, volume = {42}, year = {2018}, pages = {216-218}, abstract = {Des ammoc{\`e}tes de lamproies ont {\'e}t{\'e} r{\'e}cemment captur{\'e}es pour la premi{\`e}re fois dans un cours d{\textquoteright}eau de Catalogne fran{\c c}aise, la T{\^e}t. Les identifications morphologique et mol{\'e}culaire ont d{\'e}montr{\'e} que ces ammoc{\`e}tes appartiennent au complexe [Lampetra fluviatilis / Lampetra planeri]. Les lamproies et leurs fray{\`e}res {\'e}tant prot{\'e}g{\'e}es en France, cette {\'e}tude aura une incidence sur la gestion du cours d{\textquoteright}eau de la T{\^e}t.}, author = {Arsento, R{\'e}my and Richarte, K{\'e}vin and Fonteneau, Andr{\'e} and Denys, Ga{\"e}l} } @article {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 {6746, title = {Stable isotopes as tracers can reveal resource allocation in juvenile golden gray mullets (Liza aurata, Risso, 1810)}, journal = {Journal of Experimental Marine Biology and Ecology}, volume = {503}, year = {2018}, month = {Jan-06-2018}, pages = {72 - 79}, abstract = {Studies on the nutritional physiology of predator fish in the marine environment have contributed to our understanding of how they adapt to the environment and how they have evolved. Despite the fact that herbivorous and omnivorous fish species are numerous and play a significant role in the ecosystem, there is little information on how they process nutrients and how these are allocated to different tissues. This information could be particularly important for the juvenile stages, when small-sized fish are under high predation pressure and have a limited capability to intake and digest large quantities of food. The mullet Liza aurata ingests surface sediment and obtains its nutritional requirements from the organisms associated with the sediment, including microalgae and bacteria or small invertebrates. This paper examines how the carbon and nitrogen derived from benthic micro-organisms are allocated to the liver and muscle tissues of newborn (young-of-the-year, YOY) and one-year-old (OYO) individuals. After the animals were left feeding on 13C-enriched microalgae and 15N-enriched bacteria for 1 h, we traced the 13C and 15N in the liver and muscle tissues as well as in the blood and the gut. The YOY allocated 99\% of the 13C and 88\% of the 15N to the muscles, while the liver had a negligible amount of tracers (0.4\% and 11\% for 13C and 15N). Conversely, in the OYO experiment, the tracers were uniformly distributed throughout the muscle and liver (57\% of 13C and 45\% of 15N were found in the muscle, whereas 43\% of 13C and 55\% of 15N were in the liver). Negligible amounts were traced in the blood (\<0.1\%), while a part of the tracers was not assimilated and remained in the gut of both YOY and OYO fish. These results indicated a size-related shift in resource allocation during first year of growth of L. aurata, probably related to changes in the survival strategies among juveniles. Our results also indicated that stable isotope enrichment can be a helpful tool for studying resource allocation in fish.}, issn = {00220981}, doi = {10.1016/j.jembe.2018.01.009}, url = {https://www.sciencedirect.com/science/article/pii/S0022098117301971}, author = {Como, S. and Alexandre Carpentier and Rossi, F. and Christine Dupuy and Richard, P. and Eric Feunteun and Lefran{\c c}ois, C.} } @article {5583, title = {Tachykinin-3 Genes and Peptides Characterized in a Basal Teleost, the European Eel: Evolutionary Perspective and Pituitary Role.}, journal = {Frontiers in Endocrinology}, volume = {9}, year = {2018}, pages = {304}, author = {Campo, Aurora and Anne-Gaelle Lafont and Lefranc, Benjamin and Leprince, J{\'e}r{\^o}me and Tostivint, Herv{\'e} and Kamech, Nedia and Sylvie Dufour and Karine Rousseau} } @article {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 {6666, title = {A Bayesian two-stage biomass model for stock assessment of data-limited species: An application to cuttlefish (Sepia officinalis) in the English Channel}, journal = {Fisheries Research}, volume = {191}, year = {2017}, pages = {131-143}, abstract = {Cuttlefish is a key commercial species in the English Channel fishery in terms of landings and value. Age-based assessment methods are limited by time-consuming age determination with statoliths and the lack of stock assessment models tailored to this data-limited species. A two-stage biomass model is developed in the Bayesian state-space modelling framework that allows inferences to be made on the stock biomass at the start, middle and end of each fishing seasons between 1992 and 2014, while accounting for both process and measurement errors and to assimilate various sources of information. A method that uses ancillary length-frequency data is developed to provide an informative prior distribution for the biomass growth rate parameter g (E\ =\ 0.89) and its annual variability (CV\ =\ 0.1). The new model is a substantial improvement on the existing stock assessment method used by the International Council for the Exploration of the Seas. Taking into consideration a time-varying g parameter provides a more ecologically meaningful model with regard to the sensitivity of the cuttlefish population dynamics to environmental fluctuations and improves model fit. The model also provides predictions of the unexploited biomass in winter, which is based on survey data, and helps manage the stock in the event of strong depletion. {\textcopyright} 2017 Elsevier B.V.}, issn = {01657836}, doi = {10.1016/j.fishres.2017.03.010}, url = {http://www.sciencedirect.com/science/article/pii/S0165783617300772}, author = {Juliette Alemany and Etienne Rivot and Foucher, Eric and Jo{\"e}l Vigneau and Jean-Paul Robin} } @article {5036, title = {Before-After analysis of the trophic network of an experimental dumping site in the eastern part of the Bay of Seine (English Channel)}, journal = {Marine Pollution Bulletin}, volume = {118}, year = {2017}, month = {05/2017}, pages = {101-111}, abstract = {

An experimental study was conducted to assess the physical and biological impacts of muddy fine sand dredged material dumped on a medium sand site Machu offshore the Seine Estuary. Complementary trophic web modelling tools were applied to the Machu ecosystem to analyse the effects of dumping operations. Results show that, after the dumping operations, the biomass of fish increased while invertebrate biomass remained relatively stable through time. Nevertheless, the biomasses of benthic invertebrates, omnivores/scavengers and predators showed some increases, while non-selective deposit feeders and filter feeders decreased. At the ecosystem level, results show that the total ecosystem activity, the ascendency and the overall omnivorous character of the food-web structure increased after dumping operations, whereas recycling subsequently decreased. Finally, the fine and medium sand habitat offshore from the Seine estuary, which undergoes regular natural physical perturbations, shows a high resilience after a short dumping phase. (C) 2017 Elsevier Ltd. All rights reserved.

}, issn = {{0025-326X}}, doi = {{10.1016/j.marpolbul.2017.02.042}}, author = {Pezy, Jean-Philippe and Raoux, Aurore and Marmin, Stella and Balay, Pierre and Nathalie Niquil and Jean-Claude Dauvin} } @article {5037, title = {Benthic and fish aggregation inside an offshore wind farm: Which effects on the trophic web functioning?}, journal = {Ecological indicators}, volume = {72}, year = {2017}, month = {01/2017}, pages = {33-46}, abstract = {

As part of the energy transition, the French government is planning the construction of three offshore wind farms in Normandy (Bay of Seine and eastern part of the English Channel, north-western France) in the next years. These offshore wind farms will be integrated into an ecosystem already facing multiple anthropogenic disturbances such as maritime transport, fisheries, oyster and mussel farming, and sediment dredging. Currently no integrated, ecosystem-based study on the effects of the construction and exploitation of offshore wind farms exists, where biological approaches generally focused on the conservation of some valuable species or groups of species. Complementary trophic web modelling tools were applied to the Bay of Seine ecosystem (to the 50 km(2) area covered by the wind farm) to analyse the potential impacts of benthos and fish aggregation caused by the introduction of additional hard substrates from the piles and the turbine scour protections. An Ecopath ecosystem model composed of 37 compartments, from phytoplankton to seabirds, was built to describe the situation {\textquoteleft}{\textquoteleft}before{{\textquoteright}{\textquoteright}} the construction of the wind farm. Then, an Ecosim projection over 30 years was performed after increasing the biomass of targeted benthic and fish compartments. Ecological Network Analysis (ENA) indices were calculated for the two periods, {\textquoteleft}{\textquoteleft}before{{\textquoteright}{\textquoteright}} and {\textquoteleft}{\textquoteleft}after{{\textquoteright}{\textquoteright}}, to compare network functioning and the overall structural properties of the food web. Our main results showed (1) that the total ecosystem activity, the overall system omnivory (proportion of generalist feeders), and the recycling increased after the construction of the wind farm; (2) that higher trophic levels such as piscivorous fish species, marine mammals, and seabirds responded positively to the aggregation of biomass on piles and turbine scour protections; and (3) a change in keystone groups after the construction towards more structuring and dominant compartments. Nonetheless, these changes could be considered as limited impacts of the wind farm installation on this coastal trophic web structure and functioning. (C) 2016 Elsevier Ltd. All rights reserved.

}, issn = {{1470-160X}}, doi = {10.1016/j.ecolind.2016.07.037}, author = {Raoux, Aurore and Samuele Tecchio and Pezy, Jean-Philippe and G{\'e}raldine Lassalle and Degraer, Steven and Wilhelmsson, Dan and Cachera, Marie and Ernande, Bruno and Le Guen, Camille and Haraldsson, Matilda and Karine Granger{\'e} and Le Loc{\textquoteright}h, Francois and Dauvin, Jean-Claude and Nathalie Niquil} } @article {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 Nicolas Rabet 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 {4751, title = {{Cross-taxon congruence in the rarity of subtidal rocky marine assemblages : No taxonomic shortcut for conservation monitoring}}, journal = {Ecological Indicators}, volume = {77}, year = {2017}, pages = {239{\textendash}249}, abstract = {The implementation of protection strategies such as the European Marine Strategy Framework Directive (2008/56/EC) is impeded for subtidal rock bottom habitats because of high sampling costs due to a very wide taxonomic diversity, and a lack of suitable evaluation tools to estimate their conservation importance. In this study, we seek to provide an evaluation procedure by (1) investigating the distribution of rarity among subtidal rock bottom phyla; (2) searching for potential surrogate phyla with a cross-taxon congruence approach based on their rarity; (3) proposing an appropriate multi-phyla indicator to evaluate the importance of subtidal rocky habitats for conservation. We analysed the distribution of 548 species belonging to 8 phyla sampled in 137 assemblages in subtidal rocky areas located around Brittany, Western France. We applied the Index of Relative Rarity, a flexible method which fits rarity weights to species depending on their respective phyla. We found only weak congruence in rarity patterns among phyla, which prevented any attempt to identify surrogate phyla. This finding has important implications for the conservation of subtidal rocky habitats as it means that there is no shortcut to monitor their rarity: working on a subset of phyla would imply a biased evaluation of biodiversity. Consequently, we propose a multi-phyla Index of Relative Rarity combining all phyla which allowed us to successfully describe rarity patterns across all sampled sites.}, keywords = {occurrence-based rarity, subtidal conservation}, issn = {1470-160X}, doi = {10.1016/j.ecolind.2017.02.012}, url = {http://dx.doi.org/10.1016/j.ecolind.2017.02.012}, author = {Leroy, Boris and R{\'e}gis Gallon and Eric Feunteun and Robuchon, Marine and Fr{\'e}d{\'e}ric Ysnel} } @article {5005, title = {Description of a new maternal larvophilic mouth-brooding cichlid species, Apistogramma megastoma sp. n. (Teleostei: Perciformes: Geophaginae), from Loreto, Peru}, journal = {Vertebrate Zoology }, volume = {67}, year = {2017}, author = {R{\"o}mer, CI and Estivals, G and Vela Diaz, A and Fabrice Duponchelle and Garcia Davila, C and Hahn, I and Renno, J-F}, editor = {R{\"o}mer, U} } @article {5033, title = {Description of a new maternal larvophilic mouth-brooding cichlid species, Apistogramma megastoma sp. n. (Teleostei: Perciformes: Geophaginae), from Loreto, Peru}, journal = {Vertebrate Zoology }, volume = {67}, year = {2017}, author = {R{\"o}mer, Uwe and R{\"o}mer, CI and Estivals, G and Vela Diaz, A. and Fabrice Duponchelle and Garcia Davila, C and Hahn, I and Renno, Jean-Francois} } @article {4801, title = {Dietary plasticity in the bivalve Astarte moerchi revealed by a multimarker study in two Arctic fjords}, journal = {Marine Ecology Progress Series}, volume = {567}, year = {2017}, pages = {157-172}, abstract = {

ABSTRACT: Arctic coastal ecosystems are likely to be strongly affected by predicted environmental changes such as sea-ice decline and increase in freshwater input and turbidity. These changes are expected to impact primary production dynamics and consequently benthic consumers. The trophic relationship between primary producers and benthic primary consumers were compared in 2 Arctic fjords with different seasonal ice-cover: Young Sound (NE Greenland, a high-Arctic fjord) and Kongsfjorden (Svalbard Archipelago, a sub-Arctic fjord). For comparison, we selected the filter-feeding bivalve Astarte moerchi (belonging to the complex A. borealis), which has a broad geographical distribution in the Arctic. The bivalve digestive glands and food sources were characterized with fatty acids (FAs), bulk stable isotopes, and compound-specific stable isotopes of individual FAs. Our results suggest that diatoms of pelagic and/or benthic origin are the main contributors to the A. moerchi diet in Young Sound and make up a less important fraction of the diet in the Kongsfjorden population. A contribution by sympagic diatoms is clearly excluded in the sub-Arctic fjord and needs to be further assessed in the Arctic fjord. The A. moerchi diet in sub-Arctic Kongsfjorden is more diversified, varies with season, and has contributions from dinoflagellates and macroalgal detritus. These results, together with higher concentrations of total FAs in the Young Sound population, demonstrated and characterized the trophic plasticity of this bivalve species. Based on these results, we discuss potential effects of environmental factors (shifts in trophic resources, increase in turbidity) for A. moerchi populations in changing Arctic ecosystems.

}, author = {De Cesare, S and Tarik Meziane and Laurent Chauvaud and Richard, J and Sejr, M K and Th{\'e}bault, J and Winkler, G and Fr{\'e}d{\'e}ric Olivier} } @article {4796, title = {DNA Metabarcoding of Amazonian Ichthyoplankton Swarms}, journal = {PLoSOne}, volume = {Jan 17;12}, year = {2017}, month = {01/2017}, pages = {:e0170009}, abstract = {

Tropical rainforests harbor extraordinary biodiversity. The Amazon basin is thought to hold 30\% of all river fish species in the world. Information about the ecology, reproduction, and recruitment of most species is still lacking, thus hampering fisheries management and successful conservation strategies. One of the key understudied issues in the study of population dynamics is recruitment. Fish larval ecology in tropical biomes is still in its infancy owing to identification difficulties. Molecular techniques are very promising tools for the identification of larvae at the species level. However, one of their limits is obtaining individual sequences with large samples of larvae. To facilitate this task, we developed a new method based on the massive parallel sequencing capability of next generation sequencing (NGS) coupled with hybridization capture. We focused on the mitochondrial marker cytochrome oxidase I (COI). The results obtained using the new method were compared with individual larval sequencing. We validated the ability of the method to identify Amazonian catfish larvae at the species level and to estimate the relative abundance of species in batches of larvae. Finally, we applied the method and provided evidence for strong temporal variation in reproductive activity of catfish species in the Ucayal{\'\i} River in the Peruvian Amazon. This new time and cost effective method enables the acquisition of large datasets, paving the way for a finer understanding of reproductive dynamics and recruitment patterns of tropical fish species, with major implications for fisheries management and conservation.

}, author = {Maggia, M. E. and Vigouroux, Y. and Renno, Jean-Francois and Fabrice Duponchelle and Desmarais, E and Jesus Nu{\~n}ez-Rodriguez and Garc{\'\i}a-D{\'a}vila, C and Carvajal-Vallejos, F M and Paradis, Emmanuel and Martin, Jean-Fran{\c c}ois and Mariac, C{\'e}dric} } @article {5031, title = {Dynamics of DNA methylomes underlie oyster development}, journal = {PLoS Genetics}, volume = {13}, year = {2017}, month = {06/2017}, pages = {e1006807}, type = {Research Paper}, url = {https:// doi.org/10.13 71/journal.p gen.1006807}, author = {Guillaume Rivi{\`e}re and Yan He and Samuele Tecchio and Elizabeth Crowell and Micha{\"e}l Gras and Pascal Sourdaine and Guo, Ximing and Pascal Favrel} } @article {6667, title = {Dynamics of particulate organic matter composition in coastal systems: A spatio-temporal study at multi-systems scale}, journal = {Progress in Oceanography}, volume = {156}, year = {2017}, pages = {221-239}, abstract = {In coastal systems, the multiplicity of sources fueling the pool of particulate organic matter (POM) leads to divergent estimations of POM composition. Eleven systems (two littoral systems, eight embayments and semi-enclosed systems and one estuary) distributed along the three maritime fa{\c c}ades of France were studied for two to eight years in order to quantify the relative contribution of organic matter sources to the surface-water POM pool in coastal systems. This study was based on carbon and nitrogen elemental and isotopic ratios, used for running mixing models. The POM of the estuary is dominated by terrestrial material (93\% on average), whereas the POM of the other systems is dominated by phytoplankton (84\% on average). Nevertheless, for the latter systems, the POM composition varies in space, with (1) systems where POM is highly composed of phytoplankton (>=93\%), (2) systems characterized by a non-negligible contribution of benthic (8{\textendash}19\%) and/or river (7{\textendash}19\%) POM sources, and (3) the Mediterranean systems characterized by the contribution of diazotroph organisms (ca. 14\%). A continent-to-ocean gradient of river and/or benthic POM contribution is observed. Finally, time series reveal (1) seasonal variations of POM composition, (2) differences in seasonality between systems, and (3) an inshore-offshore gradient of seasonality within each system that were sampled at several stations. Spatial and seasonal patterns of POM composition are mainly due to local to regional processes such as hydrodynamics and sedimentary hydrodynamic (e.g. resuspension processes, changes in river flows, wind patterns influencing along-shore currents) but also due to the geomorphology of the systems (depth of the water column, distance to the shore). Future studies investigating the link between these forcings and POM composition would help to better understand the dynamics of POM composition in coastal systems. {\textcopyright} 2017 Elsevier Ltd}, keywords = {bacterium, benthos, biogeochemistry, Biological materials, C and n stable isotopes, C:N ratio, Carbon, carbon isotope, Coastal systems, coastal zone, Fluid dynamics, France, geomorphology, Hydrodynamics, Isotopes, isotopic ratio, Mediterranean sea, Meta analysis, meta-analysis, Mixing, Mixing models, nitrogen isotope, Organic compounds, particulate organic matter, Particulate organic matters, Phytoplankton, prokaryote, Rivers, seasonality, spatiotemporal analysis, stable isotope, Surface water, Surface waters, terrestrial deposit, Time series}, issn = {00796611}, doi = {10.1016/j.pocean.2017.03.001}, url = {https://www.sciencedirect.com/science/article/abs/pii/S0079661116301914}, author = {Li{\'e}nart, Camilla and Savoye, Nicolas and Bozec, Yann and Elsa Breton and Conan, Pascal and David, Val{\'e}rie and Eric Feunteun and Karine Granger{\'e} and Kerherv{\'e}, P. and Lebreton, B. and S{\'e}bastien Lefebvre and St{\'e}phane L{\textquoteright}Helguen and Mousseau, Laure and Raimbault, P and Richard, P. and Riera, P. and Sauriau, P.-G. and Gauthier Schaal and Aubert, F. and Aubin, S. and Bichon, S. and Boinet, C. and Bourasseau, L. and Br{\'e}ret, M. and Caparros, J. and Cariou, T. and Charlier, K. and Claquin, P. and Vincent Cornille and Corre, A.-M. and Costes, L. and Crispi, O. and Muriel Crouvoisier and Czamanski, M. and Del Amo, Y. and Derriennic, H. and Dindinaud, F. and Durozier, M. and Hanquiez, V. and Antoine Nowaczyk and Devesa, J. and Ferreira, S. and Fornier, M. and Garcia, F. and Garcia, N. and Geslin, S. and Emilie Grossteffan and Gueux, A. and Guillaudeau, J. and Guillou, G. and Joly, O. and Lachauss{\'e}e, N. and Lafont, M. and Lamoureux, J. and Lecuyer, E. and Lehodey, J.-P. and Lemeille, D. and Leroux, C. and Mac{\'e}, E. and Maria, E. and Pineau, P. and Petit, F. and Pujo-Pay, M. and Rimelin-Maury, P. and Sultan, E.} } @article {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 {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 {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} } @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 {8572, title = {New epizoic diatom (Bacillariophyta) species from sea turtles in the Eastern Caribbean and South Pacific}, journal = {Diatom Research}, volume = {32}, year = {2017}, month = {Feb-01-2017}, pages = {109 - 125}, issn = {0269-249X}, doi = {10.1080/0269249X.2017.1299042}, url = {https://www.tandfonline.com/doi/full/10.1080/0269249X.2017.1299042}, author = {Riaux-Gobin, Catherine and Witkowski, Andrzej and Kociolek, J. Patrick and Ector, Luc and Chevallier, Damien and Comp{\`e}re, Pierre} } @article {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 {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 {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 {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 {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 {4745, title = {Structural bias in aggregated species-level variables driven by repeated species co-occurrences: a pervasive problem in community and assemblage data}, journal = {Journal of Biogeography}, year = {2017}, month = {02/2017}, abstract = {Aim Species attributes are often used to explain diversity patterns across assemblages/communities. However, repeated species co-occurrences can generate spatial pattern and strong statistical relationships between aggregated attributes and richness in the absence of biological information. Our aim is to increase awareness of this problem. Location North America. Methods We generated empirical species richness patterns using two data structures: (1) birds gridded from range maps and (2) tree communities from the US Forest Service{\textquoteright}s Forest Inventory and Analysis. We analysed richness using linear regression, regression trees, generalized additive models, geographically weighted regression and simultaneous autoregression, with {\textquoteleft}random intrinsic variables{\textquoteright} as predictors generated by assigning random numbers to species and calculating averages in assemblages. We then generated simulations in which species with cohesive or patchy distributions are placed with respect to the North American temperature gradient with or without a broad-scale richness gradient. Random intrinsic variables are again used as predictors of richness. Finally, we analysed one simulated scenario with random intrinsic variables as both response and predictor variables. Results The models of bird and tree richness often explained moderate to large proportions of the variance. Regression trees, geographically weighted regression and simultaneous autoregression were very sensitive to the problem; generalized additive models were moderately affected, as was multiple regression to a lesser extent. In the virtual data, the variance explained increased with increasing species co-occurrences, but neither range cohesion, a richness gradient nor spatial autocorrelation in predictors had major impacts on the variance explained. The problem persisted when the response variable was also a random intrinsic variable. Main conclusions Repeated species co-occurrences can generate strong spurious relationships between richness and aggregated species attributes. It is important to realize that models utilizing assemblage variables aggregated from species-level values, as well as maps illustrating their spatial patterns, cannot be taken at face value.}, keywords = {community structure, community weighted means, geographical ecology, intrinsic variables, spatial analysis, species co-occurrence, species composition, species richness gradients, trait analysis}, issn = {1365-2699}, doi = {10.1111/jbi.12953}, url = {http://dx.doi.org/10.1111/jbi.12953}, author = {Hawkins, Bradford A. and Leroy, Boris and Rodr{\'\i}guez, Miguel {\'A}. and Singer, Alexander and Vilela, Bruno and Villalobos, Fabricio and Wang, Xiangping and Zelen{\'y}, David} } @article {4718, title = {Synchronism of naupliar development of Sacculina carcini Thompson, 1836 (Pancrustacea, Rhizocephala) revealed by precise monitoring}, journal = {Helgoland Marine Research}, volume = {70}, year = {2017}, month = {dec 2016}, pages = {1-11}, abstract = {

Sacculina carcini is member of a highly-specialized group of parasitic cirripeds (Rhizocephala) that use crabs (Carcinus maenas) as hosts to carry out the reproductive phase of their life cycle. We describe the naupliar development of S. carcini Thompson, 1836 from a very precise monitoring of three different broods from three specimens. Nauplii were sampled every 4 h, from the release of the larvae until the cypris stage. Larval development, from naupliar instar 1 to the cypris stage, lasts 108 h at 18 {\textdegree}C. A rigorous sampling allowed us to describe an additional intermediate naupliar instar, not described previously. Naupliar instars are renumbered from 1 to 5. Nauplius 1 (N1) larvae hatch in the interna; N2 are released from the interna and last between 12 and 16 h; N3 appear between 12 and 16 h after release; N4 appear between 28 and 32 h; and N5 appear between 44 and 48 h. The cypris stage appears between 108 and 112 h. The redescribed morphologies allowed us to identify new characters. Antennular setation discriminates naupliar instars 3, 4 and 5. Telson and furca morphologies discriminate all naupliar instars. Furthermore, we demonstrate that the speed of larval development is similar within a single brood and between broods from different specimens, suggesting synchronization of larval development. From precise monitoring of broods every 4 h, we demonstrate that the life cycle of S. carcini includes five instars of naupliar larvae instead of four. The morphological characters of the larvae discriminate these naupliar instars and allow the identification of S. carcini from other Rhizocephala species. S. carcini larvae develop synchronously. Consequently, they might be an informative model to study larval development in crustaceans.

}, author = {Tredez, Fabien and Nicolas Rabet and Bellec, L and Audebert, Fabienne} } @article {5034, title = {Tempo and Rates of diversification in the South American Cichlid Genus Apistogramma (Teleostei: Perciformes: Cichlidae)}, journal = {PLoS ONE }, volume = {in press}, year = {2017}, author = {Tougard, C and Garcia Davila, C and R{\"o}mer, U and Fabrice Duponchelle and Cerqueira, F and Guinand, B and Angulo Ch{\'a}vez, C and Salas, V and Sophie Qu{\'e}rouil and Sirvas Cornero, S and Renno, Jean-Francois} } @article {5046, title = {Towards ecosystem-based management: identifying operational food-web indicators for marine ecosystems}, journal = {ICES Journal of Marine Science}, year = {2017}, pages = {fsw230}, author = {Tam, Jamie C and Link, Jason S and Rossberg, Axel G. and Rogers, Stuart I and Levin, Philip S and Rochet, Marie-Jo{\"e}lle and Bundy, Alida and Belgrano, Andrea and Libralato, Simone and Maciej Tomasz Tomczak and van de Wolfshaar, K and Pranovi, F and Gorokhova, E and Large, S I and Nathalie Niquil and Greenstreet, SPR and Druon, JN and Lesutiene, J and Johansen, M and Preciado, I and Patr{\'\i}cio, Joana and Palialexis, A and Tett, P and Johansen, GO and Houle, J and Rindorf, A} } @article {Tam20172040, title = {Towards ecosystem-based management: Identifying operational food-web indicators for marine ecosystems}, journal = {ICES Journal of Marine Science}, volume = {74}, number = {7}, year = {2017}, note = {cited By 25}, pages = {2040-2052}, publisher = {Oxford University Press}, abstract = {Modern approaches to Ecosystem-Based Management and sustainable use of marine resources must account for the myriad of pressures (interspecies, human and environmental) affecting marine ecosystems. The network of feeding interactions between co-existing species and populations (food webs) are an important aspect of all marine ecosystems and biodiversity. Here we describe and discuss a process to evaluate the selection of operational food-web indicators for use in evaluating marine ecosystem status. This process brought together experts in food-web ecology, marine ecology, and resource management, to identify available indicators that can be used to inform marine management. Standard evaluation criteria (availability and quality of data, conceptual basis, communicability, relevancy to management) were implemented to identify practical food-web indicators ready for operational use and indicators that hold promise for future use in policy and management. The major attributes of the final suite of operational food-web indicators were structure and functioning. Indicators that represent resilience of the marine ecosystem were less developed. Over 60 potential food-web indicators were evaluated and the final selection of operational food-web indicators includes: the primary production required to sustain a fishery, the productivity of seabirds (or charismatic megafauna), zooplankton indicators, primary productivity, integrated trophic indicators, and the biomass of trophic guilds. More efforts should be made to develop thresholds-based reference points for achieving Good Environmental Status. There is also a need for international collaborations to develop indicators that will facilitate management in marine ecosystems used by multiple countries. {\textcopyright} 2017 International Council for the Exploration of the Sea. All rights reserved.}, keywords = {Biomass, coexistence, ecosystem approach, ecosystem management, ecosystem resilience, environmental assessment, environmental indicator, food web, marine ecosystem, primary production, strategic approach, trophic status}, issn = {10543139}, doi = {10.1093/icesjms/fsw230}, url = {https://academic.oup.com/icesjms/article-abstract/74/7/2040/2970046}, author = {Tam, J.C. and Link, J.S. and Rossberg, A.G. and Rogers, S.I. and Levin, P.S. and Rochet, M.-J. and Bundy, A. and Belgrano, A. and Libralato, S. and Maciej Tomasz Tomczak and Van De Wolfshaar, K. and Pranovi, F. and Gorokhova, E. and Large, S.I. and Nathalie Niquil and Greenstreet, S.P.R. and Druon, J.-N. and Lesutiene, J. and Johansen, M. and Preciado, I. and Patricio, J. and Palialexis, A. and Tett, P. and Johansen, G.O. and Houle, J. and Rindorf, A.} } @article {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 {8570, title = {Two new Tursiocola species (Bacillariophyta) epizoic on green turtles (Chelonia mydas) in French Guiana and Eastern Caribbean}, journal = {Fottea}, volume = {17}, year = {2017}, month = {Aug-09-2018}, pages = {150 - 163}, issn = {18025439}, doi = {10.5507/fot.2017.007}, url = {http://fottea.czechphycology.cz/doi/10.5507/fot.2017.007.html}, author = {Riaux-Gobin, Catherine and Witkowski, Andrzej and Chevallier, Damien and Daniszewska-Kowalczyk, Genowefa} } @article {5044, title = {Uses of innovative modeling tools within the implementation of the marine strategy framework directive}, journal = {Bridging the Gap Between Policy and Science in Assessing the Health Status of Marine Ecosystems}, year = {2017}, pages = {75}, author = {Lynam, Christopher P. and Uusitalo, Laura and Patr{\'\i}cio, Joana and Piroddi, Chiara and Queir{\'o}s, Ana M and Teixeira, Heliana and Rossberg, Axel G. and Sagarminaga, Yolanda and Hyder, Kieran and Nathalie Niquil and M{\"o}llmann, C and Wilson, C and Chust, Guillem and Galpasoro, I and Forster, R and Verissimo, H and Tedesco, Letizia and Revilla, M and Neville, Suzanna} } @article {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 {4041, title = {The Channel ecosystem, a cross-roads of anthropogenic pressures and scientific studies: Lessons learned from the European \{INTERREG\} \{IV\} projects (2009{\textendash}2015)}, journal = {Marine Policy}, volume = {63}, year = {2016}, month = {11/2015}, pages = {158 - 165}, author = {L Evariste and Pascal Claquin and Jean-Paul Robin and Arnaud Auber and Abigail McQuatters-Gollop and Jean-Claude Dauvin} } @conference {4385, title = {Comparison of MODIS and LANDSAT-8 retrievals of chlorophyll-a and water temperature over lake Titicaca}, booktitle = {IEEE International Symposium}, year = {2016}, publisher = {Geoscience and Remote Sensing (IGARSS)}, organization = {Geoscience and Remote Sensing (IGARSS)}, address = {10-15 july 2016, Beijing, China}, author = {Ruiz-Verd{\'u}, A and Jim{\'e}nez, JC and Lazzaro, Xavier and Tango, C and Delegido, J and Pereira, M and Sobrino, JA and Moreno, J} } @article {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 {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 {Lamy201629, title = {Dinard Herbarium: History of a Marine Station1}, journal = {Cryptogamie, Algologie}, volume = {37}, number = {1}, year = {2016}, note = {cited By 2}, pages = {29-45}, doi = {10.7872/crya/v37.iss1.2016.29}, url = {https://bioone.org/journals/Cryptogamie-Algologie/volume-37/issue-1/v37.iss1.2016.29/Dinard-Herbarium-History-of-a-Marine-Station1/10.7872/crya/v37.iss1.2016.29.short}, author = {Lamy, Dominique and Robuchon, Marine and Kervran, L. and Dennetiere, B. and Eric Feunteun and Le Gall, L.} } @article {4515, title = {Dynamics of δ(15)N isotopic signatures of different intertidal macroalgal species: Assessment of bioindicators of N sources in coastal areas.}, journal = {Mar Pollut Bull}, volume = {110}, year = {2016}, month = {2016 Sep 15}, pages = {470-83}, abstract = {

δ(15)N of annual (Ulva sp., Porphyra sp.) and perennial intertidal seaweed species (Chondrus crispus, Fucus sp.) collected on 17 sampling points along the French coast of the English Channel in 2012 and 2013 were assessed on their suitability as bioindicators of N pollution in coastal areas. A sine function applied for δ(15)N time series data showed for all the species the same seasonal trend with lowest δ(15)N values in April and highest in summer but with no significant interspecific differences of amplitude (α) and phase angle (ϕ). This model provides a useful tool for monitoring the inter-annual changes of N pollution. An interspecific variability of δ(15)N values was observed, probably due to their tolerance to emersion. An in vitro study for comparing the kinetic acquisition of the isotopic signal and N uptake mechanisms of each species underlined the influence of algal physiology on the δ(15)N interspecific variability.

}, issn = {1879-3363}, doi = {10.1016/j.marpolbul.2016.06.006}, author = {St{\'e}phanie Lemesle and Erraud, Alexandre and Isabelle Mussio and Anne-Marie Rusig and Pascal Claquin} } @article {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 {4803, title = {Empirical observations of the spawning migration of European eels: The long and dangerous road to the Sargasso Sea.}, journal = {Science Advances}, year = {2016}, abstract = {The spawning migration of the European eel (Anguilla anguilla\ L.) to the Sargasso Sea is one of the greatest animal migrations. However, the duration and route of the migration remain uncertain. Using fishery data from 20 rivers across Europe, we show that most eels begin their oceanic migration between August and December. We used electronic tagging techniques to map the oceanic migration from eels released from four regions in Europe. Of 707 eels tagged, we received 206 data sets. Many migrations ended soon after release because of predation events, but we were able to reconstruct in detail the migration routes of \>80 eels. The route extended from western mainland Europe to the Azores region, more than 5000 km toward the Sargasso Sea. All eels exhibited diel vertical migrations, moving from deeper water during the day into shallower water at night. The range of migration speeds was 3 to 47 km day-1. Using data from larval surveys in the Sargasso Sea, we show that spawning likely begins in December and peaks in February. Synthesizing these results, we show that the timing of autumn escapement and the rate of migration are inconsistent with the century-long held assumption that eels spawn as a single reproductive cohort in the springtime following their escapement. Instead, we suggest that European eels adopt a mixed migratory strategy, with some individuals able to achieve a rapid migration, whereas others arrive only in time for the following spawning season. Our results have consequences for eel management.}, doi = {10.1126/sciadv.1501694}, url = {https://advances.sciencemag.org/content/2/10/e1501694}, author = {D. Righton and H. Westerberg and Eric Feunteun and F. Okland and P. Gargan and E. Amilhat and J. Metcalfe and J. Lobon-Cervia and N. Sj{\"o}berg and J. Simon and Anthony Acou and M. Vedor and A. Walker and Thomas Trancart and U Br{\"a}mick and K. Aarestrup} } @article {5039, title = {Evaluating ecosystem-level anthropogenic impacts in a stressed transitional environment: The case of the Seine estuary}, journal = {ECOLOGICAL INDICATORS}, volume = {61}, year = {2016}, month = {02/2016}, pages = {833-845}, abstract = {

During 2002-2005, a new container terminal in the commercial harbour of Le Havre, named "Port2000", was built on the northern flank of the Seine estuary, northern France. This extension is already known to have modified the estuary current and sediment dynamics, as well as reducing biomass of the suprabenthos assemblage, for the whole downstream part of the system. However, studies on other biotic communities were largely inconclusive, and an ecosystem-wide analysis was still lacking. Here, we performed a before/after study of ecosystem dynamics of the different habitats of the Seine estuary, using a Linear Inverse Modelling technique (LIM-MCMC) to estimate all flows occurring in the food web. Ecological Network Analysis indices were calculated, summarising ecosystem functioning traits and giving indications about the habitat health status. Results showed that the southern flank (FS, Fosse Sud) exhibits all characteristics to be considered as the least stressed habitat of the estuary: system activity and functional specialisation of flows were stable between periods, ecosystem recycling processes and detrital dynamics were also stable; an increase in trophic specialisation (decrease in system omnivory) was the only change confirming a general ecological succession. The northern flank (FN, Fosse Nord), where the actual terminal was built, showed a food web with increased importance of lower trophic levels (increased detritivory and carbon recycling), increased stability and flow efficiency, but possibly regressed to a previous step in ecological succession. In the central navigation channel (CH), patterns of network indices were overall inconclusive and the general image is one of a constantly shifting food web, a condition possibly caused by the year-round dredging activities. The functioning of the Seine estuary especially of FN and FS - seems to have been modified by the combination of harbour construction and the related mitigation measures. Network indices partially captured this combination of changes and, although not fully operational yet, they are promising tools to comply with the European Union mandate of defining ecosystem health status. (c) 2015 Elsevier Ltd. All rights reserved.

}, issn = {{1470-160X}}, doi = {{10.1016/j.ecolind.2015.10.036}}, author = {Samuele Tecchio and Chaalali, Aur{\'e}lie and Raoux, Aurore and Rius, Armonie Tous and Lequesne, Justine and Girardin, Valerie and G{\'e}raldine Lassalle and Cachera, Marie and Riou, P and Lobry, Jeremy and Dauvin, Jean-Claude and Nathalie Niquil} } @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 {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 {4507, title = {Functional characterization of eel dopamine D2 receptors and involvement in the direct inhibition of pituitary gonadotropins.}, journal = {J Neuroendocrinol}, year = {2016}, month = {2016 Jul 25}, abstract = {

In various vertebrate species, dopamine (DA) exerts an inhibitory action on reproduction. In the European eel, DA plays a pivotal role in the inhibitory control of the gonadotrope function and the blockade of puberty. In vivo studies suggested that this effect is mediated by receptors pharmacologically related to the D2-family. In the European eel, two distinct D2 receptor (D2-R) paralogous genes have been identified (D2A-R and D2B-R) and both shown to be expressed in the pituitary. We investigated the potential role of each paralog in the control of gonadotrope function in this species. Eel recombinant D2A-R or D2B-R were expressed in HEK 293 cells, with a universal Gα subunit, and receptor activation was followed by inositol phosphate production. Recombinant D2-Rs exhibited a comparable affinity for DA, but differential affinities for mammalian D2-R agonists and antagonists, supporting subtle structure/activity differences. Further, using eel pituitary cell primary cultures, the expression by gonadotrope cells of both native eel D2-R paralogs was examined by in situ hybridisation of D2A-R or D2B-R transcripts, coupled to immunofluorescence of LHβ or FSHβ. LH and to a lesser extent, FSH cells expressed both D2-R transcripts, but with a clear predominance of D2B-R. Notably, D2B- R transcripts were detected on the majority of LH cells. Accordingly, using these cultures, we showed that DA potently inhibited basal and testosterone-stimulated LHβ expression and less potently basal and activin-stimulated FSHβ expression. We also tested some D2-R antagonists in order to select the most adequate one to be used in innovative protocols for induction of eel sexual maturation. We identified eticlopride as the most potent inhibitor of DA action on basal and stimulated LH expression in vitro. Our data suggest a differential functionalisation of the duplicated receptor genes and demonstrate that mainly D2B-R is involved in the dopaminergic inhibitory control of eel gonadotrope function. This article is protected by copyright. All rights reserved.

}, issn = {1365-2826}, doi = {10.1111/jne.12411}, author = {Jolly, C and Karine Rousseau and Pr{\'e}zeau, L and Vol, C and Tomkiewicz, J and Sylvie Dufour and Pasqualini, C} } @article {5813, title = {{Global impacts of the 1980s regime shift}}, journal = {Global Change Biology}, volume = {22}, year = {2016}, abstract = {

{\textcopyright} 2016 John Wiley {\&} Sons Ltd. Despite evidence from a number of Earth systems that abrupt temporal changes known as regime shifts are important, their nature, scale and mechanisms remain poorly documented and understood. Applying principal component analysis, change-point analysis and a sequential t-test analysis of regime shifts to 72 time series, we confirm that the 1980s regime shift represented a major change in the Earth{\textquoteright}s biophysical systems from the upper atmosphere to the depths of the ocean and from the Arctic to the Antarctic, and occurred at slightly different times around the world. Using historical climate model simulations from the Coupled Model Intercomparison Project Phase 5 (CMIP5) and statistical modelling of historical temperatures, we then demonstrate that this event was triggered by rapid global warming from anthropogenic plus natural forcing, the latter associated with the recovery from the El Chich{\'o}n volcanic eruption. The shift in temperature that occurred at this time is hypothesized as the main forcing for a cascade of abrupt environmental changes. Within the context of the last century or more, the 1980s event was unique in terms of its global scope and scale; our observed consequences imply that if unavoidable natural events such as major volcanic eruptions interact with anthropogenic warming unforeseen multiplier effects may occur.

}, keywords = {Climate, Earth systems, Global change, Regime shift, Statistical analysis, Time series, Volcanic forcing}, issn = {13652486}, doi = {10.1111/gcb.13106}, author = {Philip Chris Reid and Renata E. Hari and Gr{\'e}gory Beaugrand and David M. Livingstone and Christoph Marty and Dietmar Straile and Jonathan Barichivich and Goberville, Eric and Rita Adrian and Yasuyuki Aono and Ross Brown and James Foster and Pavel Groisman and Pierre H{\'e}laou{\"e}t and Huang-Hsiung Hsu and Richard R Kirby and Jeff Knight and Alexandra Kraberg and Jianping Li and Tzu-Ting Lo and Ranga B. Myneni and Ryan P. North and Alan J. Pounds and Tim Sparks and Ren{\'e} St{\"u}bi and Yongjun Tian and Karen H. Wiltshire and Dong Xiao and Zaichun Zhu} } @article {4153, title = {Gondwanalimnadia (Branchiopoda: Spinicaudata) replacement name for Afrolimnadia Rogers, Rabet and Weeks, 2012 (Limnadiidae), junior homonym of Afrolimnadia Tasch, 1987 (Lioestheriidae)}, journal = {Journal of Crustacean Biology}, volume = {36}, year = {2016}, month = {01/2016}, pages = {105-105}, type = {Research Article}, author = {D. Christopher Rogers and Nicolas Rabet and Stephen Weeks} } @article {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 {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 {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 {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 {8574, title = {Network Analysis Shows Asymmetrical Flows within a Bird Metapopulation}, journal = {PLOS ONE}, volume = {11}, year = {2016}, month = {Apr-11-2018}, pages = {e0166701}, doi = {10.1371/journal.pone.016670110.1371/journal.pone.0166701.g00110.1371/journal.pone.0166701.t00110.1371/journal.pone.0166701.t00210.1371/journal.pone.0166701.s001}, url = {https://dx.plos.org/10.1371/journal.pone.0166701}, author = {Rojas, Emilio R. and Sueur, C{\'e}dric and Henry, Pierre-Yves and Doligez, Blandine and Wey, G{\'e}rard and Dehorter, Olivier and Massemin, Sylvie and Chevallier, Damien and Clauss, Thierry and Dugu{\'e} Hubert and Merle, Christian}, editor = {Margalida, Antoni} } @article {6821, title = {New electroantennography method on a marine shrimp in water}, journal = {Journal of Experimental Biology}, volume = {219}, year = {2016}, pages = {3696{\textendash}3700}, abstract = {Antennular chemoreception in aquatic decapods is well studied via the recording of single chemoreceptor neuron activity in the antennule, but global responses of the antennule (or antennae in insects) by electroantennography (EAG) has so far been mainly restricted to aerial conditions. We present here a well-established underwater EAG method to record the global antennule activity in the marine shrimp Palaemon elegans in natural (aqueous) conditions. EAG responses to food extracts, recorded as net positive deviations of the baseline, are reproducible, dose-dependent and exhibit sensory adaptation. This new EAG method opens a large field of possibilities for studying in vivo antennular chemoreception in aquatic decapods, in a global approach to supplement current, more specific techniques.}, issn = {0022-0949}, doi = {10.1242/jeb.140947}, url = {https://jeb.biologists.org/content/219/23/3696}, author = {Machon, Julia and Juliette Ravaux and Magali Zbinden and Lucas, Philippe} } @article {4597, title = {Parental influence in relation to growth and survival in larval families of Doncella Pseudoplatystoma punctifer}, journal = {Folia Amaz{\'o}nica}, volume = {25}, year = {2016}, pages = {77-82}, author = {Castro-Ruiz, D and Baras, Etienne and Fern{\'a}ndez, C and Sophie Qu{\'e}rouil and Chota-Macuyama, Werner and F. Duponchelle and Renno, J-F and Darias, Maria and Garc{\'\i}a-D{\'a}vila, C and Jesus Nu{\~n}ez-Rodriguez} } @article {4516, title = {Photosystem-II shutdown evolved with Nitrogen fixation in the unicellular diazotroph Crocosphaera watsonii.}, journal = {Environ Microbiol}, volume = {18}, year = {2016}, month = {2016 Feb}, pages = {477-85}, abstract = {

Protection of nitrogenase from oxygen in unicellular Cyanobacteria is obtained by temporal separation of photosynthesis and diazotrophy through transcriptional and translational regulations of nitrogenase. But diazotrophs can face environmental situations in which N2 fixation occurs significantly in the light, and we believe that another control operates to make it possible. The night-time shutdown of PSII activity is a peculiar behaviour that discriminates Crocosphaera watsonii WH8501 from any other phototroph, whether prokaryote or eukaryote. This phenomenon is not only due to the plastoquinone pool redox status, and suggests that the sentinel D1 protein, expressed in periods of nitrogen fixation, is inactive. Results demonstrate a tight constraint of oxygen evolution in C. watsonii as additional protection of nitrogenase activity and suggest a possible recycling of cellular components.

}, issn = {1462-2920}, doi = {10.1111/1462-2920.13157}, author = {Rabouille, Sophie and Pascal Claquin} } @article {6823, title = {Plasticity and acquisition of the thermal tolerance (upper thermal limit and heat shock response) in the intertidal species Palaemon elegans}, journal = {Journal of Experimental Marine Biology and Ecology}, volume = {484}, year = {2016}, pages = {39 - 45}, abstract = {The marine species sensitivity to climate change will depend on the ways by which these species can adapt to thermal increase and heterogeneity. Here, we present evidence that the intertidal shrimp Palaemon elegans acclimates its thermal tolerance, in response to environmental water temperature, through a significant shift of its upper thermal limit with no concomittant acclimation of the heat shock response (hsp70 stress gene expression threshold). This species is less thermotolerant than its congener Palaemonetes varians, and would therefore potentially be more sensitive to an increase in environmental temperature, such as imposed by global warming. In P. elegans life cycle, physiological adjustments like the shift of the thermal limit and the acquisition of a significant HSR, occurred during the metamorphosis from larvae to post-larvae. This suggests that this step is a genetically-programmed milestone in the process of thermal tolerance acquisition.}, keywords = {acclimation, Caridea, Development, heat stress, hsp70, thermal biology}, issn = {0022-0981}, doi = {https://doi.org/10.1016/j.jembe.2016.07.003}, url = {http://www.sciencedirect.com/science/article/pii/S0022098116301125}, author = {Juliette Ravaux and L{\'e}ger, Nelly and Nicolas Rabet and Fourgous, Claire and Voland, Guillaume and Magali Zbinden and Bruce Shillito} } @article {4372, title = {Pollen limitation may be a common Allee effect in marine hydrophilous plants: implications for decline and recovery in seagrasses}, journal = {Oecologia}, year = {2016}, pages = {1-15}, doi = {10.1007/s00442-016-3665-7}, author = {B.I. Van Tussenbroek and L.M. Soissons and T.J. Bouma and R. Asmus and I. Auby and F.G. Brun and P.G. Cardoso and Nicolas Desroy and J{\'e}r{\^o}me Fournier and F. Ganthy and J.M. Garmendia and Laurent Godet and T.F. Grilo and P. Kadel and B. Ondiviela and G. Peralta and M. Recio and M. Valle and T. Van der Heide and van Katwijk, M M} } @article {4592, title = {Review of the Eulimnadia (Branchiopoda: Spinicaudata: Limnadiidae) from Argentina with the description of a new species.}, journal = {Zootaxa}, volume = {4158}, year = {2016}, month = {2016 Aug 30}, pages = {419-32}, abstract = {

A new spinicaudatan species, Eulimnadia pampa sp. nov., is described from Argentina mostly based on the differential egg morphology. This species was collected from rainwater pools from Buenos Aires City and the provinces of Buenos Aires and Entre R{\'\i}os, and compared to other Neotropical species. Previous Argentine record of E. brasiliensis is shown to belong to our new species, which represents the southernmost Neotropical Eulimnadia. We also present new records of the Paraguayan Eulimnadia ovisimilis Martin and Belk, 1989 from northeastern Argentina. Eulimnadia santiaguensis is treated as a species inquirenda, thus we recognize only three Eulimnadia species in Argentina: E. pampa sp. nov., E. ovilunata and E. ovisimilis, and we provide a brief indentification key. We present the first description and SEM images of the putative Eulimnadia spermatophore, which we found in the new species.

}, issn = {1175-5334}, doi = {10.11646/zootaxa.4158.3.7}, author = {Marinone, Mar{\'\i}a Cristina and Urcola, Juan Ignacio and Nicolas Rabet} } @article {6829, title = {Starving seabirds: unprofitable foraging and its fitness consequences in Cape gannets competing with fisheries in the Benguela upwelling ecosystem}, journal = {Marine biology}, volume = {163}, year = {2016}, pages = {35}, author = {Gr{\'e}millet, David and Clara P{\'e}ron and Kato, Akiko and Am{\'e}lineau, Fran{\c c}oise and Ropert-Coudert, Yan and Ryan, Peter G and Pichergru, Lorien} } @article {4508, title = {Three nuclear and two membrane estrogen receptors in basal teleosts, Anguilla sp.: Identification, evolutionary history and differential expression regulation.}, journal = {Gen Comp Endocrinol}, volume = {235}, year = {2016}, month = {2016 Sep 1}, pages = {177-91}, abstract = {

Estrogens interact with classical intracellular nuclear receptors (ESR), and with G-coupled membrane receptors (GPER). In the eel, we identified three nuclear (ESR1, ESR2a, ESR2b) and two membrane (GPERa, GPERb) estrogen receptors. Duplicated ESR2 and GPER were also retrieved in most extant teleosts. Phylogeny and synteny analyses suggest that they result from teleost whole genome duplication (3R). In contrast to conserved 3R-duplicated ESR2 and GPER, one of 3R-duplicated ESR1 has been lost shortly after teleost emergence. Quantitative PCRs revealed that the five receptors are all widely expressed in the eel, but with differential patterns of tissue expression and regulation. ESR1 only is consistently up-regulated in vivo in female eel BPG-liver axis during induced sexual maturation, and also up-regulated in vitro by estradiol in eel hepatocyte primary cultures. This first comparative study of the five teleost estradiol receptors provides bases for future investigations on differential roles that may have contributed to the conservation of multiple estrogen receptors.

}, issn = {1095-6840}, doi = {10.1016/j.ygcen.2015.11.021}, author = {Anne-Gaelle Lafont and Karine Rousseau and Tomkiewicz, Jonna and Sylvie Dufour} } @article {4280, title = {Trans-Amazonian natal homing in giant catfish}, journal = {Journal of Applied Ecology}, volume = {53}, year = {2016}, pages = {1511-1520}, abstract = {

1.Knowledge of fish migration is a prerequisite to sustainable fisheries management and preservation, especially in large international river basins. In particular, understanding whether a migratory lifestyle is compulsory or facultative, and whether adults home to their natal geographic area is paramount to fully appraise disruptions of longitudinal connectivity resulting from damming.2.In the Amazon, the large migratory catfishes of the Brachyplatystoma genus are apex predators of considerable interest for fisheries. They are believed to use the entire length of the basin to perform their life cycle, with hypothesized homing behaviours. Here we tested these hypotheses, using the emblematic B. rousseauxii as a model species.3.We sampled adults close to major breeding areas in the Amazon basin (upper Madeira and upper Amazonas) and assessed their lifetime movements by measuring variations in 87Sr/86Sr along transverse sections of their otoliths (ear stones) using laser ablation multicollector mass spectrometry (LA-MC-ICPMS).4.We demonstrate that larvae migrate downstream from the Andean piedmont to the lower Amazon, where they grow over a protracted period before migrating upstream as adults. Contrary to prevailing inferences, not all fish spend their nursery stages in the Amazon estuary. By contrast, the passage in the lower or central Amazon seems an obligate part of the life cycle. We further evidence that most adults home to their natal geographic area within the Madeira sub-basin. Such long-distance natal homing is exceptional in purely freshwater fishes.5.Synthesis and applications. By using otolith microchemistry, we were able to demonstrate a seemingly compulsory basin-wide migratory life cycle of large Amazonian catfishes. This makes them the organisms performing the longest migrations (\>8000 km) in fresh waters. This exceptional life history is already jeopardized by two dams recently built in the Madeira River, which block a major migration route and access to a substantial part of their spawning grounds. Major impacts can be anticipated from the current and forthcoming hydroelectric development in the Amazon basin, not only on the populations and fisheries of this apex predator, but also on Amazonian food webs through trophic cascades.This article is protected by copyright. All rights reserved.

}, keywords = {87Sr/86Sr ratios, Amazon, anthropogenic activities, Brachyplatystoma spp, freshwater fish, giant catfish, hydroelectric dams, Migration, otoliths}, issn = {1365-2664}, doi = {10.1111/1365-2664.12665}, url = {http://dx.doi.org/10.1111/1365-2664.12665}, author = {Fabrice Duponchelle and Marc Pouilly and Pecheyran, Christophe and Hauser, Marilia and Renno, Jean-Francois and Panfili, Jacques and Darnaude, Audrey M. and Garc{\'\i}a-Vasquez, Aurea and Carvajal-Vallejos, Fernando and Carmen Garc{\'\i}a-D{\'a}vila and Doria, Carolina and B{\'e}rail, Sylvain and Donard, Ariane and Sondag, Francis and Santos, Roberto V. and Jesus Nu{\~n}ez-Rodriguez and Point, David and Labonne, Maylis and Baras, Etienne} } @book {4150, title = {4th RIIA International Conference : Book of abstracts.}, year = {2015}, pages = {84 p.}, publisher = {Universidad Mayor de San Sim{\'o}n; Institut de Recherche pour le D{\'e}veloppement}, organization = {Universidad Mayor de San Sim{\'o}n; Institut de Recherche pour le D{\'e}veloppement}, address = {Cochabamba; Marseille}, author = {Darias, Maria and Rejas, Danny} } @article {3747, title = {Acute combined pressure and temperature exposures on a shallow-water crustacean: novel insights into the stress response and high pressure neurological syndrome.}, journal = {Comp Biochem Physiol A Mol Integr Physiol}, volume = {181}, year = {2015}, month = {2015 Mar}, pages = {9-17}, abstract = {

Little is known about the ecological and physiological processes governing depth distribution limits in species. Temperature and hydrostatic pressure are considered to be two dominant factors. Research has shown that some marine ectotherms are shifting their bathymetric distributions in response to rapid anthropogenic ocean surface warming. Shallow-water species unable to undergo latitudinal range shifts may depend on bathymetric range shifts to seek refuge from warming surface waters. As a first step in constraining the molecular basis of pressure tolerance in shallow water crustaceans, we examined differential gene expression in response to acute pressure and temperature exposures in juveniles of the shallow-water shrimp Palaemonetes varians. Significant increases in the transcription of genes coding for an NMDA receptor-regulated protein, an ADP ribosylation factor, β-actin, two heat shock protein 70 kDa isoforms (HSP70), and glyceraldehyde-3-phosphate dehydrogenase (GAPDH) were found in response to elevated pressure. NMDA receptors have been implicated in pathways of excitotoxic damage to neurons and the onset of high pressure neurological syndrome (HPNS) in mammals. These data indicate that the sub-lethal effects of acute barotrauma are associated with transcriptional disturbances within the nervous tissue of crustaceans, and cellular macromolecular damage. Such transcriptional changes lead to the onset of symptoms similar to that described as HPNS in mammals, and may act as a limit to shallow water organisms{\textquoteright} prolonged survival at depth.

}, issn = {1531-4332}, doi = {10.1016/j.cbpa.2014.10.028}, author = {Morris, J P and Thatje, S and Juliette Ravaux and Bruce Shillito and Fernando, D and Hauton, C} } @article {5815, title = {{Anthropogenic impact on macrobenthic communities and consequences for shorebirds in Northern France: A complex response}}, journal = {Biological Conservation}, volume = {184}, year = {2015}, abstract = {

{\textcopyright} 2015 Elsevier Ltd. Shorebird populations are declining worldwide due to the combined effect of climate change and anthropogenic forcing, the ongoing coastal urbanisation amplifying the alteration of their habitat in both rate and magnitude. By focusing on a highly anthropogenically-influenced region in Northern France, we studied the impact of a seawall construction on wintering shorebird populations through potential alterations in the abundance and availability of their food resources. We concurrently investigated changes in the spatial distribution of muddy-sand beach macrobenthic communities between two periods of contrasting anthropogenic impacts and examined year-to-year trends of wintering shorebirds. Our study reveals that the seawall construction led to a major spatial reorganisation of the macrobenthic communities with a drastic reduction of the muddy-sand community. However, no relation between macrobenthic changes and shorebird abundances was detected. Fluctuations in shorebird abundances appeared to be congruent with flyway population trends. This result suggests that the response of shorebirds to human-induced perturbations is much more complex than expected. While an assessment of potential disturbances induced by coastal engineering constructions is needed, the pathways by which alterations could propagate through an ecosystem are not linear and as such difficult to determine. Ecosystems appear as complex adaptive systems in which macroscopic dynamics emerge from non-linear interactions at entangled smaller/larger scales. Our results confirm that an in-depth knowledge of the local, regional and global factors that influence trends of shorebirds and their habitat use is essential for accurate and effective management and conservation strategies.

}, keywords = {Anthropogenic impact, Coastal conservation, Complexity, Macrobenthic communities, Shorebirds}, issn = {00063207}, doi = {10.1016/j.biocon.2015.02.016}, author = {C{\'e}line Rolet and Nicolas Spilmont and Dominique Davoult and Goberville, Eric and Christophe Luczak} } @proceedings {3545, title = {Artificial reef: Multiscale monitoring of colonization and primary production - R{\'e}cif artificiel: mise en place d{\textquoteright}un suivi de la colonisation a plusieurs {\'e}chelles}, volume = {1}, year = {2015}, month = {01/2015}, pages = {103-110}, edition = {M. Boutouil \& S. Leboulanger}, address = {ESITC Caen}, isbn = {978-2-95517664-0-5}, author = {Pascal Claquin and Leroy, Fanny and Anne-Marie Rusig and Isabelle Mussio and Eric Feunteun and Foveau, Aur{\'e}lie and Jean-Claude Dauvin and R{\'e}gis Gallon and Lebrun, J-L and Lestarquit, Mabel and Francis Orvain and Anne-Sophie Martinez and Desoche, E and Napol{\'e}on, Camille and Roussel, D{\'e}borha and Boutoil, Mohamed} } @article {3791, title = {Assessment of the contamination of marine fauna by chlordecone in Guadeloupe and Martinique (Lesser Antilles)}, journal = {Environmental Science and Pollution Research}, year = {2015}, author = {Charlotte R. Dromard and Bodiguel, xavier and Lemoine, Soazig and Yolande Bouchon-Navaro and Reynal, Lionel and Thouard, Emmanuel and Claude Bouchon} } @article {6824, title = {Behavioural study of two hydrothermal crustacean decapods: Mirocaris fortunata and Segonzacia mesatlantica, from the Lucky Strike vent field (Mid-Atlantic Ridge)}, journal = {Deep Sea Research Part II: Topical Studies in Oceanography}, volume = {121}, year = {2015}, pages = {146 - 158}, abstract = {Identifying the factors driving community dynamics in hydrothermal vent communities, and in particular biological interactions, is challenged by our ability to make direct observations and the difficulty to conduct experiments in those remote ecosystems. As a result, we have very limited knowledge on species׳ behaviour and interactions in these communities and how they in turn influence community dynamics. Interactions such as competition or predation significantly affect community structure in vent communities, and video time-series have successfully been used to gain insights in biological interactions and species behaviour, including responses to short-term changes in temperature or feeding strategies. In this study, we combined in situ and ex situ approaches to characterise the behaviour and interactions among two key species encountered along the Mid-Atlantic Ridge (MAR): the shrimp Mirocaris fortunata and the crab Segonzacia mesatlantica. In situ, species small-scale distribution, interactions and behaviour were studied using the TEMPO observatory module deployed on the seafloor at the base of the active Eiffel Tower edifice in the Lucky Strike vent field as part of the EMSO-A{\c c}ores MoMAR observatory. TEMPO sampled 2min of video four times a day from July 2011 to April 2012. One week of observations per month was used for {\textquoteleft}long-term{\textquoteright} variations, and a full video data set was analysed for January 2012. In addition, observations of crab and shrimp individuals maintained for the first time under controlled conditions in atmospheric pressure (classic tank) and pressurised (AbyssBox) aquaria allowed better characterisation and description of the different types of behaviour and interactions observed in nature. While the identified in situ spatial distribution pattern was stable over the nine months, both species displayed a significant preference for mussel bed and anhydrite substrata, and preferentially occupied the area located directly in the fluid flow axis. The aggregation behaviour of M. fortunata resulted in the occurrence of numerous intraspecific interactions mainly involving the use of two pairs of sensory organs (antenna/antennule) and fleeing behaviours when in contact or close to individuals of S. mesatlantica. The higher level of passiveness observed in the ex situ artificial environment compared to the in situ environment was attributed to the lack of stimulation related to low densities of congeners and/or of sympatric species compared to the natural environment and the absence of continuous food supply, as both species displayed a significant higher level of activity during feeding time. This result emphasises the role of food supply as a driver of species distribution and behaviour. Direct in situ observations using cameras deployed on deep-sea observatories, combined with experimental set-up in pressurised aquaria, will help investigators understand the factors influencing community dynamics and species biology at vents as well as their underlying mechanisms.}, keywords = {32{\textdegree}16.3'W, 37{\textdegree}17'N, AbyssBox, Biological interactions, Deep-sea observatory, Eiffel Tower edifice, Experimental research, Feeding behaviour, Lucky Strike, Mid-Atlantic Ridge, Time series, Video imagery}, issn = {0967-0645}, doi = {https://doi.org/10.1016/j.dsr2.2015.04.008}, url = {http://www.sciencedirect.com/science/article/pii/S0967064515001113}, author = {Matabos Marjolaine and Cuvelier Daphn{\'e} and Brouard Johan and Bruce Shillito and Juliette Ravaux and Magali Zbinden and Barthelemy Dominique and Sarradin, Pierre-Marie and Sarrazin, Jozee} } @article {Miller201584, title = {Biodiversity and distribution of leptocephali west of the Mascarene Plateau in the southwestern Indian Ocean}, journal = {Progress in Oceanography}, volume = {137}, year = {2015}, note = {cited By 10}, pages = {84-102}, doi = {10.1016/j.pocean.2015.05.026}, url = {https://www.sciencedirect.com/science/article/pii/S0079661115001317}, author = {Miller, M.J. and Eric Feunteun and Aoyama, J. and Watanabe, S. and Kuroki, M. and Lecomte-Finiger, R. and Minegishi, Y. and Robinet, T. and R{\'e}veillac, E. and Gagnaire, P.-A. and Berrebi, P. and Tsukamoto, K. and Otake, T.} } @article {3325, title = {Biogenic reefs affect multiple components of intertidal soft-bottom benthic assemblages: the Lanice conchilega case study}, journal = {Estuarine, Coastal and Shelf Science}, volume = {152}, year = {2015}, month = {01/2015}, pages = {44-55}, abstract = {

Biogenic reefs composed of the tube-building polychaete Lanice conchilega are important from a conservation point of view because they noticeably increase the biodiversity in otherwise species poor
environments. However, up to now, little or no attention has been paid to the intertidal epi- and hyperbenthic communities associated with the reefs. Therefore, this is the first study which focuses on
the effect of L. conchilega reefs on the entire bentho-pelagic community at two different locations. Environmental variables were measured and macro-, epi- and hyperbenthic communities were sampled
within a L. conchilega reef and a control area at two locations in France: the bay of the Mont Saint-Michel (BMSM) and Boulogne-sur-Mer (Boulogne). The effect of the reef presence on the benthic community
was studied with a 3-factor (Reef, Location and Period) Permanova. In addition, the relationship between the benthic community and the environmental variables was investigated using Distance-based linear
models (DistLM). Most collected organisms were sampled in the reef area (macrobenthos: 91\%, epibenthos: 81\% and hyperbenthos: 78.5\%) indicating that, independent of the location, the L. conchilega
reefs positively affect all three associated benthic communities. However, the extent of the effect seems to be most pronounced for the macrobenthos and less distinct in case of the hyperbenthos. The macro-,
and epibenthos are mainly structured by biotic variables (L. conchilega density and macrobenthic food availability respectively), while the hyperbenthos is rather structured by environmental variables. In
general, L. conchilega reefs do not only affect abundances and diversity but they substantially steer the structure of the intertidal benthic sandy beach ecosystem.

}, keywords = {beaches, benthos, biogenic reefs, community composition, Lanice conchilega, tidal flats}, doi = {doi:10.1016/j.ecss.2014.11.002}, author = {De Smet, Bart and D{\textquoteright}Hondt, An Sophie and Pieterjan, Verhelst and J{\'e}r{\^o}me Fournier and Laurent Godet and Nicolas Desroy and Rabaut, Marijn and Magda, Vincx and Jan, Vanaverbeke} } @article {4165, title = {Biogeographical distribution of Rimicaris exoculata resident gut epibiont communities along the Mid-Atlantic Ridge hydrothermal vent sites.}, journal = {FEMS Microbiol Ecol}, volume = {91}, year = {2015}, month = {2015 Oct}, abstract = {

Rimicaris exoculata is a deep-sea hydrothermal vent shrimp whose enlarged gill chamber houses a complex trophic epibiotic community. Its gut harbours an autochthonous and distinct microbial community. This species dominates hydrothermal ecosystem megafauna along the Mid-Atlantic Ridge, regardless of contrasting geochemical conditions prevailing in them. Here, the resident gut epibiont community at four contrasted hydrothermal vent sites (Rainbow, TAG, Logatchev and Ashadze) was analysed and compiled with previous data to evaluate the possible influence of site location, using 16S rRNA surveys and microscopic observations (transmission electron microscopy, scanning electron microscopy and fluorescence in situ hybridization analyses). Filamentous epibionts inserted between the epithelial cell microvilli were observed on all examined samples. Results confirmed resident gut community affiliation to Deferribacteres, Mollicutes, Epsilonproteobacteria and to a lesser extent Gammaproteobacteria lineages. Still a single Deferribacteres phylotype was retrieved at all sites. Four Mollicutes-related operational taxonomic units were distinguished, one being only identified on Rainbow specimens. The topology of ribotype median-joining networks illustrated a community diversification possibly following demographic expansions, suggesting a more ancient evolutionary history and/or a larger effective population size at Rainbow. Finally, the gill chamber community distribution was also analysed through ribotype networks based on sequences from R. exoculata collected at the Rainbow, Snake Pit, TAG, Logatchev and Ashadze sites. Results allow the refining of hypotheses on the epibiont role and transmission pathways.

}, issn = {1574-6941}, doi = {10.1093/femsec/fiv101}, author = {Durand, Lucile and Roumagnac, Marie and Cueff-Gauchard, Val{\'e}rie and Jan, Cyrielle and Guri, Mathieu and Tessier, Claire and Haond, Marine and Crassous, Philippe and Magali Zbinden and Arnaud-Haond, Sophie and Cambon-Bonavita, Marie-Anne} } @article {6878, title = {Characterising multi-level effects of acute pressure exposure on a shallow-water invertebrate: insights into the kinetics and hierarchy of the stress response}, journal = {Journal of Experimental Biology}, volume = {218}, year = {2015}, month = {Jan-08-2015}, pages = {2594 - 2602}, issn = {0022-0949}, doi = {10.1242/jeb.125914}, url = {http://jeb.biologists.org/cgi/doi/10.1242/jeb.125914}, author = {Morris, J. P. and Thatje, S. and Juliette Ravaux and Bruce Shillito and Hauton, C.} } @proceedings {3547, title = {Colonisation {\`a} court terme par le benthos sur un {\'e}co-r{\'e}cif artificiel}, volume = {1}, year = {2015}, month = {01/2015}, pages = {119-126}, edition = {M. Boutouil \& S. Leboulanger}, address = {ESITC Caen}, isbn = {978-2-95517664-0-5}, author = {Foveau, Aur{\'e}lie and Jean-Claude Dauvin and Anne-Marie Rusig and Isabelle Mussio and Pascal Claquin} } @article {4823, title = {Comparative environmental performance of artisanal and commercial feed use in Peruvian freshwater aquaculture}, journal = {Aquaculture}, volume = {435}, year = {2015}, pages = {52-66}, type = {Journal Article}, issn = {0044-8486}, doi = {http://dx.doi.org/10.1016/j.aquaculture.2014.08.001}, url = {http://www.sciencedirect.com/science/article/pii/S0044848614003925}, author = {Avad{\'\i}, Angel and Pelletier, Nathan and Aubin, Jo{\"e}l and Ralite, St{\'e}phane and Jesus Nu{\~n}ez-Rodriguez and Fr{\'e}on, Pierre} } @article {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 {Martin2015991, title = {Dispersal capacities of anadromous Allis shad population inferred from a coupled genetic and otolith approach}, journal = {Canadian Journal of Fisheries and Aquatic Sciences}, volume = {72}, number = {7}, year = {2015}, note = {cited By 13}, pages = {991-1003}, doi = {10.1139/cjfas-2014-0510}, url = {https://www.nrcresearchpress.com/doi/abs/10.1139/cjfas-2014-0510?journalCode=cjfas}, author = {Martin, J. and Rougemont, Q. and Drouineau, H. and Launey, S. and Jatteau, P. and Bareille, G. and Berail, S. and P{\'e}cheyran, C. and Eric Feunteun and Roques, S. and Clav{\'e}, D. and Nach{\'o}n, D.J. and Antunes, C. and Mota, M. and R{\'e}veillac, E. and Daverat, F.} } @article {3745, title = {Diversification, Evolution and Sub-Functionalization of 70kDa Heat-Shock Proteins in Two Sister Species of Antarctic Krill: Differences in Thermal Habitats, Responses and Implications under Climate Change.}, journal = {PLoS One}, volume = {10}, year = {2015}, month = {2015}, pages = {e0121642}, abstract = {

BACKGROUND: A comparative thermal tolerance study was undertaken on two sister species of Euphausiids (Antarctic krills) Euphausia superba and Euphausia crystallorophias. Both are essential components of the Southern Ocean ecosystem, but occupy distinct environmental geographical locations with slightly different temperature regimes. They therefore provide a useful model system for the investigation of adaptations to thermal tolerance.

METHODOLOGY/PRINCIPAL FINDING: Initial CTmax studies showed that E. superba was slightly more thermotolerant than E. crystallorophias. Five Hsp70 mRNAs were characterized from the RNAseq data of both species and subsequent expression kinetics studies revealed notable differences in induction of each of the 5 orthologues between the two species, with E. crystallorophias reacting more rapidly than E. superba. Furthermore, analyses conducted to estimate the evolutionary rates and selection strengths acting on each gene tended to support the hypothesis that diversifying selection has contributed to the diversification of this gene family, and led to the selective relaxation on the inducible C form with its possible loss of function in the two krill species.

CONCLUSIONS: The sensitivity of the epipelagic species E. crystallorophias to temperature variations and/or its adaptation to cold is enhanced when compared with its sister species, E. superba. These results indicate that ice krill could be the first of the two species to be impacted by the warming of coastal waters of the Austral ocean in the coming years due to climate change.

}, issn = {1932-6203}, doi = {10.1371/journal.pone.0121642}, author = {Cascella, K{\'e}vin and Jollivet, Didier and Papot, Claire and Nelly L{\'e}ger and Corre, Erwan and Juliette Ravaux and Clark, Melody S and Toullec, Jean-Yves} } @article {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 {3774, title = {Duplicated leptin receptors in two species of eel bring new insights into the evolution of the leptin system in vertebrates.}, journal = {PLoS One}, volume = {10}, year = {2015}, month = {2015}, pages = {e0126008}, abstract = {

Since its discovery in mammals as a key-hormone in reproduction and metabolism, leptin has been identified in an increasing number of tetrapods and teleosts. Tetrapods possess only one leptin gene, while most teleosts possess two leptin genes, as a result of the teleost third whole genome duplication event (3R). Leptin acts through a specific receptor (LEPR). In the European and Japanese eels, we identified two leptin genes, and for the first time in vertebrates, two LEPR genes. Synteny analyses indicated that eel LEPRa and LEPRb result from teleost 3R. LEPRb seems to have been lost in the teleost lineage shortly after the elopomorph divergence. Quantitative PCRs revealed a wide distribution of leptins and LEPRs in the European eel, including tissues involved in metabolism and reproduction. Noticeably, leptin1 was expressed in fat tissue, while leptin2 in the liver, reflecting subfunctionalization. Four-month fasting had no impact on the expression of leptins and LEPRs in control European eels. This might be related to the remarkable adaptation of silver eel metabolism to long-term fasting throughout the reproductive oceanic migration. In contrast, sexual maturation induced differential increases in the expression of leptins and LEPRs in the BPG-liver axis. Leptin2 was strikingly upregulated in the liver, the central organ of the reproductive metabolic challenge in teleosts. LEPRs were differentially regulated during sexual maturation, which may have contributed to the conservation of the duplicated LEPRs in this species. This suggests an ancient and positive role of the leptin system in the vertebrate reproductive function. This study brings new insights on the evolutionary history of the leptin system in vertebrates. Among extant vertebrates, the eel represents a unique case of duplicated leptins and leptin receptors as a result of 3R.

}, issn = {1932-6203}, doi = {10.1371/journal.pone.0126008}, author = {Morini, Marina and Pasquier, J{\'e}r{\'e}my and Dirks, Ron and van den Thillart, Guido and Tomkiewicz, Jonna and Karine Rousseau and Sylvie Dufour and Anne-Gaelle Lafont} } @article {3936, title = {Editorial: A Comparative Survey of the RF-Amide Peptide Superfamily.}, journal = {Front Endocrinol (Lausanne)}, volume = {6}, year = {2015}, month = {2015}, pages = {120}, issn = {1664-2392}, doi = {10.3389/fendo.2015.00120}, author = {Karine Rousseau and Sylvie Dufour and Vaudry, Hubert} } @proceedings {3548, title = {Effet du mat{\'e}riau du r{\'e}cif artificiel sur la colonisation par les macroalgues en conditions contr{\^o}l{\'e}es}, volume = {1}, year = {2015}, month = {01/2015}, pages = {136-145}, edition = {M. Boutouil \& S. Leboulanger}, address = {ESITC Caen}, isbn = {978-2-95517664-0-5}, author = {Lestarquit, Mabel and Isabelle Mussio and Anne-Marie Rusig and Pascal Claquin} } @article {3761, title = {Epsilonproteobacteria as gill epibionts of the hydrothermal vent gastropod Cyathermia naticoides (North East-Pacific Rise)}, journal = {Marine Biology}, volume = {162}, year = {2015}, month = {11 D{\'e}c 2014}, pages = {435-448}, abstract = {

Mollusks, and particularly gastropods, are one of the major taxonomic groups at vents. In these ecosystems, devoid of light, chemoautotrophic bacteria are at the base of the food web and symbiotic association between metazoa and these bacteria is numerous. Nevertheless, apart few {\textquotedblleft}large-size{\textquotedblright} well-known species, the {\textquotedblleft}small-size{\textquotedblright} gastropods (shell \<5\ mm), although very abundant, remain poorly studied regarding symbioses. We investigated here Cyathermia naticoides (War{\'e}n and Bouchet in Zool Scr 18(1), 1989), a small coiled gastropod found in abundance on the East Pacific Rise among Riftia pachyptila tubes, and usually inferred to graze on tubeworm bacterial cover, and/or filter feeding. Among mollusks, symbioses are well known in large species and almost exclusively rely on sulfide or methane-oxidizing proteobacterial endosymbionts, occurring within the host tissues in gill epithelial bacteriocytes. Combining several approaches (molecular biology, microscopy, stable isotopes analyses), we described here an unusual symbiosis, where autotrophic filamentous Epsilonproteobacteria are located extracellularly, at the base of host gill filaments. Numerous endocytotic lysosome-like structures were observed in the gill epithelium of the animal suggesting bacteria may contribute to its nutrition through intracellular digestion by gill cells. Additional food source by non-symbiotic proteobacteria grazed on R. pachyptila tubes could complete the diet. The possible role of temperature in the selection of Epsilon- vs Gammaproteobacterial partners is discussed.

}, url = {http://link.springer.com/article/10.1007/s00227-014-2591-7$\#$}, author = {Magali Zbinden and Marqu{\'e}, Lise and Sylvie M Gaudron and Juliette Ravaux and Nelly L{\'e}ger and S{\'e}bastien Duperron} } @article {4151, title = {First faunal inventory of large branchiopods (Crustacea: Branchiopoda) of Western Maharashtra, India with taxonomical and distributional comments.}, journal = {Zootaxa}, volume = {3904}, year = {2015}, month = {2015}, pages = {208-22}, abstract = {

An updated inventory of large branchiopods of the Western Maharashtra state, India is presented for the first time. Employing current identification keys, we have detailed the egg morphology of Eulimnadia indocylindrova, which shares some similarities with E. geayi from South America and E. alluaudi from Madagascar, based on these egg characters. A thorough re-description of few morphological traits of the same species is also presented. We also have described the female of a Cyzicus species seen rarely from the studied region. Distributional comments on few species are also reported.

}, issn = {1175-5326}, doi = {10.11646/zootaxa.3904.2.2}, author = {Padhye, Sameer and Nicolas Rabet and Ghate, Hemant} } @article {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 Raybaud, V. and Goberville, Eric and Richard R Kirby} } @article {3719, title = {Genetic variation among Corsican and continental populations of the Eurasian treecreeper (Aves: Certhia familiaris) reveals the existence of a palaeoendemic mitochondrial lineage}, journal = {Biological Journal of the Linnean Society}, volume = {115}, year = {2015}, month = {04/2015}, pages = {134-153}, abstract = {

In this study we investigated the phylogenetics of the Eurasian treecreeper (Certhia familiaris), a forest passerine with a wide Palaearctic range including Corsica, using three mitochondrial genes and three nuclear introns, and
its phylogeographic history using the COI gene. Our phylogenetic results, including eight of the ten sub-species currently recognized, support the monophyly of C. familiaris with respect to its Indo-Asian sister species
C. hodgsoni. C. familiaris comprises two lineages that diverged during the mid-Pleistocene (c. 1 Myr): one palaeoendemic lineage has an allopatric range nowadays restricted to the Corsica island and the Caucasus region
whereas the second one, more recent and widespread, is distributed over most of Eurasia and in northern China. The most likely scenario that may explain such a pattern is a double colonization of the western Palaearctic from
the eastern range of the species. During the middle Pleistocene period, a first lineage expanded its range up into Europe but did not persist through glacial cycles except in Corsica and the Caucasus region. Later, during the
upper Pleistocene, a second lineage began to diversify around 0.09 Myr, spreading towards the western Palaearctic from a unique refuge likely located in the eastern Palaearctic [correction added on 6 March 2015 after first online
publication: 0.9 Myr amended to 0.09 Myr]. Apart from C. f. corsa, our results do not suggest any distinct evolutionary history for other sub-species previously described on morphological grounds in Europe. Our study
highlights the important conservation value of the Corsican treecreeper and emphasizes the major role of mature pine forests in the evolution of endemic bird taxa in Corsica.

}, author = {Jean-Marc Pons and Jean-Claude Thibault and J{\'e}r{\^o}me Fournier and Georges Olioso and Marko Rakovic and Guido Tellini Florenzano and J{\'e}r{\^o}me Fuchs} } @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 {6822, title = {How are microbial and detrital sources partitioned among and within gastropods species at East Pacific Rise hydrothermal vents?}, journal = {Marine Ecology}, volume = {36}, year = {2015}, pages = {18-34}, abstract = {Abstract For the last few decades, trophic ecology has usually been investigated by using stable isotopes. However, the isotopic signatures of potential food sources in hydrothermal vent ecosystems are often unknown and so their relative contribution to the consumers{\textquoteright} diet, as well as resource partitioning, are then difficult to estimate. Here, we used a recent Bayesian mixing model (stable isotope analysis in R, SIAR) based on δ13C and δ15N to estimate the contribution of multiple food sources to the diet of eight vent gastropods that can reach high densities at hydrothermal vents (Lepetodrilus elevatus, Lepetodrilus pustulosus, Lepetodrilus ovalis, Eulepetopsis vitrea, Cyathermia naticoides, Peltospira delicata, Peltospira operculata and Rhynchopelta concentrica). These species, known as primary consumers (mostly bacterivores and detritivores), were sampled on the South-East Pacific Rise at 17{\textdegree}25'\ S and the North-East Pacific Rise at 9{\textdegree}50'\ N and 12{\textdegree}50'\ N. Several potential food sources were sampled according to the gastropod habitat on the chimney wall, or mussel beds (proxies of Gammaproteobacteria form I RubisCO, Gammaproteobacteria form II RubisCO and Epsilonproteobacteria, biofilms of siboglinid and alvinellid tubes, biofilms of mussel shells and particulate organic matter). Some of these microbial and detrital sources were confirmed as present in the gut content of some small specimens by transmission electron microscopy. Distinct stable isotopic signatures of the potential food sources allowed calculation of their relative contributions to primary consumers{\textquoteright} diets. This revealed that gastropod species living on siboglinid or bathymodiolin habitats are usually generalists, feeding on various pools of microbial or detrital origins. For a particular habitat, sympatric gastropod species partition the food sources, thus avoiding being in competition. Only for the alvinellid habitat Peltospira spp. appeared to be more specialists as the choice of food sources is more reduced.}, keywords = {Chemosynthetic, gastropods, mixing model, Stable isotopes, trophic niche, vents}, doi = {10.1111/maec.12260}, url = {https://onlinelibrary.wiley.com/doi/abs/10.1111/maec.12260}, author = {Sylvie M Gaudron and Marqu{\'e}, Lise and Eric Thi{\'e}baut and Riera, Pascal and Duperron, S{\'e}bastien and Magali Zbinden} } @article {4047, title = {Impact of Galvanic Anode Dissolution onMetal Trace Element Concentrations in Marine Waters}, journal = {water, air \& soil pollution}, volume = {226}, year = {2015}, month = {11/2015}, pages = {226-423}, abstract = {

Submerged harbor steel structures often employ cathodic protection using galvanic anodes to guard against corrosion. A laboratory experiment, with three different cathodic protection configurations by galvanic aluminum-based anodes, was performed to evaluate the potential metal transfer from the anodic alloy dissolution into the surrounding marine water. The anode dissolution rate is proportional to the imposed current demands and induced a significant Al, In, and Zn transfer in the dissolved and particulate fractions of the corrosion product layers covering the anode surface. These layers were poorly adherent, even under low hydrodynamic conditions. Consequently, at the anode vicinity, the suspended particle matter and dissolved fraction of surrounding marine waters showed strong enrichments in Al and Zn, respectively, the values of which could potentially affect the adjacent biota. After the anode activation period, however, the metal inputs from galvanic anode dissolution are rapidly diluted by seawater renewal. At regional scale, these metal fluxes should be negligible compared to river and wastewater fluxes. These results also showed that it is difficult to assess the impact of the anode dissolution on the concentrations of metals in the natural environment, especially for metals included in trace amounts in the anode alloy (i.e., Cu, Fe, In, Mn, and Si) in the aquatic compartment.

}, keywords = {aluminium, galvanic anode, metal transfer, Seawater, Zinc}, issn = {0049-6979}, author = {Deborde, J and Refait, P and Paco Bustamante and Christelle Caplat and Basuyaux, O and Grolleau, AM and M-L Mahaut} } @article {3865, title = {Impact of seaweed beachings on dynamics of δ(15)N isotopic signatures in marine macroalgae.}, journal = {Mar Pollut Bull}, year = {2015}, month = {2015 Jun 18}, abstract = {

A fine-scale survey of δ(15)N, δ(13)C, tissue-N in seaweeds was conducted using samples from 17 sampling points at two sites (Grandcamp-Maisy (GM), Courseulles/Mer (COU)) along the French coast of the English Channel in 2012 and 2013. Partial triadic analysis was performed on the parameter data sets and revealed the functioning of three areas: one estuary (EstA) and two rocky areas (GM(*), COU(*)). In contrast to oceanic and anthropogenic reference points similar temporal dynamics characterized δ(15)N signatures and N contents at GM(*) and COU(*). Nutrient dynamics were similar: the N-concentrations in seawater originated from the River Seine and local coastal rivers while P-concentrations mainly from these local rivers. δ(15)N at GM(*) were linked to turbidity suggesting inputs of autochthonous organic matter from large-scale summer seaweed beachings made up of a mixture of Rhodophyta, Phaeophyta and Chlorophyta species. This study highlights the coupling between seaweed beachings and nitrogen sources of intertidal macroalgae.

}, issn = {1879-3363}, doi = {10.1016/j.marpolbul.2015.06.010}, author = {St{\'e}phanie Lemesle and Isabelle Mussio and Anne-Marie Rusig and Florence Menet-N{\'e}d{\'e}lec and Pascal Claquin} } @article {3790, title = {Impact of sediment grain-size and biofilm age on epipelic microphytobenthos resuspension}, journal = {Journal of Experimental Biology and ecology}, volume = {467}, year = {2015}, month = {03/2015}, pages = {52-64}, type = {Journal article}, author = {Martin Ubertini and S{\'e}bastien Lefebvre and Rakotomalala, C and Francis Orvain} } @proceedings {3546, title = {Installation of microphytobenthos biofilm on concretes of different compositions - Mise en place d{\textquoteright}un biofilm microphytobenthique sur des b{\'e}tons de diff{\'e}rentes compositions}, volume = {1}, year = {2015}, month = {01/2015}, pages = {127-135}, edition = {M. Boutouil \& S. Leboulanger}, address = {ESITC Caen}, isbn = {978-2-95517664-0-5}, author = {Leroy, Fanny and Lestarquit, Mabel and Anne-Marie Rusig and Isabelle Mussio and Roussel, D{\'e}borah and Napol{\'e}on, Camille and Pascal Claquin} } @inbook {4008, title = {Invert{\'e}br{\'e}s marins introduits dans le Golfe Normand-Breton depuis 1920}, booktitle = {Atlas Permanent de la mer et du littoral}, volume = {7}, number = {51-53}, year = {2015}, publisher = {Universit{\'e} de Nantes}, organization = {Universit{\'e} de Nantes}, address = {Nantes}, author = {Laurent Godet and Patrick Le Mao and Eric Thi{\'e}baut and Christian Reti{\`e}re and Louis Cabioc{\textquoteright}h and Franck Gentil and Nicolas Desroy and J{\'e}r{\^o}me Fournier} } @article {6825, title = {Long-term maintenance and public exhibition of deep-sea hydrothermal fauna: The AbyssBox project}, journal = {Deep Sea Research Part II: Topical Studies in Oceanography}, volume = {121}, year = {2015}, pages = {137 - 145}, abstract = {The AbyssBox project aims to provide the first permanent public exhibition of live deep-sea hydrothermal fauna maintained at in situ pressure. AbyssBox is a pressurized aquarium designed to function permanently. Here we present details of the project after the public exhibition functioned for more than three years at Oc{\'e}anopolis aquarium in Brest, France. We also describe the AbyssBox pressure aquarium, and provide data and observations on vent shrimp (Mirocaris fortunata) and crabs (Segonzacia mesatlantica) that were sampled from 1700m depth at the Lucky Strike vent field (Mid-Atlantic Ridge) during different cruises. While mortalities exceeded 50\% during the first days following sampling, the remaining animals appeared to acclimate fairly well. Some crabs have now been kept for more than 2 years, and some shrimp have spent more than 3 years in captivity. Primarily designed for a public exhibition, the AbyssBox is already used for scientific purposes, since it provides one of the most effective tools for long-term rearing of deep-sea fauna. AbyssBox is a first step towards maintaining a variety of deep-sea fauna year-round at in situ pressure, which will serve both scientific and public interests.}, keywords = {AbyssBox, Aquaria, Aquariology, Deep waters, Hydrostatic Pressure, Hydrothermal Vents, Public exhibition, Scientific experiments}, issn = {0967-0645}, doi = {https://doi.org/10.1016/j.dsr2.2015.05.002}, url = {http://www.sciencedirect.com/science/article/pii/S0967064515001460}, author = {Bruce Shillito and Juliette Ravaux and Sarrazin, Jozee and Magali Zbinden and Sarradin, Pierre-Marie and Barthelemy Dominique} } @article {9056, title = {Long-term maintenance and public exhibition of deep-sea hydrothermal fauna: The AbyssBox project}, journal = {Deep Sea Research Part II: Topical Studies in Oceanography}, volume = {121}, year = {2015}, month = {Jan-11-2015}, pages = {137 - 145}, issn = {09670645}, doi = {10.1016/j.dsr2.2015.05.002}, url = {https://linkinghub.elsevier.com/retrieve/pii/S0967064515001460}, author = {Bruce Shillito and Juliette Ravaux and Sarrazin, Jozee and Zbinden, M. and Sarradin, Pierre-Marie and Barthelemy, D.} } @article {4232, title = {Modelling the effect of Cerastoderma edule bioturbation on microphytobenthos resuspension towards the planktonic food web of estuarine ecosystem}, journal = {Ecological Modelling}, volume = {316}, year = {2015}, month = {09/2015}, pages = {155-167}, abstract = {

Microphytobenthos (MPB) represents an important food source for primary consumers in estuarine ecosystems and the availability of MPB as food items results from complex physical, chemical, and biological interactions. In Baie des Veys (Lower Normandy, France), the common cockle Cerastoderma edule constitutes the major bioturbator in the ecosystem in terms of biomass. In this ecosystem, cockle bioturbation is a key process regulating the MPB erosion flux in the water column. This bivalve intensely modifies the top layer of the sediment by increasing the sediment erodibility and the fluxes of suspended chlorophyll a through the valve movements. More precisely, cockle bioturbation destabilizes the sediment surface by creating a biogenic layer that is easily eroded with tidal hydrodynamic forces. Associated MPB can then be exported to the water column to fuel higher trophic levels of the planktonic food web. The aim of this study was to develop a numerical model that reproduces the export of MPB associated to the biogenic layer erosion. Kinetics of suspended MPB, in response to increasing stress, were obtained from flume experiments in lab controlled conditions and in situ natural conditions. Following this, the suspended MPB were analyzed to respectively parameterize the model by (1) a calibration approach, and (2) an independent validation. The analysis has highlighted that the higher the biomass of cockles, the higher the MPB resuspension rates. Our model consistently reproduces the tendency encountered in laboratory analysis and with in situ natural conditions. During the validation, a small site-specific lack of adjustment was identified, but, among the macrozoobenthic community, the model can be significantly improved by considering the bioturbation activities of another ecosystem engineer, Pygospio elegans. This study thus provides reliable estimates of the daily food availability from benthic primary consumers in an estuarine system where cockles dominate the bioturbating assemblage. This model can be inserted in various model designs (0D, 1D-vertical or 3D).

}, author = {Rakotomalala, C and Karine Granger{\'e} and Martin Ubertini and For{\^e}t, M and Francis Orvain} } @article {3626, title = {Molecular characterization of peptide fractions of a Tilapia (Oreochromis niloticus) by-product hydrolysate and in vitro evaluation of antibacterial activity}, journal = {Process Biochemistry}, volume = {50}, year = {2015}, pages = {487-492}, author = {Robert, Marie and C{\'e}line Zatylny-Gaudin and Fournier, Vincent and Corre, Erwan and Gildas Le Corguille and Bernay, Beno{\^\i}t and Jo{\"e}l Henry} } @article {5042, title = {The mosaic of habitats of the Seine estuary: Insights from food-web modelling and network analysis}, journal = {ECOLOGICAL MODELLING}, volume = {312}, year = {2015}, month = {09/2015}, pages = {91-101}, abstract = {

Ecological network analysis was applied in the Seine estuary ecosystem, northern France, integrating ecological data from the years 1996 to 2002. The Ecopath with Ecosim (EwE) approach was used to model the trophic flows in 6 spatial compartments leading to 6 distinct EwE models: the navigation channel and the two channel flanks in the estuary proper, and 3 marine habitats in the eastern Seine Bay. Each model included 12 consumer groups, 2 primary producers, and one detritus group. Ecological network analysis was performed, including a set of indices, keystoneness, and trophic spectrum analysis to describe the contribution of the 6 habitats to the Seine estuary ecosystem functioning. Results showed that the two habitats with a functioning most related to a stressed state were the northern and central navigation channels, where building works and constant maritime traffic are considered major anthropogenic stressors. The strong top-down control highlighted in the other 4 habitats was not present in the central channel, showing instead (i) a change in keystone roles in the ecosystem towards sediment-based, lower trophic levels, and (ii) a higher system omnivory. The southern channel evidenced the highest system activity (total system throughput), the higher trophic specialisation (low system omnivory), and the lowest indication of stress (low cycling and relative redundancy). Marine habitats showed higher fish biomass proportions and higher transfer efficiencies per trophic levels than the estuarine habitats, with a transition area between the two that presented intermediate ecosystem structure. The modelling of separate habitats permitted disclosing each one{\textquoteright}s response to the different pressures, based on their a priori knowledge. Network indices, although non-monotonously, responded to these differences and seem a promising operational tool to define the ecological status of transitional water ecosystems. (C) 2015 Elsevier B.V. All rights reserved.

}, issn = {{0304-3800}}, doi = {{10.1016/j.ecolmodel.2015.05.026}}, author = {Samuele Tecchio and Rius, Armonie Tous and Dauvin, Jean-Claude and Lobry, Jeremy and G{\'e}raldine Lassalle and Morin, Jocelyne and Bacq, Nicolas and Cachera, Marie and Chaalali, Aur{\'e}lie and Villanueva, Maria Ching and Nathalie Niquil} } @article {4398, title = {Movement patterns and home range of wild and re-stocked Arapaima gigas (Schinz, 1822) monitored by radio-telemetry in Lake Imiria, Peru}, journal = {Journal of Applied Ichthyology}, volume = {31}, year = {2015}, pages = {10{\textendash}18}, issn = {1439-0426}, doi = {10.1111/jai.12972}, url = {http://dx.doi.org/10.1111/jai.12972}, author = {Jesus Nu{\~n}ez-Rodriguez and Fabrice Duponchelle and Cotrina-Doria, M. and Renno, Jean-Francois and Ch{\'a}vez Veintemilla, C and Rebaza, C. and Deza, S. and Garc{\'\i}a-D{\'a}vila, C and Chu-Koo, F and Salvador Tello and Baras, Etienne} } @article {4154, title = {The oldest notostracan (Upper Devonian Strud Locality, Belgium)}, journal = {Palaeontology}, volume = {58}, year = {2015}, month = {01/2015}, pages = {497-509}, author = {Linda Lagebro and Pierre Gueriau and Thomas Hegna and Nicolas Rabet and Aodh{\'a}n Butler and Graham Budd} } @article {4196, title = {Ontogenetic dietary and habitat shifts in Goliath grouper, Epinephelus itajara, from French Guiana.}, journal = {Endangered species Research}, volume = {27}, year = {2015}, month = {2015}, pages = {155-168}, author = {C Artero and C.C. Koenig and P. Richard and R. Berzins and G. Guillou and C. Bouchon and L. Lampert} } @article {4234, title = {Opinion Paper: how vulnerable are Amazonian freshwater fishes to ongoing climate change?}, journal = {Journal of Applied Ichthyology}, volume = {31}, year = {2015}, pages = {4-9}, abstract = {

With around 15\% of all described freshwater fish species in the world, the Amazon Basin is by far the most fish species- rich freshwater ecosystem on the planet. In this opinion paper, a rough evaluation is given on just how vulnerable Amazonian freshwater fishes are to ongoing climate change. And to argue that current anthropogenic threats through rapid expansion of human infrastructure and economic activ- ities in the basin could be a far greater threat to fish commu- nities than those anticipated by any future climate change. Conservation actions in the Amazon Basin should focus preferentially on reducing the impacts of present-day anthro- pogenic threats.

}, doi = {doi: 10.1111/jai.12971}, author = {Thierry Oberdorff and C. J{\'e}z{\'e}quel and M. Campero and F. Carvajal-Vallejos and J.F. Cornu and M.S. Dias and Fabrice Duponchelle and J.A. Maldonado-Ocampo and H. Ortega and J.F. Renno and Pablo Tedesco} } @article {4552, title = {Opinion Paper: how vulnerable are Amazonian freshwater fishes to ongoing climate change?}, journal = {Journal of Applied Ichthytology}, volume = {31}, year = {2015}, pages = {4-9}, author = {Thierry Oberdorff and J{\'e}z{\'e}quel, C{\'e}line and Campero, Melina and Carvajal-Vallejos, Fernando and Cornu, Jean-Fran{\c c}ois and Dias, Murilo S and Fabrice Duponchelle and Maldonado, Mabel and H. Ortega and Renno, Jean-Francois and Pablo Tedesco} } @article {4056, title = {Parental exposure to the herbicide diuron results in oxidative DNA damage to germinal cells of the Pacific oyster Crassostrea gigas.}, journal = {Comp Biochem Physiol C Toxicol Pharmacol}, year = {2015}, month = {2015 Nov 21}, abstract = {

Chemical pollution by pesticides has been identified as a possible contributing factor to the massive mortality outbreaks observed in Crassostrea gigas for several years. A previous study demonstrated the vertical transmission of DNA damage by subjecting oyster genitors to the herbicide diuron at environmental concentrations during gametogenesis. This trans-generational effect occurs through damage to genitor-exposed gametes, as measured by the comet-assay. The presence of DNA damage in gametes could be linked to the formation of DNA damage in other germ cells. In order to explore this question, the levels and cell distribution of the oxidized base lesion 8-oxodGuo were studied in the gonads of exposed genitors. High-performance liquid chromatography coupled with UV and electrochemical detection analysis showed an increase in 8-oxodGuo levels in both male and female gonads after exposure to diuron. Immunohistochemistry analysis showed the presence of 8-oxodGuo at all stages of male germ cells, from early to mature stages. Conversely, the oxidized base was only present in early germ cell stages in female gonads. These results indicate that male and female genitors underwent oxidative stress following exposure to diuron, resulting in DNA oxidation in both early germ cells and gametes, such as spermatozoa, which could explain the transmission of diuron-induced DNA damage to offspring. Furthermore, immunostaining of early germ cells seems indicates that damages caused by exposure to diuron on germ line not only affect the current sexual cycle but also could affect future gametogenesis.

}, issn = {1532-0456}, doi = {10.1016/j.cbpc.2015.11.002}, author = {Barranger, Audrey and Clothilde Heude-Berthelin and Rouxel, Julien and Adeline, B{\'e}atrice and Benabdelmouna, Abdellah and Burgeot, Thierry and Akcha, Farida} } @article {4158, title = {Photosystem-II shutdown evolved with Nitrogen fixation in the unicellular diazotroph Crocosphaera watsonii.}, journal = {Environ Microbiol}, year = {2015}, month = {2015 Dec 7}, abstract = {

Protection of nitrogenase from oxygen in unicellular cyanobacteria is obtained by temporal separation of photosynthesis and diazotrophy, through transcriptional and translational regulations of nitrogenase. But diazotrophs can face environmental situations in which N2 fixation occurs significantly in the light, and we believe that another control operates to make it possible. The nighttime shutdown of PSII activity is a peculiar behavior that discriminates C. watsonii WH8501 from any other phototroph, whether prokaryote or eukaryote. This phenomenon is not only due to the plastoquinone pool redox status and suggests that the sentinel D1 protein, expressed in periods of nitrogen fixation, is inactive. Results demonstrate a tight constraint of oxygen evolution in C. watsonii as additional protection of nitrogenase activity and suggest a possible recycling of cellular components.

}, issn = {1462-2920}, doi = {10.1111/1462-2920.13157}, author = {Rabouille, Sophie and Claquin, Pascal} } @article {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 {4400, title = {Re-description of Apistogramma payaminonis Kullander, 1986, with descriptions of two new cichlid species of the genus Apistogramma (Teleostei, Perciformes, Geophaginae) from northern Peru}, journal = {Vertebrate Zoology}, volume = {65}, year = {2015}, pages = {287-314}, author = {R{\"o}mer, Uwe and Soares, D. P. and Garc{\'\i}a-D{\'a}vila, C. and Fabrice Duponchelle and Renno, Jean-Francois and Hanh, I.} } @article {4418, title = {Regulation of Hox orthologues in the oyster Crassostrea gigas evidences a functional role for promoter DNA methylation in an invertebrate.}, journal = {FEBS Lett}, volume = {589}, year = {2015}, month = {2015 Jun 4}, pages = {1459-66}, abstract = {

DNA methylation within promoter regions (PRDM) controls vertebrate early gene transcription and thereby development, but is neglected outside this group. However, epigenetic features in the oyster Crassostrea gigas suggest functional significance of PDRM in invertebrates. To investigate this, reporter constructs containing in vitro methylated oyster Hox gene promoters were transfected into oyster embryos. The influence of in vivo methylation was studied using bisulfite sequencing and DNA methyltransferase inhibition during development. Our results demonstrate that methylation controls the transcriptional activity of the promoters investigated, unraveling a functional role for PRDM in a lophotrochozoan, an important finding regarding the evolution of epigenetic regulation.

}, keywords = {Animals, Azacitidine, CHO Cells, Crassostrea, Cricetinae, Cricetulus, DNA (Cytosine-5-)-Methyltransferase, DNA Methylation, Embryo, Nonmammalian, Enzyme Inhibitors, Gene Expression Regulation, Developmental, Homeodomain Proteins, Invertebrates, Promoter Regions, Genetic, Transfection}, issn = {1873-3468}, doi = {10.1016/j.febslet.2015.04.043}, author = {Saint-Carlier, Emma and Guillaume Rivi{\`e}re} } @article {4201, title = {The Research Network on Amazonian Ichthyofauna}, journal = {Journal of Applied Ichthyology}, volume = {31}, year = {2015}, pages = {1{\textendash}3}, issn = {1439-0426}, doi = {10.1111/jai.12986}, url = {http://dx.doi.org/10.1111/jai.12986}, author = {Darias, Maria and Amadio, S. A. and Rosenthal, H.} } @article {4156, title = {Review of the Eulimnadia (Branchiopoda: Spinicaudata) from North Africa and adjacent regions, with two new species from Mauritania }, journal = {Journal of Crustacean Biology}, volume = {35}, year = {2015}, pages = {461-472}, type = {Research Article}, author = {Nicolas Rabet and Fran{\c c}ois Clarac and Pascal Lluch and Eric Gallerne and Michael Korn} } @article {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 {3522, title = {Spatio-temporal variations in the composition of organic matter in surface sediments of a mangrove receiving shrimp farm effluents (New Caledonia)}, journal = {Science of The Total Environment}, volume = {512{\textendash}513}, year = {2015}, pages = {296 - 307}, abstract = {

In order to investigate spatio-temporal variations in the composition and origin of the benthic organic matter (OM) at the sediment surface in mangrove receiving shrimp farm effluents, fatty acid (FA) biomarkers, natural stable isotopes (δ13C and δ15N), C:N ratios and chlorophyll-a (chl-a) concentrations were determined during the active and the non-active period of the farm. Fatty acid compositions in surface sediments within the mangrove forest indicated that organic matter inputs varied along the year as a result of farm activity. Effluents were the source of fresh particulate organic matter for the mangrove, as evidenced by the unsaturated fatty acid (UFA) distribution. The anthropogenic \{MUFA\} 18:1ω9 was not only accumulated at the sediment surface in some parts of the mangrove, but was also exported to the seafront. Direct release of bacteria and enhanced in situ production of fungi, as revealed by specific FAs, stimulated mangrove litter decomposition under effluent runoff condition. Also, microalgae released from ponds contributed to maintain high benthic chl-a concentrations in mangrove sediments in winter and to a shift in microphytobenthic community assemblage. Primary production was high whether the farm released effluent or not which questioned the temporary effect of shrimp farm effluent on benthic microalgae dynamic. This study outlined that mangrove benthic organic matter was qualitatively and quantitatively affected by shrimp farm effluent release and that responses to environmental condition changes likely depended on mangrove stand characteristics.

}, keywords = {Chlorophyll-a, fatty acids, Mangrove, Organic matter, Shrimp farming, Stable isotopes}, issn = {0048-9697}, doi = {http://dx.doi.org/10.1016/j.scitotenv.2014.12.082}, url = {http://www.sciencedirect.com/science/article/pii/S0048969714017938}, author = {Ad{\'e}laide Aschenbroich and Cyril Marchand and Nathalie Molnar and Jonhatan Deborde and C{\'e}dric Hubas and Herv{\'e} Rybarczyk and Tarik Meziane} } @article {3678, title = {Species-specific {PCR}-{RFLP} for identification of early life history stages of squid and other applications to fisheries research}, journal = {Fisheries Research}, volume = {167}, year = {2015}, pages = {207{\textendash}209}, keywords = {Alloteuthis, Cephalopoda, Fisheries management, Loligo, Species identification, Sustainable}, issn = {0165-7836}, doi = {10.1016/j.fishres.2015.02.007}, url = {http://www.sciencedirect.com/science/article/pii/S0165783615000442}, author = {McKeown, Niall J. and Jean-Paul Robin and Shaw, Paul W.} } @article {Feunteun201569, title = {Stable isotopic composition of anguilliform leptocephali and other food web components from west of the Mascarene Plateau}, journal = {Progress in Oceanography}, volume = {137}, year = {2015}, note = {cited By 14}, pages = {69-83}, doi = {10.1016/j.pocean.2015.05.024}, url = {https://www.sciencedirect.com/science/article/pii/S0079661115001299}, author = {Eric Feunteun and Miller, M.J. and Alexandre Carpentier and Aoyama, J. and Christine Dupuy and Kuroki, M. and Pagano, M. and R{\'e}veillac, E. and Sellos, D. and Watanabe, S. and Tsukamoto, K. and Otake, T.} } @article {3900, title = {Stock structure of the {English} {Channel} common cuttlefish {Sepia} officinalis ({Linnaeus}, 1758) during the reproduction period}, journal = {Journal of the Marine Biological Association of the United Kingdom}, year = {2015}, pages = {1{\textendash}10}, abstract = {

Within the English Channel, the common cuttlefish Sepia officinalis is a semelparous species for which a 2-year life cycle was
exclusively described in the 1980s. In the 1990s, new research indicated that whilst a 2-year life cycle was still evident for
females and the large majority of males, a small proportion of males were actually maturing at only 1 year of age. Since
1980, the interest of French and UK fishers for this resource has increased and it is nowadays one of the most important
demersal species of the area and is considered to be fully exploited. From the start of the 20th century, fishing effort
and sea surface temperatures have increased in the English Channel and have probably impacted the life history traits of
S. officinalis. A 2-year sampling programme was undertaken at French landing sites of the English Channel during the reproduction
season in 2010 and 2011 to estimate if the proportion of 1-year-old mature animals has changed. Age determination
was carried out by coupling polymodal decomposition and lipofuscin measurement. Size-at-maturity for each year and each
sex was estimated by fitting a binomial error GLM. Results highlight that a variable percentage of males and females belonging
to the first cohort are mature and that size-at-maturity was lower than that observed in the 1990s. Finally, different parameters,
such as temperature and fishing pressure are explored to discuss changes in life history traits suggesting that cuttlefish
could be an indicator of the temperature regime shift in the English Channel.

}, issn = {0025-3154, 1469-7769}, doi = {10.1017/S0025315415001162}, url = {http://www.journals.cambridge.org/abstract_S0025315415001162}, author = {Gras, Michael and Safi, Georges and Lebredonchel, Hugo and Quinquis, J{\'e}r{\^o}me and Foucher, Eric and Koueta, Noussith{\'e} and Jean-Paul Robin} } @article {3586, title = {Temporal and spatial distribution of young Brachyplatystoma spp. (Siluriformes: Pimelodidae) along the rapids stretch of the Madeira River (Brazil) before the construction of two hydroelectric dams}, journal = {Journal of Fish Biology}, volume = {86}, year = {2015}, month = {04/2015}, pages = {1429-37}, author = {Cella Ribeiro, A. and Fugimoto Assakawa, L. and Torrente-Vilara, Gislene and Zuanon, Jansen and Leite, R.G. and Doria, C. and Fabrice Duponchelle} } @article {3408, title = {The three steps of the carbonate biogenic dissolution process by microborers in coral reefs (New Caledonia).}, journal = {Environ Sci Pollut Res Int}, year = {2015}, month = {2015 Jan 17}, abstract = {

Biogenic dissolution of carbonates by microborers is one of the main destructive forces in coral reefs and is predicted to be enhanced by eutrophication and ocean acidification by 2100. The chlorophyte Ostreobium sp., the main agent of this process, has been reported to be one of the most responsive of all microboring species to those environmental factors. However, very little is known about its recruitment, how it develops over successions of microboring communities, and how that influences rates of biogenic dissolution. Thus, an experiment with dead coral blocks exposed to colonization by microborers was carried out on a reef in New Caledonia over a year period. Each month, a few blocks were collected to study microboring communities and the associated rates of biogenic dissolution. Our results showed a drastic shift in community species composition between the 4th and 5th months of exposure, i.e., pioneer communities dominated by large chlorophytes such as Phaeophila sp. were replaced by mature communities dominated by Ostreobium sp. Prior the 4th month of exposure, large chlorophytes were responsible for low rates of biogenic dissolution while during the community shift, rates increased exponentially ({\texttimes}10). After 6\ months of exposure, rates slowed down and reached a "plateau" with a mean of 0.93\ kg of CaCO3 dissolved per m(2) of reef after 12\ months of exposure. Here, we show that (a) Ostreobium sp. settled down in new dead substrates as soon as the 3rd month of exposure but dominated communities only after 5\ months of exposure and (b) microbioerosion dynamics comprise three distinct steps which fully depend on community development stage and grazing pressure.

}, issn = {1614-7499}, doi = {10.1007/s11356-014-4069-z}, author = {Grange, J and Herv{\'e} Rybarczyk and Tribollet, A} } @article {3930, title = {The use of {Depletion} {Methods} to assess {Mediterranean} cephalopod stocks under the current {EU} {Data} {Collection} {Framework}}, journal = {Mediterranean Marine Science}, year = {2015}, pages = {513{\textendash}523}, doi = {DOI: http://dx.doi.org/10.12681/mms.1127}, url = {http://www.medit-mar-sc.net/index.php/marine/article/view/1127/671}, author = {Keller, S and Jean-Paul Robin and Valls, M and Gras, Michael and Cabanellas-Reboredo, M and Quetglas, A} } @article {4399, title = {Using barcoding of larvae for investigating the breeding seasons of pimelodid catfishes from the Mara{\~n}on, Napo and Ucayali rivers in the Peruvian Amazon}, journal = {Journal of Applied Ichthyology}, volume = {31}, year = {2015}, pages = {40{\textendash}51}, issn = {1439-0426}, doi = {10.1111/jai.12987}, url = {http://dx.doi.org/10.1111/jai.12987}, author = {Garc{\'\i}a-D{\'a}vila, C. and Castro-Ruiz, Diana and Renno, Jean-Francois and Chota-Macuyama, Werner and Carvajal-Vallejos, Fernando and Sanchez, H. and Angulo, C. and Nolorbe, C. and Alvarado, J. and Estivals, G and Jesus Nu{\~n}ez-Rodriguez and Fabrice Duponchelle} } @article {5040, title = {Using ecological models to assess ecosystem status in support of the European Marine Strategy Framework Directive}, journal = {ECOLOGICAL INDICATORS}, volume = {58}, year = {2015}, month = {NOV}, pages = {175-191}, abstract = {

The European Union{\textquoteright}s Marine Strategy Framework Directive (MSFD) seeks to achieve, for all European seas, "Good Environmental Status" (GEnS), by 2020. Ecological models are currently one of the strongest approaches used to predicting and understanding the consequences of anthropogenic and climate-driven changes in the natural environment. We assess the most commonly used capabilities of the modelling community to provide information about indicators outlined in the MSFD, particularly on biodiversity, food webs, non-indigenous species and seafloor integrity descriptors. We built a catalogue of models and their derived indicators to assess which models were able to demonstrate: (1) the linkages between indicators and ecosystem structure and function and (2) the impact of pressures on ecosystem state through indicators. Our survey identified 44 ecological models being implemented in Europe, with a high prevalence of those that focus on links between hydrodynamics and biogeochemistry, followed by end-to-end, species distribution/habitat suitability, bio-optical (remote sensing) and multispecies models. Approximately 200 indicators could be derived from these models, the majority of which were biomass and physical/hydrological/chemical indicators. Biodiversity and food webs descriptors, with similar to 49\% and similar to 43\% respectively, were better addressed in the reviewed modelling approaches than the non-indigenous species (0.3\%) and sea floor integrity (similar to 8\%) descriptors. Out of 12 criteria and 21 MSFD indicators relevant to the abovementioned descriptors, currently only three indicators were not addressed by the 44 models reviewed. Modelling approaches showed also the potential to inform on the complex, integrative ecosystem dimensions while addressing ecosystem fundamental properties, such as interactions between structural components and ecosystems services provided, despite the fact that they are not part of the MSFD indicators set. The cataloguing of models and their derived indicators presented in this study, aim at helping the planning and integration of policies like the MSFD which require the assessment of all European Seas in relation to their ecosystem status and pressures associated and the establishment of environmental targets (through the use of indicators) to achieve GEnS by 2020. (C) 2015 The Authors. Published by Elsevier Ltd.

}, issn = {{1470-160X}}, doi = {{10.1016/j.ecolind.2015.05.037}}, author = {Piroddi, Chiara and Teixeira, Heliana and Lynam, Christopher P. and Smith, Chris and Alvarez, Maria C. and Mazik, Krysia and Andonegi, Eider and Churilova, Tanya and Tedesco, Letizia and Chifflet, Marina and Chust, Guillem and Galparsoro, Ibon and Garcia, Ana Carla and Kamari, Maria and Kryvenko, Olga and G{\'e}raldine Lassalle and Neville, Suzanna and Nathalie Niquil and Papadopoulou, Nadia and Rossberg, Axel G. and Suslin, Vjacheslav and Uyarra, Maria C.} } @article {4392, title = {Variations in reproductive strategy of the silver Arowana, Osteoglossum bicirrhosum Cuvier, 1829 from four sub-basins of the Peruvian Amazon}, journal = {Journal of Applied Ichthyology }, volume = {31}, year = {2015}, pages = {19-30}, author = {Fabrice Duponchelle and Ruiz-Arce Adela and Waty, A. and Garc{\'\i}a-Vasquez, Aurea and Renno, J-F and Chu-Koo, F and Garc{\'\i}a-D{\'a}vila, C. and Vargas, Gladys and Salvador Tello and Ortiz, A. and Pinedo, R. and Manzanares V{\'a}squez, R. and Jesus Nu{\~n}ez-Rodriguez} } @article {3769, title = {What did we learn from PEGASEAS forum "Science and Governance of the Channel Marine Ecosystem"?}, journal = {Mar Pollut Bull}, volume = {93}, year = {2015}, month = {2015 Apr 15}, pages = {1-4}, abstract = {

As one of the busiest marine ecosystems in the world, the English Channel is subjected to strong pressures due to the human activities occurring within it. Effective governance is required to improve the combined management of different activities and so secure the benefits provided by the Channel ecosystem. In July 2014, a Cross-Channel Forum, entitled "Science and Governance of the Channel Marine Ecosystem", was held in Caen (France) as part of the INTERREG project "Promoting Effective Governance of the Channel Ecosystem" (PEGASEAS). Here we use outputs from the Forum as a framework for providing Channel-specific advice and recommendations on marine governance themes, including the identification of knowledge gaps, which may form the foundation of future projects for the next INTERREG project call (2015-2020).

}, issn = {1879-3363}, doi = {10.1016/j.marpolbul.2015.02.021}, author = {L Evariste and Claquin, Pascal and Jean-Paul Robin and Arnaud Auber and Abigail McQuatters-Gollop and Fletcher, Stephen and Glegg, Gillian and Jean-Claude Dauvin} } @article {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 {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 {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} } @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 {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 {4824, title = {Determinaci{\'o}n del sexo en arahuana Osteoglossum bicirrhosum mediante la detecci{\'o}n de los niveles plasm{\'a}ticos de vitelogenina}, journal = {Ciencia Amaz{\'o}nica}, volume = {4}, year = {2014}, pages = {151-159}, type = {Journal Article}, keywords = {Arahuana, Sexaje, Vitellogenine}, doi = {10.22386/ca.v4i2.81}, author = {Ram{\'\i}rez-Arrarte, Pedro and Jesus Nu{\~n}ez-Rodriguez and Chu-Koo, Fred} } @article {3412, title = {Diversity structure of phytoplankton communities and primary productivity in a temperate epicontinental sea }, journal = {Marine Ecology Progress Series}, volume = {505}, year = {2014}, pages = {49-64}, abstract = {The dynamics of the phytoplankton assemblage, the physical, chemical and biological parameters, and primary productivity and production were monitored in the central English Channel along a transect between Ouistreham and Portsmouth from January to December 2010. The spatial patterns of the phytoplankton assemblage were controlled by the hydrological characteristics of the water masses, and the annual structure of the phytoplankton assemblage was characteristic of the central English Channel and was controlled by seasonality. The spring bloom was dominated by a single species, Chaetoceros socialis, and associated with low microphytoplankton evenness and Shannon-Wiener indices, whereas the evenness index was high from late spring to winter and associated with the proliferation of pico- and nanophytoplankton cells. We identified 2 species responsible for harmful algal blooms, Phaeocystis globosa, which dominated the community in the northern part of the Seine Bay in May, and Lepidodinium chlorophorum, which dominated the community near the French coast in September. We examined the relationship between microphytoplankton diversity and maximum primary production and productivity. We found a negative parabolic relationship between the diversity indices (evenness and Shannon-Wiener) and maximum primary production, and a positive parabolic relationship between the number of taxa (richness) and maximum primary production. However, we found no relationship between maximum productivity and the evenness or richness indices. High levels of productivity were measured during the increasing abundance of pico and nanophytoplankton cells, highlighting the importance of taking the dominant functional group into account, rather than the degree of diversity, when explaining the level of productivity.}, keywords = {English Channel, Phytoplankton diversity, primary production, Productivity}, author = {Napol{\'e}on, C and Fiant, Liliane and Raimbault, V and Riou, P and Pascal Claquin} } @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 {3414, title = {Effects of CO2, nutrients and light on coastal plankton: II. Metabolic rates. Aquatic Biology}, journal = {Aquatic Biology}, volume = {22}, year = {2014}, month = {11/20/14}, pages = {43-57}, abstract = {We conducted a microcosm experiment aimed at studying the interactive effects of high CO2, nutrient loading and irradiance on the metabolism of a planktonic community sampled in the Western Mediterranean near the coast of M{\'a}laga. Changes in the metabolism of phytoplankton and bacterioplankton were observed for 7 d under 8 treatment conditions, representing the full factorial combinations of 2 levels each of CO2, nutrient concentration and solar radiation exposure. The initial plankton sample was collected at the surface from a stratified water column, indicating that phytoplankton were naturally acclimated to high irradiance and low nutrient concentrations. Nutrient addition combined with high irradiance resulted in a significant increase in primary production. Nitrate uptake by phytoplankton was also stimulated under high nutrient conditions. High nutrients, high irradiance and the combination of low CO2 and high irradiance positively affected bacterial production. Light was the main factor affecting the respiration rates of the community, which were higher at the high light level. After 7 d of incubation, nutrient loading was the only factor that significantly affected the amount of particulate organic carbon (POC) accumulated in the microcosms. Therefore, the changes in metabolic rates produced at high CO2 had no effect on net production of particulate organic matter. If these results are extrapolated to the natural environment, it could be hypothesized that high levels of CO2 will have a limited impact on biological pump activity in the northern Alboran Sea since it is assumed that POC export towards deeper layers determines the potential for carbon sequestration.}, author = {Mercado, J. M. and Sobrino, C and Neale, P.J. and Segovia, M. and Reul, A. and Amorim, A.L. and Carrillo, P and Pascal Claquin and Cabrerizo, M.J and Le{\'o}n, P. and Lorenzo, M.R and Medina, J. M. and Montecino, V. and Napol{\'e}on, C and Prasil, 0. and Putzeys, S and Salles, S and Yebra, L} } @article {4155, title = {The effects of pool sediments on the egg morphology of Neotropical Eulimnadia (Branchiopoda: Limnadiidae)}, journal = {Journal of limnology}, volume = {737}, year = {2014}, month = {01/2014}, pages = {17-26}, type = {Research Article}, author = {Nicolas Rabet and D Montero and Sebastien Lacau} } @article {4157, title = {The effects of pool sediments on the egg morphology of Neotropical Eulimnadia (Branchiopoda: Limnadiidae)}, journal = {Journal of limnology}, volume = {737}, year = {2014}, pages = {17-26}, type = {Research Article}, author = {Nicolas Rabet and D Montero and Sebastien Lacau} } @article {3399, title = {Epigenetic features in the oyster Crassostrea gigas suggestive of functionally relevant promoter DNA methylation in invertebrates.}, journal = {Frontiers in Physiology}, volume = {5}, year = {2014}, month = {04/2014}, type = {Research Perspective}, abstract = {

DNA methylation is evolutionarily conserved. Vertebrates exhibit high, widespread DNA methylation whereas invertebrate genomes are less methylated, predominantly within gene bodies. DNA methylation in invertebrates is associated with transcription level, alternative splicing and genome evolution, but functional outcomes of DNA methylation remain poorly described in lophotrochozoans. Recent genome-wide approaches improve understanding in distant taxa such as molluscs, where the phylogenetic position and life traits of Crassostrea gigas make this bivalve an ideal model to study the physiological and evolutionary implications of DNA methylation. We review the literature about DNA methylation in invertebrates and focus on DNA methylation features in the oyster. Indeed, though our MeDIP-seq results confirm predominant intragenic methylation, the profiles depend on the oyster{\textquoteright}s developmental and reproductive stage. We discuss the perspective that oyster DNA methylation could be biased toward the 5{\textquoteright}-end of some genes, depending on physiological status, suggesting important functional outcomes of putative promoter methylation from cell differentiation during early development to sustained adaptation of the species to the environment.

}, doi = {10.3389/fphys.2014.00129}, author = {Guillaume Rivi{\`e}re} } @article {Walker20141, title = {EU eeliad: Anguillid eels: Conserving a global fishery}, journal = {Ecology of Freshwater Fish}, volume = {23}, number = {1}, year = {2014}, note = {cited By 0}, pages = {1}, doi = {10.1111/eff.12104}, url = {https://onlinelibrary.wiley.com/toc/16000633/23/1}, author = {Walker, A.M. and Eric Feunteun and Metcalfe, J. and Poole, R. and Righton, D.} } @article {Wahlberg201432, title = {Evidence of marine mammal predation of the European eel (Anguilla anguilla L.) on its marine migration}, journal = {Deep-Sea Research Part I: Oceanographic Research Papers}, volume = {86}, year = {2014}, note = {cited By 30}, pages = {32-38}, doi = {10.1016/j.dsr.2014.01.003}, url = {https://www.sciencedirect.com/science/article/pii/S0967063714000077}, author = {Wahlberg, M. and Westerberg, H. and Aarestrup, K. and Eric Feunteun and Gargan, P. and Righton, D.} } @article {3445, title = {Genetic structure in the Amazonian catfish Brachyplatystoma rousseauxii: influence of life history strategies.}, journal = {Genetica}, volume = {142}, year = {2014}, month = {2014 Aug}, pages = {323-36}, abstract = {

The Dorado or Plateado (Gilded catfish) Brachyplatystoma rousseauxii (Pimelodidae, Siluriformes) is a commercially valuable migratory catfish performing the largest migration in freshwaters: from the Amazonian headwaters in the Andean foothills (breeding area) to the Amazon estuary (nursery area). In spite of its importance to inform management and conservation efforts, the genetic variability of this species has only recently begun to be studied. The aim of the present work was to determine the population genetic structure of B. rousseauxii in two regions: the Upper Madera Basin (five locations in the Bolivian Amazon) and the Western Amazon Basin (one regional sample from the Uyucal{\'\i}-Napo-Mara{\~n}on-Amazon basin, Peru). Length polymorphism at nine microsatellite loci (284 individuals) was used to determine genetic variability and to identify the most probable panmictic units (using a Bayesian approach), after a significant departure from Hardy-Weinberg equilibrium was observed in the overall dataset (Western Amazon\ +\ Upper Madera). Bayesian analyses revealed at least three clusters in admixture in the five locations sampled in the Bolivian Amazon, whereas only two of these clusters were observed in the Western Amazon. Considering the migratory behaviour of B. rousseauxii, different life history strategies, including homing, are proposed to explain the cluster distribution. Our results are discussed in the light of the numerous threats to the species survival in the Madera basin, in particular dam and reservoir construction.

}, issn = {1573-6857}, doi = {10.1007/s10709-014-9777-2}, author = {Carvajal-Vallejos, F M and Fabrice Duponchelle and Desmarais, E and Cerqueira, F and Sophie Qu{\'e}rouil and Jesus Nu{\~n}ez-Rodriguez and Garc{\'\i}a, C and Renno, J-F} } @article {3250, title = {Histological development of the digestive system of the Amazonian pimelodid catfish Pseudoplatystoma punctifer.}, journal = {Animal}, volume = {8}, year = {2014}, month = {2014 Nov}, pages = {1765-76}, abstract = {

The organogenesis of the digestive system was described in the Amazonian pimelodid catfish species Pseudoplatystoma punctifer from hatching (3.5 mm total length, TL) to 41 days post-fertilization (dpf) (58.1 mm TL) reared at 28{\textdegree}C. Newly hatched larvae showed a simple digestive tract, which appeared as a straight undifferentiated and unfolded tube lined by a single layer of columnar epithelial cells (future enterocytes). During the endogenous feeding period, comprised between 20 and 96 h post-fertilization (3.5 to 6.1 mm TL), the larval digestive system experienced a fast transformation with the almost complete development and differentiation of most of digestive organs (buccopahrynx, oesophagus, intestine, liver and exocrine pancreas). Yolk reserves were not completely depleted at the onset of exogenous feeding (4 dpf, 6.1 mm TL), and a period of mixed nutrition was observed up to 6 to 7 dpf (6.8 to 7.3 mm TL) when yolk was definitively exhausted. The stomach was the organ that latest achieved its complete differentiation, characterized by the development of abundant gastric glands in the fundic stomach between 10 and 15 dpf (10.9 to 15.8 mm TL) and the formation of the pyloric sphincter at the junction of the pyloric stomach and the anterior intestine at 15 dpf (15.8 mm TL). The above-mentioned morphological and histological features observed suggested the achievement of a digestive system characteristic of P. punctifer juveniles and adults. The ontogeny of the digestive system in P. punctifer followed the same general pattern as in most Siluriform species so far, although some species-specific differences in the timing of differentiation of several digestive structures were noted, which might be related to different reproductive guilds, egg and larval size or even different larval rearing practices. According to present findings on the histological development of the digestive system in P. punctifer, some recommendations regarding the rearing practices of this species are also provided in order to improve the actual larval rearing techniques of this fast-growing Neotropical catfish species.

}, issn = {1751-732X}, doi = {10.1017/S1751731114001797}, author = {Gisbert, E and Moreira, C and Castro-Ruiz, D and Ozt{\"u}rk, S and Fern{\'a}ndez, C and Gilles, S and Jesus Nu{\~n}ez-Rodriguez and Fabrice Duponchelle and Salvador Tello and Renno, J F and Garc{\'\i}a-D{\'a}vila, C and Darias, Maria} } @article {Saint-B{\'e}at2014144, title = {How does the resuspension of the biofilm alter the functioning of the benthos-pelagos coupled food web of a bare mudflat in Marennes-Ol{\'e}ron Bay (NE Atlantic)?}, journal = {Journal of Sea Research}, volume = {92}, year = {2014}, note = {cited By 17}, pages = {144-157}, doi = {10.1016/j.seares.2014.02.003}, url = {https://www.sciencedirect.com/science/article/pii/S138511011400029X}, author = {Saint-B{\'e}at, B. and Christine Dupuy and Agogu{\'e}, H. and Alexandre Carpentier and Chalumeau, J. and Como, S. and David, V. and De Crignis, M. and Duch{\^e}ne, J.-C. and Fontaine, C. and Eric Feunteun and Katell Guizien and Hartmann, H. and Lavaud, J. and S{\'e}bastien Lefebvre and Lefran{\c c}ois, C. and Mallet, C. and Montani{\'e}, H. and Mouget, J.-L. and Francis Orvain and Ory, P. and Pascal, P.-Y. and Radenac, G. and Richard, P. and V{\'e}zina, A.F. and Nathalie Niquil} } @article {4108, title = {An integrated closed system for fish-plankton aquaculture in Amazonian fresh water.}, journal = {Animal}, volume = {8}, year = {2014}, month = {2014 Aug}, pages = {1319-28}, abstract = {

A prototype of an integrated closed system for fish-plankton aquaculture was developed in Iquitos (Peruvian Amazonia) in order to cultivate the Tiger Catfish, Pseudoplatystoma punctifer (Castelnau, 1855). This freshwater recirculating system consisted of two linked sewage tanks with an intensive rearing unit (a cage) for P. punctifer placed in the first, and with a fish-plankton trophic chain replacing the filters commonly used in clear water closed systems. Detritivorous and zooplanktivorous fishes (Loricariidae and Cichlidae), maintained without external feeding in the sewage volume, mineralized organic matter and permitted the stabilization of the phytoplankton biomass. Water exchange and organic waste discharge were not necessary. In this paper we describe the processes undertaken to equilibrate this ecosystem: first the elimination of an un-adapted spiny alga, Golenkinia sp., whose proliferation was favored by the presence of a small rotifer, Trichocerca sp., and second the control of this rotifer proliferation via the introduction of two cichlid species, Acaronia nassa Heckel, 1840 and Satanoperca jurupari Heckel, 1840, in the sewage part. This favored some development of the green algae Nannochloris sp. and Chlorella sp. At that time we took the opportunity to begin a 3-month rearing test of P. punctifer. The mean specific growth rate and feed conversion ratio (FCR) of P. punctifer were 1.43 and 1.27, respectively, and the global FCR, including fish in the sewage part, was 1.08. This system has proven to be suitable for growing P. punctifer juveniles out to adult, and provides several practical advantages compared with traditional recirculating clear water systems, which use a combination of mechanical and biological filters and require periodic waste removal, leading to water and organic matter losses.

}, issn = {1751-732X}, doi = {10.1017/S1751731114001165}, author = {Gilles, S and Ismi{\~n}o, R and S{\'a}nchez, H and Frank David and Jesus Nu{\~n}ez-Rodriguez and Dugu{\'e}, R and Darias, Maria and R{\"o}mer, U} } @article {3598, title = {Interacting Regional Scale Regime Shifts for Biodiversity and Ecosystem Services}, journal = {BioScience}, volume = {64}, year = {2014}, month = {08/2014}, pages = {665-679}, doi = {doi: 10.1093/biosci/biu093}, author = {P. Leadley and V. Proen{\c c}a and Juan F. Fern{\'a}ndez-Manjarr{\'e}s and H.M. Pereira and R. Alkemade and R. Biggs and E. Bruley and W. Cheung and D. Cooper and J. Figueiredo and E. Gilman and S. Gu{\'e}nette and G. Hurtt and C. Mbow and Thierry Oberdorff and C. Revenga and J. Scharlemann and R. Scholes and M. Stafford-Smith and R. Sumaila and M. Walpole} } @article {3413, title = {Interactive effects of irradiance and temperature on growth and domoic acid production of the toxic diatom Pseudo-nitzschia australis (Bacillariophyceae)}, journal = {Harmful Algae}, volume = {39}, year = {2014}, pages = {232-241}, abstract = {The influence of temperature and light on the growth, physiology and domoic acid (DA) production of the pennate toxic diatom Pseudo-nitzschia australis isolated from the English Channel was studied in semicontinuous culture. The effects of eight irradiances (35{\textendash}400 mmol photons m2 s-1) and a temperature gradient (3.5{\textendash}25.5 8C) were investigated. The highest growth rates (0.47{\textendash}0.83 d-1) were observed between 18.6 and 13.5 8C, with an optimum irradiance for growth at 100 mmol photons m2 s-1. A decrease in the optimum growth temperature was observed with an increase in irradiance. Cell chlorophyll a content decreased at both low and high extreme temperatures and high irradiances. Stable and high values of Fv/Fm ratios below 21.8C highlight the great acclimation capacity of P. australis, which may explain its wide biogeographic distribution. The strain studied produced DA without nutrient limitation and during exponential growth although at lower levels than in other studies (0.15{\textendash} 2.0 pg DA cell-1). Results underline the importance of light{\textendash}temperature interactions for growth and DA production. Toxin production increased with increasing temperature and light, and DA production increased exponentially with the growth rate. These results show that DA is not only produced under nutrient stress or by unhealthy cells in P. australis. This study underlines the need to take the ability of P. australis to produce DA during the exponential growth into consideration to understand the link between toxin production and bloom dynamics. These results will not only help explore the processes involved, but also help parameterize future models of growth and DA production especially for P. australis.}, keywords = {Domoic acid, Growth Irradiance, Pseudo-nitzschia australis, Temperature}, author = {Thorel, Maxine and Juliette Fauchot and Morelle, J{\'e}r{\^o}me and Raimbault, V and Le Rou, B and Miossec, C and Kientz-Bouchard, V and Pascal Claquin} } @article {3760, title = {The IPOCAMP pressure incubator for deep-sea fauna}, journal = {J Mar Sci Technol}, volume = {22}, year = {2014}, pages = {97-102}, doi = {10.6119/JMST-013-0718-3 }, url = {https://pdfs.semanticscholar.org/0804/23beebe022c1f0a644738e3ade83632322e8.pdf}, author = {Bruce Shillito and Fran{\c c}oise Gaill and Juliette Ravaux} } @article {3394, title = {The Jumonji gene family in Crassostrea gigas suggests evolutionary conservation of Jmj-C histone demethylases orthologues in the oyster gametogenesis and development.}, journal = {Gene}, volume = {538}, year = {2014}, month = {2014 Mar 15}, pages = {164-75}, abstract = {

Jumonji (Jmj) proteins are histone demethylases, which control the identity of stem cells. Jmj genes were characterized from plants to mammals where they have been implicated in the epigenetic regulation of development. Despite the Pacific oyster Crassostrea gigas representing one of the most important aquaculture resources worldwide, the molecular mechanisms governing the embryogenesis and reproduction of this lophotrochozoan species remain poorly understood. However, annotations in the C. gigas EST library suggested the presence of putative Jumonji genes, raising the question of the conservation of this family of histone demethylases in the oyster. Using Primer walking, 5{\textquoteright}-RACE PCR and in silico analyses, we characterized nine Jumonji orthologues in the oyster, called Cg-Jmj, bearing conserved domains critical for putative histone demethylase activity. Phylogenic analyses revealed that oyster Jumonji cluster into two distinct groups: {\textquoteright}single-domain Jmj{\textquoteright} and {\textquoteright}multi-domain Jmj{\textquoteright}, and define 8 subgroups corresponding to each cognate orthologues in metazoans. RT-qPCR investigations showed specific regulations of Cg-Jmj mRNAs during the early development and along the reproduction cycle. Furthermore, in situ and in toto hybridizations indicate that oyster Jumonji genes are transcribed mostly within the gonad in adult oysters whereas they display a ubiquitous expression during embryonic and larval development. Our study demonstrates the presence of nine Jumonji orthologues in the oyster C. gigas. Their domain conservation and their expression profile suggest an implication during reproduction and development, questioning about the epigenetic regulation by histone methylation in lophotrochozoans.

}, keywords = {Animals, Base Sequence, Conserved Sequence, Crassostrea, Evolution, Molecular, Gametogenesis, Gene Expression Regulation, Developmental, Jumonji Domain-Containing Histone Demethylases, Molecular Sequence Data, Multigene Family, RNA, Messenger}, issn = {1879-0038}, doi = {10.1016/j.gene.2013.12.016}, author = {Alexandre Fellous and Pascal Favrel and Guo, Ximing and Guillaume Rivi{\`e}re} } @article {5819, title = {{Large and local-scale influences on physical and chemical characteristics of coastal waters of Western Europe during winter}}, journal = {Journal of Marine Systems}, volume = {139}, year = {2014}, pages = {79{\textendash}90}, abstract = {

There is now a strong scientific consensus that coastal marine systems of Western Europe are highly sensitive to the combined effects of natural climate variability and anthropogenic climate change. However, it still remains challenging to assess the spatial and temporal scales at which climate influence operates. While large-scale hydro-climatic indices, such as the North Atlantic Oscillation (NAO) or the East Atlantic Pattern (EAP) and the weather regimes such as the Atlantic Ridge (AR), are known to be relevant predictors of physical processes, changes in coastal waters can also be related to local hydro-meteorological and geochemical forcing. Here, we study the temporal variability of physical and chemical characteristics of coastal waters located at about 48{\textdegree}N over the period 1998-2013 using (1) sea surface temperature, (2) sea surface salinity and (3) nutrient concentration observations for two coastal sites located at the outlet of the Bay of Brest and off Roscoff, (4) river discharges of the major tributaries close to these two sites and (5) regional and local precipitation data over the region of interest. Focusing on the winter months, we characterize the physical and chemical variability of these coastal waters and document changes in both precipitation and river runoffs. Our study reveals that variability in coastal waters is connected to the large-scale North Atlantic atmospheric circulation but is also partly explained by local river influences. Indeed, while the NAO is strongly related to changes in sea surface temperature at the Brest and Roscoff sites, the EAP and the AR have a major influence on precipitations, which in turn modulate river discharges that impact sea surface salinity at the scale of the two coastal stations. {\textcopyright} 2014 Elsevier B.V.

}, keywords = {Climate variability, Coastal systems, Large-scale hydro-climatic indices, River inputs, Time-series, Weather regimes}, issn = {09247963}, author = {Paul Tr{\'e}guer and Goberville, Eric and Barrier, Nicolas and St{\'e}phane L{\textquoteright}Helguen and Morin, Pascal and Bozec, Yann and Rimmelin-Maury, Peggy and Czamanski, Marie and Emilie Grossteffan and Cariou, Thierry and R{\'e}p{\'e}caud, Michel and Qu{\'e}m{\'e}ner, Loic} } @article {3631, title = {Looking for the bird Kiss: evolutionary scenario in sauropsids.}, journal = {BMC Evol Biol}, volume = {14}, year = {2014}, month = {2014}, pages = {30}, abstract = {

BACKGROUND: The neuropeptide Kiss and its receptor KissR are key-actors in the brain control of reproduction in mammals, where they are responsible for the stimulation of the activity of GnRH neurones. Investigation in other vertebrates revealed up to 3 Kiss and 4 KissR paralogs, originating from the two rounds of whole genome duplication in early vertebrates. In contrast, the absence of Kiss and KissR has been suggested in birds, as no homologs of these genes could be found in current genomic databases. This study aims at addressing the question of the existence, from an evolutionary perspective, of the Kisspeptin system in birds. It provides the first large-scale investigation of the Kisspeptin system in the sauropsid lineage, including ophidian, chelonian, crocodilian, and avian lineages.

RESULTS: Sauropsid Kiss and KissR genes were predicted from multiple genome and transcriptome databases by TBLASTN. Phylogenetic and syntenic analyses were performed to classify predicted sauropsid Kiss and KissR genes and to re-construct the evolutionary scenarios of both gene families across the sauropsid radiation.Genome search, phylogenetic and synteny analyses, demonstrated the presence of two Kiss genes (Kiss1 and Kiss2 types) and of two KissR genes (KissR1 and KissR4 types) in the sauropsid lineage. These four genes, also present in the mammalian lineage, would have been inherited from their common amniote ancestor. In contrast, synteny analyses supported that the other Kiss and KissR paralogs are missing in sauropsids as in mammals, indicating their absence in the amniote lineage. Among sauropsids, in the avian lineage, we demonstrated the existence of a Kiss2-like gene in three bird genomes. The divergence of these avian Kiss2-like sequences from those of other vertebrates, as well as their absence in the genomes of some other birds, revealed the processes of Kiss2 gene degeneration and loss in the avian lineage.

CONCLUSION: These findings contribute to trace back the evolutionary history of the Kisspeptin system in amniotes and sauropsids, and provide the first molecular evidence of the existence and fate of a Kiss gene in birds.

}, keywords = {Amino Acid Sequence, Animals, Avian Proteins, Biological Evolution, Birds, Humans, Kisspeptins, Molecular Sequence Data, Phylogeny, Receptors, G-Protein-Coupled, Reptiles, Sequence Alignment, Synteny}, issn = {1471-2148}, doi = {10.1186/1471-2148-14-30}, author = {Pasquier, J{\'e}r{\'e}my and Anne-Gaelle Lafont and Karine Rousseau and Qu{\'e}rat, Bruno and Chemineau, Philippe and Sylvie Dufour} } @article {Trancart2014181, title = {Modeling marine shad distribution using data from French bycatch fishery surveys}, journal = {Marine Ecology Progress Series}, volume = {511}, year = {2014}, note = {cited By 6}, pages = {181-192}, doi = {10.3354/meps10907}, url = {http://www.int-res.com/abstracts/meps/v511/p181-192/}, author = {Thomas Trancart and Rochette, S. and Anthony Acou and Lasne, E. and Eric Feunteun} } @article {3211, title = {Molecular evolution of GPCRs: Kisspeptin/kisspeptin receptors.}, journal = {J. Mol. Endocrinol.}, volume = {52}, year = {2014}, pages = {101-117}, author = {Pasquier, J and Kamech, Nedia and Anne-Gaelle Lafont and H Vaudry and Karine Rousseau and Sylvie Dufour} } @article {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 {3397, title = {Neuropeptides encoded by the genomes of the Akoya pearl oyster Pinctata fucata and Pacific oyster Crassostrea gigas: a bioinformatic and peptidomic survey.}, journal = {BMC Genomics}, volume = {15}, year = {2014}, month = {2014}, pages = {840}, abstract = {

BACKGROUND: Oysters impart significant socio-ecological benefits from primary production of food supply, to estuarine ecosystems via reduction of water column nutrients, plankton and seston biomass. Little though is known at the molecular level of what genes are responsible for how oysters reproduce, filter nutrients, survive stressful physiological events and form reef communities. Neuropeptides represent a diverse class of chemical messengers, instrumental in orchestrating these complex physiological events in other species.

RESULTS: By a combination of in silico data mining and peptide analysis of ganglia, 74 putative neuropeptide genes were identified from genome and transcriptome databases of the Akoya pearl oyster, Pinctata fucata and the Pacific oyster, Crassostrea gigas, encoding precursors for over 300 predicted bioactive peptide products, including three newly identified neuropeptide precursors PFGx8amide, RxIamide and Wx3Yamide. Our findings also include a gene for the gonadotropin-releasing hormone (GnRH) and two egg-laying hormones (ELH) which were identified from both oysters. Multiple sequence alignments and phylogenetic analysis supports similar global organization of these mature peptides. Computer-based peptide modeling of the molecular tertiary structures of ELH highlights the structural homologies within ELH family, which may facilitate ELH activity leading to the release of gametes.

CONCLUSION: Our analysis demonstrates that oysters possess conserved molluscan neuropeptide domains and overall precursor organization whilst highlighting many previously unrecognized bivalve idiosyncrasies. This genomic analysis provides a solid foundation from which further studies aimed at the functional characterization of these molluscan neuropeptides can be conducted to further stimulate advances in understanding the ecology and cultivation of oysters.

}, issn = {1471-2164}, doi = {10.1186/1471-2164-15-840}, author = {Stewart, Michael J and Pascal Favrel and Rotgans, Bronwyn A and Wang, Tianfang and Zhao, Min and Sohail, Manzar and O{\textquoteright}Connor, Wayne A and Elizur, Abigail and Jo{\"e}l Henry and Cummins, Scott F} } @article {5053, title = {Parasitic chytrids sustain zooplankton growth during inedible algal bloom}, journal = {Frontiers in microbiology}, volume = {5}, year = {2014}, author = {Rasconi, S and Grami, Boutheina and Nathalie Niquil and Jobard, Marl{\`e}ne and Sime-Ngando, T} } @article {3306, title = {Prophenoloxidase system, lysozyme and protease inhibitor distribution in the common cuttlefish Sepia officinalis}, year = {2014}, author = {Le Pabic, C and Safi, Georges and Antoine Serpentini and Jean-Marc Lebel and Jean-Paul Robin and Sim{\'e}oni Koueta-Noussith{\'e}} } @article {3430, title = {The skeleton of the staghorn coral Acropora millepora: molecular and structural characterization.}, journal = {PLoS One}, volume = {9}, year = {2014}, month = {2014}, pages = {e97454}, abstract = {

The scleractinian coral Acropora millepora is one of the most studied species from the Great Barrier Reef. This species has been used to understand evolutionary, immune and developmental processes in cnidarians. It has also been subject of several ecological studies in order to elucidate reef responses to environmental changes such as temperature rise and ocean acidification (OA). In these contexts, several nucleic acid resources were made available. When combined to a recent proteomic analysis of the coral skeletal organic matrix (SOM), they enabled the identification of several skeletal matrix proteins, making A. millepora into an emerging model for biomineralization studies. Here we describe the skeletal microstructure of A. millepora skeleton, together with a functional and biochemical characterization of its occluded SOM that focuses on the protein and saccharidic moieties. The skeletal matrix proteins show a large range of isoelectric points, compositional patterns and signatures. Besides secreted proteins, there are a significant number of proteins with membrane attachment sites such as transmembrane domains and GPI anchors as well as proteins with integrin binding sites. These features show that the skeletal proteins must have strong adhesion properties in order to function in the calcifying space. Moreover this data suggest a molecular connection between the calcifying epithelium and the skeletal tissue during biocalcification. In terms of sugar moieties, the enrichment of the SOM in arabinose is striking, and the monosaccharide composition exhibits the same signature as that of mucus of acroporid corals. Finally, we observe that the interaction of the acetic acid soluble SOM on the morphology of in vitro grown CaCO3 crystals is very pronounced when compared with the calcifying matrices of some mollusks. In light of these results, we wish to commend Acropora millepora as a model for biocalcification studies in scleractinians, from molecular and structural viewpoints.

}, keywords = {Acetic Acid, Amination, Animals, Anthozoa, Bone and Bones, Calcium Carbonate, Crystallization, Gels, Monosaccharides, Proteins, Solubility, Spectroscopy, Fourier Transform Infrared, Spectrum Analysis, Raman}, issn = {1932-6203}, doi = {10.1371/journal.pone.0097454}, author = {Ramos-Silva, Paula and Kaandorp, Jaap and Herbst, Fr{\'e}d{\'e}ric and Plasseraud, Laurent and Alcaraz, G and Stern, Christine and Corneillat, Marion and Guichard, N and Durlet, Christophe and Gilles Luquet and Marin, F} } @article {3396, title = {Temperature influences histone methylation and mRNA expression of the Jmj-C histone-demethylase orthologues during the early development of the oyster Crassostrea gigas.}, journal = {Mar Genomics}, year = {2014}, month = {2014 Sep 16}, abstract = {

In many groups, epigenetic mechanisms influence developmental gene regulation under environmental inputs. The Pacific oyster Crassostrea gigas belongs to lophotrochozoans and its larval development is highly dependent on temperature, but the role of epigenetic mechanisms in this context is unknown despite high levels of the recently characterized Jumonji histone demethylase (JHDM) orthologues (Cg_Jumonji) suggesting a physiological relevance of histone methylation in the oyster development. Because in other species alterations of the histone methylation pattern have deleterious outcomes, we investigated the influence of temperature during the oyster larval life on histone methylation and JHDM expression. To shed light on this point, oyster embryonic and early larval development experiments were carried out at different temperatures (18{\textdegree}C, 25{\textdegree}C and 32{\textdegree}C). Histone methylation levels were investigated using fluorescent ELISA at 6 and 24h post-fertilization. When compared to the 25{\textdegree}C group, at 18{\textdegree}C H3K4, H3K9 and H3K27 residues were hypomethylated at 6h post fertilization (hpf) and hypermethylated at 24hpf. In contrast, at 32{\textdegree}C, 6hpf animals present a dramatic hypermethylation (ca. 4-fold) of all examined residues, which is minored but sustained at 24hpf. RT-qPCR investigations of the mRNA expression of the nine oyster JHDMs, showed gene- and stage-specific temperature sensitivities throughout the early life of oysters. This study provides evidence of the biological significance of histone methylation during development in a lophotrochozoan species. Our results also indicate that temperature influences histone methylation, possibly through the expression level of putative actors of its regulation, which might participate in developmental control. To our knowledge, this is the first report indicating a direct relationship between an epigenetic mark and an environmental parameter in marine molluscs. Such investigations could help better understand the molecular mechanisms of development and adaptation in lophotrochozoans.

}, issn = {1876-7478}, doi = {10.1016/j.margen.2014.09.002}, author = {Alexandre Fellous and Pascal Favrel and Guillaume Rivi{\`e}re} } @article {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 {3662, title = {{Twenty years of observed and predicted changes in subtidal red seaweed assemblages along a biogeographical transition zone: inferring potential causes from environmental data}}, journal = {Journal of Biogeography}, volume = {41}, year = {2014}, pages = {2293{\textendash}2306}, issn = {03050270}, doi = {10.1111/jbi.12380}, url = {http://doi.wiley.com/10.1111/jbi.12380}, author = {R{\'e}gis Gallon and Robuchon, Marine and Leroy, Boris and Le Gall, L and Valero, Myriam and Eric Feunteun} } @article {3308, title = {A two-stage biomass model to assess the English Channel cuttlefish (Sepia officinalis L.) stock}, journal = {{ICES} Journal of Marine Science: Journal du Conseil}, volume = {05}, year = {2014}, month = {05/2014}, type = {Original Article}, author = {Gras, Michael and Roel, Beatriz A. and Coppin, Franck and Foucher, Eric and Jean-Paul Robin} } @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 {6890, title = {Oyster sex determination is influenced by temperature - First clues in spat during first gonadic differentiation and gametogenesis}, journal = {Comparative Biochemistry and Physiology - Part A: Molecular and Integrative Physiology}, volume = {165}, year = {2013}, pages = {61-69}, keywords = {Oyster spat, Sex determination pathway, Sex ratio, Temperature, TSD}, doi = {10.1016/j.cbpa.2013.02.007}, url = {https://hal-normandie-univ.archives-ouvertes.fr/hal-02296506}, author = {Santerre, Christelle and Sourdaine, Pascal and Marc, Nicolas and Mingant, Christian and Robert, Ren{\'e} and Anne-Sophie Martinez} } @article {7356, title = {Seasonal Variations in Maternal Provisioning of Crepidula fornicata (Gastropoda): Fatty Acid Composition of Females, Embryos and Larvae}, journal = {PLoS ONE}, volume = {8}, year = {2013}, month = {Dec-09-2014}, pages = {e75316}, doi = {10.1371/journal.pone.007531610.137}, url = {https://dx.plos.org/10.1371/journal.pone.0075316}, author = {Leroy, Fanny and Tarik Meziane and Riera, Pascal and Comtet, Thierry}, editor = {Anil, Arga~Chandrashekar} } @article {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 {7346, title = {Role of grapsid crabs, Parasesarma erythrodactyla, in entry of mangrove leaves into an estuarine food web: a mesocosm study}, journal = {Marine Biology}, volume = {156}, year = {2009}, month = {Jan-10-2009}, pages = {2343 - 2352}, issn = {0025-3162}, doi = {10.1007/s00227-009-1262-6}, url = {http://link.springer.com/10.1007/s00227-009-1262-6}, author = {Nerot, Caroline and Tarik Meziane and Provost-Govrich, Anais and Rybarczyk, Herv{\'e} and Lee, S. Yip} } @article {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 {7334, title = {Croissance de juv{\'e}niles de Nereis diversicolor nourris avec des d{\'e}tritus d{\textquoteright}halophytes}, journal = {Oceanologica Acta}, volume = {25}, year = {2002}, month = {Jan-05-2002}, pages = {119 - 124}, issn = {03991784}, doi = {10.1016/S0399-1784(02)01187-8}, url = {https://linkinghub.elsevier.com/retrieve/pii/S0399178402011878}, author = {Tarik Meziane and Retiere, Christian} } @article {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} }