@article {10043,
	title = {Condition assessment and best-practice handling guidelines for skate (Rajiformes) bycatch: Lessons from demersal longline fisheries in the Southern Indian Ocean},
	journal = {Fisheries Research},
	volume = {285},
	year = {2025},
	month = {Jan-05-2025},
	pages = {107357},
	issn = {01657836},
	doi = {10.1016/j.fishres.2025.107357},
	url = {https://www.sciencedirect.com/science/article/pii/S0165783625000943},
	author = {Faure, Johanna and Clara P{\'e}ron and Jones, Rob and Grima, Michael and Appert, Colette and Nicolas Gasco and Lamb, Timothy and Ziegler, Philippe and Cleeland, Jaimie}
}
@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 {9917,
	title = {Automatic identification of the endangered Hawksbill sea turtle behavior using deep learning and cross-species transfer},
	journal = {Journal of Experimental Biology},
	year = {2024},
	month = {Jun-11-2025},
	abstract = {The accelerometer, an onboard sensor, enables remote monitoring of animal posture and movement, allowing researchers to deduce behaviors. Despite the automated analysis capabilities provided by deep learning, data scarcity remains a challenge in ecology. We explored transfer learning to classify behaviors from acceleration data of critically endangered hawksbill sea turtles (Eretmochelys imbricata). Transfer learning reuses a model trained on one task from a large dataset to solve a related task. We applied this method using a model trained on green turtles (Chelonia mydas) and adapted it to identify hawksbill behaviors like swimming, resting, and feeding. We also compared this to a model trained on human activity data. Results showed an 8\% and 4\% F1-score improvement with transfer learning from green turtle and human datasets, respectively. Transfer learning allows researchers to adapt existing models to their study species, leveraging deep learning and expanding the use of accelerometers for wildlife monitoring.},
	issn = {0022-0949},
	doi = {10.1242/jeb.249232},
	url = {https://journals.biologists.com/jeb/article/doi/10.1242/jeb.249232/363012/Automatic-identification-of-the-endangered},
	author = {Jeantet, Lor{\`e}ne and Zondo, Kukhanya and Delvenne, Cyrielle and Martin, Jordan and Chevallier, Damien and Dufourq, Emmanuel}
}
@article {9919,
	title = {A benchmark for computational analysis of animal behavior, using animal-borne tags},
	journal = {Movement Ecology},
	volume = {12},
	year = {2024},
	month = {18/12/2024},
	pages = {1-22},
	keywords = {Accelerometers, animal behavior, Bio-loggers, Machine Learning, Self-supervised Learning, Time series},
	doi = {10.1186/s40462-024-00511-8},
	url = {https://doi.org/10.1186/s40462-024-00511-8},
	author = {Hoffman, Benjamin and Cusimano, Maddie and Baglione, Vittorio and Canestrari, Daniela and Chevallier, Damien and DeSantis, Dominic L. and Jeantet, Lor{\`e}ne and Ladds, Monique A. and Maekawa, Takuya and Mata-Silva, Vicente and Moreno-Gonz{\'a}lez, V{\'\i}ctor and Pagano, Anthony M. and Trapote, Eva and Vainio, Outi and Vehkaoja, Antti and Yoda, Ken and Zacarian, Katherine and Friedlaender, Ari}
}
@article {9683,
	title = {Deciphering environmental forcings in the distribution of meiofauna and nematodes in mangroves of the Atlantic-Caribbean-East Pacific and Indo-West Pacific regions},
	journal = {Science of The Total Environment},
	volume = {930},
	year = {2024},
	month = {Jan-06-2024},
	pages = {172612},
	issn = {00489697},
	doi = {10.1016/j.scitotenv.2024.172612},
	url = {https://www-sciencedirect-com.inee.bib.cnrs.fr/science/article/pii/S004896972402758X?via\%3Dihub},
	author = {Spedicato, Adriana and Zeppilli, Daniela and Thouzeau, G and Cuny, Philippe and Militon, C{\'e}cile and Sylvi, L{\'e}a and C{\'e}dric Hubas and Guillaume Dirberg and J{\'e}z{\'e}quel, Ronan and Barri{\`e}re, Guerric and Michel, Lo{\"\i}c N. and Bezerra, T{\^a}nia Nara and Michaud, Emma}
}
@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 {9685,
	title = {Influence of strains in development of francisellosis in the blue mussel Mytilus edulis during experimental challenges},
	journal = {Aquaculture Reports},
	volume = {36},
	year = {2024},
	month = {Jan-06-2024},
	pages = {102135},
	issn = {23525134},
	doi = {10.1016/j.aqrep.2024.102135},
	url = {https://www.sciencedirect.com/science/article/pii/S2352513424002230},
	author = {Bouras, H{\'e}l{\`e}ne and Quesnelle, Yann and Trancart, Suzanne and Blin, Jean-Louis and Savary, Manuel and Zatylny-Gaudin, C{\'e}line and Houssin, Maryline}
}
@article {9457,
	title = {Intraspecific genetic lineages of a marine mussel show behavioural divergence when exposed to microplastic leachates},
	journal = {Environmental Pollution},
	volume = {340},
	year = {2024},
	month = {2024},
	issn = {ISSN 0269-7491},
	doi = {https://doi.org/10.1016/j.envpol.2023.122779},
	author = {Lorenzo Cozzolino and Nicastro, Katy R. and Hubbard, P C and Seuront, Laurent and Christopher D. McQuaid and Zardi, Gerardo I.}
}
@article {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 {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 {9458,
	title = {The effect of interspecific and intraspecific diversity on microplastic ingestion in two co-occurring mussel species in South Africa},
	journal = {Marine Pollution Bulletin},
	volume = {196},
	year = {2023},
	month = {2023},
	doi = {https://doi.org/10.1016/j.marpolbul.2023.115649},
	author = {Lorenzo Cozzolino and Nicastro, Katy R. and S{\'e}bastien Lefebvre and Luana Corona and Pierre William Froneman and Christopher D. McQuaid and Zardi, Gerardo I.}
}
@article {9459,
	title = {Euendolithic Infestation of Mussel Shells Indirectly Improves the Thermal Buffering Offered by Mussel Beds to Associated Molluscs, but One Size Does Not Fit All},
	journal = {Diversity},
	volume = {15},
	year = {2023},
	month = {2023},
	doi = {https://doi.org/10.3390/d15020239},
	author = {Dievart, Alexia M. and Christopher D. McQuaid and Zardi, Gerardo I. and Nicastro, Katy R. and Pierre William Froneman}
}
@article {9279,
	title = {First isolation of Francisella halioticida strains from blue mussel (Mytilus edulis) in Normandy, France},
	journal = {Journal of Invertebrate Pathology},
	volume = {200},
	year = {2023},
	month = {09/2023},
	pages = {107950},
	issn = {00222011},
	doi = {10.1016/j.jip.2023.107950},
	url = {https://linkinghub.elsevier.com/retrieve/pii/S0022201123000678},
	author = {Bouras, H{\'e}l{\`e}ne and Quesnelle, Yann and Barozet, Alix and Goux, Didier and Blin, Jean-Louis and Savary, Manuel and C{\'e}line Zatylny-Gaudin and Maryline Houssin}
}
@article {9460,
	title = {The Neglected Role of Intraspecific Variation in Plastic Pollution Research},
	journal = {Anthropocene Science},
	volume = {2},
	year = {2023},
	pages = {141-147},
	doi = {https://doi.org/10.1007/s44177-023-00060-6},
	author = {Nicastro, Katy R. and Seuront, Laurent and Lorenzo Cozzolino and Zardi, Gerardo I.}
}
@article {9462,
	title = {Size-dependent response of the mussel collective behaviour to plastic leachates and predator cues},
	journal = {Science of The Total Environment},
	volume = {888},
	year = {2023},
	month = {2023},
	issn = {0048-9697},
	doi = {https://doi.org/10.1016/j.scitotenv.2023.164037},
	author = {Marine Uguen and Sylvie M Gaudron and Nicastro, Katy R. and Zardi, Gerardo I. and Nicolas Spilmont and Seuront, Laurent}
}
@article {9467,
	title = {Structure of planktonic food web in the Gulf of Gab{\`e}s (Southeastern Mediterranean): potential importance of heterotrophic and mixotrophic microzooplankton},
	journal = {Aquatic Sciences},
	volume = {85},
	year = {2023},
	month = {Jan-04-2023},
	issn = {1015-1621},
	doi = {10.1007/s00027-023-00954-y},
	url = {https://link.springer.com/10.1007/s00027-023-00954-y},
	author = {Mejri Kousri, Kaouther and Belaaj Zouari, Amel and Meddeb, Marouan and Chkili, Oumayma and Nathalie Niquil and Tedetti, Marc and Pagano, Marc and Sammari, Cherif and Khammeri, Yosra and Bel Hassen, Malika and Sakka Hlaili, Asma}
}
@article {9463,
	title = {Symbiont-induced phenotypic variation in an ecosystem engineer mediates thermal stress for the associated community},
	journal = {Journal of Thermal Biology},
	volume = {112},
	year = {2023},
	month = {2023},
	issn = {0306-4565},
	doi = {https://doi.org/10.1016/j.jtherbio.2022.103428﻿},
	author = {Zardi, Gerardo I. and Seuront, Laurent and Christopher D. McQuaid and Pierre William Froneman and Nicastro, Katy R.}
}
@article {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 {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 {8726,
	title = {Identification of a New Set of Polypeptidic Sex Pheromones from Cuttlefish (Sepia officinalis)},
	journal = {Marine Biotechnology},
	year = {2022},
	month = {Sep-04-2022},
	issn = {1436-2228},
	doi = {10.1007/s10126-022-10126-y},
	url = {https://link.springer.com/10.1007/s10126-022-10126-y},
	author = {C{\'e}line Zatylny-Gaudin and Corre, Erwan and Zanuttini, Bruno and Endress, Maxime and Bernay, Beno{\^\i}t and Pontin, Julien and Leduc, Alexandre and Jo{\"e}l Henry}
}
@article {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 {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 {8699,
	title = {Spatially explicit food web modelling to consider fisheries impacts and ecosystem representation within Marine Protected Areas on the Kerguelen PlateauAbstract},
	journal = {ICES Journal of Marine Science},
	volume = {79},
	year = {2022},
	month = {Nov-04-2023},
	pages = {1327 - 1339},
	issn = {1054-3139},
	doi = {10.1093/icesjms/fsac056},
	url = {https://academic.oup.com/icesjms/article/79/4/1327/6572845},
	author = {Subramaniam, Roshni C and Corney, Stuart P and Melbourne-Thomas, Jessica and Clara P{\'e}ron and Ziegler, Philippe and Swadling, Kerrie M}
}
@article {8868,
	title = {Structural and Functional Characterization of Orcokinin B-like Neuropeptides in the Cuttlefish (Sepia officinalis)},
	journal = {Marine Drugs},
	volume = {20},
	year = {2022},
	month = {Jan-08-2022},
	pages = {505},
	doi = {10.3390/md20080505},
	url = {https://www.mdpi.com/1660-3397/20/8/505},
	author = {Endress, Maxime and C{\'e}line Zatylny-Gaudin and Leprince, J{\'e}r{\^o}me and Lefranc, Benjamin and Corre, Erwan and Le Corguill{\'e}, Gildas and Bernay, Beno{\^\i}t and Leduc, Alexandre and Rangama, Jimmy and Mouret, Liza and Lafont, Anne-Gaelle and Bondon, Arnaud and Jo{\"e}l Henry}
}
@article {8887,
	title = {Temporal characteristics of plankton indicators in coastal waters: High-frequency data from PlanktonScope},
	journal = {Journal of Sea Research},
	volume = {189},
	year = {2022},
	month = {Jan-11-2022},
	pages = {102283},
	abstract = {Plankton\&nbsp;are excellent indicators of ecosystem status and fisheries because of their pivotal role in marine food webs and their core values in the integrated\&nbsp;ecosystem assessment\&nbsp;(IEA). Monitoring plankton is essential to understand their dynamics and underlying processes. Recent advances in imaging technologies have enabled in situ, high-frequency, real-time observations of plankton in coastal waters. While high-frequency plankton time series have provided unprecedented fundamental information about physical and biological processes, understanding and identifying the underlying mechanisms that influence plankton dynamic remains a major challenge. We use high-frequency plankton data from PlanktonScope as an example to examine the impacts of physical and biological processes on plankton dynamics at different temporal scales. Frequency patterns were identified for both environmental factors and different plankton groups that matched in time. Using logistic regression models on the selected daily peaks for different plankton groups, we found that diurnal cycle,\&nbsp;monsoon\&nbsp;season, and major\&nbsp;episodic events, such as\&nbsp;typhoons, had major impacts on the dynamics of plankton, as proxied by our indicators. We further synthesized, across multiple spatiotemporal scales in the study area, the impacts of various processes on plankton with different mobility. Our study demonstrates that the suite of plankton indicators simultaneously generated from PlanktonScope provides a robust holistic view of\&nbsp;pelagic ecosystem\&nbsp;status over a broad range of spatiotemporal scales. In situ imaging systems like PlanktonScope are promising tools for near real-time plankton monitoring and a deep understanding of plankton dynamics.},
	issn = {13851101},
	doi = {10.1016/j.seares.2022.102283},
	url = {https://linkinghub.elsevier.com/retrieve/pii/S1385110122001216},
	author = {Bi, Hongsheng and Song, Junting and Zhao, Jian and Liu, Hui and Cheng, Xuemin and Wang, Linlin and Cai, Zhonghua and Benfield, Mark C. and Otto, Saskia and Goberville, Eric and Keister, Julie and Yang, Yong and Yu, Xinglong and Cai, Jun and Ying, Kezhen and Alessandra Conversi}
}
@article {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 {8357,
	title = {Development of robust assessment methods and harvest strategies for spatially complex, multi-jurisdictional toothfish fisheries in the Southern Ocean},
	year = {2021},
	month = {2021},
	pages = {266 pp},
	institution = {Fisheries Research and Development Corporation Project n{\textdegree}2013/013},
	type = {Final report},
	url = {http://ecite.utas.edu.au/143108},
	author = {Philippe Ziegler and Burch, Paul and Clara P{\'e}ron and Welsford, Dirk and Bryn, Farmer and Yates, Peter and Potts, J. and Woodcock, Emma and Barnes, T. and Guy Duhamel and Gardner, C.}
}
@article {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 = {<p>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.</p>
},
	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 {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 {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 {8446,
	title = {Involvement of RFamide neuropeptides in polyp contraction of the adult scleractinian corals Euphyllia ancora and Stylophora pistillata},
	journal = {General and Comparative Endocrinology},
	volume = {314},
	year = {2021},
	month = {Jan-12-2021},
	pages = {113905},
	issn = {00166480},
	doi = {10.1016/j.ygcen.2021.113905},
	url = {https://linkinghub.elsevier.com/retrieve/pii/S0016648021001982},
	author = {Zhang, Yan and Shikina, Shinya and Ho, Yu-Ying and Chiu, Yi-Ling and I-Chen Yao, Jack and C{\'e}line Zatylny-Gaudin and Sylvie Dufour and Chang, Ching-Fong}
}
@article {8445,
	title = {Marine Transcriptomic Analysis for the Identification of New Antimicrobial Peptides},
	journal = {Marine Drugs},
	volume = {19},
	year = {2021},
	month = {Jan-09-2021},
	pages = {490},
	doi = {10.3390/md19090490},
	url = {https://www.mdpi.com/1660-3397/19/9/490},
	author = {Houyvet, Baptiste and Bouchon-Navaro, Yolande and Bouchon, Claude and Corre, Erwan and C{\'e}line Zatylny-Gaudin}
}
@article {8347,
	title = {Multi-trophic markers illuminate the understanding of the functioning of a remote, low coral cover Marquesan coral reef food web},
	journal = {Scientific Reports},
	volume = {11},
	year = {2021},
	month = {Jan-12-2021},
	abstract = {We studied the food web structure and functioning of a coral reef ecosystem in the Marquesas Islands, French Polynesia, characterized by low coral cover, high sea surface temperature and meso- to eutrophic waters. The Marquesas constitute a relevant ecosystem to understand the functioning of low diversity reefs that are also subject to global change. A multi-tracer assessment of organic matter pathways was run to delineate ecosystem functioning, using analysis of fatty acids, bulk and compound specific stable isotope analysis and stable isotopes mixing models. Macroalgae and phytoplankton were the two major food sources fueling this food web with, however, some marked seasonal variations. Specifically, zooplankton relied on phytoplankton-derived organic matter and herbivorous fishes on macroalgae-derived organic matter to a much higher extent in summer than in winter (~ 75\%\&nbsp;vs. ~ 15\%, and ~ 70 to 75\%\&nbsp;vs. ~ 5 to 15\%, respectively) . Despite remarkably high δ15N values for all trophic compartments, likely due to local dynamics in the nitrogen stock, trophic levels of consumers were similar to those of other coral reef ecosystems. These findings shed light on the functioning of low coral cover systems, which are expected to expand worldwide under global change.},
	doi = {10.1038/s41598-021-00348-w},
	url = {https://www.nature.com/articles/s41598-021-00348-w},
	author = {Fey, Pauline and Parravicini, Valeriano and B{\u a}naru, Daniela and Dierking, Jan and Galzin, Ren{\'e} and Lebreton, Beno{\^\i}t and Tarik Meziane and Polunin, Nicholas V. C. and Zubia, Mayalen and Letourneur, Yves}
}
@article {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 {8420,
	title = {Quantifying Cyanothece growth under DIC limitation},
	journal = {Computational and Structural Biotechnology Journal},
	year = {2021},
	month = {Jan-11-2021},
	issn = {20010370},
	doi = {10.1016/j.csbj.2021.11.036},
	url = {https://linkinghub.elsevier.com/retrieve/pii/S2001037021005018},
	author = {Inomura, Keisuke and Masuda, Takako and Eichner, Meri and Rabouille, Sophie and Zav{\v r}el, Tomas and {\v C}erven{\'y}, Jan and Vancov{\'a}, Marie and Bern{\'a}t, Gabor and Armin, Gabrielle and Pascal Claquin and Kotabov{\'a}, Eva and Stephan, Susanne and Suggett, David J. and Deutsch, Curtis and Pr{\'a}{\v s}il, Ondrej}
}
@article {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 {6654,
	title = {Assessing the impact of toothed whale depredation on socio-ecosystems and fishery management in wide-ranging subantarctic fisheries},
	journal = {Reviews in Fish Biology and Fisheries},
	volume = {30},
	year = {2020},
	pages = {203-217},
	abstract = {Marine predators feeding on fisheries catches directly on the fishing gear, a behaviour termed {\textquotedblleft}depredation{\textquotedblright}, has emerged as a major human-wildlife conflict globally, often resulting in substantial socio-economic and ecological impacts. This study investigated the extent of this conflict in commercial Patagonian toothfish (Dissostichus eleginoides) fisheries across subantarctic waters where both killer whales (Orcinus orca) and sperm whales (Physeter macrocephalus) feed on toothfish caught on longline hooks. Using long-term datasets from six major fishing areas, from southern Chile to the Indian Ocean sector of the Southern Ocean, statistical models were developed to quantify the catch removals due to whale depredation interactions. The results indicated that these removals were large, totalling more than 6600 t of toothfish between 2009 and 2016 with an annual mean of 837 t [95\% CI 480{\textendash}1195 t], comprised of 317 t [232{\textendash}403 t] and 518 t [247{\textendash}790 t] removed by killer whales and sperm whales, respectively. Catch removals greatly varied between areas, with the largest estimates found at Crozet, where on average 279 t [179{\textendash}379 t] of toothfish per year, equivalent to 30\% [21{\textendash}37\%] of the total catches. Together, these findings provide metrics to assess the impacts of depredation interactions on the fishing industry, whale populations, fish stocks and associated ecosystems. With an estimated $15\&nbsp;M USD worth of fish depredated every year, this study highlights the large geographic scale and economic significance of the depredation issue and its potential to compromise the viability of some toothfish fisheries which are the primary socio-economic activity in subantarctic regions.},
	doi = {10.1007/s11160-020-09597-w},
	url = {https://link.springer.com/article/10.1007/s11160-020-09597-w},
	author = {Tixier, Paul and Burch, Paul and Massiot-Granier, F{\'e}lix and Ziegler, Philippe and Welsford, Dirk and Lea, Mary-Anne and Hindell, Mark A and Guinet, Christophe and Wotherspoon, Simon and Nicolas Gasco and Clara P{\'e}ron and Guy Duhamel and Arangio, Rhys and Tascheri, Renzo and Somhlaba, Sobahle and Arnould, John P. Y.}
}
@article {7047,
	title = {Biodiversity inventory of the grey mullets (Actinopterygii: Mugilidae) of the Indo-Australian Archipelago through the iterative use of DNA-based species delimitation and specimen assignment methods},
	journal = {Evolutionary Applications},
	year = {2020},
	month = {Nov-02-2020},
	abstract = {DNA barcoding opens new perspectives on the way we document biodiversity. Initially proposed to circumvent the limits of morphological characters to assign unknown individuals to known species, DNA barcoding has been used in a wide array of studies where collecting species identity constitutes a crucial step. The assignment of unknowns to knowns assumes that species are already well identified and delineated, making the assignment performed reliable. Here, we used DNA-based species delimitation and specimen assignment methods iteratively to tackle the inventory of the Indo-Australian Archipelago grey mullets, a notorious case of taxonomic complexity that requires DNA-based identification methods considering that traditional morphological identifications are usually not repeatable and sequence mislabeling is common in international sequence repositories. We first revisited a DNA barcode reference library available at the global scale for Mugilidae through different DNA-based species delimitation methods to produce a robust consensus scheme of species delineation. We then used this curated library to assign unknown specimens collected throughout the Indo-Australian Archipelago to known species. A second iteration of OTU delimitation and specimen assignment was then performed. We show the benefits of using species delimitation and specimen assignment methods iteratively to improve the accuracy of specimen identification and propose a workflow to do so.},
	keywords = {Coral Triangle, Cryptic diversity, DNA barcoding, reference library, taxonomic gap},
	issn = {1752-4571},
	doi = {10.1111/eva.12926},
	url = {https://onlinelibrary.wiley.com/doi/abs/10.1111/eva.12926},
	author = {Delrieu-Trottin, Erwan and Durand, Jean-Dominique and Limmon, Gino and Sukmono, Tedjo and Kadarusman and Sugeha, Hagi Yulia and Chen, Wei-Jen and Busson, Frederic and Borsa, Philippe and Dahruddin, Hadi and Sauri, Sopian and Fitriana, Yuli and Zein, Mochamad Syamsul Arifin and Hocd{\'e}, R{\'e}gis and Pouyaud, Laurent and Philippe Keith and Wowor, Daisy and Steinke, Dirk and Hanner, Robert and Hubert, Nicolas}
}
@article {7101,
	title = {A database of freshwater fish species of the Amazon Basin},
	journal = {Scientific data},
	volume = {7},
	year = {2020},
	pages = {1{\textendash}9},
	url = {https://www.nature.com/articles/s41597-020-0436-4},
	author = {J{\'e}z{\'e}quel, C{\'e}line and Tedesco, Pablo A and Bigorne, Remy and Maldonado-Ocampo, Javier A and Ortega, Hernan and Hidalgo, Max and Martens, Koen and Torrente-Vilara, Gislene and Zuanon, Jansen and Acosta, Astrid and others}
}
@article {7046,
	title = {Disentangling the taxonomy of the subfamily Rasborinae (Cypriniformes, Danionidae) in Sundaland using DNA barcodes},
	journal = {Scientific Reports},
	volume = {10},
	year = {2020},
	month = {Jan-12-2020},
	abstract = {iodiversity hotspots have provided useful geographic proxies for conservation efforts. Delineated from a few groups of animals and plants, biodiversity hotspots do not reflect the conservation status of freshwater fishes. With hundreds of new species described on a yearly basis, fishes constitute the most poorly known group of vertebrates. This situation urges for an acceleration of the fish species inventory through fast and reliable molecular tools such as DNA barcoding. The present study focuses on the freshwater fishes diversity in the Sundaland biodiversity hotspot in Southeast Asia. Recent studies evidenced large taxonomic gaps as well as unexpectedly high levels of cryptic diversity, particularly so in the islands of Java and Bali. The Cypriniformes genera Rasbora and Nemacheilus account for most of the endemic species in Java and Bali, however their taxonomy is plagued by confusion about species identity and distribution. This study examines the taxonomic status of the Rasbora and Nemacheilus species in Java, Bali and Lombok islands through DNA barcodes, with the objective to resolve taxonomic confusion and identify trends in genetic diversity that can be further used for conservation matters. Several species delimitation methods based on DNA sequences were used and confirmed the status of most species, however several cases of taxonomic confusion and two new taxa are detected. Mitochondrial sequences argue that most species range distributions currently reported in the literature are inflated due to erroneous population assignments to the species level, and further highlight the sensitive conservation status of most Rasbora and Nemacheilus species on the islands of Java, Bali and Lombok.},
	keywords = {Conservation genetics, Cryptic diversity, Population fragmentation, Southeast Asia, taxonomy},
	doi = {10.1038/s41598-020-59544-9},
	url = {http://www.nature.com/articles/s41598-020-59544-9},
	author = {Sholihah, Arni and Delrieu-Trottin, Erwan and Sukmono, Tedjo and Dahruddin, Hadi and Risdawati, Renny and Elvyra, Roza and Wibowo, Arif and Kustiati, Kustiati and Busson, Frederic and Sauri, Sopian and Nurhaman, Ujang and Dounias, Edmond and Zein, Muhamad Syamsul Arifin and Fitriana, Yuli and Utama, Ilham Vemendra and Muchlisin, Zainal Abidin and Agn{\`e}se, Jean-Fran{\c c}ois and Hanner, Robert and Wowor, Daisy and Steinke, Dirk and Philippe Keith and R{\"u}ber, Lukas and Hubert, Nicolas}
}
@article {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 {7035,
	title = {Identification and structural characterization of the factors involved in vitellogenesis and its regulation in the African Osteoglossiforme of aquacultural interest Heterotis niloticus (Cuvier, 1829)},
	journal = {General and Comparative Endocrinology},
	year = {2020},
	month = {Jan-06-2020},
	pages = {113532},
	issn = {00166480},
	doi = {10.1016/j.ygcen.2020.113532},
	url = {https://linkinghub.elsevier.com/retrieve/pii/S0016648020302859},
	author = {Daniel Koua, N{\textquoteright}Zi and Jesus Nu{\~n}ez-Rodriguez and Orjuela, Julie and C{\'e}line Zatylny-Gaudin and Dubos, Marie-Pierre and Bernay, Beno{\^\i}t and Pontin, Julien and Corre, Erwan and Henry, Jo{\"e}l}
}
@article {7656,
	title = {In-Depth In Silico Search for Cuttlefish Antimicrobial Peptides Following Bacterial Challenge of Haemocytes},
	journal = {Marine Drugs},
	volume = {18},
	year = {2020},
	month = {Jan-09-2020},
	pages = {439},
	doi = {10.3390/md18090439},
	url = {https://www.mdpi.com/1660-3397/18/9/439},
	author = {Benoist, Louis and Houyvet, Baptiste and Henry, Jo{\"e}l and Corre, Erwan and Zanuttini, Bruno and C{\'e}line Zatylny-Gaudin}
}
@article {7023,
	title = {Involvement of GLWamide neuropeptides in polyp contraction of the adult stony coral Euphyllia ancora},
	journal = {Scientific Reports},
	volume = {10},
	year = {2020},
	month = {Jan-12-2020},
	abstract = {The existence and function of neurons remain largely unexplored in scleractinian corals. To gain a better understanding of neuronal functions in coral physiology, this study focused on Glycine-Leucine-Tryptophan-amide family neuropeptides (GLWamides), which have been shown to induce muscle contraction and larval metamorphosis in other cnidarians. Molecular identification and functional characterization of GLWamides in the adult stony coral\&nbsp;Euphyllia ancora\&nbsp;were performed. We successfully elucidated the full-length cDNA of GLWamide preprohormone in\&nbsp;E. ancora\&nbsp;(named EaGLW preprohormone). The deduced amino acid sequence was predicted to contain six potential GLWamide peptides. Tissue distribution analysis demonstrated that transcripts of\&nbsp;EaGLW preprohormone\&nbsp;were mainly expressed in the mouth (including the pharynx) and tentacles of the polyps. Immunodetection with an anti-GLWamide monoclonal antibody revealed that GLWamide neurons were mainly distributed in the epidermis of the mouth region and tentacle, in agreement with the distribution patterns of the transcripts. Treatment of the isolated mouth and tentacles with synthetic GLWamide peptides induced the contraction of these isolated tissues. Treatment of polyps with synthetic GLWamide peptides induced the contraction of polyps. These results suggest that GLWamides are involved in polyp contraction (myoactivity) in adult scleractinians. Our data provide new information on the physiological function of neuropeptides in scleractinians.},
	doi = {10.1038/s41598-020-66438-3},
	url = {http://www.nature.com/articles/s41598-020-66438-3},
	author = {Shikina, Shinya and Chiu, Yi-Ling and Zhang, Yan and Yi-ChenYao and Liu, Tai-Yu and Tsai, Pin-Hsuan and C{\'e}line Zatylny-Gaudin and Chang, Ching-Fong}
}
@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 {7655,
	title = {-Omic Analysis of the Sepia officinalis White Body: New Insights into Multifunctionality and Haematopoiesis Regulation},
	journal = {Journal of Proteome Research},
	volume = {19},
	year = {2020},
	month = {Jul-08-2020},
	pages = {3072 - 3087},
	issn = {1535-3893},
	doi = {10.1021/acs.jproteome.0c0010010.1021/acs.jproteome.0c00100.s00110.1021/acs.jproteome.0c00100.s002},
	url = {https://pubs.acs.org/doi/10.1021/acs.jproteome.0c00100},
	author = {Benoist, Louis and Corre, Erwan and Bernay, Beno{\^\i}t and Henry, Jo{\"e}l and C{\'e}line Zatylny-Gaudin}
}
@article {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;\&nbsp;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 {9389,
	title = {Respective contribution of urban wastewater and mangroves on nutrient dynamics in a tropical estuary during the monsoon season},
	journal = {Marine Pollution Bulletin},
	volume = {160},
	year = {2020},
	pages = {111652},
	abstract = {Estuaries of Southeast Asia are increasingly impacted by land-cover changes and pollution. Here, our research objectives were to (1) determine the origins of nutrient loads along the Can Gio estuary (Vietnam) and (2) identify the processes that affect the nutrient pools during the monsoon. We constructed four 24-h time-series along the salinity gradient measuring nutrient concentrations and stable isotopes values. In the upper estuary, urban effluents from Ho Chi Minh City were the main input of nutrients, leading to dissolved oxygen satura- tion \&lt; 20\%. In the lower estuary, ammonium and nitrite concentration peaks were explained by mangrove export. No contribution from aquaculture was detected, as it represents \&lt; 0.01\% of the total river discharge. Along the salinity gradient, nutrient inputs were rapidly consumed, potentially by phytoplankton while nitrate dual-stable isotopes indicated that nitrification occurred. Thus, even in a large and productive estuary, urban wastewater can affect nutrient dynamics with potentially important ecological risks.},
	issn = {0025326X},
	doi = {10.1016/j.marpolbul.2020.111652},
	url = {https://linkinghub.elsevier.com/retrieve/pii/S0025326X20307700},
	author = {Taillardat, Pierre and Marchand, Cyril and Friess, Daniel A. and Widory, David and Frank David and Ohte, Nobuhito and Nakamura, Takashi and Van Vinh, Truong and Thanh-Nho, Nguyen and Ziegler, Alan D.}
}
@article {7540,
	title = {Rimicaris exoculata: biology and ecology of a shrimp from deep-sea hydrothermal vents associated with ectosymbiotic bacteria},
	journal = {Marine Ecology Progress Series},
	volume = {652},
	year = {2020},
	month = {Mar-10-2021},
	pages = {187 - 222},
	abstract = {Rimicaris exoculata, the {\textquoteleft}blind shrimp,{\textquoteright} is the most abundant species living on active hydrothermal edifices at deep-sea vents of the Mid-Atlantic Ridge. Its unusually enlarged branchial chamber houses a dense ectosymbiotic community of chemoautotrophic bacteria. Long debated, shrimp nutrition has been proven to be a kind of osmotrophy, whereby small organic molecules produced by the symbionts pass through the integument of the shrimp directly into the circulatory system, rather than through the digestive system. The broad phylogenetic and metabolic diversity of this epibiotic community suggests a highly flexible and adjustable microbial consortium, adapted to the chemically contrasting environments inhabited by the shrimp. To cope with the highly fluctuating oxygen and temperature conditions of its habitat, R. exoculata possesses hemocyanin with a strong oxygen affinity, and has developed both molecular and behavioral responses to heat stresses. If R. exoculata is able to detect very dim light or chemical compounds emitted by vents, the relatively small visual and olfactory areas in the brain, along with the disproportionately enlarged higher centers, argue for a significant involvement of navigational skills using learning and place memory to orient itself within its aphotic environment. This shrimp undergoes unconventional larval development, with a primary lecithotrophic stage followed by an extended planktotrophic period, allowing a huge potential for dispersion. In light of mining licenses posing a threat for deep-sea environments, this species is a model still to be studied to better understand life in extreme deep-sea ecosystems at the global scale of an ocean.},
	issn = {0171-8630},
	doi = {10.3354/meps13467},
	url = {https://www.int-res.com/abstracts/meps/v652/p187-222/},
	author = {Magali Zbinden and Cambon-Bonavita, MA}
}
@article {7000,
	title = {Sources of organic matter in an atypical phytoplankton rich coral ecosystem, Marquesas Islands: composition and properties},
	journal = {Marine Biology},
	volume = {167},
	year = {2020},
	month = {Jan-07-2020},
	abstract = {The purpose of this work is to characterize several potential sources of organic matter (OM) in the Marquesas Islands, French Polynesia, and to understand how these sources contribute to OM pools. Stable isotope (δ13C and δ15N) and fatty acid (FA) compositions of OM potential sources (algal turf, benthic macroalgae, detrital terrestrial plants (DTP), phytoplankton) and OM pools (sediment (SOM) and particulate organic matter (POM)) were studied in coastal areas in Nuku Hiva Island. Isotope compositions of marine POM (δ13C = -22.5 {\textpm} 0.8 {\textperthousand}; δ15N = 12.1 {\textpm} 1.1 {\textperthousand}) and SOM (δ13C = -19.1 {\textpm} 0.9 {\textperthousand}; δ15N = 14.4 {\textpm} 0.5 {\textperthousand}) highlighted that OM sources at the base of the local food web had unusually high δ15N values. Potential FA markers of diatoms and/or cyanobacteria (20:5ω3 and 16:1ω7) were found in these two OM pools. In addition, coastal SOM also displayed FA markers of bacteria, macroalgae and terrestrial plants. Formarine POM, potential macroalgae FA markers were recorded (18:2ω6 and 16:2ω4). The stable isotope mixing model highlighted the major contribution of phyto-plankton to the coastal SOM (62\%), followed by benthic macroalgae (32\%), whereas marine POM was mainly composed of a mixture of algal turf and phytoplankton in similar averaged proportions (38\%) but presenting wide variations. Our results as a whole strongly suggest that pelagic-benthic coupled processes drive the characteristics and properties of OM sources.},
	issn = {0025-3162},
	doi = {10.1007/s00227-020-03703-z},
	url = {http://link.springer.com/10.1007/s00227-020-03703-z},
	author = {Fey, P. and Parravicini, V. and Lebreton, B. and Tarik Meziane and Ren{\'e} Galzin and Zubia, M. and Bӑnaru, D. and Letourneur, Y.}
}
@article {7565,
	title = {Time-Dynamic Food Web Modeling to Explore Environmental Drivers of Ecosystem Change on the Kerguelen Plateau},
	journal = {Frontiers in Marine Science},
	volume = {7},
	year = {2020},
	pages = {641},
	abstract = {Understanding the impacts of climate and fishing on marine systems is important for ecosystem-based management in the Southern Ocean, but can be difficult to evaluate due to patchy data in space and time. We developed the first time-dynamic food web model for the Kerguelen Plateau using Ecopath with Ecosim to explore likely drivers of change in this relatively data-poor region. The Kerguelen Plateau is located at the centre of intersecting frontal systems and is inhabited by one of the largest populations of the commercially important Patagonian toothfish. We used this model to evaluate the environmental and human drivers of food web dynamics in the region by calibrating it with French and Australian fisheries data from 1997{\textendash}2018 and biomass data for the period 1986{\textendash}2018. Fishing was not identified as a driver of food web dynamics within this model, which could indicate that current management strategies are sustainable. A correlation analysis with environmental parameters likely to drive food web dynamics (sea surface temperature, zonal wind, Southern Annular Mode and chlorophyll a concentration) highlighted cool sea surface temperature, higher zonal wind speeds and negative phases of the Southern Annular Mode as important drivers of change, particularly during the summer. As the Southern Ocean is predicted to warm and winds are expected to intensify under future climate change, our study illustrates the importance of considering environmental change in ecosystem management.},
	issn = {2296-7745},
	doi = {10.3389/fmars.2020.00641},
	url = {https://www.frontiersin.org/article/10.3389/fmars.2020.00641},
	author = {Subramaniam, Roshni C. and Melbourne-Thomas, Jessica and Corney, Stuart P. and Alexander, Karen and Clara P{\'e}ron and Ziegler, Philippe and Swadling, Kerrie M.}
}
@article {9384,
	title = {Assessing nutrient dynamics in mangrove porewater and adjacent tidal creek using nitrate dual-stable isotopes: A new approach to challenge the Outwelling Hypothesis?},
	journal = {Marine Chemistry},
	volume = {214},
	year = {2019},
	pages = {103662},
	abstract = {The importance of mangrove-derived material in sustaining coastal food webs (i.e. the Outwelling Hypothesis) is often invoked in support of mangroves conservation. Biogeochemical cycling, particularly nitrogen (N) and phosphorus (P) in mangrove ecosystems, however, is poorly understood because of high spatial heterogeneity and temporal variability of sources, sinks, and transformation pathways. Here we show that the distribution of N and P are intimately related to vegetation distribution, tidal cycles, and seasonality. We examined the dynamics of N and P in sediments and in a tidal creek of the Can Gio Mangrove Forest, Vietnam. Our objectives were to (1) determine the spatial distribution of dissolved inorganic nitrogen and phosphorus in the mangrove forest along a Rhizophora-Avicennia-mudflat transect; and (2) identify the respective inputs and transformation pathways of N and P in the water column via 24-h time series measurements in a tidal creek. Sediment porewater had N-NH4+ and N-NO3- concentrations \&lt; 11 μM, except in the mudflat where N-NH4+ was as high as 162 μM. This difference was likely due to N-NH4+ uptake by trees in the vegetated areas and suggests that mangrove sediments can be a zone of NH4+ production via ammonification of organic nitrogen. In all stands, P-PO43- concentrations were three-fold higher during the wet season, with a maximum of 34.4 μM. This can be explained by enhanced microbial activity during the rainy season. The phosphorus seasonal trend was also observed in the creek water but with a maximum P-PO43- value of 4.3 μM only. In the tidal creek, NNH4+ was highly variable (0 to 51 μM), with the higher values measured at low tide and related to porewater discharge from the mudflat. Our data suggest that mangroves act both as a sink of dissolved inorganic nutrients via vegetation uptake and a source of ammonium from unvegetated mudflat porewater towards the tidal creek. The dual stable isotopes approach (δ15NNO3 \&amp; δ18ONO3) revealed that this ammonium was later nitrified within the water column. Moreover, the approach showed that some nitrate originated from the river-estuarine system during rising tides. The export of ammonium from mangrove porewater is presumably entirely consumed before exiting the tidal creek, thereby limiting the spatial extent of mangrove Outwelling. Nevertheless, our multi-isotope approach leads us to conclude that nutrients recycling via mangrove-derived organic matter mineralization may play a fundamental role in sustaining coastal food web.},
	issn = {03044203},
	doi = {10.1016/j.marchem.2019.103662},
	url = {https://linkinghub.elsevier.com/retrieve/pii/S0304420319300489},
	author = {Taillardat, Pierre and Ziegler, Alan D. and Friess, Daniel A. and Widory, David and Frank David and Ohte, Nobuhito and Nakamura, Takashi and Evaristo, Jaivime and Thanh-Nho, Nguyen and Van Vinh, Truong and Marchand, Cyril}
}
@article {5597,
	title = {Behavior of Antimicrobial Peptide K4 in a Marine Environment.},
	journal = {Probiotics Antimicrob Proteins},
	volume = {11},
	year = {2019},
	pages = {676-686.},
	abstract = {<p>K4 is a de novo peptide with antibacterial activity on human pathogens. It has a short sequence (14 amino acids), with a cationic N-terminal moiety and an amphipathic ɑ-helix structure. The present paper demonstrates its activity on Vibrio bacteria in a marine environment. It was found non-toxic on marine organisms including Artemia salina, Dicentrarchus labrax, and Magallana gigas at different developmental stages, but influenced the growth of unicellular organisms like microalgae, depending on the algal strain and on K4 concentration. Furthermore, an original approach coupling liquid chromatography (RP-HPLC) and mass spectrometry (MS/MS) allowed us to monitor the degradation time course of the peptide for the first time in conditions close to a hatchery environment, i.e., in the presence of oyster spat. We detected truncated forms over time, and the full K4 was gradually no longer found in these filter-feeder oysters. Finally, using an automated optical density meter, we monitored the growth of several aquatic bacteria identified as pathogenic on animals. K4 had a bactericidal effect on Aeromonas salmonicida and Vibrio splendidus LGP32 at concentrations below 45\&nbsp;μg\&nbsp;mL-1. Our results show that K4 could be an environment-friendly alternative to antibiotics, non-toxic to several marine organisms. The use of K4 would be particularly useful to decrease the bacterial load associated with food intake in the early developmental stages of marine animals reared in hatcheries</p>
},
	doi = {10.1007/s12602-018-9454-3},
	author = {Houyvet, Baptiste and Leduc, Alexandre and Cornet, Val{\'e}rie and Pontin, Julien and Bernay, Beno{\^\i}t and Jo{\"e}l Henry and Vetois, Emilie and C{\'e}line Zatylny-Gaudin}
}
@article {6452,
	title = {Decreased thermal tolerance under recurrent heat stress conditions explains summer mass mortality of the blue mussel Mytilus edulis},
	journal = {Scientific Reports},
	volume = {9},
	year = {2019},
	pages = {17498},
	abstract = {<p>Extreme events such as heat waves have increased in frequency and duration over the last decades. Under future climate scenarios, these discrete climatic events are expected to become even more recurrent and severe. Heat waves are particularly important on rocky intertidal shores, one of the most thermally variable and stressful habitats on the planet. Intertidal mussels, such as the blue mussel Mytilus edulis, are ecosystem engineers of global ecological and economic importance, that occasionally suffer mass mortalities. This study investigates the potential causes and consequences of a mass mortality event of M. edulis that occurred along the French coast of the eastern English Channel in summer 2018. We used an integrative, climatological and ecophysiological methodology based on three complementary approaches. We first showed that the observed mass mortality (representing 49 to 59\% of the annual commercial value of local recreational and professional fisheries combined) occurred under relatively moderate heat wave conditions. This result indicates that M. edulis body temperature is controlled by non-climatic heat sources instead of climatic heat sources, as previously reported for intertidal gastropods. Using biomimetic loggers (i.e. {\textquoteright}robomussels{\textquoteright}), we identified four periods of 5 to 6 consecutive days when M. edulis body temperatures consistently reached more than 30 {\textdegree}C, and occasionally more than 35 {\textdegree}C and even more than 40 {\textdegree}C. We subsequently reproduced these body temperature patterns in the laboratory to infer M. edulis thermal tolerance under conditions of repeated heat stress. We found that thermal tolerance consistently decreased with the number of successive daily exposures. These results are discussed in the context of an era of global change where heat events are expected to increase in intensity and frequency, especially in the eastern English Channel where the low frequency of commercially exploitable mussels already questions both their ecological and commercial sustainability.</p>
},
	issn = {2045-2322},
	doi = {10.1038/s41598-019-53580-w},
	url = {https://doi.org/10.1038/s41598-019-53580-w},
	author = {Seuront, Laurent and Nicastro, Katy R. and Zardi, Gerardo I. and Goberville, Eric}
}
@article {6805,
	title = {Modern drought conditions in western Sahel unprecedented in the past 1600~years},
	journal = {Climate Dynamics},
	volume = {52},
	year = {2019},
	month = {Jan-02-2019},
	pages = {1949 - 1964},
	abstract = {As climate model uncertainties remain very large for future rainfall in the Sahel, a multi-centennial perspective is required to assess the situation of current Sahel climate in the context of global warming. We present here the first record of hydroclimatic variability over the past 1600\&nbsp;years in Senegal, obtained from stable oxygen isotope analyses (δ18O) in archaeological shell middens from the Saloum Delta. During the preindustrial period, the region was relatively humid, with maximum humidity reached during the period from AD 1500 to AD 1800, referred to as the Little Ice Age. A significant negative link is observed at the centennial scale between global temperature and humidity in the Sahel that is at odds with the expected effects of latitudinal shifts of the intertropical convergence zone during the last millennium. In the context of the past 1600\&nbsp;years, the Western Sahel appears to be experiencing today unprecedented drought conditions. The rapid aridification that started ca. AD 1800 and the recent emergence of Sahel drought from the natural variability point to an anthropogenic forcing of Sahel drying trend. This new long-term perspective suggests that the recovery of Sahel rainfall in the last decade may only result from short-term internal variability, and supports climate models that predict an increase of Sahel drought under future greenhouse climate.},
	issn = {0930-7575},
	doi = {10.1007/s00382-018-4311-3},
	url = {https://hal.archives-ouvertes.fr/hal-02349321},
	author = {Carr{\'e}, Matthieu and Azzoug, Moufok and Zaharias, Paul and Camara, Abdoulaye and Cheddadi, Rachid and Chevalier, Manuel and Fiorillo, Denis and Gaye, Amadou T. and Janicot, Serge and Khodri, Myriam and Lazar, Alban and Claire E. Lazareth and Mignot, Juliette and Mitma Garc{\'\i}a, Nancy and Patris, Nicolas and Perrot, Oc{\'e}ane and Wade, Malick}
}
@article {6663,
	title = {Multi-trace-element sea surface temperature coral reconstruction for the southern Mozambique Channel reveals teleconnections with the tropical Atlantic},
	journal = {Biogeosciences},
	volume = {16},
	year = {2019},
	pages = {695-712},
	abstract = {Here we report seasonally resolved sea surface temperatures for the southern Mozambique Channel in the SW Indian Ocean based on multi-trace-element temperature proxy records preserved in two Porites sp. coral cores. Particularly, we assess the suitability of both separate and combined Sr/Ca and Li/Mg proxies for improved multi-element SST reconstructions. Overall, geochemical records from Europa Island Porites sp. highlight the potential of Sr/Ca and Li/Mg ratios as high-resolution climate proxies but also show significant differences in their response at this Indian Ocean subtropical reef site. Our reconstruction from 1970 to 2013 using the Sr/Ca SST proxy reveals a warming trend of 0.58 {\textpm} 0.1 {\textbullet} C in close agreement with instrumental data (0.47 {\textpm} 0.07 {\textbullet} C) over the last 42 years (1970-2013). In contrast, the Li/Mg showed unrealistically large warming trends, most probably caused by uncertainties around different uptake mechanisms of the trace elements Li and Mg and uncertainties in their temperature calibration. In our study, Sr/Ca is superior to Li/Mg to quantify absolute SST and relative changes in SST. However, spatial correlations between the combined detrended Sr/Ca and Li/Mg proxies compared to instrumental SST at Europa revealed robust correlations with local climate variability in the Mozambique Channel and teleconnections to regions in the Indian Ocean and southeastern Pacific where surface wind variability appeared to dominate the underlying pattern of SST variability. The strongest correlation was found between our Europa SST reconstruction and instrumental SST records from the northern tropical Atlantic. Only a weak correlation was found with ENSO, with recent warm anomalies in the geochemical proxies coinciding with strong El Ni{\~n}o or La Ni{\~n}a. We identified the Pacific-North American (PNA) atmospheric pattern , which develops in the Pacific in response to ENSO, and the tropical North Atlantic SST as the most likely causes of the observed teleconnections with the Mozambique Channel SST at Europa.},
	keywords = {Anthozoa, Atlantic Ocean, Atlantic Ocean (North), Atlantic Ocean (Tropical), climate variation, coral, El Nino, El Nino-Southern Oscillation, Europa Island, Indian Ocean, La Nina, Mascarene Islands, Mozambique Channel, Pacific Ocean, Pacific Ocean (Southeast), Porites, proxy climate record, reconstruction, Reunion, sea surface temperature, subtropical region, surface wind, teleconnection, trace element},
	issn = {17264170},
	doi = {10.5194/bg-16-695-2019},
	url = {https://www.biogeosciences.net/16/695/2019/},
	author = {Zinke, J. and D{\textquoteright}Olivo, J.P. and Gey, C.J. and McCulloch, M.T. and Henrich J Bruggemann and Lough, J.M. and Mireille M.M. Guillaume}
}
@article {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<br />
fauna at the Mid-Atlantic Ridge. They are adapted to a mostly aphotic habitat with extreme<br />
physicochemical conditions in the vicinity of the hydrothermal fluid emissions. Here, we<br />
investigated the brain architecture of the vent shrimp Rimicaris exoculata to understand possible<br />
adaptations of its nervous system to the hydrothermal sensory landscape. Its brain is modified from<br />
the crustacean brain ground pattern by featuring relatively small visual and olfactory neuropils that<br />
contrast with well-developed higher integrative centers, the hemiellipsoid bodies. We propose that<br />
these structures in vent shrimps may fulfill functions in addition to higher order sensory processing<br />
and suggest a role in place memory. Our study promotes vent shrimps as fascinating models to<br />
gain insights into sensory adaptations to peculiar environmental conditions, and the evolutionary<br />
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 {6932,
	title = {Partitioning of food resources among three sympatric scorpionfish (Scorpaeniformes) in coastal waters of the northern Yellow Sea},
	journal = {Hydrobiologia},
	volume = {826},
	year = {2019},
	month = {Jan-01-2019},
	pages = {331 - 351},
	issn = {0018-8158},
	doi = {10.1007/s10750-018-3747-0},
	url = {http://link.springer.com/10.1007/s10750-018-3747-0},
	author = {Wu, Zhongxin and Zhang, Xiumei and Charlotte R. Dromard and Tweedley, James R. and Loneragan, Neil R.}
}
@article {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 {9382,
	title = {Carbon dynamics and inconstant porewater input in a mangrove tidal creek over contrasting seasons and tidal amplitudes},
	journal = {Geochimica et Cosmochimica Acta},
	volume = {237},
	year = {2018},
	pages = {32{\textendash}48},
	abstract = {Constraining the contribution of mangrove-derived carbon in tidal creeks is fundamental to understanding the fate of mangrove primary production and the role of mangroves as coastal carbon sinks. Porewater measurements and 24-h time series in a mangrove tidal creek were conducted during the dry and wet season, and over contrasting tidal ranges at the Can Gio Biosphere Reserve, Vietnam. Surface water carbon concentrations (dissolved organic carbon (DOC), dissolved inorganic carbon (DIC), partial pressure of carbon dioxide (pCO2)) and their respective d13C values were correlated with radon, suggesting that porewater input drives mangrove-derived carbon in the tidal creek. Based on three complementary mixing models, porewater input contributed to about 30\% of the water volume and 46\% to 100\% of DOC and DIC pools in the tidal creek at low tide, with variabilities between seasons and tidal amplitudes. The creek carbon pool was 88\% DIC, 6\% DOC, and 6\% particulate organic carbon (POC). The pCO2 values during the wet season (2973{\textendash}16,495 latm) were on average 5-fold higher than during the dry season (584{\textendash}2946 latm). This was explained by a potential greater mineralization attributed to higher organic matter availability and residual humidity that stimulate bacterial activity, and by a potential tidal dilution changing the pCO2/DIC ratio as suggested by the Revelle factor. Consequently, average CO2 evasion from the creek was estimated at 327{\textendash}427 mmolC m{\`A}2 d{\`A}1 during the wet season and 92{\textendash}213 mmolC m{\`A}2 d{\`A}1 during the dry season, using two independent approaches. Tidal amplitude seemed to influence porewater input and its carbon loads, with a higher contribution during frequent and high tidal amplitudes (symmetric). However, the highest input occurred in a tidal cycle which was preceded by tidal cycle of low amplitude (asymmetric). We explain this ambiguity by the influence of both, rapid water turnover intensifying porewater exchange, and long water residence time enhancing carbon load in porewater.},
	issn = {00167037},
	doi = {10.1016/j.gca.2018.06.012},
	url = {https://linkinghub.elsevier.com/retrieve/pii/S0016703718303272},
	author = {Taillardat, Pierre and Ziegler, Alan D. and Friess, Daniel A. and Widory, David and Truong Van, Vinh and Frank David and Thanh-Nho, Nguyen and Marchand, Cyril}
}
@article {5564,
	title = {Characterization of a tachykinin signalling system in the bivalve mollusc Crassostrea gigas},
	journal = {General and Comparative Endocrinology},
	volume = {266},
	year = {2018},
	pages = {110-118},
	type = {regular},
	abstract = {<p class="rtejustify">Although tachykinin-like neuropeptides have been identified in molluscs more than two decades ago, knowledge on their function and signalling has so far remained largely elusive. We developed a cell-based assay to address the functionality of the tachykinin G-protein coupled receptor (Cragi-TKR) in the oyster Crassostrea gigas. The oyster tachykinin neuropeptides that are derived from the tachykinin precursor gene Cragi-TK activate the Cragi-TKR in nanomolar concentrations. Receptor activation is sensitive to Ala-substitution of critical Cragi-TK amino acid residues. The Cragi-TKR gene is expressed in a variety of tissues, albeit at higher levels in the visceral ganglia (VG) of the nervous system. Fluctuations of Cragi-TKR expression is in line with a role for TK signalling in C. gigas reproduction. The expression level of the Cragi-TK gene in the VG depends on the nutritional status of the oyster, suggesting a role for TK signalling in the complex regulation of feeding in C. gigas.</p>
},
	doi = {https://doi.org/10.1016/j.ygcen.2018.05.003},
	author = {Marie-Pierre Dubos and Sven Zels and Julie Schwartz and Jeremy Pasquier and Liliane Schoofs and Pascal Favrel}
}
@article {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 {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 = {<p class="rtejustify">The cuttlefish (<em>Sepia officinalis</em>) 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\&nbsp;Zatylny-Gaudin\&nbsp;<em>et al. </em>(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 <em>Sepia officinalis</em> 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.</p>
},
	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 {5596,
	title = {Design of antimicrobial peptides from a cuttlefish database.},
	journal = {Amino acids},
	year = {2018},
	abstract = {<p>No antimicrobial peptide has been identified in cephalopods to date. Annotation of transcriptomes or genomes using basic local alignment Search Tool failed to yield any from sequence identities. Therefore, we searched for antimicrobial sequences in the cuttlefish (Sepia officinalis) database by in silico analysis of a transcriptomic database. Using an original approach based on the analysis of cysteine-free antimicrobial peptides selected from our Antimicrobial Peptide Database (APD3), the online prediction tool of the Collection of Anti-Microbial Peptides (CAMPR3), and a homemade software program, we identified potential antibacterial sequences. Nine peptides less than 25 amino acids long were synthesized. The hydrophobic content of all nine of them ranged from 30 to 70\%, and they could form alpha-helices. Three peptides possessed similarities with piscidins, one with BMAP-27, and five were totally new. Their antibacterial activity was evaluated on eight bacteria including the aquatic pathogens Vibrio alginolyticus, Aeromonas salmonicida, or human pathogens such as Salmonella typhimurium, Listeria monocytogenes, or Staphylococcus aureus. Despite the prediction of an antimicrobial potential for eight of the peptides, only two-GR21\&nbsp;and KT19-inhibited more than one bacterial strain with minimal inhibitory concentrations below 25\&nbsp;{\textmu}M. Some sequences like VA20\&nbsp;and FK19\&nbsp;were hemolytic, while GR21\&nbsp;induced less than 10\% of hemolysis on human blood cells at a concentration of 200\&nbsp;{\textmu}M. GR21\&nbsp;was the only peptide derived from a precursor with a signal peptide, suggesting a real role in cuttlefish immune defense.</p>
},
	doi = {10.1007/s00726-018-2633-4},
	author = {Houyvet, Baptiste and Zanuttini, B and Corre, Erwan and Le Corguill{\'e}, Gildas and Jo{\"e}l Henry and C{\'e}line Zatylny-Gaudin}
}
@article {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 = {<p class="rtejustify">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\&nbsp;days.</p>

<p><strong>Results</strong></p>

<p class="rtejustify">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.</p>

<p><strong>Conclusions</strong></p>

<p class="rtejustify">Protein hydrolysates manufactured from aquaculture by-products are promising candidates to help replace fish meal in aquaculture feeds without disrupting animal metabolism and performances.</p>
},
	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}
}
@inbook {5441,
	title = {Egg-Laying in the cuttlefish Sepia officinalis},
	booktitle = {Biological Resources of Water},
	year = {2018},
	issn = {978-1-78923-081-9},
	doi = {DOI: 10.5772/intechopen.71915},
	author = {C{\'e}line Zatylny-Gaudin and Jo{\"e}l Henry}
}
@article {5707,
	title = {Emergence of a cholecystokinin/sulfakinin signalling system in Lophotrochozoa},
	journal = {Scientific Reports},
	volume = {8},
	year = {2018},
	month = {11/2018},
	pages = {16424},
	abstract = {Chordate gastrin/cholecystokinin (G/CCK) and ecdysozoan sulfakinin (SK) signalling systems represent divergent evolutionary scenarios of a common ancestral signalling system. The present article investigates for the first time the evolution of the CCK/SK signalling system in a member of the Lophotrochozoa, the second clade of protostome animals. We identified two G protein-coupled receptors (GPCR) in the oyster\&nbsp;Crassostrea gigas\&nbsp;(Mollusca), phylogenetically related to chordate CCK receptors (CCKR) and to ecdysozoan sulfakinin receptors (SKR). These receptors, Cragi-CCKR1 and Cragi-CCKR2, were characterised functionally using a cell-based assay. We identified di- and mono-sulphated forms of oyster Cragi-CCK1 (pEGAWDY(SO3H)DY(SO3H)GLGGGRF-NH2) as the potent endogenous agonists for these receptors. The Cragi-CCK genes were expressed in the visceral ganglia of the nervous system. The Cragi-CCKR1 gene was expressed in a variety of tissues, while Cragi-CCKR2 gene expression was more restricted to nervous tissues. An\&nbsp;in vitro\&nbsp;bioassay revealed that different forms of Cragi-CCK1 decreased the frequency of the spontaneous contractions of oyster hindgut. Expression analyses in oysters with contrasted nutritional statuses or in the course of their reproductive cycle highlighted the plausible role of Cragi-CCK signalling in the regulation of feeding and its possible involvement in the coordination of nutrition and energy storage in the gonad. This study confirms the early origin of the CCK/SK signalling system from the common bilaterian ancestor and delivers new insights into its structural and functional evolution in the lophotrochozoan lineage.},
	doi = {doi.org/10.1038/s41598-018-34700-4},
	url = {https://www.nature.com/articles/s41598-018-34700-4},
	author = {Julie Schwartz and Marie-Pierre Dubos and Jeremy Pasquier and C{\'e}line Zatylny-Gaudin and Pascal Favrel}
}
@article {8569,
	title = {First evaluation of the cookie-cutter sharks (Isistius sp.) predation pattern on different cetacean species in Martinique},
	journal = {Environmental Biology of Fishes},
	volume = {101},
	year = {2018},
	month = {Jan-05-2018},
	pages = {749 - 759},
	issn = {0378-1909},
	doi = {10.1007/s10641-018-0735-1},
	url = {http://link.springer.com/10.1007/s10641-018-0735-1},
	author = {Feunteun, A. and de Schrevel, C. and Verhaegen, M. and Chevallier, D. and Duchemin, M. and Ziani, N. and de Montgolfier, B.}
}
@article {6817,
	title = {Gill chamber and gut microbial communities of the hydrothermal shrimp Rimicaris chacei Williams and Rona 1986: A possible symbiosis},
	journal = {PLOS ONE},
	volume = {13},
	year = {2018},
	month = {Feb-11-2018},
	pages = {e0206084},
	abstract = {<div class="rtejustify"><em>Rimicaris chacei </em>Williams and Rona 1986, formerly named as <em>Chorocaris chacei</em>, is a caridean<br />
shrimp living in deep-sea hydrothermal ecosystems. This shrimp is endemic to the Mid<br />
Atlantic Ridge (MAR) and lives at the periphery of aggregates of its well-known congeneric<br />
<em>R. exoculata</em> Williams and Rona 1986. Contrasting with the very dense and mobile clusters</div>

<div class="rtejustify">formed by <em>R. exoculata</em>, <em>R. chacei</em> lives in small groups of several individuals that are not</div>

<div class="rtejustify">very mobile. Although devoid of the characteristic hypertrophied cephalothorax of <em>R. exoculata</em>,<br />
which harbors the ectosymbionts, a microbial community has also been reported in the<br />
cephalothorax of <em>R. chacei</em>. Previous data on morphology, behavior and isotopic values indicate<br />
a diet based on a combination of feeding on its epibiotic bacteria and scavenging or<br />
occasional predation. In this study, our objective was to describe, for the first time, the distribution,<br />
morphology and phylogeny of the microbial communities associated with <em>R. chacei</em>.<br />
This species is significantly less studied than <em>R. exoculata</em>, but nevertheless represents the<br />
only other known example of symbiosis in crustaceans of MAR hydrothermal vent sites.<br />
Microbial communities have been observed at the same locations as in <em>R. exoculata</em><br />
(mouthparts, branchiostegites and digestive tract). However, in <em>R. chacei</em>, the surfaces<br />
occupied by the bacteria are smaller. The main lineages are affiliated to Epsilon and Gammaproteobacteria<br />
in the cephalothorax and to Deferribacteres, Mollicutes, Epsilon and<br />
Gammaproteobacteria in the digestive tract. Comparison with the well-described bacterial<br />
communities of <em>R. exoculata</em> and hypotheses about the role of these communities in <em>R. chacei</em><br />
are discussed.</div>
},
	doi = {10.1371/journal.pone.0206084},
	url = {http://dx.plos.org/10.1371/journal.pone.0206084},
	author = {Apremont, Vincent and Cambon-Bonavita, Marie-Anne and Cueff-Gauchard, Val{\'e}rie and Fran{\c c}ois, David and Pradillon, Florence and Laure Corbari and Magali Zbinden},
	editor = {Kuo, Chih-Horng}
}
@article {5439,
	title = {Identification of a moronecidin-like antimicrobial peptide in the venomous fish Pterois volitans: Functional and structural study of pteroicidin-α.},
	journal = {Fish and shellfish Immunology},
	year = {2018},
	pages = {318-324},
	abstract = {<p>The present study characterizes for the first time an antimicrobial peptide in lionfish (Pterois volitans), a venomous fish. Using a peptidomic approach, we identified a mature piscidin in lionfish and called it pteroicidin-α. We detected an amidated form (pteroicidin-α- CONH2) and a non-amidated form (pteroicidin-α-COOH), and then performed their functional and structural study. Interestingly, the two peptides displayed different antibacterial and hemolytic activity levels. Pteroicidin-α-CONH2\&nbsp;was bactericidal on human pathogens like Staphylococcus aureus or Escherichia coli, as well as on the fish pathogen Aeromonas salmonicida, while pteroicidin-α-COOH only inhibited their growth. Furthermore, the two peptides induced hemolysis of red blood cells from different vertebrates, namely humans, sea bass and lesser-spotted dogfish. Hemolysis occurred with low concentrations of pteroicidin-α-CONH2, indicating greater toxicity of the amidated form. Circular dichroism analysis showed that both peptides adopted a helical conformation, yet with a greater α-helix content in pteroicidin-α-CONH2. Overall, these results suggest that amidation strongly influences pteroicidin-α by modifying its structure and its physico-chemical characteristics and by increasing its hemolytic activity</p>
},
	author = {Houyvet, Baptiste and Yolande Bouchon-Navaro and Bouchon, Claude and Goux, Didier and Bernay, Beno{\^\i}t and Corre, Erwan and C{\'e}line Zatylny-Gaudin}
}
@article {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}
}
@book {7107,
	title = {Photoperiodism in Fish},
	series = {Encyclopedia of Reproduction},
	year = {2018},
	pages = {400 - 408},
	publisher = {Elsevier},
	organization = {Elsevier},
	isbn = {9780128151457},
	doi = {10.1016/B978-0-12-809633-8.20584-0},
	url = {https://linkinghub.elsevier.com/retrieve/pii/B9780128096338205840},
	author = {Jack Falcon and Zohar, Yonathan}
}
@article {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 = {<p>The detection of chemical signals is involved in a variety of crustacean behaviors, such as social<br />
interactions, search and evaluation of food and navigation in the environment. At hydrothermal<br />
vents, endemic shrimp may use the chemical signature of vent fluids to locate active edifices,<br />
however little is known on their sensory perception in these remote deep-sea habitats. Here,<br />
we present the first comparative description of the sensilla on the antennules and antennae<br />
of 4 hydrothermal vent shrimp (<em>Rimicaris exoculata</em>, <em>Mirocaris fortunata</em>, <em>Chorocaris chacei</em>,<br />
and <em>Alvinocaris markensis</em>) and of a closely related coastal shrimp (<em>Palaemon elegans</em>). These<br />
observations revealed no specific adaptation regarding the size or number of aesthetascs<br />
(specialized unimodal olfactory sensilla) between hydrothermal and coastal species. We also<br />
identified partial sequences of the ionotropic receptor IR25a, a co-receptor putatively involved in<br />
olfaction, in 3 coastal and 4 hydrothermal shrimp species, and showed that it is mainly expressed<br />
in the lateral flagella of the antennules that bear the unimodal chemosensilla aesthetascs.</p>
},
	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 {5019,
	title = {Genetic and morphological evidence for cryptic species in Macrobrachium australe and resurrection of M. ustulatum (Crustacea, Palaemonidae)},
	journal = {European Journal of Taxonomy},
	volume = {289},
	year = {2017},
	month = {03/2017},
	pages = {1{\textendash}27},
	abstract = {<p>\&nbsp;</p>

<p>\&nbsp;Macrobrachium australe is an amphidromous prawn living in the insular freshwater systems of the Indo-Pacific. Because it possesses few informative morphological characters, that often vary from one habitat to another, M. australe has produced much taxonomic confusion and has historically been described under eight synonyms. Here, 53 specimens collected throughout the Indo-Pacific under the name M. australe were phylogenetically and morphologically examined. Results revealed that what has been called M. australe belongs to at least two distinct species: M. australe, distributed from the Southwest Indian Ocean to the Central Pacific Ocean, and a cryptic species potentially restricted to the Northwest Pacific Ocean, here identified as M. ustulatum, which until now was considered as a junior synonym. Although they are not quite found in the same habitat (lentic-lotic), the presence of these distinct, and reciprocally monophyletic entities in the same rivers on the islands of Palau and Santo strongly favors the hypothesis of two reproductively isolated entities. Six morphological characters, including the proportions of the joints of the male second pereiopod, the shape of the epistome lobe and the armature of the fourth thoracic sternite, are evidenced as diagnostic. A neotype of M. australe is designated and deposited in the Mus{\'e}um national d{\textquoteright}Histoire naturelle in Paris.</p>
},
	keywords = {Amphidromous prawn, Indo-West Pacific, morphology, multi-locus phylogeny},
	author = {Castelin, Magalie and de Mazancourt, Valentin and Marquet, G{\'e}rard and Zimmermann, Gabrielle and Philippe Keith}
}
@article {6820,
	title = {Identifying Toxic Impacts of Metals Potentially Released during Deep-Sea Mining{\textemdash}A Synthesis of the Challenges to Quantifying Risk},
	journal = {Frontiers in Marine Science},
	volume = {4},
	year = {2017},
	pages = {368},
	abstract = {In January 2017, the International Seabed Authority released a discussion paper on the development of Environmental Regulations for deep-sea mining (DSM) within the Area Beyond National Jurisdiction (the {\textquotedblleft}Area{\textquotedblright}). With the release of this paper, the prospect for commercial mining in the Area within the next decade has become very real. Moreover, within nations{\textquoteright} Exclusive Economic Zones, the exploitation of deep-sea mineral ore resources could take place on very much shorter time scales and, indeed, may have already started. However, potentially toxic metal mixtures may be released at sea during different stages of the mining process and in different physical phases (dissolved or particulate). As toxicants, metals can disrupt organism physiology and performance, and therefore may impact whole populations, leading to ecosystem scale effects. A challenge to the prediction of toxicity is that deep-sea ore deposits include complex mixtures of minerals, including potentially toxic metals such as copper, cadmium, zinc, and lead, as well as rare earth elements. Whereas the individual toxicity of some of these dissolved metals has been established in laboratory studies, the complex and variable mineral composition of seabed resources makes the a priori prediction of the toxic risk of DSM extremely challenging. Furthermore, although extensive data quantify the toxicity of metals in solution in shallow-water organisms, these may not be representative of the toxicity in deep-sea organisms, which may differ biochemically and physiologically and which will experience those toxicants under conditions of low temperature, high hydrostatic pressure, and potentially altered pH. In this synthesis, we present a summation of recent advances in our understanding of the potential toxic impacts of metal exposure to deep-sea meio- to megafauna at low temperature and high pressure, and consider the limitation of deriving lethal limits based on the paradigm of exposure to single metals in solution. We consider the potential for long-term and far-field impacts to key benthic invertebrates, including the very real prospect of sub-lethal impacts and behavioral perturbation of exposed species. In conclusion, we advocate the adoption of an existing practical framework for characterizing bulk resource toxicity in advance of exploitation.},
	issn = {2296-7745},
	doi = {10.3389/fmars.2017.00368},
	url = {https://www.frontiersin.org/article/10.3389/fmars.2017.00368},
	author = {Hauton, Chris and Brown, Alastair and Thatje, Sven and Mestre, N{\'e}lia C. and Bebianno, Maria J. and Martins, In{\^e}s and Bettencourt, Raul and Canals, Miquel and Sanchez-Vidal, Anna and Bruce Shillito and Juliette Ravaux and Magali Zbinden and Duperron, S{\'e}bastien and Mevenkamp, Lisa and Vanreusel, Ann and Gambi, Cristina and Dell{\textquoteright}Anno, Antonio and Danovaro, Roberto and Gunn, Vikki and Weaver, Phil}
}
@article {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 = {<p>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 \&lt;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.</p>
},
	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 {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 {4246,
	title = {Calcium Deposits in the Crayfish, Cherax quadricarinatus: Microstructure Versus Elemental Distribution},
	journal = {Microscopy and Microanalysis},
	volume = {22},
	year = {2016},
	pages = {22-38},
	type = {Journal Article},
	author = {Gilles Luquet and Yannicke Dauphin and Aline Percot and Murielle Salom{\'e} and Andreas Ziegler and Maria S. Fernandez and Jos{\'e} L. Arias}
}
@article {4214,
	title = {Determinants of local and regional communities in intermittent and perennial headwaters of the Bolivian Amazon},
	journal = {Freshwater Biology},
	year = {2016},
	abstract = {<p>SUMMARY</p>

<p>1. The effect of drying events on aquatic biodiversity is still overlooked in wet Neotropical systems. Yet, the responses of local communities and metacommunities in these biodiversity hotspots may differ from what is reported in other areas.<br />
2. We addressed the effect of drying events on local and regional fish and macroinvertebrate communities in the headwaters of the Chipiriri River basin, in the wet Neotropical piedmont of Bolivia. According to current knowledge in intermittent rivers and ephemeral streams (IRES) ecology, we predicted that intermittent (INT) sites would harbour lower a-diversity, but higher b-diversity, than perennial (PER) sites, due to local, negative effect of drying combined with the existence of multiple recovery stages at the network scale.</p>

<p>3. Although habitat variables were similar between INT and PER sites, local and regional diversity patterns differed. Local invertebrate communities were not different between site types as soon as 4{\textendash}6 weeks after flow resumption. The proximity of colonist sources and frequent rainfall probably enhanced persistence through dry periods and high resilience. In contrast, fish communities were still poorer at INT than PER sites, indicating they were still in the process of recolonising upstream INT reaches.</p>

<p>4. b-diversity analyses confirmed that invertebrate and fish metacommunities were not at the same recovery stage because (i) b-diversity of invertebrates was best explained by physical and environmental distances at both INT and PER sites, whereas that of fish was explained only by physical distances at INT sites; (ii) fish b-diversity was higher at INT than at PER sites, but invertebrate b-diversity was similar; and (iii) physical distances were correlated with the turnover component of invertebrate b-diversity but with the nestedness component for fish.</p>

<p>5. Exploring regional community patterns in IRES and across biota with different dispersal abilities and modes can advance metacommunity theory and improve our ability to predict local community composition in dynamic ecosystems.</p>
},
	doi = {doi:10.1111/fwb.12706},
	author = {T. Datry and N. Moya and J. Zubieta and Thierry Oberdorff}
}
@article {5740,
	title = {Development of an ecotoxicological protocol for the deep-sea fauna using the hydrothermal vent shrimp Rimicaris exoculata},
	journal = {Aquatic Biology},
	volume = {175},
	year = {2016},
	pages = {277-285},
	doi = {https://doi.org/10.1016/j.aquatox.2016.03.024},
	author = {Auguste, M and Mestre, N and Rocha, T and Cardoso, C and Cueff-Gauchard, V and Le Bloa, S and Cambon-Bonavita, M-A and Bruce Shillito and Magali Zbinden and Juliette Ravaux and Bebianno, M}
}
@article {5813,
	title = {{Global impacts of the 1980s regime shift}},
	journal = {Global Change Biology},
	volume = {22},
	year = {2016},
	abstract = {<p>{\textcopyright} 2016 John Wiley {\&amp;} 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.</p>
},
	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 {4527,
	title = {High-resolution structural and elemental analyses of calcium storage structures synthesized by the noble crayfish Astacus astacus.},
	journal = {J Struct Biol},
	year = {2016},
	month = {2016 Sep 6},
	abstract = {<p>During premolt, crayfish develop deposits of calcium ions, called gastroliths, in their stomach wall. The stored calcium is used for the calcification of parts of the skeleton regularly renewed for allowing growth. Structural and molecular analyses of gastroliths have been primarily performed on three crayfish species, Orconectes virilis, Procambarus clarkii, and more recently, Cherax quadricarinatus. We have performed high-resolution analyses of gastroliths from the native noble crayfish, Astacus astacus, focusing on the microstructure, the mineralogical and elemental composition and distribution in a comparative perspective. Field emission scanning electron microscopy (FESEM) and atomic force microscopy (AFM) observations showed a classical layered microstructure composed of 200-nm diameter granules aligned along fibers. These granules are themselves composed of agglomerated nanogranules of 50nm-mean diameters. Denser regions of bigger fused granules are also present. Micro-Raman spectroscopy show that if A. astacus gastroliths, similarly to the other analyzed gastroliths, are mainly composed of amorphous calcium carbonate (ACC), they are also rich in amorphous calcium phosphate (ACP). The presence of a carotenoid pigment is also observed in A. astacus gastrolith contrary to C. quadricarinatus. Energy-dispersive X-ray spectroscopy (EDX) analyses demonstrate the presence of minor elements such as Mg, Sr, Si and P. The distribution of this last element is particularly heterogeneous. X-ray absorption near edge structure spectroscopy (XANES) reveals an alternation of layers more or less rich in phosphorus evidenced in the mineral phase as well as in the organic matrix in different molecular forms. Putative functions of the different P-comprising molecules are discussed.</p>
},
	issn = {1095-8657},
	doi = {10.1016/j.jsb.2016.09.001},
	author = {Gilles Luquet and Salom{\'e}, Murielle and Ziegler, Andreas and Paris, C{\'e}line and Percot, Aline and Dauphin, Yannicke}
}
@article {4213,
	title = {Metacommunity patterns across three Neotropical catchments with varying environmental harshness},
	journal = {Freshwater Biology},
	volume = {61},
	year = {2016},
	pages = {277-292},
	abstract = {<p>SUMMARY</p>

<p>1. Most metacommunity studies indicate that dispersal processes play a minor role compared with species sorting in explaining metacommunity organisation, in particular, in stream systems. However, the role of dispersal could vary with environmental harshness, as a result of frequent resetting of community succession by disturbances and the selection of generalist species from regional species pools. The importance of dispersal may also be mitigated by species dispersal ability.</p>

<p>2. In this study, we explored how species sorting and dispersal shaped invertebrate and fish metacommunities across streams in three tropical headwater catchments in Bolivia with contrasting environmental harshness, including flow regime, altitude and climate conditions. We addressed the hypothesis that the relative roles of dispersal and species sorting vary with environmental harshness: we predicted that the role of species sorting would predominate in benign conditions, whereas that of dispersal would predominate under moderate environmental harshness, and that neither dispersal nor species sorting would be relevant to explain metacommunities under high environmental harshness. We also hypothesised that the role of dispersal would decrease with increasing species dispersal ability.</p>

<p>3. Although there was little or no spatial autocorrelation of environmental distances (i.e. environmental differences) across the headwater catchments, community similarity correlated more strongly with environmental than spatial distances among headwater sites that had low environmental harshness, but the opposite pattern was observed among sites with moderate environmental harshness. Under high environmental harshness, neither environmental harshness nor spatial distances between sites explained community similarity.<br />
4. Under moderate environmental harshness, the correlation between community similarity and spatial distances was the strongest for moderate dispersers of both invertebrates and fish. Yet, in contrast to fish, strongly dispersing invertebrate taxa were spatial structured, suggesting that they were not able to reach all sites as predicted.<br />
5. Our results suggest the role of dispersal might be underestimated, notably in systems prone to environmental harshness. Better proxies for dispersal, along with the use of spatial distances to account for resistance to animal movements in river systems and that account for flow magnitude and directionality, slope, riparian vegetation, wind and streambed roughness, may promote a more realistic integration of dispersal processes in basic and applied metacommunity research.</p>
},
	doi = {doi:10.1111/fwb.12702},
	author = {T. Datry and A.S. Melo and N. Moya and J. Zubieta and E. De La Barra and Thierry Oberdorff}
}
@article {4287,
	title = {Modelling spatial distribution of Patagonian toothfish through life-stages and sex and its implications for the fishery on the Kerguelen Plateau},
	journal = {Progress in Oceanography},
	volume = {141},
	year = {2016},
	pages = {81 - 95},
	abstract = {<p>Abstract Size and sex specific habitat preferences are common in animal populations and can have important implications for sound spatial management of harvested species. Patagonian toothfish (Dissostichus eleginoides) is a commercially exploited fish species characterised by its longevity (\&gt;50 yo) and its extremely broad distribution in depths ranging from 10 m to 2500 m on most of the Plateaux, banks and seamounts of the Southern Ocean. As many bentho-pelagic fish species, Patagonian toothfish exhibits sexual dimorphism and ontogenetic habitat shift towards deeper waters as they grow. In this study, we modelled the spatial structure of Patagonian toothfish population (median total length and sex composition) in a data-rich area, the Kerguelen Plateau (Southern Indian Ocean), to better understand the ecological drivers of their distributional patterns and inform current and future fishery management strategies. We applied spatially-explicit statistical models to quantify and predict the effects of the complex topography of the Kerguelen Plateau in structuring the spatial distribution of Patagonian toothfish total length and sex ratio, while controlling for gear selectivity and season. Model predictions showed that juvenile toothfish live in shallow regions (shelf and banks) and move downward progressively up to 600 m while they grow. Between 600 m and 1200 m, the downward movement stops and fish settle at their preferred depths. While in this depth range, fish are \~{}75 cm long and most vulnerable to fisheries. As they approach maturity large fish move downward to deep-sea habitats (from 1200 m to \&gt;2300 m) and head towards the spawning grounds on the western side of the plateau and around Skiff Bank. Importantly, the sex ratio was not evenly distributed across the Plateau; prediction maps revealed a higher proportion of females in the South whereas a strong male-bias sex ratio (70\%) occurred in the North-West. Large-scale prediction maps derived from our models assisted in developing hypotheses regarding ecological drivers of Patagonian toothfish habitat-use and movement across different life stages and sex. Such hypotheses are crucial to inform management strategies of this multijurisdictional fishery (France and Australia) at the spatial and temporal scales over which natural processes and fishery extend.</p>
},
	issn = {0079-6611},
	doi = {10.1016/j.pocean.2015.12.003},
	url = {http://www.sciencedirect.com/science/article/pii/S007966111530015X},
	author = {Clara P{\'e}ron and Dirk C. Welsford and Philippe Ziegler and Timothy D. Lamb and Nicolas Gasco and Charlotte Chazeau and Romain Sin{\`e}gre and Guy Duhamel}
}
@article {5438,
	title = {Neuropeptidome of the Cephalopod Sepia officinalis: Identification, Tissue Mapping, and Expression Pattern of Neuropeptides and Neurohormones during Egg Laying.},
	journal = {J Proteome Res. },
	volume = {15},
	year = {2016},
	pages = {48-67},
	author = {C{\'e}line Zatylny-Gaudin and Cornet, Val{\'e}rie and Leduc, Alexandre and Zanuttini, Bruno and Corre, Erwan and Corguill{\'e}, Gildas Le and Bernay, Beno{\^\i}t and Kraut, Alexandra and Cout{\'e}, Yohan and Jo{\"e}l Henry}
}
@article {6821,
	title = {New electroantennography method on a marine shrimp in water},
	journal = {Journal of Experimental Biology},
	volume = {219},
	year = {2016},
	pages = {3696{\textendash}3700},
	abstract = {Antennular chemoreception in aquatic decapods is well studied via the recording of single chemoreceptor neuron activity in the antennule, but global responses of the antennule (or antennae in insects) by electroantennography (EAG) has so far been mainly restricted to aerial conditions. We present here a well-established underwater EAG method to record the global antennule activity in the marine shrimp Palaemon elegans in natural (aqueous) conditions. EAG responses to food extracts, recorded as net positive deviations of the baseline, are reproducible, dose-dependent and exhibit sensory adaptation. This new EAG method opens a large field of possibilities for studying in vivo antennular chemoreception in aquatic decapods, in a global approach to supplement current, more specific techniques.},
	issn = {0022-0949},
	doi = {10.1242/jeb.140947},
	url = {https://jeb.biologists.org/content/219/23/3696},
	author = {Machon, Julia and Juliette Ravaux and Magali Zbinden and Lucas, Philippe}
}
@article {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 {4176,
	title = {Spatial and seasonal contrasts of sedimentary organic matter in floodplain lakes of the central Amazon basin},
	journal = {Biogeosciences},
	volume = {13},
	year = {2016},
	type = {original},
	abstract = {<p><br />
In this study, we investigated the seasonal and spatial pattern of sedimentary organic matter (SOM) in five floodplain lakes of the central Amazon basin (Cabaliana, Janauaca, Cana{\c c}ari, Mirituba and Curuai) which have different morphologies, hydrodynamics and vegetation coverages. Surface sediments were collected in four hydrological seasons: low water (LW), rising water (RW), high water (HW) and falling water (FW) in 2009 and 2010. We inves-tigated commonly used bulk geochemical tracers such as the C/N ratio and the stable isotopic composition of organic carbon (13Cor). These results were compared with lignin phenol parameters as an indicator of vascular plant detritus and branched glycerol dialkyl glycerol tetraethers (brGDGTs) to trace the input of soil organic matter (OM) from land to the aquatic settings. We also applied the crenarchaeol as an indi- cator of aquatic (rivers and lakes) OM. Our data showed that during the RW and FW seasons, the surface sediments were enriched in lignin and brGDGTs in comparison to other seasons. Our study also indicated that floodplain lake sediments primarily consisted of allochthonous, C3 plant-derived OM. However, a downstream increase in C4 macrophyte-derivedOM contribution was observed along the gradient of increas-ing open waters {\textendash} i.e., from upstream to downstream. Accordingly, we attribute the temporal and spatial difference in SOM composition to the hydrological dynamics between the floodplain lakes and the surrounding flooded forests.<br />
\&nbsp;</p>
},
	author = {Sobrinho, R L and Bernardes, Marcelo C and Gwena{\"e}l Abril and Kim, J-H and Zell, C and Jean-Michel Mortillaro and Tarik Meziane and Moreira-Turcq, P and J S Sinningh Damst{\'e}}
}
@article {4215,
	title = {Which factors determine the altitudinal distribution of tropical Andean riverine fishes?},
	journal = {Revista de Biologia Tropical},
	volume = {64},
	year = {2016},
	month = {03/2016},
	pages = {173-192},
	abstract = {<p>Abstract: Which factors determine the altitudinal distribution of tropical Andean riverine fishes?</p>

<p>Altitudinal gradients represent an appropriate system to assess whether there is a relationship between richness patterns, environmental variables, and the ecological processes that determine the species type and number inhabiting a given area. In mountain streams freshwater fishes, the most prevalent relationship is a monotonic decrease in species richness with elevation. The objective of this study was to evaluate four hypotheses that can explain the negative relationship between local fish species richness and altitude, 1) the hypothesis of decreasing energy availability, 2) the hypothesis of increasing climate severity, 3) the hypothesis of habitat diversity, and 4) the hypothesis of isolation by physical severity of the environment. Fish and macro-invertebrates were col- lected following standard methods from 83 sites (between 200-4 000 meters) of two river basins in the Bolivian Amazon. The first hypothesis was tested by analyzing relationships between the density of macro-invertebrates, the richness of invertivorous fish species and altitude; while the second and third hypotheses were assessed by a multiple regression analysis (GLM) between fish species richness and several local and regional factors. Besides, assemblage dissimilarity between sites along the altitudinal gradient was analyzed using βsim and βness indices. Fish richness decreases linearly with increasing altitude. The density of macro-invertebrates tends to increase at higher altitudes, contrary to invertivorous fish species richness, suggesting that energy availability is not a limiting factor for fish species colonization. The GLM explained 86 \% of the variation in fish species richness, with a significant contribution of water temperature, maximum slope in the river mainstem, and stream width. There is a higher species turnover (βsim) between sites at low elevation. Inversely, βness shows higher values in the upper parts, corresponding to change in assemblages mainly due to species loss. Taken together, these results suggest that climatic and physical severities create strong barriers to colonization, further explaining the decrease in fish richness along the altitudinal gradient.</p>
},
	issn = {ISSN-0034-7744},
	author = {E. De La Barra and J. Zubieta and G. Aguilera and M. Maldonado and Marc Pouilly and Thierry Oberdorff}
}
@article {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 {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 = {<p>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.</p>
},
	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 {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 = {<p>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 \&lt;5\&nbsp;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.</p>
},
	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 {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'\&nbsp;S and the North-East Pacific Rise at 9{\textdegree}50'\&nbsp;N and 12{\textdegree}50'\&nbsp;N. Several potential food sources were sampled according to the gastropod habitat on the chimney wall, or mussel beds (proxies of Gammaproteobacteria form I RubisCO, Gammaproteobacteria form II RubisCO and Epsilonproteobacteria, biofilms of siboglinid and alvinellid tubes, biofilms of mussel shells and particulate organic matter). Some of these microbial and detrital sources were confirmed as present in the gut content of some small specimens by transmission electron microscopy. Distinct stable isotopic signatures of the potential food sources allowed calculation of their relative contributions to primary consumers{\textquoteright} diets. This revealed that gastropod species living on siboglinid or bathymodiolin habitats are usually generalists, feeding on various pools of microbial or detrital origins. For a particular habitat, sympatric gastropod species partition the food sources, thus avoiding being in competition. Only for the alvinellid habitat Peltospira spp. appeared to be more specialists as the choice of food sources is more reduced.},
	keywords = {Chemosynthetic, gastropods, mixing model, Stable isotopes, trophic niche, vents},
	doi = {10.1111/maec.12260},
	url = {https://onlinelibrary.wiley.com/doi/abs/10.1111/maec.12260},
	author = {Sylvie M Gaudron and Marqu{\'e}, Lise and Eric Thi{\'e}baut and Riera, Pascal and Duperron, S{\'e}bastien and Magali Zbinden}
}
@article {3864,
	title = {How Egg Case Proteins Can Protect Cuttlefish Offspring?},
	journal = {PLoS One},
	volume = {10},
	year = {2015},
	month = {2015},
	pages = {e0132836},
	abstract = {<p><em>Sepia officinalis</em> egg protection is ensured by a complex capsule produced by the female accessory genital glands and the ink bag. Our study is focused on the proteins constituting the main egg case. De novo transcriptomes from female genital glands provided essential databases for protein identification. A proteomic approach in SDS-PAGE coupled with MS unveiled a new egg case protein family: SepECPs, for <em>Sepia officinalis </em>Egg Case Proteins. N-glycosylation was demonstrated by PAS staining SDS-PAGE gels. These glycoproteins are mainly produced in the main nidamental glands. SepECPs share high sequence homology, especially in the signal peptide and the three cysteine-rich domains. SepECPs have a high number of cysteines, with conserved motifs involved in 3D-structure. SDS-PAGE showed that SepECPs could form dimers; this result was confirmed by TEM observations, which also revealed a protein network. This network is similar to the capsule network, and it associates these structural proteins with polysaccharides, melanin and bacteria to form a tight mesh. Its hardness and elasticity provide physical protection to the embryo. In addition, SepECPs also have bacteriostatic antimicrobial activity on GRAM- bacteria. By observing the SepECP / <em>Vibrio aestuarianus</em> complex in SEM, we demonstrated the ability of these proteins to agglomerate bacteria and thus inhibit their growth. These original proteins identified from the outer egg case ensure the survival of the species by providing physical and chemical protection to the embryos released in the environment without any maternal protection.</p>
},
	issn = {1932-6203},
	doi = {10.1371/journal.pone.0132836},
	author = {Cornet, Val{\'e}rie and Jo{\"e}l Henry and Goux, Didier and Duval, Emilie and Bernay, Beno{\^\i}t and Gildas Le Corguille and Corre, Erwan and C{\'e}line Zatylny-Gaudin}
}
@article {3779,
	title = {Immune and Stress Responses in Oysters with Insights on Adaptation.},
	journal = {Fish Shellfish Immunol},
	year = {2015},
	month = {2015 May 16},
	abstract = {<p>Oysters are representative bivalve molluscs that are widely distributed in world oceans. As successful colonizers of estuaries and intertidal zones, oysters are remarkably resilient against harsh environmental conditions including wide fluctuations in temperature and salinity as well as prolonged air exposure. Oysters have no adaptive immunity but can thrive in microbe-rich estuaries as filter-feeders. These unique adaptations make oysters interesting models to study the evolution of host-defense systems. Recent advances in genomic studies including sequencing of the oyster genome have provided insights into oyster{\textquoteright}s immune and stress responses underlying their amazing resilience. Studies show that the oyster genomes are highly polymorphic and complex, which may be key to their resilience. The oyster genome has a large gene repertoire that is enriched for immune and stress response genes. Thousands of genes are involved in oyster{\textquoteright}s immune and stress responses, through complex interactions, with many gene families expanded showing high sequence, structural and functional diversity. The high diversity of immune receptors and effectors may provide oysters with enhanced specificity in immune recognition and response to cope with diverse pathogens in the absence of adaptive immunity. Some members of expanded immune gene families have diverged to function at different temperatures and salinities or assumed new roles in abiotic stress response. Most canonical innate immunity pathways are conserved in oysters and supported by a large number of diverse and often novel genes. The great diversity in immune and stress response genes exhibited by expanded gene families as well as high sequence and structural polymorphisms may be central to oyster{\textquoteright}s adaptation to highly stressful and widely changing environments.</p>
},
	issn = {1095-9947},
	doi = {10.1016/j.fsi.2015.05.018},
	author = {Guo, Ximing and He, Yan and Zhang, Linlin and Christophe Lelong and Jouaux, Aude}
}
@article {3743,
	title = {An improved taxonomic sampling is a necessary but not sufficient condition for resolving inter-families relationships in Caridean decapods.},
	journal = {Genetica},
	volume = {143},
	year = {2015},
	month = {2015 Apr},
	pages = {195-205},
	abstract = {<p>During the past decade, a large number of multi-gene analyses aimed at resolving the phylogenetic relationships within Decapoda. However relationships among families, and even among sub-families, remain poorly defined. Most analyses used an incomplete and opportunistic sampling of species, but also an incomplete and opportunistic gene selection among those available for Decapoda. Here we test in the Caridea if improving the taxonomic coverage following the hierarchical scheme of the classification, as it is currently accepted, provides a better phylogenetic resolution for the inter-families relationships. The rich collections of the Mus{\'e}um National d{\textquoteright}Histoire Naturelle de Paris are used for sampling as far as possible at least two species of two different genera for each family or subfamily. All potential markers are tested over this sampling. For some coding genes the amplification success varies greatly among taxa and the phylogenetic signal is highly saturated. This result probably explains the taxon-heterogeneity among previously published studies. The analysis is thus restricted to the genes homogeneously amplified over the whole sampling. Thanks to the taxonomic sampling scheme the monophyly of most families is confirmed. However the genes commonly used in Decapoda appear non-adapted for clarifying inter-families relationships, which remain poorly resolved. Genome-wide analyses, like transcriptome-based exon capture facilitated by the new generation sequencing methods might provide a sounder approach to resolve deep and rapid radiations like the Caridea.</p>
},
	issn = {1573-6857},
	doi = {10.1007/s10709-014-9807-0},
	author = {Aznar-Cormano, L and Brisset, J and Chan, T-Y and Laure Corbari and Puillandre, N and Utge, J and Magali Zbinden and Zuccon, D and Samadi, S}
}
@article {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 {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 {3775,
	title = {Multi-causality and spatial non-stationarity in the determinants of groundwater crustacean diversity in Europe},
	journal = {Ecography},
	volume = {38},
	year = {2015},
	month = {05/2015},
	pages = {531{\textendash}540},
	type = {Research},
	author = {D. Eme and M. Zagmajster and C. Fiser and D. Galassi and P. Marmonier and F. Stoch and J. F. Cornu and Thierry Oberdorff and F. Malard}
}
@article {3778,
	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},
	pages = {1429-1437},
	author = {Cella-Ribeiro, Ariana and Assakawa, L. F. and Torrente-Vilara, Gislene and Zuanon, Jansen and Leite, R. G. and Doria, C. and Fabrice Duponchelle}
}
@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 {3863,
	title = {The Toll/NF-κB pathway in cuttlefish symbiotic accessory nidamental gland.},
	journal = {Dev Comp Immunol},
	volume = {53},
	year = {2015},
	month = {2015 Jul 2},
	pages = {42-46},
	abstract = {<p>The female genital apparatus of decapod cephalopods contains a symbiotic accessory nidamental gland (ANG) that harbors bacterial symbionts. Although the ANG bacterial consortium is now well described, the impact of symbiosis on Sepia officinalis innate immunity pathways remains unknown. In silico analysis of the de novo transcriptome of ANG highlighted for the first time the existence of the NF-κB pathway in S. officinalis. Several signaling components were identified, i.e. five Toll-like receptors, eight signaling cascade features, and the immune response target gene iNOS, previously described as being involved in the initiation of bacterial symbiosis in a cephalopod gland. This work provides a first key for studying bacterial symbiosis and its impact on innate immunity in S. officinalis ANG.</p>
},
	issn = {1879-0089},
	doi = {10.1016/j.dci.2015.06.016},
	author = {Cornet, Val{\'e}rie and Jo{\"e}l Henry and Corre, Erwan and Gildas Le Corguille and C{\'e}line Zatylny-Gaudin}
}
@article {4678,
	title = {Which factors determine the altitudinal distribution of tropical Andean riverine fishes?},
	journal = {Revista de Biolog{{\'\i}a Tropical/International Journal of Tropical Biology and Conservation},
	volume = {64},
	year = {2015},
	pages = {157{\textendash}176},
	author = {De La Barra, Evans and Zubieta, Jos{\'e} and Aguilera, Gast{\'o}n and Maldonado, Mabel and Marc Pouilly and Oberdorff, Thierry}
}
@article {3591,
	title = {Biomineralization of Schlumbergerella floresiana, a significant carbonate-producing benthic foraminifer.},
	journal = {Geobiology},
	volume = {12},
	year = {2014},
	month = {2014 Jul},
	pages = {289-307},
	abstract = {<p>Most foraminifera that produce a shell are efficient biomineralizers. We analyzed the calcitic shell of the large tropical benthic foraminifer Schlumbergerella floresiana. We found a suite of macromolecules containing many charged and polar amino acids and glycine that are also abundant in biomineralization proteins of other phyla. As neither genomic nor transcriptomic data are available for foraminiferal biomineralization yet, de novo-generated sequences, obtained from organic matrices submitted to ms blast database search, led to the characterization of 156 peptides. Very few homologous proteins were matched in the proteomic database, implying that the peptides are derived from unknown proteins present in the foraminiferal organic matrices. The amino acid distribution of these peptides was queried against the uniprot database and the mollusk uniprot database for comparison. The mollusks compose a well-studied phylum that yield a large variety of biomineralization proteins. These results showed that proteins extracted from S.\&nbsp;floresiana shells contained sequences enriched with glycine, alanine, and proline, making a set of residues that provided a signature unique to foraminifera. Three of the de novo peptides exhibited sequence similarities to peptides found in proteins such as pre-collagen-P and a group of P-type ATPases including a calcium-transporting ATPase. Surprisingly, the peptide that was most similar to the collagen-like protein was a glycine-rich peptide reported from the test and spine proteome of sea urchin. The molecules, identified by matrix-assisted laser desorption ionization-time of flight mass spectrometry analyses, included acid-soluble N-glycoproteins with its sugar moieties represented by high-mannose-type glycans and carbohydrates. Describing the nature of the proteins, and associated molecules in the skeletal structure of living foraminifera, can elucidate the biomineralization mechanisms of these major carbonate producers in marine ecosystems. As fossil foraminifera provide important paleoenvironmental and paleoclimatic information, a better understanding of biomineralization in these organisms will have far-reaching impacts.</p>
},
	keywords = {Amino Acid Sequence, Amino Acids, Calcification, Physiologic, Carbonates, Electrophoresis, Polyacrylamide Gel, Foraminifera, Molecular Sequence Data, Monosaccharides},
	issn = {1472-4669},
	doi = {10.1111/gbi.12085},
	author = {Sabbatini, A and Bedouet, L and Marie, A and Bartolini, A and Landemarre, L and Weber, M X and Gusti Ngurah Kade Mahardika, I and Berland, Sophie and Zito, F and V{\'e}nec-Peyr{\'e}, M-T}
}
@article {3374,
	title = {Cellular effects of bacterial N-3-Oxo-dodecanoyl-L-Homoserine lactone on the sponge Suberites domuncula (Olivi, 1792): insights into an intimate inter-kingdom dialogue.},
	journal = {PLoS One},
	volume = {9},
	year = {2014},
	month = {2014},
	pages = {e97662},
	abstract = {<p>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.</p>},
	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 = {<p>Cephalopods have been utilised in neuroscience research for more than 100\&nbsp;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.</p>
},
	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 {3373,
	title = {Diversity of the RFamide peptide family in mollusks},
	journal = {frontiers in endocrinology},
	volume = {5},
	year = {2014},
	type = {review},
	abstract = {<p>Since the initial characterization of the cardioexcitatory peptide FMRFamide in the bivalve<br />
mollusk Macrocallista nimbosa, a great number of FMRFamide-like peptides (FLPs) have<br />
been identified in mollusks. FLPs were initially isolated and molecularly characterized in<br />
model mollusks using biochemical methods. The development of recombinant technologies<br />
and, more recently, of genomics has boosted knowledge on their diversity in various<br />
mollusk classes. Today, mollusk FLPs represent approximately 75 distinct RFamide peptides<br />
that appear to result from the expression of only five genes: the FMRFamide-related<br />
peptide gene, the LFRFamide gene, the luqin gene, the neuropeptide F gene, and the cholecystokinin/<br />
sulfakinin gene. FLPs display a complex spatiotemporal pattern of expression<br />
in the central and peripheral nervous system.Working as neurotransmitters, neuromodulators,<br />
or neurohormones, FLPs are involved in the control of a great variety of biological<br />
and physiological processes including cardiovascular regulation, osmoregulation, reproduction,<br />
digestion, and feeding behavior. From an evolutionary viewpoint, the major challenge<br />
will then logically concern the elucidation of the FLP repertoire of orphan mollusk classes<br />
and the way they are functionally related. In this respect, deciphering FLP signaling pathways<br />
by characterizing the specific receptors these peptides bind remains another exciting<br />
objective.</p>
},
	author = {C{\'e}line Zatylny-Gaudin and Pascal Favrel}
}
@article {3368,
	title = {Dual role of the cuttlefish salivary proteome in defense and predation.},
	journal = {J Proteomics},
	volume = {108},
	year = {2014},
	month = {2014 Aug 28},
	pages = {209-22},
	abstract = {<p><b>UNLABELLED: </b>We characterized the proteome of the posterior salivary glands of the cephalopod S. officinalis by combining de novo RNA sequencing and mass spectrometry. In silico analysis of the transcriptome revealed the occurrence of three main categories of proteins: enzymes, immune factors and toxins. Protein identification by SDS-PAGE and MALDI-TOF/TOF confirmed the occurrence of proteins essential to venom-like enzymes: peptidase S1 under four isoforms, phospholipase A2 and two toxins. The first toxin is a cystein rich secreted protein (CRISP), a common toxin found in all venomous animals. The second one is cephalotoxin, which is specific to decabrachia cephalopods. Secretions of the posterior salivary glands are transported to the cephalopodium; they are involved in prey catching but also in gamete storage, fertilization and egg-laying. The paralyzing activity and the antimicrobial effect of saliva suggest a dual role in predation and in immune defense in cuttlefish.</p><p><b>BIOLOGICAL SIGNIFICANCE: </b>The originality of this study lies in the use of a transcriptomic approach (de novo RNA sequencing) coupled to a proteomic approach to get an overview of posterior salivary glands in S. officinalis. In cephalopods, these glands are involved in predation, more precisely in paralyzing preys and digesting them. Our in silico analysis equally reveals a role in immune defense as observed in mammals{\textquoteright} saliva. Our study also shows the specificity of cuttlefish venom, with the identification of cephalotoxins, proteins that are not found in octopuses. Finally, we show that cuttlefish saliva is a complex mixture that has antibacterial and crippling properties, but no lethal effect.</p>},
	issn = {1876-7737},
	doi = {10.1016/j.jprot.2014.05.019},
	author = {Cornet, Val{\'e}rie and Jo{\"e}l Henry and Corre, Erwan and Gildas Le Corguille and Zanuttini, Bruno and C{\'e}line Zatylny-Gaudin}
}
@inbook {4149,
	title = {European Sea bass larval culture.},
	booktitle = {Biology of European Seabass.},
	year = {2014},
	pages = {162-206},
	publisher = {CRC Press},
	organization = {CRC Press},
	address = {Boca Raton},
	author = {Gisbert, E and Fern{\'a}ndez, Ignacio and Villamizar, N and Darias, Maria and Zambonino-Infante, J and Est{\'e}vez, A},
	editor = {S{\'a}nchez-V{\'a}zquez, F J and Mu{\~n}oz-Cueto, J A}
}
@article {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 = {<p><strong>BACKGROUND: </strong>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.</p>

<p><strong>RESULTS: </strong>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.</p>

<p><strong>CONCLUSION: </strong>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.</p>
},
	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 {3370,
	title = {Protecting honey bees: identification of a new varroacide by in silico, in vitro, and in vivo studies.},
	journal = {Parasitol Res},
	volume = {113},
	year = {2014},
	month = {2014 Dec},
	pages = {4601-10},
	abstract = {<p>Varroa destructor is the main concern related to the gradual decline of honeybees. Nowadays, among the various acaricides used in the control of V. destructor, most presents increasing resistance. An interesting alternative could be the identification of existent molecules as new acaricides with no effect on honeybee health. We have previously constructed the first 3D model of AChE for honeybee. By analyzing data concerning amino acid mutations implicated in the resistance associated to pesticides, it appears that pirimicarb should be a good candidate for varroacide. To check this hypothesis, we characterized the AChE gene of V. destructor. In the same way, we proposed a 3D model for the AChE of V. destructor. Starting from the definition of these two 3D models of AChE in honeybee and varroa, a comparison between the gorges of the active site highlighted some major differences and particularly different shapes. Following this result, docking studies have shown that pirimicarb adopts two distinct positions with the strongest intermolecular interactions with VdAChE. This result was confirmed with in vitro and in vivo data for which a clear inhibition of VdAChE by pirimicarb at 10 μM (contrary to HbAChE) and a 100\% mortality of varroa (dose corresponding to the LD50 (contact) for honeybee divided by a factor 100) were observed. These results demonstrate that primicarb could be a new varroacide candidate and reinforce the high relationships between in silico, in vitro, and in vivo data for the design of new selective pesticides.</p>},
	issn = {1432-1955},
	doi = {10.1007/s00436-014-4150-z},
	author = {Dulin, Fabienne and C{\'e}line Zatylny-Gaudin and Ballandonne, C{\'e}line and Guillet, Bertrand and Bonafos, Romain and Bureau, Ronan and Halm, Marie Pierre}
}
@article {3419,
	title = {Seasonal dynamics of extracellular polymeric substances (EPS) in surface sediments of a diatom-dominated intertidal mudflat (Marennes{\textendash}Ol{\'e}ron, France)},
	journal = {Journal of Sea Research},
	volume = {92},
	year = {2014},
	month = {09/2014},
	pages = {26-35},
	author = {Guillaume Pierre and Jean-Michel Zhao and Francis Orvain and Christine Dupuy and G{\'e}raldine Klein and Marianne Graber and Thierry Maugard}
}
@article {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 = {<p>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.</p>},
	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 {8588,
	title = {Testing a Global Positioning System on free-ranging badgers Meles meles},
	journal = {Mammal Notes},
	year = {2012},
	month = {2012},
	pages = {1-5},
	type = {Short note},
	url = {https://www.mammal.org.uk/wp-content/uploads/2016/04/Note-5-Brendel-MN-2012-1.pdf},
	author = {Brendel, Carole and Helder, R{\'e}mi and Chevallier, Damien and Zaytoon, Janan and Georges, Jean-Yves and Handrich, Yves}
}
