@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 {9827, title = {Developmental Thermal Reaction Norms of Leatherback Marine Turtles at Nesting Beaches}, journal = {Animals}, volume = {14}, year = {2024}, month = {10/2024}, abstract = {Accurate scientific information is critical for undertaking appropriate conservation and management practices for imperiled species. One source of concern is that research findings might
vary for non-biological reasons, including experimental design and analytical methods. To illustrate, we provide detailed modern analysis of reproductive data for leatherback turtles (Dermochelys coriacea). This species exhibits significant fluctuations in nesting densities across different regions, possibly driven by local rather than global factors. Key factors influencing these changes include hatching success and sex determination, both sensitive to incubation temperatures (e.g., lower temperatures yield more males, higher temperatures yield females). This study updates the understanding of temperature-dependent sex determination (TSD) in this species using Bayesian statistics. Growth rate data from the West Pacific and Northwest Atlantic populations show a similar, monotone increase with temperature, affirming the reliability of the models used. The analysis of TSD patterns indicates that observed differences are more likely due to study methodologies and clutch-specific factors rather than regional differences. These findings challenge previous assumptions, showing that leatherback TSD does not conform to a simple on/off pattern but is influenced by multiple, interacting environmental factors. Population dynamics models must account for these complexities, recognizing that both sex ratios and hatching success are critical to understand the rapid changes observed in some leatherback populations.}, keywords = {Dermochelys coriacea, embryo, Growth, leatherback, pivotal temperature, Population Dynamics, Sex ratio, temperature-dependent sex determination, transitional range of temperatures, TSD, TSD pattern}, doi = {https://doi.org/10.3390/ani14213050}, url = {https://www.mdpi.com/2076-2615/14/21/3050}, author = {Girondot, Marc and Caleb J. Krueger and Camille Cl{\'e}om{\`e}ne and Zeenat Tran and Chevallier, Damien and Fredric J. Janzen} } @article {9748, title = {The effect of gonadal hormones on the gene expression of brain-pituitary in protandrous black porgy, Acanthopagrus schlegelii}, journal = {General and Comparative Endocrinology}, volume = {351}, year = {2024}, month = {Jan-05-2024}, pages = {114482}, issn = {00166480}, doi = {10.1016/j.ygcen.2024.114482}, author = {Tseng, Peng-Wei and Lin, Chien-Ju and Tsao, Yuan-Han and Kuo, Wei-Lun and Chen, Hsin-Chih and Sylvie Dufour and Wu, Guan-Chung and Chang, Ching-Fong} } @article {9929, title = {Evolutionary genomics of the emergence of brown algae as key components of coastal ecosystems}, journal = {Cell}, volume = {187}, year = {2024}, month = {Jan-11-2024}, pages = {6943 - 6965.e39}, abstract = {Brown seaweeds are keystone species of coastal ecosystems, often forming extensive underwater forests, and are under considerable threat from climate change. In this study, analysis of multiple genomes has provided insights across the entire evolutionary history of this lineage, from initial emergence, through later diversification of the brown algal orders, down to microevolutionary events at the genus level. Emergence of the brown algal lineage was associated with a marked gain of new orthologous gene families, enhanced protein domain rearrangement, increased horizontal gene transfer events, and the acquisition of novel signaling molecules and key metabolic pathways, the latter notably related to biosynthesis of the alginate-based extracellular matrix, and halogen and phlorotannin biosynthesis. We show that brown algal genome diversification is tightly linked to phenotypic divergence, including changes in life cycle strategy and zoid flagellar structure. The study also showed that integration of large viral genomes has had a significant impact on brown algal genome content throughout the emergence of the lineage.}, issn = {00928674}, doi = {10.1016/j.cell.2024.10.049}, url = {https://www.cell.com/cell/fulltext/S0092-8674(24)01272-8}, author = {Denoeud, France and Godfroy, Olivier and Cruaud, Corinne and Heesch, Svenja and Nehr, Zofia and Tadrent, Nachida and Couloux, Arnaud and Brillet-Gu{\'e}guen, Loraine and Delage, Ludovic and Mckeown, Dean and Motomura, Taizo and Sussfeld, Duncan and Fan, Xiao and Maz{\'e}as, Lisa and Terrapon, Nicolas and Barrera-Redondo, Josu{\'e} and Petroll, Romy and Reynes, Lauric and Choi, Seok-Wan and Jo, Jihoon and Uthanumallian, Kavitha and Bogaert, Kenny and Duc, C{\'e}line and Ratchinski, P{\'e}lagie and Lipinska, Agnieszka and Noel, Benjamin and Murphy, Eleanor A. and Lohr, Martin and Khatei, Ananya and Hamon-Giraud, Pauline and Vieira, Christophe and Avia, Komlan and Akerfors, Svea Sanja and Akita, Shingo and Badis, Yacine and Barbeyron, Tristan and Belcour, Arnaud and Berrabah, Wahiba and Blanquart, Samuel and Bouguerba-Collin, Ahlem and Bringloe, Trevor and Cattolico, Rose Ann and Cormier, Alexandre and Cruz de Carvalho, Helena and Dallet, Romain and De Clerck, Olivier and Debit, Ahmed and Denis, Erwan and Destombe, Christophe and Dinatale, Erica and Dittami, Simon and Drula, Elodie and Faugeron, Sylvain and Got, Jeanne and Graf, Louis and Groisillier, Agn{\`e}s and Guillemin, Marie-Laure and Harms, Lars and Hatchett, William John and Henrissat, Bernard and Hoarau, Galice and Jollivet, Chlo{\'e} and Jueterbock, Alexander and Kayal, Ehsan and Knoll, Andrew H. and Kogame, Kazuhiro and Le Bars, Arthur and Leblanc, Catherine and Le Gall, Line and Ley, Ronja and Liu, Xi and LoDuca, Steven T. and Pascal Jean Lopez and Lopez, Philippe and Manirakiza, Eric and Massau, Karine and Mauger, St{\'e}phane and Mest, Laetitia and Michel, Gurvan and Monteiro, Catia and Nagasato, Chikako and N{\`e}gre, Delphine and Pelletier, Eric and Phillips, Naomi and Potin, Philippe and Rensing, Stefan A. and Rousselot, Ellyn and Rousvoal, Sylvie and Schroeder, Declan and Scornet, Delphine and Siegel, Anne and Tirichine, Leila and Tonon, Thierry and Valentin, Klaus and Verbruggen, Heroen and Weinberger, Florian and Wheeler, Glen and Kawai, Hiroshi and Peters, Akira F. and Yoon, Hwan Su and Herv{\'e}, C{\'e}cile and Ye, Naihao and Bapteste, Eric and Valero, Myriam and Markov, Gabriel V. and Corre, Erwan and Coelho, Susana M. and Wincker, Patrick and Aury, Jean-Marc and Cock, J. Mark} } @article {9749, title = {The expression profiles of cyp19a1, sf-1, esrs and gths in the brain-pituitary during gonadal sex differentiation in juvenile Japanese eels}, journal = {General and Comparative Endocrinology}, volume = {353}, year = {2024}, month = {Jan-07-2024}, pages = {114512}, issn = {00166480}, doi = {10.1016/j.ygcen.2024.114512}, author = {Jeng, Shan-Ru and Wu, Guan-Chung and Yueh, Wen-Shiun and Liu, Pei-hua and Kuo, Shu-Fen and Sylvie Dufour and Chang, Ching-Fong} } @article {9610, title = {Freshwater and limno-terrestrial meiofauna of the Massane Forest Reserve in the Eastern French Pyrenees}, journal = {Biogeographia {\textendash} The Journal of Integrative Biogeography}, volume = {39}, year = {2024}, month = {Mar-02-2026}, issn = {1594-7629}, doi = {10.21426/B639162226}, url = {https://escholarship.org/uc/item/36v7z1xj}, author = {Majdi, Nabil and Araujo, Thiago Quintao and Bekkouche, Nicolas and Fontaneto, Diego and Garrigue, Joseph and Larrieu, Laurent and Kamburska, Lyudmila and Kieneke, Alexander and Minowa, Axell Kou and Laumer, Christopher and Sabatino, Raffaella and Sorel, Diane and Stec, Daniel and Traunspurger, Walter} } @article {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 {9646, title = {An integrative taxonomic revision of the freshwater atyid shrimps (Crustacea: Decapoda: Caridea) of Micronesia}, journal = {Diversity}, volume = {16}, year = {2024}, month = {03/2024}, pages = {1-31}, abstract = {Twelve species of atyid shrimps are reported from three Micronesian islands (Babeldaob, Pohnpei, and Guam) and studied using a combined morphological and molecular approach. Among them, three are new records for the area (Caridina appendiculata, Caridina lobocensis, and Caridina rubella), while three new species are here described: Atyoida chacei sp. nov., Caridina ponapensis sp. nov., and Caridina rintelenorum sp. nov. Descriptions for these new species, diagnoses for poorly known species, and taxonomic notes are provided herein and their biogeography is discussed.}, keywords = {16S, amphidromy, Atyidae, DNA, island, morphology}, doi = {10.3390/d16040200}, url = {https://www.mdpi.com/1424-2818/16/4/200}, author = {de Mazancourt, Valentin and Marquet, G{\'e}rard and Keith, Philippe} } @article {9739, title = {Integrative taxonomy study of brackish water crabs of the genus Ptychognathus Stimpson, 1858 (Crustacea: Brachyura: Varunidae) from Polynesia, with description of two new species}, journal = {Zootaxa}, volume = {5476}, year = {2024}, month = {Jul-04-2024}, pages = {267 - 297}, abstract = {In the present contribution, five species of Ptychognathus Stimpson, 1858 are reported from Polynesia: P. crassimanus Finnegan, 1931, P. easteranus Rathbun, 1907, P. riedelii (A. Milne-Edwards, 1868) and two new species. The first new species named P. ngankeeae sp. nov. is close to P. barbatus (A. Milne-Edwards, 1873) from New Caledonia, which is here redescribed for comparison purposes. The second new species named P. similis sp. nov. is close to P. hachijoensis Sakai, 1955.}, issn = {1175-5326}, doi = {10.11646/zootaxa.5476.110.11646/zootaxa.5476.1.23}, url = {https://mapress.com/zt/issue/view/zootaxa.5476.1https://mapress.com/zt/article/view/zootaxa.5476.1.23https://mapress.com/zt/article/download/zootaxa.5476.1.23/53891https://mapress.com/zt/article/download/zootaxa.5476.1.23/53891}, author = {de Mazancourt, Valentin and Mazel, Virgile and Marquet, G{\'e}rard and Poupin, Joseph and Keith, Philippe} } @article {9740, title = {Macrobrachium ngankeeae, a new species of freshwater shrimp (Crustacea: Decapoda: Palaemonidae) from Papua Barat Province, Indonesia}, journal = {Zootaxa}, volume = {5476}, year = {2024}, month = {Jul-04-2024}, pages = {253 - 266}, abstract = {
A new freshwater prawn, Macrobrachium ngankeeae n. sp., is described from two rivers in the Kaimana Regency on the southern coast of Papua Barat Province, Indonesia. The new species belongs to the Macrobrachium placidulum species- group, but it can be easily distinguished from the other members of this group by having fewer postorbital teeth and the epigastric tooth placed more anteriorly with a relatively shorter epigastric length, i.e. 0.23{\textendash}0.27 of carapace length (vs 0.24{\textendash}0.55 in the other species members). Other distinguishing morphological characters and a molecular analysis of this new species are discussed. A key to the species of the M. placidulum species-group is also provided.
}, issn = {1175-5326}, doi = {10.11646/zootaxa.5476.110.11646/zootaxa.5476.1.22}, url = {https://mapress.com/zt/issue/view/zootaxa.5476.1https://mapress.com/zt/article/view/zootaxa.5476.1.22https://mapress.com/zt/article/download/zootaxa.5476.1.22/53890https://mapress.com/zt/article/download/zootaxa.5476.1.22/53890}, author = {de Mazancourt, Valentin and Marquet, G{\'e}rard and Wowor, Daisy and Keith, Philippe} } @article {9734, title = {Mycorrhizal communities of Vanilla planifolia in an introduction area (La R{\'e}union) under varying cultivation practices}, journal = {Plants, People, Planet}, volume = {6}, year = {2024}, month = {Jan-05-2024}, pages = {683 - 696}, abstract = {Vanilla is one of the most valuable spices in the world. In Madagascar and La R{\'e}union, the world{\textquoteright}s leading producers, vanilla is of great economic and cultural importance. Like all orchids, vanilla plants associate with mycorrhizal fungi in their roots forming mutualistic associations that allow them to grow and thrive. Understanding the diversity of mycorrhizal fungi adapted to vanilla cultivation, particularly in the Indian Ocean islands where they have never previously been studied, is becoming a necessity for maintaining vanilla crops in these regions in the face of climate change and the emergence of new pathogens.}, issn = {2572-2611}, doi = {10.1002/ppp3.v6.310.1002/ppp3.10476}, url = {https://nph.onlinelibrary.wiley.com/doi/full/10.1002/ppp3.10476}, author = {Petrolli, R{\'e}mi and Selosse, Marc-Andr{\'e} and C{\'e}line Bonillo and Griveau, Chantal and Lalanne-Tisn{\'e}, Guillaume and Comes, Bertrand and Kodja, Hippolyte and Martos, Florent} } @article {9741, title = {A niche-based theory of island biogeography}, journal = {Ecology and Evolution}, volume = {14}, year = {2024}, month = {Jan-06-2024}, abstract = {The equilibrium theory of island biogeography (ETIB) is a widely applied dynamic theory proposed in the 1960s to explain why islands have coherent differences in species richness. The development of the ETIB was temporarily challenged in the 1970s by the alternative static theory of ecological impoverishment (TEI). The TEI suggests that the number of species on an island is determined by its number of habitats or niches but, with no clear evidence relating species richness to the number of niches however, the TEI has been almost dismissed as a theory in favour of the original ETIB. Here, we show that the number of climatic niches on islands is an important predictor of the species richness of plants, herpetofauna and land birds. We therefore propose a model called the niche-based theory of island biogeography (NTIB), based on the MacroEcological Theory on the Arrangement of Life (METAL), which successfully integrates the number of niches sensu Hutchinson into ETIB. To account for greater species turnover at the beginning of colonisation, we include higher initial extinction rates. When we test our NTIB for resident land birds in the Krakatau Islands, it reveals a good correspondence with observed species richness, immigration and extinction rates. Provided the environmental regime remains unchanged, we estimate that the current species richness at equilibrium is ~45 species (range between 38.39 and 61.51). Our NTIB provides better prediction because it counts for changes in species richness with latitude, which is not considered in any theory of island biogeography.}, issn = {2045-7758}, doi = {10.1002/ece3.v14.610.1002/ece3.11540}, url = {https://onlinelibrary.wiley.com/doi/full/10.1002/ece3.11540}, author = {Gr{\'e}gory Beaugrand and Kl{\'e}parski, Lo{\"\i}ck and Christophe Luczak and Goberville, Eric and Richard R Kirby} } @article {9864, title = {Opportunities for Earth Observation to Inform Risk Management for Ocean Tipping Points}, journal = {Surveys in Geophysics}, year = {2024}, month = {Jun-11-2024}, abstract = {As climate change continues, the likelihood of passing critical thresholds or tipping points increases. Hence, there is a need to advance the science for detecting such thresholds. In this paper, we assess the needs and opportunities for Earth Observation (EO, here understood to refer to satellite observations) to inform society in responding to the risks associated with ten potential large-scale ocean tipping elements: Atlantic Meridional Overturning Circulation; Atlantic Subpolar Gyre; Beaufort Gyre; Arctic halocline; Kuroshio Large Meander; deoxygenation; phytoplankton; zooplankton; higher level ecosystems (including fisheries); and marine biodiversity. We review current scientific understanding and identify specific EO and related modelling needs for each of these tipping elements. We draw out some generic points that apply across several of the elements. These common points include the importance of maintaining long-term, consistent time series; the need to combine EO data consistently with in situ data types (including subsurface), for example through data assimilation; and the need to reduce or work with current mismatches in resolution (in both directions) between climate models and EO datasets. Our analysis shows that developing EO, modelling and prediction systems together, with understanding of the strengths and limitations of each, provides many promising paths towards monitoring and early warning systems for tipping, and towards the development of the next generation of climate models.}, issn = {0169-3298}, doi = {10.1007/s10712-024-09859-3}, url = {https://link.springer.com/article/10.1007/s10712-024-09859-3}, author = {Wood, Richard A. and Baker, Jonathan A. and Gr{\'e}gory Beaugrand and Boutin, Jacqueline and Alessandra Conversi and Donner, Reik V. and Frenger, Ivy and Goberville, Eric and Hayashida, Hakase and Koeve, Wolfgang and Kvale, Karin and Landolfi, Angela and Maslowski, Wieslaw and Oschlies, Andreas and Romanou, Anastasia and Somes, Christopher J. and Stocker, Thomas F. and Swingedouw, Didier} } @article {9321, title = {Beach erosion aggravates the drastic decline in marine turtle populations in French Guiana}, journal = {Regional Environmental Change}, volume = {23}, year = {2023}, month = {Jan-09-2023}, issn = {1436-3798}, doi = {10.1007/s10113-023-02105-3}, url = {https://link.springer.com/10.1007/s10113-023-02105-3}, author = {Chevallier, Damien and Girondot, Marc and P{\'e}ron, Christina and Martin, Jordan and Bonola, Marc and Chevalier, Johan and de Thoisy, Beno{\^\i}t and Kelle, Laurent and Le Maho, Yvon and Gardel, Antoine and Anthony, Edward J.} } @article {9085, title = {Biogeographical snapshot of life-history traits of European silver eels: insights from otolith microchemistry}, journal = {Aquatic Sciences}, volume = {85}, year = {2023}, month = {Jan-04-2023}, abstract = {Life-history traits of eels display a high level of phenotypic plasticity in response to large-scale biogeographical drivers, as well as local conditions encountered during the continental phase. Here, we provided a biogeographical snapshot of the variability of life-history traits of eels (Anguilla anguilla), across a large proportion of their natural distribution range. Silver eels (n = 99) were collected across eleven European catchments to investigate how life-history traits vary along geographical and saline habitats, as it was inferred from the Sr:Ca ratio in otoliths. Among 13 life-history traits tested, 3 of them such as total length, body or liver weight were related to geographical coordinates. Overall, eels grow faster in southern Europe and migrate earlier suggesting that the silvering process is related to the local growth conditions more than fish age. The salinity profiles revealed by the otoliths{\textquoteright} Sr:Ca ratios indicate that eels with a brackish life-history generally grow faster, reach larger size-at-age, and have a better condition than eels living in freshwater. This observation associated with the lower abundance of the sanguivorous swimbladder nematode, Anguillicola crassus, confirms the importance of brackish areas for sustaining the eel production. A large proportion of the observed variation of life-history traits remained unexplained by the biogeographical trends and salinity condition, which suggests that other drivers act at the catchment scale.
}, keywords = {Anguilla anguilla, Biogeography, Brackish habitat, otolith, phenotypic plasticity, Sr:Ca ratio}, issn = {1015-1621}, doi = {10.1007/s00027-023-00940-4}, url = {https://link.springer.com/10.1007/s00027-023-00940-4}, author = {Teichert, Nils and Bourillon, Bastien and Suzuki, Kyoko and Acou, Anthony and Alexandre Carpentier and Kuroki, Mari and Righton, David and Thomas Trancart and Virag, Laure-Sarah and Walker, Alan and Otake, Tsuguo and Eric Feunteun} } @article {9188, title = {Current knowledge of New Caledonian marine and freshwater ichthyofauna, SW Pacific Ocean: Diversity, exploitation, threats and management actions.}, journal = {Cybium}, volume = {47}, year = {2023}, month = {03/2023}, pages = {17-30}, doi = {https://doi.org/10.26028/cybium/2023-471-002}, author = {Yves Letourneur and Charpin Nicolas and Marion Mennesson and Philippe Keith} } @article {9214, title = {Diet quality determines blue mussel physiological status: A long-term experimental multi-biomarker approach}, journal = {Journal of Experimental Marine Biology and Ecology}, volume = {563}, year = {2023}, month = {Jan-06-2023}, pages = {151894}, issn = {00220981}, doi = {10.1016/j.jembe.2023.151894}, url = {https://linkinghub.elsevier.com/retrieve/pii/S0022098123000266}, author = {Li{\'e}nart, Camilla and Tedengren, Michael and Garbaras, Andrius and Lim, Hwanmi and Chynel, Mathias and Robinson, Christophe and Tarik Meziane and Karlson, Agnes M.L.} } @article {9302, title = {Discovery of a Digenean (Cryptogonimidae) Living in a Cleft-Lipped Goby, Sicyopterus cynocephalus (Teleostei: Gobiidae) from Ranongga Island, Solomon Islands: Analysis of Multiple Ribosomal DNA Regions}, journal = {Pathogens}, volume = {12}, year = {2023}, month = {Jan-07-2023}, pages = {923}, doi = {10.3390/pathogens12070923}, url = {https://www.mdpi.com/2076-0817/12/7/923}, author = {Mathews, Patrick D. and Nicolas Rabet and L. Espinoza, Luis and Vincent Ha{\"y} and C{\'e}line Bonillo and Philippe Keith and Clara Lord and Audebert, Fabienne} } @article {9044, title = {Influence of Nutrient Gradient on Phytoplankton Size Structure, Primary Production and Carbon Transfer Pathway in a Highly Productive Area (SE Mediterranean)}, journal = {Ocean Science Journal}, volume = {58}, year = {2023}, month = {Jan-03-2023}, abstract = {We assessed the spatial variability in the size structure of phytoplankton, community composition, primary production and carbon fluxes through the planktonic food web of the Gulf of Gab{\`e}s (GG; Southeastern Mediterranean Sea) in the fall of 2017 during the MERMEX-MERITE cruise. High concentrations in nutrients, chlorophyll a (~ 2{\textendash}6 μg L -1 ) and primary production (1816{\textendash}3674 mg C m -2 d -1 ) revealed an eutrophic status of the studied stations in the GG. In accordance with hydrodynamic features, inorganic nutrients showed increases in concentrations from North to South and from coast to off- shore, these nutrient gradients impacting the spatial distribution of phytoplankton community. Size-fractioned phytoplankton biomass and production were the lowest in the northernmost zone where they were mainly sustained by pico-sized fraction. Concomitantly, in this area, small aloricate ciliates were dominant leading to a high microbivory. Conversely, higher biomass and production were measured towards the South and offshore with prevalence of larger phytoplankton (nano- and/or micro- sized fractions) supported by diatoms. The herbivorous protozooplankton and metazooplankton were more abundant in these zones, resulting in an increase of the herbivory. The vertical particulate organic carbon flux followed also a north{\textendash}south and coast-offshore increasing gradient, with a higher contribution of phytoplankton, and zooplankton fecal pellets to the sink- ing organic matter in the southernmost area. Our results suggest that even in nutrient-rich and highly productive waters, a continuum of trophic pathways, ranging from microbial to multivorous and herbivorous food webs, may exist, which implies different efficiencies in carbon export and carrying capacity within the ecosystem.}, keywords = {Phytoplankton size-structure {\textperiodcentered} Primary production {\textperiodcentered} Zooplankton grazing {\textperiodcentered} Planktonic food web {\textperiodcentered} Mediterranean gulf}, issn = {1738-5261}, doi = {10.1007/s12601-023-00101-6}, url = {https://link.springer.com/10.1007/s12601-023-00101-6}, author = {Chkili Oumayma and Meddeb Marouan and Mejri Kousri Kaouther and Melliti Ben Garali Sondes and Makhlouf Belkhahia Nouha and Tedetti Marc and Pagano Marc and Belaaj Zouari Amel and Belhassen Malika and Niquil Nathalie and Sakka Hlaili Asma} } @article {9523, title = {Key issues in assessing threats to sea turtles: knowledge gaps and future directions}, journal = {Endangered Species Research}, volume = {52}, year = {2023}, month = {Feb-12-2024}, pages = {303 - 341}, issn = {1863-5407}, doi = {10.3354/esr01278}, url = {https://www.int-res.com/abstracts/esr/v52/p303-341/}, author = {Fuentes, MMPB and McMichael, E and Kot, CY and Silver-Gorges, I and Wallace, BP and Godley, BJ and Brooks, AML and Ceriani, SA and Cort{\'e}s-G{\'o}mez, AA and Dawson, TM and Dodge, KL and Flint, M and Jensen, MP and Komoroske, LM and Kophamel, S and Lettrich, MD and Long, CA and Nelms, SE and Patr{\'\i}cio, AR and Robinson, NJ and Seminoff, JA and Ware, M and Whitman, ER and Chevallier, Damien and Clyde-Brockway, CE and Korgaonkar, SA and Mancini, A and Mello-Fonseca, J and Monsinjon, JR and Neves-Ferreira, I and Ortega, AA and Patel, SH and Pfaller, JB and Ramirez, MD and Raposo, C and Smith, CE and Abreu-Grobois, FA and Hays, GC} } @article {9070, title = {Local Food Systems under Global Influence: The Case of Food, Health and Environment in Five Socio-Ecosystems}, journal = {Sustainability}, volume = {15}, year = {2023}, month = {Jan-02-2023}, pages = {2376}, doi = {10.3390/su15032376}, url = {https://www.mdpi.com/2071-1050/15/3/2376}, author = {Rapinski, Michael and Raymond, Richard and Davy, Damien and Herrmann, Thora and Bedell, Jean-Philippe and Ka, Abdou and Odonne, Guillaume and Chanteloup, Laine and Pascal Jean Lopez and Foulquier, Eric and da Silva, Eduardo Ferreira and El Deghel, Nathalie and Bo{\"e}tsch, Gilles and Coxam, V{\'e}ronique and Joliet, Fabienne and Guihard-Costa, Anne-Marie and Tib{\`e}re, Laurence and Nazare, Julie-Anne and Duboz, Priscilla} } @article {9108, title = {Marine invertebrates and noise}, journal = {Frontiers in Marine Science}, volume = {10}, year = {2023}, month = {March-07-2023}, abstract = {Within the set of risk factors that compromise the conservation of marine biodiversity, one of the least understood concerns is the noise produced by human operations at sea and from land. Many aspects of how noise and other forms of energy may impact the natural balance of the oceans are still unstudied. Substantial attention has been devoted in the last decades to determine the sensitivity to noise of marine mammals{\textemdash}especially cetaceans and pinnipeds{\textemdash} and fish because they are known to possess hearing organs. Recent studies have revealed that a wide diversity of invertebrates are also sensitive to sounds, especially via sensory organs whose original function is to allow maintaining equilibrium in the water column and to sense gravity. Marine invertebrates not only represent the largest proportion of marine biomass and are indicators of ocean health but many species also have important socio-economic values. This review presents the current scientific knowledge on invertebrate bioacoustics (sound production, reception, sensitivity), as well as on how marine invertebrates are affected by anthropogenic noises. It also critically revisits the literature to identify gaps that will frame future research investigating the tolerance to noise of marine ecosystems.}, keywords = {marine invertebrates, marine noise pollution, noise effects, particle motion, sound detection, sound pressure, sound production, statocyst}, doi = {10.3389/fmars.2023.1129057}, url = {https://www.frontiersin.org/articles/10.3389/fmars.2023.1129057/full}, author = {Sol{\'e}, Marta and Kaifu, Kenzo and Mooney, T. Aran and Nedelec, Sophie L. and Fr{\'e}d{\'e}ric Olivier and Radford, Andrew N. and Vazzana, Mirella and Wale, Matthew A. and Semmens, Jayson M. and Simpson, Stephen D. and Buscaino, Giuseppa and Hawkins, Anthony and Aguilar de Soto, Natacha and Akamatsu, Tomoari and Chauvaud, Laurent and Day, Ryan D. and Fitzgibbon, Quinn and McCauley, Robert D. and Andr{\'e}, Michel} } @article {9246, title = {Molecular ecology of the freshwater shrimp Caridina natalensis and comparative analysis with other amphidromous species (Decapoda, Teleostei, and Gastropoda)}, journal = {Hydrobiologia}, year = {2023}, month = {Jun-26-2023}, abstract = {Due to their life cycle shared between rivers and oceans, amphidromous organisms serve as intriguing models for studying biogeography. To investigate the implications of their unique life history, we examined the population structure of the amphidromous shrimp Caridina natalensis across its known range in the South Western Indian Ocean. A total of 118 specimens were collected from 7 islands (Mayotte, Moh{\'e}li, Mah{\'e}, Praslin, Silhouette, Mauritius and Madagascar) and the African mainland (South Africa), and their 16S rRNA and Cox1 mitochondrial genes were sequenced. Our findings reveal significant regional structure among archipelagos, suggesting complex patterns of dispersal involving successive events of extinction-recolonization. By conducting a comparative analysis with six other amphidromous species from the South Western Indian Ocean, based on literature sources, we were able to draw conclusions regarding the amphidromous biogeography of the area. Furthermore, we propose a novel classification of amphidromous species, considering their population structure and life history traits. We defined four categories of increasing dispersal abilities and decreasing genetic population structure: 1. Land-locked species; 2. Species with reduced or facultative amphidromy; 3. Species with common amphidromy; and 4. Super-amphidromous species. Lastly, we identified the Comoros Islands (namely Mayotte and Moh{\'e}li) as a critical area for the dispersal of amphidromous species, emphasizing the need for prioritizing conservation efforts in this region.}, issn = {0018-8158}, doi = {10.1007/s10750-023-05283-7}, url = {https://link.springer.com/10.1007/s10750-023-05283-7}, author = {de Mazancourt, Valentin and Ahmed Abdou and Castelin, Magalie and Ellien, C{\'e}line and Clara Lord and Marion Mennesson and Renneville, Cl{\'e}mentine and Marquet, G{\'e}rard and Philippe Keith} } @article {9300, title = {Revision of Hypseleotris (Teleostei: Eleotridae) from Indo-Pacific Islands using molecular and morphometric approaches, with description of one new species}, journal = {Zoological Journal of the Linnean Society}, year = {2023}, month = {Mar-05-2023}, issn = {0024-4082}, doi = {10.1093/zoolinnean/zlad003}, url = {https://academic.oup.com/zoolinnean/advance-article/doi/10.1093/zoolinnean/zlad003/7150892}, author = {Philippe Keith and Marion Mennesson} } @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 {9126, title = {Unmasking pipefish otolith using synchrotron-based scanning X-ray fluorescenceAbstract}, journal = {Scientific Reports}, volume = {13}, year = {2023}, month = {Jan-12-2023}, doi = {10.1038/s41598-023-31798-z}, url = {https://www.nature.com/articles/s41598-023-31798-z}, author = {Ha{\"y}, Vincent and Berland, Sophie and Medjoubi, Kadda and Somogyi, Andrea and Mennesson, Marion I. and Keith, Philippe and Lord, Clara} } @article {9299, title = {Unmasking pipefish otolith using synchrotron-based scanning X-ray fluorescenceAbstract}, journal = {Scientific Reports}, volume = {13}, year = {2023}, month = {Jan-12-2023}, doi = {10.1038/s41598-023-31798-z}, url = {https://www.nature.com/articles/s41598-023-31798-z}, author = {Ha{\"y}, Vincent and Berland, Sophie and Medjoubi, Kadda and Somogyi, Andrea and Mennesson, Marion I. and Philippe Keith and Lord, Clara} } @article {9118, title = {What are the toxicity thresholds of chemical pollutants for tropical reef-building corals? A systematic review}, journal = {Environmental Evidence}, volume = {12}, year = {2023}, month = {Jan-12-2023}, doi = {10.1186/s13750-023-00298-y}, url = {https://environmentalevidencejournal.biomedcentral.com/articles/10.1186/s13750-023-00298-y}, author = {Ou{\'e}draogo, Dakis-Yaoba and Mell, Hugo and Perceval, Olivier and Burga, Karen and Domart-Coulon, Isabelle and H{\'e}douin, Laetitia and Delaunay, Mathilde and Mireille M.M. Guillaume and Castelin, Magalie and Calvayrac, Christophe and Kerkhof, Odile and Sordello, Romain and Reyjol, Yorick and Ferrier-Pages, Christine} } @article {9301, title = {Why several when one can unite them all? Integrative taxonomic revision of Indo-Pacific freshwater pipefish (Nerophinae)Abstract}, journal = {Zoological Journal of the Linnean Society}, year = {2023}, month = {May-06-2023}, issn = {0024-4082}, doi = {10.1093/zoolinnean/zlad007}, url = {https://academic.oup.com/zoolinnean/advance-article/doi/10.1093/zoolinnean/zlad007/7190493}, author = {Vincent Ha{\"y} and Marion Mennesson and Clara Lord and Philippe Keith} } @article {9182, title = {Additional records of Sicyopus discordipinnis (Watson, 1995) (Oxudercidae: Sicydiinae) in Central Sulawesi, Indonesia.}, journal = {Cybium}, volume = {46}, year = {2022}, month = {02/2022}, pages = {41-43}, author = {Nurjirana and Burhanuddin, A I and Philippe Keith and Haris, A} } @article {8885, title = {Analysing economic costs of invasive alien species with the invacost R package}, journal = {Methods in Ecology and Evolution}, volume = {13}, year = {2022}, month = {Jan-09-2022}, pages = {1930 - 1937}, issn = {2041-210X}, doi = {10.1111/mee3.v13.910.1111/2041-210X.13929}, url = {https://doi.org/10.1111/2041-210X.13929}, author = {Leroy, Boris and Kramer, Andrew M. and Vaissi{\`e}re, Anne-Charlotte and Kourantidou, Melina and Courchamp, Franck and Diagne, Christophe} } @article {8991, title = {Cephalopod palaeobiology: evolution and life history of the most intelligent invertebratesAbstract}, journal = {Swiss Journal of Palaeontology}, volume = {141}, year = {2022}, month = {Jan-12-2022}, issn = {1664-2376}, doi = {10.1186/s13358-022-00247-1}, url = {https://sjpp.springeropen.com/articles/10.1186/s13358-022-00247-1}, author = {Klug, Christian and Laure Bonnaud-Ponticelli and Nabhitabhata, Jaruwat and Fuchs, Dirk and De Baets, Kenneth and Cheng, Ji and Hoffmann, Ren{\'e}} } @article {8534, title = {Chlordecone-contaminated epilithic biofilms show increased adsorption capacities}, journal = {Science of The Total Environment}, volume = {825}, year = {2022}, month = {Jan-06-2022}, pages = {153942}, issn = {00489697}, doi = {10.1016/j.scitotenv.2022.153942}, url = {https://linkinghub.elsevier.com/retrieve/pii/S0048969722010348}, author = {C{\'e}dric Hubas and Monti, Dominique and Jean-Michel Mortillaro and Augagneur, Sylvie and Carbon, Anne and Duran, Robert and Karama, Solange and Tarik Meziane and Pardon, Patrick and Risser, Th{\'e}o and Tapie, Nathalie and Najet Thiney and Budzinski, H{\'e}l{\`e}ne and Lauga, B{\'e}atrice} } @article {8530, title = {Estimation of the Maternal Investment of Sea Turtles by Automatic Identification of Nesting Behavior and Number of Eggs Laid from a Tri-Axial Accelerometer}, journal = {Animals}, volume = {12}, year = {2022}, month = {Jan-02-2022}, pages = {520}, doi = {10.3390/ani12040520}, url = {https://www.mdpi.com/2076-2615/12/4/520}, author = {Jeantet, Lor{\`e}ne and Hadetskyi, Vadym and Vigon, Vincent and Korysko, Fran{\c c}ois and Paranthoen, Nicolas and Chevallier, Damien} } @article {9187, title = {First record of Hippichthys albomaculosus Jenkins \& Mailautoka, 2010 (Syngnathidae) in New Caledonia. Cybium, 46(1): 53-55.}, journal = {Cybium}, volume = {46}, year = {2022}, month = {02/2022}, pages = {53-55}, author = {Vincent Ha{\"y} and Charpin Nicolas and Philippe Keith and Clara Lord and Marion Mennesson} } @article {8821, title = {A functional vulnerability framework for biodiversity conservation}, journal = {Nature Communications}, volume = {13}, year = {2022}, month = {Sep}, pages = {4774}, abstract = {Setting appropriate conservation strategies in a multi-threat world is a challenging goal, especially because of natural complexity and budget limitations that prevent effective management of all ecosystems. Safeguarding the most threatened ecosystems requires accurate and integrative quantification of their vulnerability and their functioning, particularly the potential loss of species trait diversity which imperils their functioning. However, the magnitude of threats and associated biological responses both have high uncertainties. Additionally, a major difficulty is the recurrent lack of reference conditions for a fair and operational measurement of vulnerability. Here, we present a functional vulnerability framework that incorporates uncertainty and reference conditions into a generalizable tool. Through in silico simulations of disturbances, our framework allows us to quantify the vulnerability of communities to a wide range of threats. We demonstrate the relevance and operationality of our framework, and its global, scalable and quantitative comparability, through three case studies on marine fishes and mammals. We show that functional vulnerability has marked geographic and temporal patterns. We underline contrasting contributions of species richness and functional redundancy to the level of vulnerability among case studies, indicating that our integrative assessment can also identify the drivers of vulnerability in a world where uncertainty is omnipresent.}, issn = {2041-1723}, doi = {10.1038/s41467-022-32331-y}, url = {https://doi.org/10.1038/s41467-022-32331-y}, author = {Auber, Arnaud and Waldock, Conor and Maire, Anthony and Goberville, Eric and Albouy, Camille and Algar, Adam C. and McLean, Matthew and Brind{\textquoteright}Amour, Anik and Green, Alison L. and Tupper, Mark and Vigliola, Laurent and Kaschner, Kristin and Kesner-Reyes, Kathleen and Beger, Maria and Tjiputra, Jerry and Toussaint, Aur{\`e}le and Violle, Cyrille and Mouquet, Nicolas and Thuiller, Wilfried and Mouillot, David} } @article {8882, title = {Geographic and taxonomic trends of rising biological invasion costs}, journal = {Science of The Total Environment}, volume = {817}, year = {2022}, month = {Jan-04-2022}, pages = {152948}, issn = {00489697}, doi = {10.1016/j.scitotenv.2022.152948}, url = {https://linkinghub.elsevier.com/retrieve/pii/S0048969722000377}, author = {Haubrock, Phillip J. and Cuthbert, Ross N. and Hudgins, Emma J. and Crystal-Ornelas, Robert and Kourantidou, Melina and Moodley, Desika and Liu, Chunlong and Turbelin, Anna J. and Leroy, Boris and Courchamp, Franck} } @article {8869, title = {Immuno-Enzymatic and Proteomic Approaches for Sexing the African Bonytongue (Heterotis niloticus Cuvier, 1829)}, journal = {Fishes}, volume = {7}, year = {2022}, month = {Jan-06-2022}, pages = {106}, doi = {10.3390/fishes7030106}, url = {https://www.mdpi.com/2410-3888/7/3/106}, author = {Koua, N{\textquoteright}Zi Daniel and Henry, Jo{\"e}l and Corre, Erwan and Pontin, Julien and Bernay, Beno{\^\i}t and N{\'u}{\~n}ez-Rodr{\'\i}guez, Jes{\'u}s} } @article {9949, title = {Impacts of nutrient loading and fish grazing on the phytoplankton community and cyanotoxin production in a shallow tropical lake: Results from mesocosm experimentsAbstract}, journal = {MicrobiologyOpen}, volume = {11}, year = {2022}, month = {Jan-04-2022}, issn = {2045-8827}, doi = {10.1002/mbo3.1282}, url = {https://onlinelibrary.wiley.com/toc/20458827/11/2}, author = {Ahoutou, Mathias K. and Yao, Eric Kouam{\'e} and Djeha, Rosine Y. and Kone, Mamadou and Tambosco, Kevin and Duval, Charlotte and Sahima Hamlaoui and Bernard, C{\'e}cile and Bouvy, Marc and Marie, Benjamin and Montuelle, Bernard and Troussellier, Marc and Konan, Felix K. and Coulibaly, Julien Kalpy and Dosso, Mireille and Humbert, Jean-Fran{\c c}ois and Quiblier, Catherine} } @article {9178, title = {An integrative phylogenetic approach for inferring relationships of fossil gobioids}, journal = {PLOS ONE}, volume = {17}, year = {2022}, month = {Aug-07-2022}, pages = {e0271121}, doi = {10.1371/journal.pone.0271121}, url = {https://dx.plos.org/10.1371/journal.pone.0271121}, author = {Gierl, Christoph and Dohrmann, Martin and Philippe Keith and Humphreys, William and Esmaeili, Hamid R. and Vuki{\'c}, Jasna and {\v S}anda, Radek and Reichenbacher, Bettina}, editor = {Mirande, Juan Marcos} } @article {9180, title = {Sicyopterus garra Hora, 1925, a valid species of sicydiine goby from the Andaman Islands, India}, journal = {Journal of Fish Biology}, volume = {101}, year = {2022}, month = {Jan-11-2022}, pages = {1189 - 1198}, issn = {0022-1112}, doi = {10.1111/jfb.v101.510.1111/jfb.15189}, url = {https://onlinelibrary.wiley.com/toc/10958649/101/5}, author = {Praveenraj, Jayasimhan and Kiruba-Sankar, Rajendran and Saravanan, Kandasamy and Thackeray, Tejas and Singh, Pratima and Knight, John Daniel Marcus and Philippe Keith} } @article {8146, title = {Knowledge gaps in economic costs of invasive alien fish worldwide}, journal = {Science of The Total Environment}, volume = {803}, year = {2022}, month = {Jan-01-2022}, pages = {149875}, issn = {00489697}, doi = {10.1016/j.scitotenv.2021.149875}, url = {https://linkinghub.elsevier.com/retrieve/pii/S0048969721049500}, author = {Haubrock, Phillip J. and Bernery, Camille and Cuthbert, Ross N. and Liu, Chunlong and Kourantidou, Melina and Leroy, Boris and Turbelin, Anna J. and Kramer, Andrew M. and Verbrugge, Laura N.H. and Diagne, Christophe and Courchamp, Franck and Gozlan, Rodolphe E.} } @article {8356, title = {Macrozooplankton and micronekton diversity and associated carbon vertical patterns and fluxes under distinct productive conditions around the Kerguelen Islands}, journal = {Journal of Marine Systems}, volume = {226}, year = {2022}, month = {Jan-02-2022}, pages = {103650}, issn = {09247963}, doi = {10.1016/j.jmarsys.2021.103650}, url = {https://linkinghub.elsevier.com/retrieve/pii/S0924796321001457}, author = {Cott{\'e}, C. and Ariza, A. and Berne, A. and Habasque, J. and Lebourges-Dhaussy, A. and Roudaut, G. and Espinasse, B. and Hunt, B.P.V. and Pakhomov, E.A. and Henschke, N. and Clara P{\'e}ron and Conchon, A. and Koedooder, C. and Izard, L. and Cherel, Y.} } @article {8884, title = {Managing biological invasions: the cost of inaction}, journal = {Biological Invasions}, volume = {24}, year = {2022}, month = {Jan-07-2022}, pages = {1927 - 1946}, issn = {1387-3547}, doi = {10.1007/s10530-022-02755-0}, url = {https://link.springer.com/10.1007/s10530-022-02755-0}, author = {Ahmed, Danish A. and Hudgins, Emma J. and Cuthbert, Ross N. and Kourantidou, Melina and Diagne, Christophe and Haubrock, Phillip J. and Leung, Brian and Liu, Chunlong and Leroy, Boris and Petrovskii, Sergei and Beidas, Ayah and Courchamp, Franck} } @article {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 {8902, title = {Multiple phytoplankton community responses to environmental change in a temperate coastal system: A trait-based approach}, journal = {Frontiers in Marine Science}, volume = {9}, year = {2022}, month = {Jun-10-2022}, abstract = {The effect of environmental change in structuring the phytoplankton communities of the coastal waters of the Eastern English Channel was investigated by applying a trait-based approach on two decades (1996-2019) of monitoring on diatoms and\ Phaeocystis. We show that phytoplankton species richness in an unbalanced nutrient supply context was influenced by wind-driven processes, ecological specialization for dissolved inorganic phosphorous, temporal niche differentiation, and a competition-defense and/or a growth-defense trade-off, a coexistence mechanism where weak competitors (i.e., slower growing) are better protected against predation. Under the influence of both environmental perturbations (e.g., wind-driven processes, freshwater influence, unbalanced nutrient levels) and biotic interactions (e.g., competition, predation, facilitation), phytoplankton species exhibited specific survival strategies such as investment on growth, adaptation and tolerance of species to environmental stresses, silicification and resource specialization. These strategies have led to more speciose communities, higher productivity, functional redundancy and stability in the last decade. Our results revealed that the unbalanced nutrient reduction facilitated\ Phaeocystis\ blooms and that anthropogenic climate warming and nitrate reduction may threaten the diatom communities of the eastern English Channel in a near future. Our results provide strong support for biogeographical historical and niche-based processes in structuring the phytoplankton community in this temperate region. The variety of species responses that we characterized in this region may help to better understand future changes in pelagic ecosystems, and can serve as a basis to consider functional approaches for future ecosystem management.}, doi = {https://doi.org/10.3389/fmars.2022.914475}, url = {https://www.frontiersin.org/articles/10.3389/fmars.2022.914475/full}, author = {Elsa Breton and Goberville, Eric and Benoit Sautour and Ouadi, Anis and Skouroliakou, Dimitra-Ioli and Seuront, Laurent and Gr{\'e}gory Beaugrand and Kl{\'e}parski, Lo{\"\i}ck and Crouvoisier, Muriel and Pecqueur, David and Salmeron, Christophe and Cauvin, Arnaud and Poquet, Adrien and Garcia, Nicole and Gohin, Francis and Christaki, Urania} } @article {9177, title = {Revision of the Genus Rhyacichthys Using Integrative Taxonomy}, journal = {Pacific Science}, volume = {76}, year = {2022}, month = {Jan-04-2022}, doi = {10.2984/76.2.3}, url = {https://bioone.org/journals/pacific-science/volume-76/issue-2/76.2.3/Revision-of-the-Genus-Rhyacichthys-Using-Integrative-Taxonomy/10.2984/76.2.3.full}, author = {Ha{\"y}, Vincent and Marion Mennesson and Philippe Keith and Lord, Clara} } @article {8598, title = {Seascapes of fear and competition shape regional seabird movement ecology}, journal = {Communications Biology}, volume = {5}, year = {2022}, month = {Jan-12-2022}, doi = {10.1038/s42003-022-03151-z}, url = {https://www.nature.com/articles/s42003-022-03151-z}, author = {Courbin, Nicolas and Pichegru, Lorien and Seakamela, Mduduzi and Makhado, Azwianewi and Me{\"y}er, Michael and Kotze, Pieter G. H. and Mc Cue, Steven A. and Clara P{\'e}ron and Gr{\'e}millet, David} } @article {8898, title = {Seasonal and diel modulation of DOM in a mangrove-dominated estuary}, journal = {Science of The Total Environment}, year = {2022}, month = {Jan-09-2022}, pages = {159045}, issn = {00489697}, doi = {10.1016/j.scitotenv.2022.159045}, url = {https://linkinghub.elsevier.com/retrieve/pii/S0048969722061447}, author = {Vidal, L.O. and Lambert, T. and Cotovicz Jr., L.C. and Bernardes, M.C. and Sobrinho, R. and Thompson, F. and Garcia, G.D. and Knoppers, B.A. and Gatts, P.V. and R{\'e}gis, C.R. and Gwena{\"e}l Abril and Rezende, C.E.} } @article {8643, title = {SPREADING EUTROPHICATION AND CHANGING CO2 FLUXES IN THE TROPICAL COASTAL OCEAN: A FEW LESSONS FROM RIO DE JANEIRO}, journal = {Arquivos de Ci{\^e}ncias do Mar}, volume = {55}, year = {2022}, month = {Sep-03-2023}, pages = {461 - 476}, issn = {0374-5686}, doi = {10.32360/acmar.v55iEspecial10.32360/acmar.v55iEspecial.78518}, url = {http://periodicos.ufc.br/arquivosdecienciadomar/issue/view/1159}, author = {Gwena{\"e}l Abril and C. Cotovicz Jr., Luiz and Nepomuceno, Aguinaldo and Erbas, Tha{\'\i}s and Costa, Suzan and V. Ramos, Vinicius and Moser, Gleyci and Fernandes, Alexandre and Negri, Eduardo and A. Knoppers, Bastiaan and Brandini, Nilva and Machado, Wilson and Bernardes, Marcelo and Vantrepotte, Vincent} } @article {9956, title = {The success of the bloom-forming cyanobacteria Planktothrix: Genotypes variability supports variable responses to light and temperature stress}, journal = {Harmful Algae}, volume = {117}, year = {2022}, month = {Jan-08-2022}, pages = {102285}, issn = {15689883}, doi = {10.1016/j.hal.2022.102285}, url = {https://linkinghub.elsevier.com/retrieve/pii/S1568988322001135}, author = {Kim Tiam, Sandra and Comte, Katia and Dalle, Caroline and Delagrange, Marine and Djediat, Chakib and Ducos, Bertrand and Duval, Charlotte and Feilke, Kathleen and Sahima Hamlaoui and Le Manach, S{\'e}verine and Setif, Pierre and Y{\'e}pr{\'e}mian, Claude and Marie, Benjamin and Kirilovsky, Diana and Gugger, Muriel and Bernard, C{\'e}cile} } @article {8887, title = {Temporal characteristics of plankton indicators in coastal waters: High-frequency data from PlanktonScope}, journal = {Journal of Sea Research}, volume = {189}, year = {2022}, month = {Jan-11-2022}, pages = {102283}, abstract = {Plankton\ are excellent indicators of ecosystem status and fisheries because of their pivotal role in marine food webs and their core values in the integrated\ ecosystem assessment\ (IEA). Monitoring plankton is essential to understand their dynamics and underlying processes. Recent advances in imaging technologies have enabled in situ, high-frequency, real-time observations of plankton in coastal waters. While high-frequency plankton time series have provided unprecedented fundamental information about physical and biological processes, understanding and identifying the underlying mechanisms that influence plankton dynamic remains a major challenge. We use high-frequency plankton data from PlanktonScope as an example to examine the impacts of physical and biological processes on plankton dynamics at different temporal scales. Frequency patterns were identified for both environmental factors and different plankton groups that matched in time. Using logistic regression models on the selected daily peaks for different plankton groups, we found that diurnal cycle,\ monsoon\ season, and major\ episodic events, such as\ typhoons, had major impacts on the dynamics of plankton, as proxied by our indicators. We further synthesized, across multiple spatiotemporal scales in the study area, the impacts of various processes on plankton with different mobility. Our study demonstrates that the suite of plankton indicators simultaneously generated from PlanktonScope provides a robust holistic view of\ pelagic ecosystem\ status over a broad range of spatiotemporal scales. In situ imaging systems like PlanktonScope are promising tools for near real-time plankton monitoring and a deep understanding of plankton dynamics.}, issn = {13851101}, doi = {10.1016/j.seares.2022.102283}, url = {https://linkinghub.elsevier.com/retrieve/pii/S1385110122001216}, author = {Bi, Hongsheng and Song, Junting and Zhao, Jian and Liu, Hui and Cheng, Xuemin and Wang, Linlin and Cai, Zhonghua and Benfield, Mark C. and Otto, Saskia and Goberville, Eric and Keister, Julie and Yang, Yong and Yu, Xinglong and Cai, Jun and Ying, Kezhen and Alessandra Conversi} } @article {9179, title = {West Side Story: A molecular and morphological study of Caridina longicarpus Roux, 1926 (Decapoda, Caridea, Atyidae) from New Caledonia reveals a new species}, journal = {Zoosystema}, volume = {44}, year = {2022}, month = {Jan-10-2022}, doi = {10.5252/zoosystema2022v44a18}, url = {https://bioone.org/journals/zoosystema/volume-44/issue-18/zoosystema2022v44a18/West-Side-Story--A-molecular-and-morphological-study-of/10.5252/zoosystema2022v44a18.full}, author = {Mazancourt, Valentin de and Br{\'e}thiot, Julien and Marquet, G{\'e}rard and Philippe Keith} } @article {8954, title = {West Side Story: A molecular and morphological study of Caridina longicarpus Roux, 1926 (Decapoda, Caridea, Atyidae) from New Caledonia reveals a new species}, journal = {Zoosystema}, volume = {44}, year = {2022}, pages = {463-474}, abstract = {Numerous specimens of freshwater shrimps identified as Caridina longicarpus Roux, 1926 were recently collected from New Caledonia. Following an integrative taxonomy approach, they were morphologi- cally and genetically studied. Results of a 16S mtDNA analysis showed that the specimens initially identified as C. longicarpus were distributed in two geographically structured clades. Morphological study showed that the shrimps found in rivers draining to the east coast of the island belonged to C. longicarpus sensu stricto, whereas those from rivers draining to the west coast belonged to a new species, here described as Caridina occidentalis n. sp. Detailed redescription of C. longicarpus is pro- vided and a lectotype is designated. The existence of both species in allopatry could be explained by local biogeographical factors such as the topography of the island or oceanic circulation impacting the dispersal of larvae during the planktonic stage.}, isbn = {0000753777}, doi = {10.5252/zoosystema2022v44a18}, url = {https://bioone.org/journals/zoosystema/volume-44/issue-18/zoosystema2022v44a18/West-Side-Story--A-molecular-and-morphological-study-of/10.5252/zoosystema2022v44a18.full}, author = {de Mazancourt, Valentin and Br{\'e}thiot, Julien and Marquet, G{\'e}rard and Keith, Philippe} } @article {8836, title = {Analysis of trophic networks: an optimisation approach}, journal = {Journal of Mathematical Biology}, volume = {83}, year = {2021}, month = {Jan-11-2021}, issn = {0303-6812}, doi = {10.1007/s00285-021-01682-3}, url = {https://link.springer.com/10.1007/s00285-021-01682-3}, author = {Caputo, Jean-Guy and Girardin, Valerie and Knippel, Arnaud and Nguyen, Minh Hieu and Nathalie Niquil and Nogues, Quentin} } @article {7654, title = {Annual phytoplankton succession results from niche-environment interactionAbstract}, journal = {Journal of Plankton Research}, volume = {43}, year = {2021}, month = {12/2020}, pages = {85{\textendash}102}, abstract = {Annual plankton succession has been investigated for many decades with hypotheses ranging from abiotic to biotic mechanisms being proposed to explain these recurrent patterns. Here, using data collected by the Continuous Plankton Recorder (CPR) survey and models originating from the MacroEcological Theory on the Arrangement of Life, we investigate Annual Phytoplankton Succession (APS) in the North Sea at a species level. Our results show that this phenomenon can be predicted well by models combining photosynthetically active radiation, temperature and macro-nutrients. Our findings suggest that APS originates from the interaction between species{\textquoteright} ecological niches and the annual environmental fluctuations at a community level. We discuss our results in the context of traditional hypotheses formulated to explain this recurrent pattern in the marine field.}, issn = {0142-7873}, doi = {10.1093/plankt/fbaa060}, url = {https://academic.oup.com/plankt/advance-article/doi/10.1093/plankt/fbaa060/6043723}, author = {Caracciolo, Mariarita and Gr{\'e}gory Beaugrand and Pierre H{\'e}laou{\"e}t and Gevaert, Francois and Martin Edwards and Lizon, Fabrice and Kl{\'e}parski, Lo{\"\i}ck and Goberville, Eric} } @article {9953, title = {Anti-Inflammatory, Antioxidant, and Wound-Healing Properties of Cyanobacteria from Thermal Mud of Balaruc-Les-Bains, France: A Multi-Approach Study}, journal = {Biomolecules}, volume = {11}, year = {2021}, month = {Jan-01-2021}, pages = {28}, doi = {10.3390/biom11010028}, url = {https://www.mdpi.com/2218-273X/11/1/28}, author = {Demay, Justine and Halary, S{\'e}bastien and Knittel-Obrecht, Adeline and Villa, Pascal and Duval, Charlotte and Sahima Hamlaoui and Roussel, Th{\'e}otime and Y{\'e}pr{\'e}mian, Claude and Reinhardt, Anita and Bernard, C{\'e}cile and Marie, Benjamin} } @article {8707, title = {Are we ready to track climate-driven shifts in marine species across international boundaries? - A global survey of scientific bottom trawl data}, journal = {Global Change Biology}, volume = {27}, year = {2021}, month = {Jan-01-2021}, pages = {220 - 236}, issn = {1354-1013}, doi = {10.1111/gcb.v27.210.1111/gcb.15404}, url = {https://onlinelibrary.wiley.com/toc/13652486/27/2}, author = {Maureaud, Aurore and Frelat, Romain and P{\'e}cuchet, Laur{\`e}ne and Shackell, Nancy and M{\'e}rigot, Bastien and Pinsky, Malin L. and Amador, Kofi and Anderson, Sean C. and Arkhipkin, Alexander and Auber, Arnaud and Barri, I{\c c}a and Bell, Richard J. and Belmaker, Jonathan and Beukhof, Esther and Camara, Mohamed L. and Guevara-Carrasco, Renato and Choi, Junghwa and Christensen, Helle T. and Conner, Jason and Cubillos, Luis A. and Diadhiou, Hamet D. and Edelist, Dori and Emblemsv{\r a}g, Margrete and Ernst, Billy and Fairweather, Tracey P. and Fock, Heino O. and Friedland, Kevin D. and Garcia, Camilo B. and Gascuel, Didier and Gislason, Henrik and Goren, Menachem and Guitton, J{\'e}r{\^o}me and Jouffre, Didier and Hattab, Tarek and Hidalgo, Manuel and Kathena, Johannes N. and Knuckey, Ian and Kid{\'e}, Sa{\"\i}kou O. and Koen-Alonso, Mariano and Koopman, Matt and Kulik, Vladimir and Le{\'o}n, Jacqueline Palacios and Levitt-Barmats, Ya{\textquoteright}arit and Lindegren, Martin and Llope, Marcos and Massiot-Granier, F{\'e}lix and Masski, Hicham and McLean, Matthew and Meissa, Beyah and M{\'e}rillet, Laur{\`e}ne and Mihneva, Vesselina and Nunoo, Francis K. E. and O{\textquoteright}Driscoll, Richard and O{\textquoteright}Leary, Cecilia A. and Petrova, Elitsa and Ramos, Jorge E. and Refes, Wahid and Rom{\'a}n-Marcote, Esther and Siegstad, Helle and Sobrino, Ignacio and S{\'o}lmundsson, J{\'o}n and Sonin, Oren and Spies, Ingrid and Steingrund, Petur and Stephenson, Fabrice and Stern, Nir and Tserkova, Feriha and Tserpes, Georges and Tzanatos, Evangelos and Rijn, Itai and Zwieten, Paul A. M. and Vasilakopoulos, Paraskevas and Yepsen, Daniela V. and Ziegler, Philippe and Thorson, James} } @article {9951, title = {Assessment of some key indicators of the ecological status of an African freshwater lagoon (Lagoon Aghien, Ivory Coast)}, journal = {PLOS ONE}, volume = {16}, year = {2021}, month = {Jun-05-2021}, pages = {e0251065}, doi = {10.1371/journal.pone.0251065}, url = {https://dx.plos.org/10.1371/journal.pone.0251065}, author = {Koffi Ahoutou, Mathias and Yao Djeha, Rosine and Kouam{\'e} Yao, Eric and Quiblier, Catherine and Niamen-Ebrotti{\'e}, Julie and Sahima Hamlaoui and Tambosco, Kevin and Perrin, Jean-Louis and Troussellier, Marc and Bernard, C{\'e}cile and Seguis, Luc and Bouvy, Marc and P{\'e}dron, Jacques and Koffi Konan, Felix and Humbert, Jean-Fran{\c c}ois and Kalpy Coulibaly, Julien}, editor = {Wood, Susanna A.} } @article {9364, title = {Conservative route to genome compaction in a miniature annelidAbstract}, journal = {Nature Ecology \& Evolution}, volume = {5}, year = {2021}, month = {Jan-02-2021}, pages = {231 - 242}, doi = {10.1038/s41559-020-01327-6}, url = {https://www.nature.com/articles/s41559-020-01327-6}, author = {Mart{\'\i}n-Dur{\'a}n, Jos{\'e} M. and Vellutini, Bruno C. and Marl{\'e}taz, Ferdinand and Cetrangolo, Viviana and Cvetesic, Nevena and Thiel, Daniel and Henriet, Simon and Grau-Bov{\'e}, Xavier and Carrillo-Baltodano, Allan M. and Gu, Wenjia and Kerbl, Alexandra and Marquez, Yamile and Bekkouche, Nicolas and Chourrout, Daniel and G{\'o}mez-Skarmeta, Jose Luis and Irimia, Manuel and Lenhard, Boris and Worsaae, Katrine and Hejnol, Andreas} } @article {7700, title = {Dietary taurine improves vision in different age gilthead sea bream (Sparus aurata) larvae potentially contributing to increased prey hunting success and growth}, journal = {Aquaculture}, volume = {533}, year = {2021}, month = {Jan-02-2021}, pages = {736129}, issn = {00448486}, doi = {10.1016/j.aquaculture.2020.736129}, url = {https://linkinghub.elsevier.com/retrieve/pii/S0044848620338357}, author = {Gaon, A. and Nixon, O. and Tandler, A. and Falcon, J. and Besseau, L. and Escande, M. and El Sadin, S. and Allon, G. and Koven, W.} } @article {8656, title = {Economic costs of biological invasions within North America}, journal = {NeoBiota}, volume = {67}, year = {2021}, month = {07/2021}, pages = {485-510}, author = {Crystal-Ornelas, Rob and Hudgins, Emma J and Cuthbert, Ross N. and Haubrock, Phillip J. and Fantle-Lepczyk, J and Angulo, Elena and Kramer, Andrew M. and Ballesteros-Mejia, Liliana and Leroy, Boris and Leung, Brian and L{\'o}pez-L{\'o}pez, E and Diagne, Christophe and Courchamp, Franck} } @article {8144, title = {Economic costs of invasive alien species across Europe}, journal = {NeoBiota}, volume = {67}, year = {2021}, month = {May-07-2023}, pages = {153 - 190}, issn = {1619-0033}, doi = {10.3897/neobiota.67.58196}, url = {https://neobiota.pensoft.net/article/58196/}, author = {Haubrock, Phillip J. and Turbelin, Anna J. and Cuthbert, Ross N. and Novoa, Ana and Taylor, Nigel G. and Angulo, Elena and Ballesteros-Mejia, Liliana and Bodey, Thomas W. and Capinha, C{\'e}sar and Diagne, Christophe and Essl, Franz and Golivets, Marina and Kirichenko, Natalia and Kourantidou, Melina and Leroy, Boris and Renault, David and Verbrugge, Laura and Courchamp, Franck} } @article {8653, title = {Economic costs of invasive alien species in the Mediterranean basin}, journal = {NeoBiota}, volume = {67}, year = {2021}, month = {May-07-2023}, pages = {427 - 458}, issn = {1619-0033}, doi = {10.3897/neobiota.67.5892610.3897/neobiota.67.58926.suppl110.3897/neobiota.67.58926.suppl2}, url = {https://neobiota.pensoft.net/article/58926/}, author = {Kourantidou, Melina and Cuthbert, Ross N. and Haubrock, Phillip J. and Novoa, Ana and Taylor, Nigel G. and Leroy, Boris and Capinha, C{\'e}sar and Renault, David and Angulo, Elena and Diagne, Christophe and Courchamp, Franck} } @article {7915, title = {Electron \& Biomass Dynamics of Cyanothece Under Interacting Nitrogen \& Carbon Limitations}, journal = {Frontiers in Microbiology}, volume = {12}, year = {2021}, month = {04/2021}, doi = {10.3389/fmicb.2021.61780210.3389/fmicb.2021.617802.s001}, url = {https://www.frontiersin.org/articles/10.3389/fmicb.2021.617802/full}, author = {Rabouille, Sophie and Campbell, Douglas A. and Masuda, Takako and Zav{\v r}el, Tomas and Bern{\'a}t, Gabor and Polerecky, Lubos and Halsey, Kimberly and Eichner, Meri and Kotabov{\'a}, Eva and Stephan, Susanne and Luke{\v s}, Martin and Pascal Claquin and Bonomi-Barufi, Jose and Lombardi, Ana Teresa and {\v C}erven{\'y}, Jan and Suggett, David J. and Giordano, Mario and Kromkamp, Jacco C. and Pr{\'a}{\v s}il, Ondrej} } @article {8404, title = {Eleotris (Teleostei: Eleotridae) from Indonesia with description of three news species}, journal = {Pacific Science}, volume = {75}, year = {2021}, month = {11/2021}, pages = {469-496}, abstract = {The species of Eleotris from Indonesia are reviewed and compared to the known species described from the area. Nine species are recognized including three new species in the {\textquoteleft}melanosoma{\textquoteright} neuromast pattern group. These are described using genetic and morpho-meristic approaches. The new species differ by a high percentage of genetic divergence in partial COI gene (652 bp) and by several characters including the number of pectoral fin rays, the number of scales in lateral, predorsal, forward and zigzag series. The main characteristics of the other known species in the area in the {\textquoteleft}melanosoma{\textquoteright} group, Eleotris melanosoma Bleeker, 1853 and Eleotris macrolepis (Bleeker, 1875), both belonging to this group, are given for comparison. A key for Eleotris species from Indonesia is provided.}, doi = {https://doi.org/10.2984/75.4.2}, author = {Marion Mennesson and Philippe Keith and Hubert, Nicolas} } @article {8547, title = {Epizoic diatoms on sea turtles and their relationship to host species, behaviour and biogeography: a morphological approach}, journal = {European Journal of Phycology}, volume = {56}, year = {2021}, month = {Feb-10-2021}, pages = {359 - 372}, issn = {0967-0262}, doi = {10.1080/09670262.2020.1843077}, url = {https://www.tandfonline.com/doi/full/10.1080/09670262.2020.1843077}, author = {Riaux-Gobin, Catherine and Ashworth, Matt P. and Kociolek, J.Patrick and Chevallier, Damien and Saenz-Agudelo, Pablo and Witkowski, Andrzej and Daniszewska-Kowalczyk, Genowefa and Gaspar, Cecile and Lagant, Magali and Touron, Margaux and Carpentier, Alice and Stabile, Vie and Planes, Serge} } @article {8106, title = {Eutrophication overcoming carbonate precipitation in a tropical hypersaline coastal lagoon acting as a CO2 sink (Araruama Lagoon, SE Brazil)}, journal = {Biogeochemistry}, year = {2021}, month = {Jun-08-2022}, issn = {0168-2563}, doi = {10.1007/s10533-021-00842-3}, url = {https://link.springer.com/10.1007/s10533-021-00842-3}, author = {Cotovicz, Luiz C. and Knoppers, Bastiaan A. and R{\'e}gis, Carolina R. and Tremmel, Daniel and Costa-Santos, Suzan and Gwena{\"e}l Abril} } @book {8131, title = {Freshwater fish of Solomon Islands}, year = {2021}, pages = {174}, publisher = {Soci{\'e}t{\'e} Fran{\c c}aise d{\textquoteright}Ichtyologie}, organization = {Soci{\'e}t{\'e} Fran{\c c}aise d{\textquoteright}Ichtyologie}, address = {Paris}, author = {Philippe Keith and Boseto, David and Clara Lord} } @article {8067, title = {Greenhouse gas emissions (CO2 and CH4) and inorganic carbon behavior in an urban highly polluted tropical coastal lagoon (SE, Brazil)}, journal = {Environmental Science and Pollution Research}, year = {2021}, month = {04/2021}, issn = {0944-1344}, doi = {10.1007/s11356-021-13362-2}, url = {http://link.springer.com/10.1007/s11356-021-13362-2}, author = {Cotovicz, Luiz C. and Ribeiro, Renato P. and R{\'e}gis, Carolina Ramos and Bernardes, Marcelo and Sobrinho, Rodrigo and Vidal, Luciana Oliveira and Tremmel, Daniel and Knoppers, Bastiaan A. and Gwena{\"e}l Abril} } @article {9363, title = {Interstitial Annelida}, journal = {Diversity}, volume = {13}, year = {2021}, month = {Jan-02-2021}, pages = {77}, doi = {10.3390/d13020077}, url = {https://www.mdpi.com/1424-2818/13/2/77}, author = {Worsaae, Katrine and Kerbl, Alexandra and Domenico, Maikon Di and Gonzalez, Brett C. and Bekkouche, Nicolas and Mart{\'\i}nez, Alejandro} } @inbook {8950, title = {New Insights on Biodiversity and Conservation of Amphidromous Shrimps of the Indo-Pacific islands (Decapoda: Atyidae: Caridina)}, booktitle = {Recent Advances in Freshwater Crustacean Biodiversity and Conservation}, year = {2021}, pages = {381{\textendash}404}, publisher = {CRC Press}, organization = {CRC Press}, chapter = {12}, abstract = {Amphidromous shrimps of the genus Caridina (Crustacea: Decapoda: Atyidae) are essential components of the tropical insular freshwater ecosystems. Due to an extremely confused taxonomy, their biodiversity is poorly known and their conservation status cannot be properly assessed. However, thanks to recent advances in integrative taxonomy, the systematics of this genus progressively becomes clearer, allowing us to draw conclusions about their biogeography and conservation biology. In this chapter, we (1) review the current state of knowledge of amphidromous Caridina diversity in the light of the latest results of integrative taxonomy, (2) review the threats faced by Caridina in Indo-Pacific Islands, and (3) discuss how integrative taxonomic approaches can inform and support programs designed to limit the impacts of threatening processes on the diversity of Caridina. Finally, we provide recommendations for the conservation of these species and their habitats.}, isbn = {9781003139560}, doi = {10.1201/9781003139560-12}, url = {https://www.taylorfrancis.com/chapters/new-insights-biodiversity-conservation-amphidromous-shrimps-indo-pacific-islands-decapoda-atyidae-caridina-de-mazancourt-klotz-marquet-mos-rogers-keith/e/10.1201/9781003139560-12}, author = {de Mazancourt, V. and Klotz, W. and Marquet, G. and Mos, B. and Rogers, D.C. and Keith, P.}, editor = {Kawai, Tadashi and Rogers, D. Christopher} } @inbook {8953, title = {New Insights on Biodiversity and Conservation of Amphidromous Shrimps of the Indo-Pacific islands (Decapoda: Atyidae: Caridina)}, booktitle = {Recent Advances in Freshwater Crustacean Biodiversity and Conservation}, year = {2021}, pages = {381{\textendash}404}, publisher = {CRC Press}, organization = {CRC Press}, chapter = {12}, abstract = {Amphidromous shrimps of the genus Caridina (Crustacea: Decapoda: Atyidae) are essential components of the tropical insular freshwater ecosystems. Due to an extremely confused taxonomy, their biodiversity is poorly known and their conservation status cannot be properly assessed. However, thanks to recent advances in integrative taxonomy, the systematics of this genus progressively becomes clearer, allowing us to draw conclusions about their biogeography and conservation biology. In this chapter, we (1) review the current state of knowledge of amphidromous Caridina diversity in the light of the latest results of integrative taxonomy, (2) review the threats faced by Caridina in Indo-Pacific Islands, and (3) discuss how integrative taxonomic approaches can inform and support programs designed to limit the impacts of threatening processes on the diversity of Caridina. Finally, we provide recommendations for the conservation of these species and their habitats.}, isbn = {9781003139560}, doi = {10.1201/9781003139560-12}, url = {https://www.taylorfrancis.com/chapters/new-insights-biodiversity-conservation-amphidromous-shrimps-indo-pacific-islands-decapoda-atyidae-caridina-de-mazancourt-klotz-marquet-mos-rogers-keith/e/10.1201/9781003139560-12}, author = {de Mazancourt, V. and Klotz, W. and Marquet, G. and Mos, B. and Rogers, D.C. and Keith, P.}, editor = {Kawai, Tadashi and Rogers, D. Christopher} } @article {8524, title = {A new species of freshwater pipefish (Teleostei: Syngnathidae: Coelonotus) from Papua New Guinea}, journal = {Cybium}, volume = {45}, year = {2021}, pages = {275-282}, abstract = {A new species of Coelonotus, a freshwater pipefish, is described on the basis of six specimens from the Gavuvu river of West new Britain Island (Papua new Guinea). It differs from other Coelonotus species by a combination of morphomeristic values including: number of dorsal fin rays (45-47), number of subdorsal (4-5) and tail rings (35-37). the Folmer dna barcode fragment of the COI mitochondrial gene shows that this new species is indeed a different genetic lineage from other Coelonotus species of this area.}, doi = {https://doi.org/10.26028/cybium/2021-454-003}, author = {Vincent Ha{\"y} and Marion Mennesson and Philippe Keith and Clara Lord} } @article {9186, title = {A new species of Microphis (Teleostei: Syngnathidae) from Papua New Guinea. }, journal = {Cybium}, volume = {45}, year = {2021}, month = {11/2021}, pages = {275-282}, author = {Ha{\"y}, Vincent and Marion Mennesson and Philippe Keith and Clara Lord} } @article {9183, title = {A new species of Schismatogobius (Teleostei: Gobiidae) from Sulawesi (Indonesia). }, journal = {Cybium}, volume = {45}, year = {2021}, month = {02/2021}, pages = {53-58}, author = {Philippe Keith and Sauri, S and Busson, Frederic and Delrieu-Trottin, Erwan} } @article {8059, title = {Pelagic habitats under the MSFD D1: scientific advice of policy relevance : recommendations to frame problems and solutions for the pelagic habitats{\textquoteright} assessment.}, year = {2021}, institution = {Publications Office of the European Union}, abstract = {Pelagic habitats are a policy priority below Descriptor 1 (Biodiversity) of the Marine Strategy Framework Directive (MSFD). They are addressed under the D1C6 criterion, stating {\textquotedblleft}the condition of the habitat type, including its biotic and abiotic structure and its functions{\textellipsis}, is not adversely affected due to anthropogenic pressures{\textquotedblright}. The evaluation of pelagic habitats status is challenged by the functional and structural characteristics of pelagic habitat diversity and processes. To date, pelagic habitats assessments are lacking in common criteria and methodologies that characterize the habitat while accounting for the effects of anthropogenic pressures to achieve the Good Environmental Status (GES). It is therefore necessary to prioritise communication between scientific and policy communities and frame pelagic research to agree on common methods and approaches at regional or EU scale. This is key for achieving harmonised and comparable pelagic assessments for the MSFD. This report summarizes the outcomes on the assessment workflow of pelagic habitats of the JRC {\textquotedblleft}MSFD pelagic habitats{\textquotedblright} workshop (9th and 10th March 2021), and the need for coordinated evaluations of the scientific challenges of policy relevance. Recommendations on the MSFD implementation of D1C6, that were generated from the experts during the workshop, will be communicated to the MSFD policy groups and the EU Member States competent authorities to support future harmonised assessment of pelagic habitats.}, doi = {10.2760/081368}, url = {https://data.europa.eu/doi/10.2760/081368}, author = {Magliozzi, Chiara and Druon, Jean-Noel and Palialexis, Andreas and Aguzzi, Laura and Alexande, Brittany and Antoniadis, Konstantinos and Artigas, Luis Felipe and Azzellino, Arianna and Bisinicu, Elena and Boicenco, Laura and Bojanic, Natalia and Borrello, Patrizia and Boschetti, Simona and Carmo, Vanda and Cervantes, Pablo and Coll, Marta and Curmi, Marta and Del Amo, Yolanda and Dutz, Joerg and Franc{\'e}, Janja and Garces, Esther and Gea, Guillermo and Giannakourou, Antonia and Goberville, Eric and Goffart, Anne and Gomes Pereira, Jose Nuno and Gonzalez-Quiros, Rafael and Gorokhova, Elena and Guglielmo, Letterio and Pierre H{\'e}laou{\"e}t and Henriques, Filipe and Heyden, Birgit and Jaanus, Andres and Jakobsen, Hans and Johansen, Marie and Jurgensone, Iveta and Korpinen, Samuli and Kremp, Anke and Kuosa, Harri and Labayle, Lucille and Lazar, Luminita and Abigail McQuatters-Gollop and Nincevic, Zivana and Pagou, Popi and Penna, Antonella and Pettersson, Karin and Ruiter, Hans and Skejic, Sanda and Spada, Emanuela and Spinu, Alina and Tew-Kai, Emilie and Totti, Cecilia and Tunesi, Leonardo and Vadrucci, Maria Rosaria and Valavanis, Vasilis and Varkitzi, Ioanna and Vasiliades, Lavrendios and Veldeki, Georgia and Vidjak, Olja and Vincent, Doroth{\'e}e and Zervoudaki, Soultana} } @article {8249, title = {Photosynthesis from stolen chloroplasts can support sea slug reproductive fitness}, journal = {Proceedings of the Royal Society B: Biological Sciences}, volume = {288}, year = {2021}, month = {May-09-2023}, abstract = {Some sea slugs are able to steal functional chloroplasts (kleptoplasts) from their algal food sources, but the role and relevance of photosynthesis to the animal host remain controversial. While some researchers claim that kleptoplasts are slowly digestible {\textquoteleft}snacks{\textquoteright}, others advocate that they enhance the overall fitness of sea slugs much more profoundly. Our analysis shows light-dependent incorporation of\ 13C and\ 15N in the albumen gland and gonadal follicles of the sea slug\ Elysia timida, representing translocation of photosynthates to kleptoplast-free reproductive organs. Long-chain polyunsaturated fatty acids with reported roles in reproduction were produced in the sea slug cells using labelled precursors translocated from the kleptoplasts. Finally, we report reduced fecundity of\ E. timida\ by limiting kleptoplast photosynthesis. The present study indicates that photosynthesis enhances the reproductive fitness of kleptoplast-bearing sea slugs, confirming the biological relevance of this remarkable association between a metazoan and an algal-derived organelle.}, issn = {0962-8452}, doi = {10.1098/rspb.2021.1779}, url = {https://royalsocietypublishing.org/doi/10.1098/rspb.2021.1779}, author = {Cartaxana, Paulo and Rey, Felisa and LeKieffre, Charlotte and Lopes, Diana and C{\'e}dric Hubas and Spangenberg, Jorge E. and Escrig, St{\'e}phane and Bruno Jesus and Calado, Gon{\c c}alo and Domingues, Ros{\'a}rio and K{\"u}hl, Michael and Calado, Ricardo and Meibom, Anders and Cruz, S{\'o}nia} } @article {8128, title = {Phylogenetic analysis and characterization of a new parasitic cnidarian (Myxosporea: Myxobolidae) parasitizing skin of the giant mottled eel from the Solomon Islands}, journal = {Infection, Genetics and Evolution}, volume = {94}, year = {2021}, month = {Jan-10-2021}, pages = {104986}, issn = {15671348}, doi = {10.1016/j.meegid.2021.104986}, url = {https://linkinghub.elsevier.com/retrieve/pii/S1567134821002835}, author = {Mathews, Patrick D. and C{\'e}line Bonillo and Nicolas Rabet and Clara Lord and Causse, Romain and Philippe Keith and Audebert, Fabienne} } @article {8420, title = {Quantifying Cyanothece growth under DIC limitation}, journal = {Computational and Structural Biotechnology Journal}, year = {2021}, month = {Jan-11-2021}, issn = {20010370}, doi = {10.1016/j.csbj.2021.11.036}, url = {https://linkinghub.elsevier.com/retrieve/pii/S2001037021005018}, author = {Inomura, Keisuke and Masuda, Takako and Eichner, Meri and Rabouille, Sophie and Zav{\v r}el, Tomas and {\v C}erven{\'y}, Jan and Vancov{\'a}, Marie and Bern{\'a}t, Gabor and Armin, Gabrielle and Pascal Claquin and Kotabov{\'a}, Eva and Stephan, Susanne and Suggett, David J. and Deutsch, Curtis and Pr{\'a}{\v s}il, Ondrej} } @book {8127, title = {Recent Advances in Freshwater Crustacean Biodiversity and ConservationNew Insights on Biodiversity and Conservation of Amphidromous Shrimps of the Indo-Pacific islands (Decapoda: Atyidae: Caridina)}, year = {2021}, pages = {381 - 404}, publisher = {CRC Press}, organization = {CRC Press}, edition = {1}, doi = {10.1201/978100313956010.1201/9781003139560-12}, url = {https://www.taylorfrancis.com/books/9781000336184}, author = {Kawai, Tadashi and Rogers, D. Christopher and Mazancourt, V. de and Klotz, W. and Marquet, G. and Mos, B. and Rogers, D.C. and Philippe Keith}, editor = {Kawai, Tadashi and Rogers, D. Christopher} } @article {8287, title = {Review of Ophiocara (Teleostei: Butidae) from Indo-Pacific Islands}, journal = {Cybium}, volume = {45}, year = {2021}, pages = {89-108}, abstract = {R{\'e}vision du genre\ Ophiocara\ (Teleostei\ : Butidae) de la r{\'e}gion indopacifique /Review of Ophiocara (Teleostei: Butidae) from Indo-Pacific Islands
Des\ collections\ de\ sp{\'e}cimens des\ Ophiocara\ provenant de la r{\'e}gion indopacifique ont {\'e}t{\'e} {\'e}tudi{\'e}es. Trois esp{\`e}ces ont {\'e}t{\'e} r{\'e}pertori{\'e}es selon des approches g{\'e}n{\'e}tiques et morpho-m{\'e}ristiques. Elles diff{\`e}rent par un fort pourcentage de divergence au niveau du g{\`e}ne\ COI\ partiel (446\ pb) et par plusieurs caract{\`e}res incluant, principalement, le nombre d{\textquoteright}{\'e}cailles en s{\'e}ries lat{\'e}rale, transverse post{\'e}rieure, zigzag et pr{\'e}dorsale, et par la longueur de la m{\^a}choire.
Ophiocara\ species from the Indo-Pacific area are reviewed. Three species are recognized using genetic and morphomeristic approaches. The species differ by a high percentage of divergence (around 8\%) in partial\ COI\ gene (446\ bp) and by several characters including the number of scales in lateral, transverse backward, zigzag, and predorsal series, and the jaw length.}, url = {https://doi.org/10.26028/cybium/2021-452-002}, author = {Philippe Keith and Marion Mennesson} } @article {9184, title = {Review of Ophiocara (Teleostei: Butidae) from Indo-pacific Islands.}, journal = {Cybium}, volume = {45}, year = {2021}, month = {06/2021}, pages = {89-108}, author = {Philippe Keith and Marion Mennesson} } @article {8389, title = {The rise and fall of the ancient northern pike master sex-determining gene}, journal = {eLife}, volume = {10}, year = {2021}, month = {Apr-01-2023}, doi = {10.7554/eLife.62858}, url = {https://elifesciences.org/articles/62858}, author = {Pan, Qiaowei and Feron, Romain and Jouanno, Elodie and Darras, Hugo and Herpin, Amaury and Koop, Ben and Rondeau, Eric and Goetz, Frederick W and Larson, Wesley A and Bernatchez, Louis and Tringali, Mike and Curran, Stephen S and Saillant, Eric and Denys, Ga{\"e}l and von Hippel, Frank A and Chen, Songlin and L{\'o}pez, J Andr{\'e}s and Verreycken, Hugo and Ocalewicz, Konrad and Guyomard, Rene and Eche, Camille and Lluch, Jerome and Roques, Celine and Hu, Hongxia and Tabor, Roger and DeHaan, Patrick and Nichols, Krista M and Journot, Laurent and Parrinello, Hugues and Klopp, Christophe and Interesova, Elena A and Trifonov, Vladimir and Schartl, Manfred and Postlethwait, John and Guiguen, Yann} } @article {8150, title = {Seasonal Variations in the Biodiversity, Ecological Strategy, and Specialization of Diatoms and Copepods in a Coastal System With Phaeocystis Blooms: The Key Role of Trait Trade-Offs}, journal = {Frontiers in Marine Science}, volume = {8}, year = {2021}, month = {09/2021}, pages = {1178}, abstract = {Although eutrophication induced by anthropogenic nutrient enrichment is a driver of shifts in community composition and eventually a threat to marine biodiversity, the causes and consequences on ecosystem functioning remain greatly unknown. In this study, by applying a trait-based approach and measuring niche breadth of diatoms and copepods, the drivers and underlying mechanisms of the seasonal species succession of these ecological communities in a coastal system dominated in spring by\ Phaeocystis\ blooms were explored. It is suggested that the seasonal succession of diatoms and copepods is the result of several trade-offs among functional traits that are controlled by the seasonal abiotic and biotic pressure encountered by the plankton communities. The results of this study highlight that a trade-off between competition and predator, i.e., weak competitors are better protected against predation, plays an important role in promoting plankton species richness and triggers the\ Phaeocystis\ bloom. As often observed in eutrophicated ecosystems, only the biotic homogenization of the copepod community and the shift in the diet of copepods toward\ Phaeocystis\ detrital materials have been detected during the\ Phaeocystis\ bloom. The diatom and copepod communities respond synchronously to fluctuating resources and biotic conditions by successively selecting species with specific traits. This study confirms the key role of competition and predation in controlling annual plankton succession.}, issn = {2296-7745}, url = {https://www.frontiersin.org/articles/10.3389/fmars.2021.656300/full}, author = {Breton, Elsa and Christaki, Urania and Benoit Sautour and Demonio, Oscar and Skouroliakou, Dimitra-Ioli and Gr{\'e}gory Beaugrand and Seuront, Laurent and Kl{\'e}parski, Lo{\"\i}ck and Poquet, Adrien and Nowaczyk, Antoine and Muriel Crouvoisier and Ferreira, Sophie and Pecqueur, David and Salmeron, Christophe and Brylinski, Jean-Michel and Lheureux, Arnaud and Goberville, Eric} } @article {9176, title = {Short communication: Amphidromous goby postlarvae (penja) migration seasons and fisheries in West Sulawesi, Indonesia}, journal = {Biodiversitas Journal of Biological Diversity}, volume = {23}, year = {2021}, month = {Jan-12-2022}, issn = {1412-033X}, doi = {10.13057/biodiv/d230138}, url = {https://smujo.id/biodiv/article/view/9789}, author = {Nurjirana, Nurjirana and Burhanuddin, Andi I and Philippe Keith and Haris, Abdul and Afrisal, Muhammad} } @article {7853, title = {Temporal Patterns and Intra- and Inter-Cellular Variability in Carbon and Nitrogen Assimilation by the Unicellular Cyanobacterium Cyanothece sp. ATCC 51142Data_Sheet_1.pdfData_Sheet_2.XLSX}, journal = {Frontiers in Microbiology}, volume = {12}, year = {2021}, month = {Apr-02-2021}, doi = {10.3389/fmicb.2021.62091510.3389/fmicb.2021.620915.s00110.3389/fmicb.2021.620915.s002}, url = {https://www.frontiersin.org/articles/10.3389/fmicb.2021.620915/full}, author = {Polerecky, Lubos and Masuda, Takako and Eichner, Meri and Rabouille, Sophie and Vancov{\'a}, Marie and Kienhuis, Michiel V. M. and Bern{\'a}t, Gabor and Bonomi-Barufi, Jose and Campbell, Douglas Andrew and Pascal Claquin and {\v C}erven{\'y}, Jan and Giordano, Mario and Kotabov{\'a}, Eva and Kromkamp, Jacco and Lombardi, Ana Teresa and Luke{\v s}, Martin and Pr{\'a}{\v s}il, Ondrej and Stephan, Susanne and Suggett, David and Zav{\v r}el, Tomas and Halsey, Kimberly H.} } @article {8066, title = {Thermodynamic uptake of atmospheric CO2 in the oligotrophic and semiarid S{\~a}o Francisco estuary (NE Brazil)}, journal = {Marine Chemistry}, volume = {233}, year = {2021}, month = {01/2021}, pages = {103983}, issn = {03044203}, doi = {10.1016/j.marchem.2021.103983}, url = {https://linkinghub.elsevier.com/retrieve/pii/S0304420321000682}, author = {Gwena{\"e}l Abril and Libardoni, Bruno G. and Brandini, Nilva and Cotovicz, Luiz C. and Medeiros, Paulo R.P. and Cavalcante, Ge{\'o}rgenes H. and Knoppers, Bastiaan A.} } @article {9561, title = {Transcriptome Profiling of the Pacific Oyster Crassostrea gigas Visceral Ganglia over a Reproduction Cycle Identifies Novel Regulatory Peptides}, journal = {Marine Drugs}, volume = {19}, year = {2021}, month = {Jan-08-2021}, pages = {452}, doi = {10.3390/md19080452}, url = {https://www.mdpi.com/1660-3397/19/8/452}, author = {R{\'e}alis-Doyelle, Emilie and Schwartz, Julie and Cabau, C{\'e}dric and Le Franc, Lorane and Bernay, Beno{\^\i}t and Guillaume Rivi{\`e}re and Klopp, Christophe and Favrel, Pascal} } @article {8123, title = {Transcriptome Profiling of the Pacific Oyster Visceral Ganglia over a Reproduction Cycle Identifies Novel Regulatory Peptides.}, journal = {Mar Drugs}, volume = {19}, year = {2021}, month = {2021 Aug 07}, abstract = {

The neuropeptides involved in the regulation of reproduction in the Pacific oyster () are quite diverse. To investigate this diversity, a transcriptomic survey of the visceral ganglia (VG) was carried out over an annual reproductive cycle. RNA-seq data from 26 samples corresponding to VG at different stages of reproduction were de novo assembled to generate a specific reference transcriptome of the oyster nervous system and used to identify differentially expressed transcripts. Transcriptome mining led to the identification of novel neuropeptide precursors (NPPs) related to the bilaterian Eclosion Hormone (EH), crustacean female sex hormone/Interleukin 17, Nesfatin, neuroparsin/IGFBP, prokineticins, and urotensin I; to the protostome GNQQN, pleurin, prohormones 3 and 4, prothoracotropic hormones (PTTH), and QSamide/PXXXamide; to the lophotrochozoan CCWamide, CLCCY, HFAamide, and LXRX; and to the mollusk-specific NPPs CCCGS, clionin, FYFY, GNamide, GRWRN, GSWN, GWE, IWMPxxGYxx, LXRYamide, RTLFamide, SLRFamide, and WGAGamide. Among the complete repertoire of NPPs, no sex-biased expression was observed. However, 25 NPPs displayed reproduction stage-specific expression, supporting their involvement in the control of gametogenesis or associated metabolisms.

}, issn = {1660-3397}, doi = {10.3390/md19080452}, author = {R{\'e}alis-Doyelle, Emilie and Schwartz, Julie and Cabau, C{\'e}dric and Le Franc, Lorane and Bernay, Beno{\^\i}t and Riviere, Guillaume and Klopp, Christophe and Favrel, Pascal} } @article {8126, title = {Waterfalls mediate the longitudinal distribution of diadromous predatory fishes structuring communities in tropical, short, steep coastal streams}, journal = {Freshwater Biology}, volume = {66}, year = {2021}, month = {Jan-06-2021}, pages = {1225 - 1241}, issn = {0046-5070}, doi = {10.1111/fwb.v66.610.1111/fwb.13712}, url = {https://onlinelibrary.wiley.com/toc/13652427/66/6}, author = {Ebner, Brendan C. and Donaldson, James A. and Murphy, Helen and Thuesen, Paul and Ford, Andrew and Schaffer, Jason and Philippe Keith} } @article {6975, title = {Advances in the use of Paris-Edinburgh presses for high pressure neutron scattering}, journal = {Journal of Neutron Research}, volume = {21}, year = {2020}, month = {May-01-2022}, pages = {117 - 124}, issn = {10238166}, doi = {10.3233/JNR-190120}, url = {https://content.iospress.com/articles/journal-of-neutron-research/jnr190120}, author = {Klotz, S and Hansen, Th and Leli{\`e}vre-Berna, E and Amand, Louis and Maurice, J and Payre, C} } @article {7172, title = {Benthic ecoregionalization based on echinoid fauna of the Southern Ocean supports current proposals of Antarctic Marine Protected Areas under IPCC scenarios of climate change}, journal = {Global Change Biology}, volume = {26}, year = {2020}, month = {Jan-04-2020}, pages = {2161 - 2180}, issn = {1354-1013}, doi = {10.1111/gcb.v26.410.1111/gcb.14988}, url = {https://onlinelibrary.wiley.com/toc/13652486/26/4}, author = {Fabri-Ruiz, Salom{\'e} and Danis, Bruno and Navarro, Nicolas and Koubbi, Philippe and Laffont, R{\'e}mi and Sauc{\`e}de, Thomas} } @article {7047, title = {Biodiversity inventory of the grey mullets (Actinopterygii: Mugilidae) of the Indo-Australian Archipelago through the iterative use of DNA-based species delimitation and specimen assignment methods}, journal = {Evolutionary Applications}, year = {2020}, month = {Nov-02-2020}, abstract = {DNA barcoding opens new perspectives on the way we document biodiversity. Initially proposed to circumvent the limits of morphological characters to assign unknown individuals to known species, DNA barcoding has been used in a wide array of studies where collecting species identity constitutes a crucial step. The assignment of unknowns to knowns assumes that species are already well identified and delineated, making the assignment performed reliable. Here, we used DNA-based species delimitation and specimen assignment methods iteratively to tackle the inventory of the Indo-Australian Archipelago grey mullets, a notorious case of taxonomic complexity that requires DNA-based identification methods considering that traditional morphological identifications are usually not repeatable and sequence mislabeling is common in international sequence repositories. We first revisited a DNA barcode reference library available at the global scale for Mugilidae through different DNA-based species delimitation methods to produce a robust consensus scheme of species delineation. We then used this curated library to assign unknown specimens collected throughout the Indo-Australian Archipelago to known species. A second iteration of OTU delimitation and specimen assignment was then performed. We show the benefits of using species delimitation and specimen assignment methods iteratively to improve the accuracy of specimen identification and propose a workflow to do so.}, keywords = {Coral Triangle, Cryptic diversity, DNA barcoding, reference library, taxonomic gap}, issn = {1752-4571}, doi = {10.1111/eva.12926}, url = {https://onlinelibrary.wiley.com/doi/abs/10.1111/eva.12926}, author = {Delrieu-Trottin, Erwan and Durand, Jean-Dominique and Limmon, Gino and Sukmono, Tedjo and Kadarusman and Sugeha, Hagi Yulia and Chen, Wei-Jen and Busson, Frederic and Borsa, Philippe and Dahruddin, Hadi and Sauri, Sopian and Fitriana, Yuli and Zein, Mochamad Syamsul Arifin and Hocd{\'e}, R{\'e}gis and Pouyaud, Laurent and Philippe Keith and Wowor, Daisy and Steinke, Dirk and Hanner, Robert and Hubert, Nicolas} } @article {7203, title = {Carbon dioxide sources and sinks in the delta of the Para{\'\i}ba do Sul River (Southeastern Brazil) modulated by carbonate thermodynamics, gas exchange and ecosystem metabolism during estuarine mixing}, journal = {Marine Chemistry}, volume = {226}, year = {2020}, month = {Jan-10-2020}, pages = {103869}, issn = {03044203}, doi = {10.1016/j.marchem.2020.103869}, url = {https://linkinghub.elsevier.com/retrieve/pii/S0304420320301237}, author = {Cotovicz, Luiz C. and Vidal, Luciana O. and de Rezende, Carlos Eduardo and Bernardes, Marcelo C. and Knoppers, Bastiaan A. and Sobrinho, Rodrigo L. and Cardoso, Renan P. and Muniz, Marcelo and dos Anjos, Roberto Meigikos and Biehler, Antoine and Gwena{\"e}l Abril} } @article {7534, title = {Dietary taurine improves vision in different age gilthead sea bream (Sparus aurata) larvae potentially contributing to increased prey hunting success and growth}, journal = {Aquaculture}, year = {2020}, month = {Jan-11-2020}, pages = {736129}, issn = {00448486}, doi = {10.1016/j.aquaculture.2020.736129}, url = {https://linkinghub.elsevier.com/retrieve/pii/S0044848620338357}, author = {Gaon, A. and Nixon, O. and Tandler, A. and Falcon, J. and Besseau, L. and Escande, M. and El Sadin, S. and Allon, G. and Koven, W.} } @article {7046, title = {Disentangling the taxonomy of the subfamily Rasborinae (Cypriniformes, Danionidae) in Sundaland using DNA barcodes}, journal = {Scientific Reports}, volume = {10}, year = {2020}, month = {Jan-12-2020}, abstract = {iodiversity hotspots have provided useful geographic proxies for conservation efforts. Delineated from a few groups of animals and plants, biodiversity hotspots do not reflect the conservation status of freshwater fishes. With hundreds of new species described on a yearly basis, fishes constitute the most poorly known group of vertebrates. This situation urges for an acceleration of the fish species inventory through fast and reliable molecular tools such as DNA barcoding. The present study focuses on the freshwater fishes diversity in the Sundaland biodiversity hotspot in Southeast Asia. Recent studies evidenced large taxonomic gaps as well as unexpectedly high levels of cryptic diversity, particularly so in the islands of Java and Bali. The Cypriniformes genera Rasbora and Nemacheilus account for most of the endemic species in Java and Bali, however their taxonomy is plagued by confusion about species identity and distribution. This study examines the taxonomic status of the Rasbora and Nemacheilus species in Java, Bali and Lombok islands through DNA barcodes, with the objective to resolve taxonomic confusion and identify trends in genetic diversity that can be further used for conservation matters. Several species delimitation methods based on DNA sequences were used and confirmed the status of most species, however several cases of taxonomic confusion and two new taxa are detected. Mitochondrial sequences argue that most species range distributions currently reported in the literature are inflated due to erroneous population assignments to the species level, and further highlight the sensitive conservation status of most Rasbora and Nemacheilus species on the islands of Java, Bali and Lombok.}, keywords = {Conservation genetics, Cryptic diversity, Population fragmentation, Southeast Asia, taxonomy}, doi = {10.1038/s41598-020-59544-9}, url = {http://www.nature.com/articles/s41598-020-59544-9}, author = {Sholihah, Arni and Delrieu-Trottin, Erwan and Sukmono, Tedjo and Dahruddin, Hadi and Risdawati, Renny and Elvyra, Roza and Wibowo, Arif and Kustiati, Kustiati and Busson, Frederic and Sauri, Sopian and Nurhaman, Ujang and Dounias, Edmond and Zein, Muhamad Syamsul Arifin and Fitriana, Yuli and Utama, Ilham Vemendra and Muchlisin, Zainal Abidin and Agn{\`e}se, Jean-Fran{\c c}ois and Hanner, Robert and Wowor, Daisy and Steinke, Dirk and Philippe Keith and R{\"u}ber, Lukas and Hubert, Nicolas} } @article {8289, title = {Eleotris (Teleostei: Eleotridae) of the Indian Ocean: an overview with the description of three new species}, journal = {Cybium}, volume = {44}, year = {2020}, pages = {185-203}, author = {Marion Mennesson and Philippe Keith} } @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 {7042, title = {Exploring community assembly among Javanese and Balinese freshwater shrimps (Atyidae, Palaemonidae) through DNA barcodes}, journal = {Hydrobiologia}, volume = {847}, year = {2020}, month = {Jan-01-2020}, pages = {647 - 663}, abstract = {Species proliferate through evolutionary mechanisms but coexist through ecological dynamics. As such, it might be expected that mechanisms of speciation and species maintenance jointly influence the settlement of ecological communities, a process called community assembly. Disentangling the relative contribution of evolutionary and ecological dynamics might be a difficult task, particularly so for the tropical biotas due to their extreme diversity and large knowledge gaps. Here, we explore genetic diversity and distribution of 23 freshwater shrimp species of the genera Caridina and Macrobrachium in Sundaland to examine patterns of species co-occurrence based on 1583 observations across 19 sites in Java and Bali islands. DNA-based species delimitation methods applied to 204 cytochrome oxidase I sequences detected 30 operational taxonomic units and a few cases of deep intraspecific divergence. Species co-occurrence and phylogenetic community structure show no departure from expectations under a random distribution of species in landscapes and support a lottery model of community assembly. Species age estimates expand beyond the geological settlement of Sundaland, suggesting that species proliferation and community assembly are driven by mechanisms acting at distinct spatial and temporal scales.}, keywords = {Caridina, Dispersa, Lottery model, Macrobrachium, Phylogenetic community structure, Species delimitation}, issn = {0018-8158}, doi = {10.1007/s10750-019-04127-7}, url = {http://link.springer.com/10.1007/s10750-019-04127-7}, author = {Hernawati, Rena and Nurhaman, Ujang and Busson, Frederic and Suryobroto, Bambang and Hanner, Robert and Philippe Keith and Wowor, Daisy and Hubert, Nicolas} } @article {8125, title = {Freshwater gobies 30 million years ago: New insights into character evolution and phylogenetic relationships of {\textdagger}Pirskeniidae (Gobioidei, Teleostei)}, journal = {PLOS ONE}, volume = {15}, year = {2020}, month = {Dec-08-2021}, pages = {e0237366}, doi = {10.1371/journal.pone.0237366}, url = {https://dx.plos.org/10.1371/journal.pone.0237366}, author = {Reichenbacher, Bettina and P{\v r}ikryl, Tom{\'a}{\v s} and Cerwenka, Alexander F. and Philippe Keith and Gierl, Christoph and Dohrmann, Martin}, editor = {Carnevale, Giorgio} } @article {7060, title = {Functional kleptoplasts intermediate incorporation of carbon and nitrogen in cells of the Sacoglossa sea slug Elysia viridis}, journal = {Scientific Reports}, volume = {10}, year = {2020}, month = {Jan-12-2020}, abstract = {Some sacoglossan sea slugs incorporate intracellular functional algal chloroplasts, a process termed kleptoplasty. {\textquotedblleft}Stolen{\textquotedblright} chloroplasts (kleptoplasts) can remain photosynthetically active up to several months, contributing to animal nutrition. Whether this contribution occurs by means of translocation of photosynthesis-derived metabolites from functional kleptoplasts to the animal host or by simple digestion of such organelles remains controversial. Imaging of\ 13C and\ 15N assimilation over a 12-h incubation period of\ Elysia viridis\ sea slugs showed a light-dependent incorporation of carbon and nitrogen, observed first in digestive tubules and followed by a rapid accumulation into chloroplast-free organs. Furthermore, this work revealed the presence of\ 13C-labeled long-chain fatty acids (FA) typical of marine invertebrates, such as arachidonic (20:4n-6) and adrenic (22:4n-6) acids. The time frame and level of\ 13C- and\ 15N-labeling in chloroplast-free organs indicate that photosynthesis-derived primary metabolites were made available to the host through functional kleptoplasts. The presence of specific\ 13C-labeled long-chain FA, absent from\ E. viridis\ algal food, indicates animal based-elongation using kleptoplast-derived FA precursors. Finally, carbon and nitrogen were incorporated in organs and tissues involved in reproductive functions (albumin gland and gonadal follicles), implying a putative role of kleptoplast photosynthesis in the reproductive fitness of the animal host.}, doi = {10.1038/s41598-020-66909-7}, url = {http://www.nature.com/articles/s41598-020-66909-7}, author = {Cruz, S{\'o}nia and LeKieffre, Charlotte and Cartaxana, Paulo and C{\'e}dric Hubas and Najet Thiney and Jakobsen, Sofie and Escrig, St{\'e}phane and Bruno Jesus and K{\"u}hl, Michael and Calado, Ricardo and Meibom, Anders} } @article {8285, title = {Giuris (Teleostei: Eleotridae) from Indonesia, with description of a new species}, journal = {Cybium}, volume = {44}, year = {2020}, pages = {331-349}, author = {Philippe Keith and Marion Mennesson and Sauri, S and Fr{\'e}d{\'e}ric Busson and Delrieu-Trottin, Erwan and Limmon, G and Sukomono, T and Jiran and Risdawati, Renny and Dahruddin, Hadi and Hubert, Nicolas} } @article {7134, title = {Gonadotropin-inhibitory hormone in teleosts: New insights from a basal representative, the eel}, journal = {General and Comparative Endocrinology}, volume = {287}, year = {2020}, month = {Jan-02-2020}, pages = {113350}, issn = {00166480}, doi = {10.1016/j.ygcen.2019.113350}, url = {https://linkinghub.elsevier.com/retrieve/pii/S0016648019303296}, author = {Maugars, G. and Pasquier, J. and Atkinson, C. and Lafont, A.-G. and Campo, A. and Kamech, Nedia and Lefranc, B. and Leprince, J. and Sylvie Dufour and Rousseau, K.} } @article {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} } @book {8129, title = {Les poissons d{\textquoteright}eau douce de France}, year = {2020}, pages = {704}, publisher = {Biotope Editions, M{\`e}ze ; Mus{\'e}um national d{\textquoteright}Histoire naturelle, Paris (collection Inventaires et biodiversit{\'e})}, organization = {Biotope Editions, M{\`e}ze ; Mus{\'e}um national d{\textquoteright}Histoire naturelle, Paris (collection Inventaires et biodiversit{\'e})}, edition = {2nde}, address = {Paris}, author = {Philippe Keith and Poulet, Nicolas and Denys, Ga{\"e}l and Changeux Thomas and Eric Feunteun and Persat, Henri} } @article {8136, title = {A macroscopic and stereological imaging dataset of Pleuronectes platessa ovariesAbstract}, journal = {Scientific Data}, volume = {7}, year = {2020}, month = {Jan-12-2020}, doi = {10.1038/s41597-020-0505-8}, url = {http://www.nature.com/articles/s41597-020-0505-8}, author = {Sauger, Carine and Quinquis, J{\'e}r{\^o}me and Kellner, Kristell and Clothilde Heude-Berthelin and Lepoittevin, M{\'e}lanie and Elie, Nicolas and Dubroca, Laurent} } @article {7173, title = {Matching zooplankton abundance and environment in the South Indian Ocean and Southern Ocean}, journal = {Deep Sea Research Part I: Oceanographic Research Papers}, year = {2020}, month = {Jan-08-2020}, pages = {103347}, issn = {09670637}, doi = {10.1016/j.dsr.2020.103347}, url = {https://linkinghub.elsevier.com/retrieve/pii/S0967063720301345}, author = {Godet, Claire and Robuchon, Marine and Leroy, Boris and Cott{\'e}, C{\'e}dric and Baudena, Alberto and Da Silva, Oph{\'e}lie and Fabri-Ruiz, Salom{\'e} and Lo Monaco, Claire and Sergi, Sara and Koubbi, Philippe} } @article {7020, title = {The mathematical influence on global patterns of biodiversity}, journal = {Ecology and Evolution}, volume = {10}, year = {2020}, pages = {6494-6511}, abstract = {Although we understand how species evolve, we do not appreciate how this process has filled an empty world to create current patterns of biodiversity. Here, we conduct a numerical experiment to determine why biodiversity varies spatially on our planet. We show that spatial patterns of biodiversity are mathematically constrained and arise from the interaction between the species{\textquoteright} ecological niches and environmental variability that propagates to the community level. Our results allow us to explain key biological observations such as (a) latitudinal biodiversity gradients (LBGs) and especially why oceanic LBGs primarily peak at midlatitudes while terrestrial LBGs generally exhibit a maximum at the equator, (b) the greater biodiversity on land even though life first evolved in the sea, (c) the greater species richness at the seabed than at the sea surface, and (d) the higher neritic (i.e., species occurring in areas with a bathymetry lower than 200\ m) than oceanic (i.e., species occurring in areas with a bathymetry higher than 200\ m) biodiversity. Our results suggest that a mathematical constraint originating from a fundamental ecological interaction, that is, the niche{\textendash}environment interaction, fixes the number of species that can establish regionally by speciation or migration.}, keywords = {Biodiversity, ecological niche, large-scale patterns in species richness, models, theory}, doi = {10.1002/ece3.6385}, url = {https://onlinelibrary.wiley.com/doi/abs/10.1002/ece3.6385}, author = {Gr{\'e}gory Beaugrand and Kirby, Richard R and Goberville, Eric} } @article {6724, title = {Microbial functional structure and stable isotopic variation of leptocephali across three current zones in the western South Pacific}, journal = {Progress in Oceanography}, volume = {182}, year = {2020}, pages = {102264}, abstract = {The ecology of leptocephali remains poorly known but they appear to feed on marine snow that can vary spatially and temporally according to the food web dynamics. This study provided new information about the position of leptocephali within the functional structure of microbial plankton and other food web components of the western South Pacific (WSP) region at a large geographic scale including the New Caledonia, Fiji, and Samoa islands. The hydrographic structure varied with latitude, and nutrient levels were generally low but somewhat variable. Stable isotopic signatures were examined in relation to the 3 current zones of the eastward flowing South Equatorial Countercurrent (SECC; north), the westward South Equatorial Current (SEC; mid-latitudes), and the eastward South Tropical Countercurrent (STCC; south), and all zones were found to be primarily based on a heterotrophic planktonic functioning that were co-limited by inorganic nitrogen and phosphorus, with biomasses of planktonic groups varying with depth. Isotopic signatures of leptocephali were compared to the signatures of other mesozoplankton, micronekton, and Trichodesmium components of the food web, and in relation to the signatures of particulate organic matter (POM) that varied among the 3 collection depths. The isotopic signatures of six taxa of leptocephali, other taxonomic groups and POM showed interesting variability according to latitude and among some stations. The presence of Trichodesmium at the surface in the STCC zone influenced the isotopic signatures of POM and thus the signatures of leptocephali. The signatures of leptocephali were therefore linked with the overall food web and were consistent with the larvae feeding on marine snow components of POM. The two apparent groups of leptocephali with different isotopic signatures that have also been observed in other oceanic areas may be explained by feeding behavior at different depths or on different types of marine snow.}, keywords = {Isotopic signature, Leptocephali, Meso-macro-zooplankton, Microbial loop, Micronekton, POM, Western South Pacific}, issn = {0079-6611}, doi = {10.1016/j.pocean.2020.102264}, url = {http://www.sciencedirect.com/science/article/pii/S0079661120300021}, author = {Leopold Ghinter and Christine Dupuy and Michael J. Miller and Alexandre Carpentier and Christel Lefran{\c c}ois and Anthony Acou and Jun Aoyama and Mari Kuroki and Li{\'e}nart, Camilla and Shun Watanabe and Katsumi Tsukamoto and Tsuguo Otake and Eric Feunteun} } @article {8549, title = {Navicula dermochelycola sp. nov., presumably an exclusively epizoic diatom on sea turtles Dermochelys coriacea and Lepidochelys olivacea from French Guiana}, journal = {Oceanological and Hydrobiological Studies}, volume = {49}, year = {2020}, month = {Jan-06-2020}, pages = {132 - 139}, doi = {10.1515/ohs-2020-0012}, url = {https://www.sciendo.com/article/10.1515/ohs-2020-0012}, author = {Riaux-Gobin, Catherine and Witkowski, Andrzej and Kociolek, John Patrick and Chevallier, Damien} } @article {8523, title = {Needlepoint non-destructive internal sampling for precious fish specimens}, journal = {Cybium}, volume = {44}, year = {2020}, pages = {73-79}, abstract = {In this paper, we describe a new non-damaging internal tissue sampling method for preserved collection of teleostean specimens. It was tested on freshwater pipefish, as external tissue sampling is made difficult by the lack of scales, the lack of pelvic fins, the atrophy of pectoral and anal fins. The internal tissue is detached by scratching the inside of the urogenital papilla with a fine metallic probe. 95\% ethanol is injected using a fine syringe, and then sucked back into the syringe with the detached tissue. this protocol has been tested on 6 specimens from 5 species of pipefish. For each specimen DNA was extracted from the internal tissue, a caudal fin clip, and when possible, eggs sampled from the male brooding pouch. Partial Cytochrome c oxydase I (COI) was amplified and sequenced. For each specimen, the 582 bp long sequences obtained from the internal tissue, the fin clip and the eggs were identical. These results validate this non-damaging internal tissue sampling method, which leaves absolutely no trace on the specimen. Although this method was developed on pipefish, it could be applied to other teleostean, even precious museum collection specimens such as type specimens. the aim of this paper, using the example of freshwater pipefish, is to present this method, which aims at preserving precious collection specimens while still valorising them.}, doi = {https://doi.org/10.26028/cybium/2020-441-010}, author = {Vincent Ha{\"y} and Marion Mennesson and Agn{\`e}s Dettai and C{\'e}line Bonillo and Philippe Keith and Clara Lord} } @article {7216, title = {Novel α-Hydroxy γ-Butenolides of Kelp Endophytes Disrupt Bacterial Cell-to-Cell Signaling}, journal = {Frontiers in Marine Science}, volume = {7}, year = {2020}, month = {Jun-07-2022}, doi = {10.3389/fmars.2020.0060110.3389/fmars.2020.00601.s001}, url = {https://www.frontiersin.org/article/10.3389/fmars.2020.00601/full}, author = {Vallet, Marine and Chong, Yee-Meng and Tourneroche, Anne and Genta-Jouve, Gregory and C{\'e}dric Hubas and Lami, Rapha{\"e}l and Gachon, Claire M. M. and Klochkova, Tatyana and Chan, Kok-Gan and Prado, Soizic} } @article {9738, title = {Phylogeny of African fruit bats (Chiroptera, Pteropodidae) based on complete mitochondrial genomes}, journal = {Journal of Zoological Systematics and Evolutionary Research}, volume = {58}, year = {2020}, month = {Jan-11-2020}, pages = {1395 - 1410}, abstract = {Members of the family Pteropodidae, also known as Old World fruit bats, are represented in Africa by 14 genera and 44 species. Here, we sequenced 67 complete mitochondrial genomes from African and Asian pteropodids to better understand the evolutionary history of the subfamily Rousettinae, which includes most of the African species. An increased frequency of guanine to adenine transitions is detected in the mtDNA genomes of Macroglossus sobrinus and all species of Casinycteris and Scotonycteris. Our phylogenetic and molecular dating analyses based on 126 taxa and 15,448 characters indicate a low signal for deep relationships within the family, suggesting a rapid diversification during the Late Oligocene period of "warming." Within the subfamily Rousettinae, most nodes are highly supported by our different analyses (all nucleotide sites, SuperTRI analyses of a sliding window, transversions only, coding genes only, and amino acid sequences). The results indicate the existence of four tribes: Rousettini-distributed from Africa through Mediterranean region and South Asia to South-East Asia; Eonycterini-found in Asia; and Epomophorini and Scotonycterini-restricted to sub-Saharan Africa. Although most interspecies relationships are highly supported, three parts of the Rousettinae mitochondrial tree are still unresolved, suggesting rapid diversification: (a) among the three subtribes Epomophorina (Epomophorus sensu lato, i.e., including Micropteropus, Epomops, Hypsignathus, Nanonycteris), Plerotina (Plerotes), and Myonycterina (Myonycteris, Megaloglossus) in the Late Miocene; (b) among Epomops, Hypsignathus, and other species of Epomophorina at the Pliocene-Pleistocene boundary; and (c) among Myonycteris species in the Early Pleistocene. Within the Epomophorini, Stenonycteris lanosus emerged first, suggesting that lingual echolocation may have appeared in the common ancestor of Epomophorini and Rousettini. Our analyses suggest that multiple events of mtDNA introgression occurred within the Epomophorus species complex during the Pleistocene.}, issn = {0947-5745}, doi = {10.1111/jzs.v58.410.1111/jzs.12373}, url = {https://onlinelibrary.wiley.com/doi/10.1111/jzs.12373}, author = {Hassanin, Alexandre and C{\'e}line Bonillo and Tshikung, Didier and Pongombo Shongo, C{\'e}lestin and Pourrut, Xavier and Kadjo, Blaise and Nakoun{\'e}, Emmanuel and Tu, Vuong Tan and Pri{\'e}, Vincent and Goodman, Steven M.} } @article {7398, title = {Physical properties of epilithic river biofilm as a new lead to perform pollution bioassessments in overseas territories}, journal = {Scientific Reports}, volume = {10}, year = {2020}, month = {Jan-12-2020}, abstract = {Chlordecone (CLD) levels measured in the rivers of the French West Indies were among the highest values detected worldwide in freshwater ecosystems, and its contamination is recognised as a severe health, environmental, agricultural, economic, and social issue. In these tropical volcanic islands, rivers show strong originalities as simplified food webs, or numerous amphidromous migrating species, making the bioindication of contaminations a difficult issue. The objective of this study was to search for biological responses to CLD pollution in a spatially fixed and long-lasting component of the rivers in the West Indies: the epilithic biofilm. Physical properties were investigated through complementary analyses: friction, viscosity as well as surface adhesion were analyzed and coupled with measures of biofilm carbon content and exopolymeric substance (EPS) production. Our results have pointed out a mesoscale chemical and physical reactivity of the biofilm that can be correlated with CLD contamination. We were able to demonstrate that epilithic biofilm physical properties can effectively be used to infer freshwater environmental quality of French Antilles rivers. The friction coefficient is reactive to contamination and well correlated to carbon content and EPS production. Monitoring biofilm physical properties could offer many advantages to potential users in terms of effectiveness and ease of use, rather than more complex or time-consuming analyses.}, doi = {10.1038/s41598-020-73948-7}, url = {http://www.nature.com/articles/s41598-020-73948-7}, author = {Monti, Dominique and C{\'e}dric Hubas and Louren{\c c}o, Xavier and Begarin, Farid and Haouis{\'e}e, Alexandre and Romana, Laurence and Lefran{\c c}ois, Estelle and Jestin, Alexandra and Budzinski, H{\'e}l{\`e}ne and Tapie, Nathalie and Risser, Th{\'e}o and Mansot, Jean-Louis and Philippe Keith and Gros, Olivier and Pascal Jean Lopez and Lauga, B{\'e}atrice} } @article {7545, title = {Public Perceptions of Mangrove Forests Matter for Their Conservation}, journal = {Frontiers in Marine Science}, volume = {7}, year = {2020}, month = {Jul-11-2021}, abstract = {Iconic species and landscapes attract public attention to help reverse the degradation of ecosystems and their biodiversity (Thompson and Rog, 2019); sharing their images on social media can act as a powerful way to influence perceptions and drive positive actions by the public (Wu et al., 2018). Social media platforms such as Twitter, Facebook and Instagram have been used to great effect to communicate the urgency required to halt and reverse tropical forest loss (Lamb et al., 2005) and the plight of coral reefs (Curnock et al., 2019). Ecosystems such as seagrass meadows, mudflats, and mangrove forests receive substantially less media exposure (Duarte et al., 2008). Yet these under-recognized ecosystems are hugely important for local and global societies, providing benefits such as shoreline protection (Barbier, 2016), fisheries (Carrasquilla-Henao and Juanes, 2017), carbon capture and storage (Duarte et al., 2013), alongside supporting rich marine and terrestrial biodiversity (Sievers et al., 2019;\ Thompson and Rog, 2019) (Figure 1). Apart from these important ecosystem functions, goods and services, mangrove forests are home to a huge diversity of organisms with ecologically and evolutionarily unique adaptations to life in the intertidal zone, including vivipary and salt tolerance in trees, air-breathing in crabs and amphibious behavior in fish (mudskippers); this makes mangrove forests a dynamic and fascinating evolutionary laboratory.}, doi = {10.3389/fmars.2020.60365110.3389/fmars.2020.603651.s001}, url = {https://www.frontiersin.org/articles/10.3389/fmars.2020.603651/full}, author = {Dahdouh-Guebas, Farid and Ajonina, Gordon N. and Amir, A. Aldrie and Andradi-Brown, Dominic A. and Aziz, Irfan and Balke, Thorsten and Barbier, Edward B. and Cannicci, Stefano and Cragg, Simon M. and Cunha-Lignon, Mar{\'\i}lia and Curnick, David J. and Duarte, Carlos M. and Duke, Norman C. and Endsor, Charlie and Fratini, Sara and Feller, Ilka C. and Fromard, Fran{\c c}ois and Hug{\'e}, Jean and Huxham, Mark and Kairo, James G. and Kajita, Tadashi and Kathiresan, Kandasamy and Koedam, Nico and Lee, Shing Yip and Lin, Hsing-Juh and Mackenzie, Jock R. and Mangora, Mwita M. and Marchand, Cyril and Tarik Meziane and Minchinton, Todd E. and Pettorelli, Nathalie and Polan{\'\i}a, Jaime and Polgar, Gianluca and Poti, Meenakshi and Primavera, Jurgenne and Quarto, Alfredo and Rog, Stefanie M. and Satyanarayana, Behara and Schaeffer-Novelli, Yara and Spalding, Mark and Van der Stocken, Tom and Wodehouse, Dominic and Yong, Jean W. H. and Zimmer, Martin and Friess, Daniel A.} } @article {8286, title = {Review of Giuris (Teleostei: Eleotridae) from Indo-Pacific islands, with description of three new species}, journal = {Cybium}, volume = {44}, year = {2020}, pages = {331-349}, author = {Philippe Keith and Marion Mennesson} } @article {8393, title = {Revision of Phoxinus in France with the description of two new species (Teleostei, Leuciscidae)}, journal = {Cybium}, volume = {44}, year = {2020}, pages = {205-237}, abstract = {French minnows of the genus Phoxinus are revised based on molecular data (COI and 12S rDNA markers), morphological characters and nuptial colouration patterns. The results delineate six groups of populations, which are recognised as species. Phoxinus phoxinus is found in eastern France in the lower and middle Rhine and Seine drainages. Phoxinus bigerri occurs in the Adour drainage and populations from the Lake Geneva basin and the upper Rhine drainage are identified as Phoxinus csikii. Phoxinus dragarum, new species, from the Garonne drainage, is distinguished by its unique nuptial colour pattern (green stripe in Z3 reaching up to the anal fin base and Z4 greenish yellow in male; Z4 green-ochre and black line below in Z5 reaching from the pectoral fin bases to the anal fin base in female), and by an incomplete lateral line generally reaching to a point in front of the anal fin base or just shortly beyond the origin of the last anal fin ray. Phoxinus fayollarum, new species, from the Loire drainage, is distinguished by its unique nuptial colour pattern (green bars in Z3 and Z4, Z4 bright yellow, and belly red in male; green stripe in Z3, Z4 yellow-pinkish, and red spots at the pectoral, pelvic and anal fin base in female). Minnows of the Rh{\^o}ne drainage are identified as Phoxinus septimaniae. We consider Pisciculus varius and Phoxynus montanus as nomen oblitum and Phoxinus septimaniae as nomen protectum, and Leuciscus obtusus as incertae sedis within Leuciscidae.}, author = {Denys, Ga{\"e}l and Dettai, Agn{\`e}s and Persat, Henri and Daszkiewicz, Piotr and Hautecoeur, M{\'e}lyne and Philippe Keith} } @article {8130, title = {Solomon{\textquoteright}s Gold Mine: Description or redescription of 24 species of Caridina (Crustacea: Decapoda: Atyidae) freshwater shrimps from the Solomon Islands, including 11 new species.}, journal = {European Journal of Taxonomy}, year = {2020}, month = {Apr-08-2020}, doi = {10.5852/ejt.2020.696}, url = {https://europeanjournaloftaxonomy.eu/index.php/ejt/article/view/1051}, author = {de Mazancourt, Valentin and Boseto, David and Marquet, G{\'e}rard and Philippe Keith} } @article {7045, title = {Taxonomic study of the freshwater shrimps genus Atyoida Randall, 1840 (Crustacea: Decapoda: Atyidae) in Polynesia with a revalidation of A. tahitensis Stimpson, 1860}, journal = {Zootaxa}, volume = {4751}, year = {2020}, month = {Apr-03-2021}, pages = {55 - 74}, abstract = {Numerous specimens of Atyoida were collected in Polynesia during specific samplings led by the Mus{\'e}um national d{\textquoteright}Histoire naturelle (MNHN, Paris) from 1983 to 2017. In the context of an integrative taxonomy, all the Polynesian specimens were morphologically and genetically studied. The molecular study proved that the specimens were split in two different clades separated by 7\% genetic distance (16S) and geographically structured that can be considered as two distinct species. In this article, A. tahitensis Stimpson, 1860 from Eastern Polynesia is re-validated as a distinct species from A. pilipes (Newport 1847) from Vanuatu to Marquesas archipelago. The morphological study, besides coloration patterns (Body blackish on its back, ornamented on its flanks with numerous bluish dots and longitudinal stripes for A. tahitensis; orange-yellow back as well as the antennular peduncle, telson and uropods with the flanks whitish ornamented with numerous blue-black patterns of various shapes for A. pilipes), did not allow us to find characters to distinguish easily the two species. Detailed re-descriptions and the geographical distribution of these two species are given and a neotype deposited in the MNHN (Paris) is designated for A. tahitensis.}, keywords = {Atyidae, Atyoida, Crustacea, Taxonomic}, issn = {1175-5326}, doi = {10.11646/zootaxa.4751.110.11646/zootaxa.4751.1.3}, url = {https://www.biotaxa.org/Zootaxa/issue/view/zootaxa.4751.1}, author = {Camille Lorang and de Mazancourt, Valentin and Marquet, G{\'e}rard and Philippe Keith} } @article {8553, title = {Survival and breeding interval of an endangered marine vertebrate, the leatherback turtle Dermochelys coriacea, in French Guiana}, journal = {Endangered Species Research}, volume = {41}, year = {2020}, month = {Jan-02-2021}, pages = {153 - 165}, issn = {1863-5407}, doi = {10.3354/esr01013}, url = {https://www.int-res.com/abstracts/esr/v41/p153-165/}, author = {Chevallier, Damien and Girondot, M and Berzins, R and Chevalier, J and de Thoisy, B and Fretey, J and Kelle, L and Lebreton, JD} } @article {7163, title = {Using Modern Conservation Tools for Innovative Management of Coral Reefs: The MANACO ConsortiumVideo_1.MP4}, journal = {Frontiers in Marine Science}, volume = {7}, year = {2020}, month = {Sep-07-2021}, doi = {10.3389/fmars.2020.0060910.3389/fmars.2020.00609.s001}, url = {https://www.frontiersin.org/article/10.3389/fmars.2020.00609/full}, author = {Selmoni, Oliver and Lecellier, Ga{\"e}l and Ainley, Lara and Collin, Antoine and Doucet, Raimana and Dubousquet, Vaimiti and Feremaito, Hudson and Ito Waia, Edouard and Kininmonth, Stuart and Magalon, H{\'e}l{\`e}ne and Malimali, Siola{\textquoteright}a and Maugateau, Ateliana and Meibom, Anders and Mosese, Stephen and Ren{\'e}-Trouillefou, Malika and Satoh, Noriyuki and van Oppen, Madeleine J. H. and Xozam{\'e}, Andr{\'e} and Y{\'e}kawene, Maxime and Joost, St{\'e}phane and Berteaux-Lecellier, V{\'e}ronique} } @article {7895, title = {What is the best combination of modalities of twelve environmental, feeding and populational factors to improve pikeperch larval rearing in recirculating aquaculture systems?}, journal = {Aquaculture Reports}, volume = {17}, year = {2020}, month = {Jan-07-2020}, pages = {100337}, abstract = {Pikeperch (Sander lucioperca) has a high potential for inland aquaculture diversification in Europe. Bottlenecks (i.e. low survival, cannibalism and deformity rates) hamper further expansion of pikeperch culture, because of the weak production performances at the nursery level. To improve the production of pikeperch juveniles under recirculation system we used a pilot scale larval rearing system (700 L tanks) and multifactorial designs. Three successive larval rearing trials (duration: 35-49 days) were conducted to identify the best combination of en- vironmental, feeding and population factors. Considering the main significant effects observed on survival, growth, swim bladder inflation rates and biomass gain, a favourable combination of twelve factor (F) modalities was proposed (F1- initial density: 100 larvae.L-1, F2- no sorting of fish jumper, F3- no sibling population, F4- eggs from large females, F5- discontinuous feeding, F6- no co-feeding, F7- light intensity: 50 lx, F8- beginning of the weaning at 16 dph (days post-hatching), F9- weaning duration: 9 days, F10- water renewal rate of 100 \% per hour, F11- tank cleaning during morning and F12- tank bottom-up water current). A final validation step was realized over a last trial (seven replicates, duration: 49 days), and validated with the best productive results obtained over the global experimental period (2015-2018). These results were: a final body weight of 815.64 {\textpm} 95.34 mg, a survival rate of 16.9 {\textpm} 1.7 \%, a specific growth rate of 15.1 {\textpm} 5.9 \%.d-1, a final fish biomass of 9.55{\textpm}0.23 kg, a swim bladder inflation rate of 92.6{\textpm}3.2 \% and a food conversion rate of 0.65 {\textpm} 0.02 (dry food). The final stocking density was 13.6 kg.m-3\ of rearing volume. Authors were able to validate and provide a reliable basic protocol for pikeperch larval rearing using recirculating units.}, keywords = {early life stages, fish farming, multifactorial design, recirculating aquaculture system, Sander lucioperca}, issn = {23525134}, doi = {10.1016/j.aqrep.2020.100337}, url = {https://linkinghub.elsevier.com/retrieve/pii/S2352513419304983}, author = {Tatiana Colchen and Gisbert, E. and Krauss, D. and Ledor{\'e}, Y. and Pasquet, A. and Fontaine, P.} } @article {5810, title = {{Atlantic Multidecadal Oscillations drive the basin-scale distribution of Atlantic bluefin tuna}}, journal = {Science Advances}, volume = {5}, year = {2019}, pages = {eaar6993}, abstract = {

The Atlantic bluefin tuna (hereafter referred to as {\textquotedblleft}bluefin tuna{\textquotedblright}), one of the world{\textquoteright}s most valuable and exploited fish species, has been declining in abundance throughout the Atlantic from the 1960s until the mid-2000s. Following the establishment of drastic management measures, the stock has started to recover recently and, as a result, stakeholders have raised catch quotas by 50{\%} for the period 2017{\textendash}2020. However, stock assessments still omit the natural, long-term variability in the species distribution. Here, we explore the century-scale fluctuations in bluefin tuna abundance and distribution to demonstrate a prevailing influence of the Atlantic Multidecadal Oscillation (AMO) to provide new insights into both the collapse of the Nordic bluefin tuna fishery circa 1963 and the recent increase in bluefin tuna abundance in the Northeast Atlantic. Our results demonstrate how climatic variability can modulate the distribution of a large migrating species to generate rapid changes in its regional abundance, and we argue that climatic variability must not be overlooked in stock management plans for effective conservation.

}, issn = {23752548}, doi = {10.1126/sciadv.aar6993}, author = {Robin Faillettaz and Gr{\'e}gory Beaugrand and Goberville, Eric and Richard R Kirby} } @article {6045, title = {Barbatula leoparda (Actinopterygii, Nemacheilidae), a new endemic species of stone loach of French Catalonia}, journal = {Cybium}, volume = {43}, year = {2019}, pages = {169-177}, abstract = {

This study described a new stone loach species in France, Barbatula leoparda, which is endemic to French Catalonia (T{\^e}t and Tech river drainages). Seven specimens were compared to 49 specimens of B. barbatula\ (Linnaeus, 1758) and 71 specimens of B. quignardi (B{\u a}cescu-Me{\c s}ter, 1967). This new species is characterized by the presence of blotches on the belly and the jugular area in individuals longer than 47 mm SL and by a greater interorbital distance (35.5 to 41.8\% of the head length). We brought moreover the sequence of two mitochondrial markers (COI and 12S, respectively 652 and 950 bp) of the holotype, which are well distinct from all other species, for molecular identifications. This discovery is important for conservation.

}, keywords = {Barbatula leopard, French Catalonia, Freshwater, Nemacheilidae, New species}, author = {Gauliard, Camille and Dettai, Agn{\`e}s and Persat, Henri and Philippe Keith and Denys, Ga{\"e}l} } @article {5930, title = {The complex study of complexes: The first well-supported phylogeny of two species complexes within genus Caridina (Decapoda: Caridea: Atyidae) sheds light on evolution, biogeography, and habitat}, journal = {Molecular Phylogenetics and Evolution}, volume = {131}, year = {2019}, pages = {164-180}, abstract = {

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

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

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

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

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

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

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

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

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

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

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

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

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

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

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

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

species.

1. Introduction

}, keywords = {amphidromy, freshwater shrimp, Indo-Pacific, Mitochondrial genome, Molecular systematics, taxonomy}, author = {de Mazancourt, Valentin and Klotz, Werner and Marquet, G{\'e}rard and Mos, B and Rogers, C and Philippe Keith} } @article {6014, title = {Contrasting biodiversity of eel larvae across the central Indian Ocean subtropical gyre}, journal = {Deep Sea Research Part II: Tropical Studies in Oceanography}, volume = {161}, year = {2019}, pages = {120{\textendash}131}, abstract = {The unique semi-enclosed Indian Ocean basin includes large Mascarene\ Plateau\ banks, offshore\ coral-reef\ islands, seasonal equatorial current jets, and cross-basin westward South Equatorial Current (SEC) flow, making it interesting for studying long larval-duration eel larvae (leptocephali) and regional eel biodiversity. Three surveys for\ leptocephali\ (in 2003, 2006, 2010) included sampling west of the Mascarene Plateau (west), a major survey and other stations off Sumatra and Java (east), and 2 cross-basin transects across the SEC. The highest numbers of leptocephali species were observed along Sumatra (2003: ~143 species; 2006: 72 species) and south of Java (2010: 69), with intermediate numbers being collected in the western Indian Ocean (2006: 71; 2010: 53) compared to low numbers in the hydrographically variable offshore zones (2006, 2010: 3{\textendash}27). The larger\ continental shelf\ areas along Sumatra including the Mentawai Islands provide more coral reef and other habitats for species such as congrid, muraenid, ophichthid, and chlopsid eels compared to the Mascarene Plateau banks. Some larvae in these areas get transported offshore, but the majority of offshore larvae were of Nemichthyidae and Serrivomeridae mesopelagic eels that were spawning across the basin. Habitat differences between the southern Mascarene Plateau and Sumatra and southern Indonesia along the edge of the high biodiversity Coral Triangle likely explain the higher biodiversity of eel larvae observed along the western side of the basin, which for the Congridae and Ophichthidae included more species than observed previously within the central Indonesian Seas. In addition to local spawning, seasonal currents likely transport larger larvae towards Sumatra from the north or west and larvae may enter the basin from the Indonesian\ Throughflow\ in the east, but it is unknown if equatorial jets or the SEC can transport larvae across the whole basin.}, doi = {doi.org/10.1016/j.dsr2.2018.02.012}, url = {https://www.sciencedirect.com/science/article/pii/S0967064517304393}, author = {Miller, Michael J and Wouthuyzen, Sam and Eric Feunteun and Aoyama, Jun and Watanabe, Shun and Syahailatua, Augy and Kuroki, Mari and Robinet, Tony and Hagihara, Seishi and Otake, Tsuguo and others} } @article {8155, title = {Data for evolutive analysis of insulin related peptides in bilaterian species}, journal = {Data in Brief}, volume = {22}, year = {2019}, month = {Jan-02-2019}, pages = {546 - 550}, issn = {23523409}, doi = {10.1016/j.dib.2018.12.050}, url = {https://linkinghub.elsevier.com/retrieve/pii/S2352340918315890}, author = {Cherif--Feildel, Ma{\"e}va and Clothilde Berthelin and Riviere, Guillaume and Favrel, Pascal and Kellner, Kristell} } @article {6690, title = {Detecting outliers in species distribution data: Some caveats and clarifications on a virtual species study}, journal = {Journal of Biogeography}, volume = {46}, year = {2019}, month = {Feb-09-2019}, pages = {2141 - 2144}, issn = {0305-0270}, doi = {10.1111/jbi.13626}, url = {https://onlinelibrary.wiley.com/doi/full/10.1111/jbi.13626}, author = {Meynard, Christine N. and Kaplan, David M. and Leroy, Boris}, editor = {Pearman, Peter B.} } @article {8745, title = {Differential Influence of Life Cycle on Growth and Toxin Production of three Pseudo-nitzschia species (Bacillariophyceae)}, journal = {Journal of Phycology}, volume = {55}, year = {2019}, month = {Mar-10-2021}, pages = {1126 - 1139}, issn = {0022-3646}, doi = {10.1111/jpy.v55.510.1111/jpy.12898}, url = {https://onlinelibrary.wiley.com/toc/15298817/55/5}, author = {Aurore Sauvey and Pascal Claquin and Bertrand Le Roy and Le Gac, Mickael and Juliette Fauchot}, editor = {Kroth, P.} } @article {6737, title = {Distribution of anguillid leptocephali and possible spawning areas in the South Pacific Ocean}, journal = {Progress in Oceanography}, volume = {180}, year = {2019}, pages = {102234}, abstract = {Seven South Pacific anguillid eel species live from New Guinea to French Polynesia, but their spawning areas and life histories are mostly unknown despite previous sampling surveys. A July{\textendash}October 2016 research cruise was conducted to study the spawning areas and times, and larval distributions of South Pacific anguillid eels, which included a short 155{\textdegree}E station-line northeast of New Guinea and five long transects (5{\textendash}25{\textdegree}S, 160{\textdegree}E{\textendash}140{\textdegree}W) crossing the South Equatorial (SEC) and other currents. This survey collected nearly 4000 anguilliform leptocephali at 179 stations using an Isaacs-Kidd Midwater Trawl accompanied by 104 CTD casts. Based on morphometric observations and DNA sequencing, 74 anguillid leptocephali were collected, which in the southern areas included 29 larvae of six species: Anguilla bicolor pacifica, A. marmorata, A. australis, A. reinhardtii, A. megastoma,and A. obscura (all anguillid species of the region were caught except A. dieffenbachii). Small A. australis (9.0{\textendash}16.8\ mm) and A. reinhardtii (12.4, 12.5\ mm) leptocephali were collected south of the Solomon Islands, other A. australis (10.8{\textendash}12.0\ mm) larvae were caught northwest of Fiji along with an A. obscura (20.0\ mm) larva, and an A. marmorata (7.8\ mm) larva was collected near Samoa. Considering collection sites, larval ages from otolith analysis, and westward SEC drift, multiple spawning locations occurred from south of the Solomon Islands and the Fiji area (16{\textendash}20\ days old larvae) to near Samoa (19\ days old larva) during June and July in areas where high-salinity Subtropical Underwater (STUW, 150\ m depth) and the warm, low-salinity surface Fresh Pool were present. Five long hydrographic sections showed the strong Fresh Pool in the west and the STUW formation area in the east.}, keywords = {Early life history, Freshwater eels, Migration, otolith, South Pacific, Spawning}, issn = {0079-6611}, doi = {https://doi.org/10.1016/j.pocean.2019.102234}, url = {http://www.sciencedirect.com/science/article/pii/S0079661119304148}, author = {Mari Kuroki and Michael J. Miller and Eric Feunteun and Pierre Sasal and Timothy Pikering and Yu-San Han and Elisabeth Faliex and Anthony Acou and Aur{\'e}lie Dessier and Robert Schabetsberger and Shun Watanabe and Tatsuya Kawakami and Hiroaki Onda and Takatoshi Higuchi and Aya Takeuchi and Madoka Shimizu and Chinthaka A. Hewavitharane and Seishi Hagihara and Terumasa Taka and Shingo Kimura and Noritaka Mochioka and Tsuguo Otake and Katsumi Tsukamoto} } @article {6016, title = {Dmrt1 (doublesex and mab-3-related transcription factor 1) expression during gonadal development and spermatogenesis in the Japanese eel.}, journal = {General and Comparative Endocrinology}, volume = {279}, year = {2019}, pages = {154-163}, author = {Jeng, Shan-Ru and Wu, Guan-Chung and Wen-Shiun Yueh and Kuo, S-F and Sylvie Dufour and Chang, Ching-Fong} } @article {6044, title = {Does your lip stick? Evolutionary aspects of the mouth morphology of the Indo-Pacific clinging goby of the Sicyopterus genus (Teleostei: Gobioidei: Sicydiinae) based on mitogenome phylogeny.}, journal = {Journal of Zoological Systematics and Evolutionary Research}, year = {2019}, abstract = {

Sicydiinae gobies have an amphidromous life cycle. Adults grow, feed, and reproduce in rivers, while larvae have a marine dispersal phase. Larvae recruit back to rivers and settle in upstream habitats. Within the Sicydiinae subfamily, the\ Sicyopterus genus, one of the most diverse (24 species), is distributed in the tropical islands of the Indo-Pacific. One of the characters used to determine Sicyopterus species is the upper lip morphology, which can be either smooth, crenulated, or with papillae, and with (2 or 3) or without clefts. The mouth is used as a secondary locomotor organ along with the pelvic sucker. It is thus strongly related to the climbing ability of species and is of major importance for the upstream migration and the colonization of insular freshwater systems. The mouth also has an important role in the feeding mechanism of these herbivorous species. In this paper, we have established a molecular phylogeny of the genus based on the 13 mitochondrial protein-coding genes to discuss the relationship between 18 Sicyopterus species. There is a well-supported dichotomy in the molecular phylogeny of the Sicyopterus genus and this separation into two clades is also morphologically visible, with the distinction of species with three clefts and species with 0 or 2 clefts on the upper lip. The mouth morphology can thus be separated with regard to the molecular phylogeny obtained. The evolution of the mouth morphology is discussed in terms of the adaptation of the Sicyopterus genus to settlement and life in tropical insular river systems.

}, keywords = {mitogenome, mouth morphology, Phylogeny, Sicydiinae, Sicyopterus}, doi = {DOI: 10.1111/jzs.12291}, author = {Clara Lord and Laure Bellec and Dettai, Agn{\`e}s and C{\'e}line Bonillo and Philippe Keith} } @article {6039, title = {Evolutionary aspects of cephalic sensory papillae of the Indo- Pacific species of Eleotris (Teleostei: Eleotridae)}, journal = {Zoologica Scripta}, year = {2019}, abstract = {

\ Eleotris species (Teleostei: Eleotridae) are one of the most common fish in Indo-Pacific estuaries and insular freshwater streams. In these rivers, they are a sit-andwaitpredator. They have an amphidromous life cycle,\  that is adults grow, feed and reproduce in rivers, while larvae have a marine dispersal phase. Larvae recruit back to rivers and settle in stream habitats. Primary characters used to determine\  Eleotris species are the presence and the disposition of cephalic sensory papillae rows on the operculum and under the eyes as well as scale row numbers. The morphology of these cephalic sensory papillae is of particular importance in this predatory genus as it is generally correlated in fish to predation and feeding. In this paper, we have established a molecular phylogeny of the genus based on the 12 mitochondrial protein- coding genes to discuss the relationship between Indo-Pacific\  Eleotris species. There is a well-supported dichotomy in the molecular phylogeny, and this separation into two main clades is also morphologically visible, as it reveals a difference in the arrangement of cephalic sensory papillae. Indeed, the phylogeny distinguishes the species with the {\textquotedblleft}open{\textquotedblright} pattern of the operculum sensory papillae and the species with the {\textquotedblleft}closed{\textquotedblright} one. This phylogeny thus reflects the morphology of the opercular papillae. The evolution of this character is discussed in terms of the adaptation of the\ Eleotris genus to life in tropical insular river systems.

}, doi = {DOI: 10.1111/zsc.12366}, author = {Marion Mennesson and Maeda, Ken and Philippe Keith} } @article {6046, title = {Freshwater fishing among Lapita people: The Sleepers (Teleostei: Eleotridae) of Teouma, Vanuatu}, journal = {Journal of Archaeological Science: Reports}, volume = {26}, year = {2019}, abstract = {

The study of the ichthyofaunal corpus yielded by the archaeological site of Teouma, Efate Island, Vanuatu, has revealed the unexpected presence of a significant number of bones of Eleotridae (Sleepers) on the site, as early as 2920{\textendash}2870 cal. B.P. Out of the 8560 identified fish remains associated with the Lapita layers, which document the period of initial settlement of the archipelago, 1368 have been determined as belonging to eleotrids, including species of the genera Giuris, Ophiocara and Eleotris. They represent 16\% of the corpus and occupy second place among the dominant families in an assemblage composed otherwise of a wide-range of marine coastal and reef-associated taxa. Even though the Lapita economy is characterised by an intensive and broad-spectrum exploitation of all terrestrial and marine resources available and readily procurable, the eleotrids of Teouma are the first clear evidence thus far of the exploitation of freshwater environments by Lapita communities anywhere in their range. A river and a swamp are present in the vicinity of the site, and hooks and lines and/or multipronged spears could have been used. Passive gear such as weirs, fish-traps or nets might have been applied as well, enabling the capture of sleepers in larger quantities. The results presented here offer an original insight of an unknown facet of Lapita subsistence strategies and aim to highlight the antiquity of freshwater fishing at a regional scale.

}, keywords = {Ichthyoarchaeology, Melanesia, Pacific Islands, River fishing, Subsistence strategies}, doi = {https://doi.org/10.1016/j.jasrep.2019.101894}, author = {Bouffandeau, Laurie and Bearez, Philippe and Philippe Keith and Bedford, Stuart and Spriggs, Matthew} } @article {7044, title = {Freshwater fishing among Lapita people: The Sleepers (Teleostei: Eleotridae) of Teouma, Vanuatu}, journal = {Journal of Archaeological Science: Reports}, volume = {26}, year = {2019}, month = {Jan-08-2019}, pages = {101894}, abstract = {The study of the ichthyofaunal corpus yielded by the archaeological site of Teouma, Efate Island, Vanuatu, has revealed the unexpected presence of a significant number of bones of Eleotridae (Sleepers) on the site, as early as 2920{\textendash}2870 cal. B.P. Out of the 8560 identified fish remains associated with the Lapita layers, which document the period of initial settlement of the archipelago, 1368 have been determined as belonging to eleotrids, including species of the genera Giuris, Ophiocara and Eleotris. They represent 16\% of the corpus and occupy second place among the dominant families in an assemblage composed otherwise of a wide-range of marine coastal and reef-associated taxa. Even though the Lapita economy is characterised by an intensive and broad-spectrum exploitation of all terrestrial and marine resources available and readily procurable, the eleotrids of Teouma are the first clear evidence thus far of the exploitation of freshwater environments by Lapita communities anywhere in their range. A river and a swamp are present in the vicinity of the site, and hooks and lines and/or multi-pronged spears could have been used. Passive gear such as weirs, fish-traps or nets might have been applied as well, enabling the capture of sleepers in larger quantities. The results presented here offer an original insight of an unknown facet of Lapita subsistence strategies and aim to highlight the antiquity of freshwater fishing at a regional scale.}, keywords = {Ichthyoarchaeology, Melanesia, Pacific Islands, River fishing, Subsistence strategies}, issn = {2352409X}, doi = {10.1016/j.jasrep.2019.101894}, url = {https://linkinghub.elsevier.com/retrieve/pii/S2352409X19303347}, author = {Bouffandeau, Laurie and Bearez, Philippe and Philippe Keith and Bedford, Stuart and Spriggs, Matthew} } @article {6047, title = {The global geography of fish diadromy modes}, journal = {Global Ecology and Biogeography}, year = {2019}, abstract = {

Aim: Geographical gradients in resource production are likely to translate into macroecological patterns in the biodiversity of migratory organisms, but few studies have addressed this question at a global scale. Here, we tested a hypothesis based on uncoupled latitudinal gradients in marine and freshwater primary productivities aimed at explaining where (e.g., at which latitude) and at which stage of the life cycle (larvae, amphidromy; juvenile, catadromy; or adult, anadromy) migration from ocean to freshwater occurs (diadromy).

Location: Global.

Time period: Current.

Major taxa studied: Fishes.

Methods: We modelled, using multinomial regressions, the proportion of catadromous, anadromous and amphidromous species in 994 river basins as a function of freshwater and marine net primary productivities (NPP; in milligrams of carbon per square metre per day) and additional biotic and abiotic variables. Using data extracted from the Global Biodiversity Information Facility (GBIF) database, we tested whether diadromous, catadromous and amphidromous species differed with respect to the NPP of their marine and freshwater occurrences.

Results: Among diadromous species, anadromous species are present in higher proportions when conditions for growth are more favourable in the sea (higher productivity, higher temperature and lower number of competitors) than in freshwaters. The model reconstructs the latitudinal pattern observed in the proportion of anadromous species, including an asymmetry between the Northern and Southern Hemispheres. According to GBIF occurrences, the ratio of marine over freshwater productivity is higher for anadromous species compared with catadromous and amphidromous species.

Main conclusions: Our results support the hypothesis stating that migration between ocean and freshwater occurs by choosing the biome that optimizes pre-reproductive growth and is one more example of the importance of primary productivity in shaping large-scale community patterns. This result suggests that some diadromous fish populations and species may suffer from anticipated climate change if interbiome productivity gradients are affected.

}, keywords = {amphidromy, anadromy, Biogeography, catadromy, dispersal, GBIF database, Last Glacial Maximum, latitudinal gradient, Migration, Species richness}, doi = {DOI: 10.1111/geb.12931}, author = {Chalant, Ana{\"\i}s and J{\'e}z{\'e}quel, C{\'e}line and Philippe Keith and Bernard Hugueny} } @article {8114, title = {Low-diversity bacterial microbiota in Southern Ocean representatives of lanternfish genera Electrona, Protomyctophum and Gymnoscopelus (family Myctophidae)}, journal = {PLOS ONE}, volume = {14}, year = {2019}, month = {Nov-12-2019}, pages = {e0226159}, doi = {10.1371/journal.pone.0226159}, url = {https://dx.plos.org/10.1371/journal.pone.0226159}, author = {Gallet, Alison and Koubbi, Philippe and L{\'e}ger, Nelly and Scheifler, Mathilde and Ruiz-Rodriguez, Magdalena and Suzuki, Marcelino T. and Desdevises, Yves and Duperron, S{\'e}bastien}, editor = {Achal, Varenyam} } @article {6038, title = {Mastiglanis durantoni from French Guyana, a second species in the genus (Siluriformes: Heptapteridae), with a CT scan survey of phylogenetically-relevant characters}, journal = {Cybium}, volume = {43}, year = {2019}, pages = {125-135}, abstract = {

A new species of the heptapterid genus Mastiglanis, M. durantoni, is described from three adjacent localities in the upper reaches of the Maroni River in French Guyana. The new species is distinguished from the only other known species in the genus, M. asopos, by several qualitative and quantitative characteristics, such as the slender caudal peduncle (caudal peduncle depth 4.3-5.3\% of SL vs. 5.6-6.3\%); the upper jaw protruding markedly beyond lower, resulting in long snout (36.5-42.0\% of HL vs. 23.4-33.6\%); the head depressed (head depth 34.0-44.4\% of HL vs. 44.4-53.0\%); the procurrent caudal fin rays 12 dorsally and ventrally (vs. 14-17); the dorsal margin of adipose fin concave (vs. variably convex, straight or gently sinusoidal); the occipital process deeply notched, distally V-shaped (vs. distal margin of occipital process variably-shaped, with notch, when present, not deep and forming an obtuse angle); the mesethmoid cornu widest at its midlength (vs. gradually narrower from base to tip). Characters of taxonomic and phylogenetic relevance are observed and illustrated with CT-scan imaging technique. The narrowly endemic and outlying geographical distribution of the new species contrasts with the extremely wide range of M. asopos and suggests a history of peripheral isolation and differentiation. In conformity with that interpretation, the new species has some autapomorphic specializations, while none is currently known for M. asopos.

}, keywords = {catfish, Heptapteridae, Metaspecies, Neotropical, New species, Systematics, taxonomy}, doi = {https://doi.org/10.26028/cybium/2019-423-002}, author = {Pinna de, M and Philippe Keith} } @article {8402, title = {Minnow, Minnow, new and old, who is the fairest of them all: the taxonomical review of the French minnows Phoxinus spp. (Actinopterygii, Leuciscidae)}, journal = {Frontiers in Marine Science}, volume = {6}, year = {2019}, month = {Jan-01-2019}, doi = {10.3389/conf.fmars.2019.07.00102}, url = {http://www.frontiersin.org/Community/AbstractDetails.aspx?ABS_DOI=10.3389\%2fconf.fmars.2019.07.00102}, author = {Denys, Ga{\"e}l and Dettai, Agn{\`e}s and Persat, Henri and Hautecoeur, M{\'e}lyne and Philippe Keith} } @article {6805, title = {Modern drought conditions in western Sahel unprecedented in the past 1600~years}, journal = {Climate Dynamics}, volume = {52}, year = {2019}, month = {Jan-02-2019}, pages = {1949 - 1964}, abstract = {As climate model uncertainties remain very large for future rainfall in the Sahel, a multi-centennial perspective is required to assess the situation of current Sahel climate in the context of global warming. We present here the first record of hydroclimatic variability over the past 1600\ years in Senegal, obtained from stable oxygen isotope analyses (δ18O) in archaeological shell middens from the Saloum Delta. During the preindustrial period, the region was relatively humid, with maximum humidity reached during the period from AD 1500 to AD 1800, referred to as the Little Ice Age. A significant negative link is observed at the centennial scale between global temperature and humidity in the Sahel that is at odds with the expected effects of latitudinal shifts of the intertropical convergence zone during the last millennium. In the context of the past 1600\ years, the Western Sahel appears to be experiencing today unprecedented drought conditions. The rapid aridification that started ca. AD 1800 and the recent emergence of Sahel drought from the natural variability point to an anthropogenic forcing of Sahel drying trend. This new long-term perspective suggests that the recovery of Sahel rainfall in the last decade may only result from short-term internal variability, and supports climate models that predict an increase of Sahel drought under future greenhouse climate.}, issn = {0930-7575}, doi = {10.1007/s00382-018-4311-3}, url = {https://hal.archives-ouvertes.fr/hal-02349321}, author = {Carr{\'e}, Matthieu and Azzoug, Moufok and Zaharias, Paul and Camara, Abdoulaye and Cheddadi, Rachid and Chevalier, Manuel and Fiorillo, Denis and Gaye, Amadou T. and Janicot, Serge and Khodri, Myriam and Lazar, Alban and Claire E. Lazareth and Mignot, Juliette and Mitma Garc{\'\i}a, Nancy and Patris, Nicolas and Perrot, Oc{\'e}ane and Wade, Malick} } @article {5782, title = {Molecular evolution and functional characterisation of insulin related peptides in molluscs: Contributions of Crassostrea gigas genomic and transcriptomic-wide screening}, journal = {Journal of Comparative Endocrinology}, volume = {271}, year = {2019}, pages = {15-29}, type = {research}, abstract = {

Insulin Related Peptides (IRPs) belong to the insulin superfamily and possess a typical structure with two chains,
B and A, linked by disulphide bonds. As the sequence conservation is usually low between members, IRPs are
classified according to the number and position of their disulphide bonds. In molluscan species, the first IRPs
identified, named Molluscan Insulin-related Peptides (MIPs), exhibit four disulphide bonds. The genomic and
transcriptomic data screening in the Pacific oyster Crassostrea gigas (Mollusc, Bivalvia) allowed us to identify six
IRP sequences belonging to three structural groups. Cg-MIP1 to 4 have the typical structure of MIPs with four
disulphide bonds. Cg-ILP has three disulphide bonds like vertebrate Insulin-Like Peptides (ILPs). The last one,
Cg-MILP7 has a significant homology with Drosophila ILP7 (DILP7) associated with two additional cysteines
allowing the formation of a fourth disulphide bond. The phylogenetic analysis points out that ILPs may be the
most ancestral form. Moreover, it appears that ILP7 orthologs are probably anterior to lophotrochozoa and
ecdysozoa segregation. In order to investigate the diversity of physiological functions of the oyster IRPs, we
combine in silico expression data, qPCR measurements and in situ hybridization. The Cg-ilp transcript, mainly
detected in the digestive gland and in the gonadal area, is potentially involved in the control of digestion and
gametogenesis. The expression of Cg-mip4 is mainly associated with the larval development. The Cg-mip
transcript shared by the Cg-MIP1, 2 and 3, is mainly expressed in visceral ganglia but its expression was also
observed in the gonads of mature males. This pattern suggested the key roles of IRPs in the control of sexual
reproduction in molluscan species.

}, author = {Ma{\"e}va Cherif{\textendash}Feildel and Clothilde Berthelin and B{\'e}atrice Adeline and Guillaume Rivi{\`e}re and Pascal Favrel and Kristell Kellner-Cousin} } @article {8157, title = {Molecular evolution and functional characterisation of insulin relatedpeptides in molluscs: Contributions of Crassostrea giga sgenomic andtranscriptomic-wide screening}, journal = {General Comparative and Endocrinology}, volume = {271}, year = {2019}, pages = {15-29}, author = {Cherif Feildel Meva and Heude Berthelin Clothilde and Adeline Beatrice and Riviere Guillaume and Favrel Pascal and Kelnner Kristell} } @article {8156, title = {Morphological and molecular criteria allow the identification of putative germ stem cells in a lophotrochozoan, the Pacific oyster Crassostrea gigas}, journal = {Histochemistry and cell biology}, volume = {151}, year = {2019}, pages = {419-433}, author = {Cherif Feildel Maeva and Kellner Kristell and Goux Didier and Elie Nicolas and Adeline Beatrice and Heude Berthelin Clothilde} } @article {8135, title = {Morphological and molecular criteria allow the identification of putative germ stem cells in a lophotrochozoan, the Pacific oyster Crassostrea gigas}, journal = {Histochemistry and Cell Biology}, volume = {151}, year = {2019}, month = {Jan-05-2019}, pages = {419 - 433}, issn = {0948-6143}, doi = {10.1007/s00418-018-1740-3}, url = {http://link.springer.com/10.1007/s00418-018-1740-3}, author = {Cherif-Feildel, Ma{\"e}va and Kellner, Kristell and Goux, Didier and Elie, Nicolas and Adeline, B{\'e}atrice and Lelong, Christophe and Clothilde Berthelin} } @article {6816, title = {Neuroanatomy of a hydrothermal vent shrimp provides insights into the evolution of crustacean integrative brain centers}, journal = {eLife}, volume = {8}, year = {2019}, month = {Jun-08-2019}, abstract = {Alvinocaridid shrimps are emblematic representatives of the deep hydrothermal vent
fauna at the Mid-Atlantic Ridge. They are adapted to a mostly aphotic habitat with extreme
physicochemical conditions in the vicinity of the hydrothermal fluid emissions. Here, we
investigated the brain architecture of the vent shrimp Rimicaris exoculata to understand possible
adaptations of its nervous system to the hydrothermal sensory landscape. Its brain is modified from
the crustacean brain ground pattern by featuring relatively small visual and olfactory neuropils that
contrast with well-developed higher integrative centers, the hemiellipsoid bodies. We propose that
these structures in vent shrimps may fulfill functions in addition to higher order sensory processing
and suggest a role in place memory. Our study promotes vent shrimps as fascinating models to
gain insights into sensory adaptations to peculiar environmental conditions, and the evolutionary
transformation of specific brain areas in Crustacea.}, doi = {10.7554/eLife.47550.001}, url = {https://elifesciences.org/articles/47550}, author = {Machon, Julia and Krieger, Jakob and Meth, Rebecca and Magali Zbinden and Juliette Ravaux and Montagn{\'e}, Nicolas and Chertemps, Thomas and Harzsch, Steffen} } @article {6043, title = {A new species of Sicyopus (Teleostei: Gobiidae) from New Britain (Papua New Guinea)}, journal = {Cybium}, volume = {43}, year = {2019}, pages = {163-167}, abstract = {

A new species of Sicyopus, a sicydiine goby, is described from specimens collected in streams of New Britain (Papua New Guinea). It differs from other species of this amphidromous genus by a combination of characters including a second dorsal fin with one spine and ten segmented rays, fewer scales in lateral series and transverse back series, and smaller predorsal and caudal peduncle lengths.

}, keywords = {Freshwater, Gobiidae, New Britain, New species, Papua New Guinea, Sicyopus}, author = {Philippe Keith and Pita Amick and Toko P. and Clara Lord} } @article {6041, title = {Phylog{\'e}ographie de Neritina stumpffi Boettger, 1890 et Neritina canalis Sowerby, 1825 (Gastropoda, Cycloneritida, Neritidae)}, journal = {Zoosystema}, volume = {41}, year = {2019}, pages = {237-248}, abstract = {

The population genetic structure of Neritina stumpffi Boettger, 1890 in the Indo-Pacific and Neritina canalis Sowerby, 1825 in the Pacific Ocean were investigated using a fragment of the mitochondrial COI gene. The haplotype network of N. stumpffi showed a genetic structuration between the two oceans, with shared haplotypes. Concerning N. canalis, western Pacific and central Pacific populations are genetically structured, without shared haplotypes. The Coral Triangle appears to have played a filtering barrier role for N. stumpffi, whose presence in both oceans could be explained by the flow of the south-equatorial current. A barrier to the dispersal of N. canalis between the western and the central Pacific may also exist.

}, keywords = {COI gene, Indian Ocean, larval dispersion, Pacific Ocean, Phylogeography}, author = {Ahmed Abdou and Clara Lord and Philippe Keith and Ren{\'e} Galzin} } @article {5833, title = {{Prediction of unprecedented biological shifts in the global ocean}}, journal = {Nature Climate Change}, volume = {9}, year = {2019}, month = {mar}, pages = {237{\textendash}243}, abstract = {

Impermanence is an ecological principle1 but there are times when changes occur nonlinearly as abrupt community shifts (ACSs) that transform the ecosystem state and the goods and services it provides2. Here, we present a model based on niche theory3 to explain and predict ACSs at the global scale. We test our model using 14 multi-decadal time series of marine metazoans from zooplankton to fish, spanning all latitudes and the shelf to the open ocean. Predicted and observed fluctuations correspond, with both identifying ACSs at the end of the 1980s4,5,6,7 and 1990s5,8. We show that these ACSs coincide with changes in climate that alter local thermal regimes, which in turn interact with the thermal niche of species to trigger long-term and sometimes abrupt shifts at the community level. A large-scale ACS is predicted after 2014{\textemdash}unprecedented in magnitude and extent{\textemdash}coinciding with a strong El Ni{\~n}o event and major shifts in Northern Hemisphere climate. Our results underline the sensitivity of the Arctic Ocean, where unprecedented melting may reorganize biological communities5,9, and suggest an increase in the size and consequences of ACS events in a warming world.

}, issn = {1758-678X}, doi = {10.1038/s41558-019-0420-1}, url = {http://www.nature.com/articles/s41558-019-0420-1}, author = {Gr{\'e}gory Beaugrand and Alessandra Conversi and Angus Atkinson and Jim E. Cloern and Sanae Chiba and Serena Fonda-Umani and Richard R Kirby and Greene, C. H. and Goberville, Eric and Otto, S. A. and Philip Chris Reid and Stemmann, L. and Martin Edwards} } @article {7043, title = {Preliminary note on the morphological characters of penja (amphidromous goby postlarvae) in West Sulawesi and Gorontalo Bay}, journal = {IOP Conference Series: Earth and Environmental Science}, volume = {370}, year = {2019}, month = {Jan-11-2019}, pages = {012007}, abstract = {Penjais the local name for the postlarvae of fish belonging to the Gobioidei, whose appearance at certain times is an amphidromous migration process from the sea to rivers. This group of fish is generally referred to as amphidromous gobies. This study aimed toreveal some facts related to the species diversity of penja based on morphological characteristics. The study was conducted from October 2017 to March 2019 in West Sulawesi and Gorontalo Bay, Indonesia. Amphidromous goby samples at the penja(postlarval) stage were obtained from fishermen{\textquoteright}s catches and from traditional markets in each location. The samples obtained were measured and described based on morphological differences. The total length of the sampled penja ranged from 18 mm to 58 mm. All penja were identified as belonging to one of two families, the Gobiidae and Eleotridae. Although the species obtained from the waters of West Sulawesi and Gorontalo Bay were similar, there were variations in species composition (relative abundance) based on observed morphology of penja postlarvae from these two locations.}, doi = {10.1088/1755-1315/370/1/012007}, url = {https://iopscience.iop.org/article/10.1088/1755-1315/370/1/012007}, author = {Nurjirana and Haris, A and Sahami, F M and Philippe Keith and Burhanuddin, A I} } @article {5929, title = {Resurrection of Caridina natalensis De Man, 1908 (Crustacea: Decapoda: Atyidae) in the South Western Indian Ocean}, journal = {Zootaxa}, volume = {4543}, year = {2019}, pages = {375-387}, abstract = {

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

}, keywords = {16S, Caridina, Comoros, Integrative taxonomy, Madagascar, Mayotte, morphology, Seychelles, South Africa}, author = {de Mazancourt, Valentin and Mlambo, MC and Castelin, Magalie and Renneville, C and Marquet, G{\'e}rard and Philippe Keith} } @article {6040, title = {Revision of freshwater shrimps belonging to Caridina weberi complex (Crustacea: Decapoda: Atyidae) from Polynesia with discussion on their biogeography}, journal = {Journal of Natural History}, volume = {53}, year = {2019}, pages = {815{\textendash}847}, abstract = {

Caridina weberi, an emblematic species of the {\textquoteleft}C. weberi complex{\textquoteright}, was described by De Man in 1892 from different localities in Indonesia. Until now, this species was thought to have a wide distribution in Polynesia. Numerous specimens identified as C. weberi were collected recently from various Polynesian islands. In the context of integrative taxonomy, they were morphologically and genetically studied. Three new species allied to C. weberi are here described: C. marquesensis n. sp., C. futunensis n. sp. and C. tupaia n. sp. The occurrence of C. rapaensis, another species part of the {\textquoteleft}C. weberi{\textquoteright} complex is confirmed. Descriptions or redescription of these species are given as well as their geographical and ecological distributions. The position of these species in the complex is clarified. A key is provided to facilitate identification.

}, keywords = {16S, freshwater shrimp, genetic, Integrative taxonomy, morphology}, doi = {https://doi.org/10.1080/00222933.2019.1612959}, author = {de Mazancourt, Valentin and Marquet, G{\'e}rard and Philippe Keith} } @article {7041, title = {Revisiting species boundaries and distribution ranges of Nemacheilus spp. (Cypriniformes: Nemacheilidae) and Rasbora spp. (Cypriniformes: Cyprinidae) in Java, Bali and Lombok through DNA barcodes: implications for conservation in a biodiversity hotspot}, journal = {Conservation Genetics}, volume = {20}, year = {2019}, month = {Jan-06-2019}, pages = {517 - 529}, abstract = {Biodiversity hotspots have provided useful geographic proxies for conservation efforts. Delineated from a few groups of animals and plants, biodiversity hotspots do not reflect the conservation status of freshwater fishes. With hundreds of new species described on a yearly basis, fishes constitute the most poorly known group of vertebrates. This situation urges for an acceleration of the fish species inventory through fast and reliable molecular tools such as DNA barcoding. The present study focuses on the freshwater fishes diversity in the Sundaland biodiversity hotspot in Southeast Asia. Recent studies evidenced large taxonomic gaps as well as unexpectedly high levels of cryptic diversity, particularly so in the islands of Java and Bali. The Cypriniformes genera Rasbora and Nemacheilus account for most of the endemic species in Java and Bali, however their taxonomy is plagued by confusion about species identity and distribution. This study examines the taxonomic status of the Rasbora and Nemacheilus species in Java, Bali and Lombok islands through DNA barcodes, with the objective to resolve taxonomic confusion and identify trends in genetic diversity that can be further used for conservation matters. Several species delimitation methods based on DNA sequences were used and confirmed the status of most species, however several cases of taxonomic confusion and two new taxa are detected. Mitochondrial sequences argue that most species range distributions currently reported in the literature are inflated due to erroneous population assignments to the species level, and further highlight the sensitive conservation status of most Rasbora and Nemacheilus species on the islands of Java, Bali and Lombok.}, keywords = {Conservation genetics, Cryptic diversity, Population fragmentation, Southeast Asia, taxonomy}, issn = {1566-0621}, doi = {10.1007/s10592-019-01152-w}, url = {http://link.springer.com/10.1007/s10592-019-01152-w}, author = {Hubert, Nicolas and Lumbantobing, Daniel and Sholihah, Arni and Dahruddin, Hadi and Delrieu-Trottin, Erwan and Busson, Frederic and Sauri, Sopian and Hadiaty, Renny and Philippe Keith} } @article {5868, title = {Sources and sinks of dissolved inorganic carbon in an urban tropical coastal bay revealed by δ13C-DIC signals}, journal = {Estuarine, Coastal and Shelf Science}, year = {2019}, author = {L.C. CotoviczJr and Knoppers, Bastiaan A and Deirmendjian, Loris and Gwena{\"e}l Abril} } @article {6662, title = {Temperature patterns and mechanisms influencing coral bleaching during the 2016 El Ni{\~n}o}, journal = {Nature Climate Change}, volume = {9}, year = {2019}, pages = {845-851}, abstract = {Under extreme heat stress, corals expel their symbiotic algae and colour (that is, {\textquoteleft}bleaching{\textquoteright}), which often leads to widespread mortality. Predicting the large-scale environmental conditions that reinforce or mitigate coral bleaching remains unresolved and limits strategic conservation actions1,2. Here we assessed coral bleaching at 226 sites and 26 environmental variables that represent different mechanisms of stress responses from East Africa to Fiji through a coordinated effort to evaluate the coral response to the 2014{\textendash}2016 El Ni{\~n}o/Southern Oscillation thermal anomaly. We applied common time-series methods to study the temporal patterning of acute thermal stress and evaluated the effectiveness of conventional and new sea surface temperature metrics and mechanisms in predicting bleaching severity. The best models indicated the importance of peak hot temperatures, the duration of cool temperatures and temperature bimodality, which explained 50\% of the variance, compared to the common degree-heating week temperature index that explained only 9\%. Our findings suggest that the threshold concept as a mechanism to explain bleaching alone was not as powerful as the multidimensional interactions of stresses, which include the duration and temporal patterning of hot and cold temperature extremes relative to average local conditions. {\textcopyright} 2019, The Author(s), under exclusive licence to Springer Nature Limited.}, keywords = {Algae, Anthozoa}, issn = {1758678X}, doi = {10.1038/s41558-019-0576-8}, url = {https://www.nature.com/articles/s41558-019-0576-8}, author = {McClanahan, T.R. and Darling, E.S. and Maina, J.M. and Muthiga, N.A. and D{\textquoteright}agata, S. and Jupiter, S.D. and Arthur, R. and Wilson, S.K. and Mangubhai, S. and Nand, Y. and Ussi, A.M. and Humphries, A.T. and Patankar, V.J. and Mireille M.M. Guillaume and Philippe Keith and Shedrawi, G. and Julius, P. and Grimsditch, G. and Ndagala, J. and Leblond, J.} } @article {6692, title = {Testing methods in species distribution modelling using virtual species: what have we learnt and what are we missing?}, journal = {Ecography}, volume = {42}, year = {2019}, month = {May-12-2020}, pages = {2021 - 2036}, issn = {0906-7590}, doi = {10.1111/ecog.04385}, url = {https://onlinelibrary.wiley.com/doi/10.1111/ecog.04385}, author = {Meynard, Christine N. and Leroy, Boris and Kaplan, David M.} } @article {6042, title = {Threatened fish: Lentipes rubrofasciatus Maug{\'e}, Marquet and Laboute, 1992 (Gobiidae)}, journal = {Cybium}, volume = {43}, year = {2019}, pages = {123-124}, doi = {10.26028/cybium/2019-423-001}, url = {http://sfi-cybium.fr/fr/threatened-fish-lentipes-rubrofasciatus-maug\%C3\%A9-marquet-laboute-1992-gobiidae}, author = {Philippe Keith and Marion Mennesson} } @article {5918, title = {Aragonite saturation state in a tropical coastal embayment dominated by phytoplankton blooms (Guanabara Bay - Brazil)}, journal = {Marine Pollution Bulletin}, volume = {129}, year = {2018}, pages = {729{\textendash}739}, doi = {10.1016/j.marpolbul.2017.10.064}, url = {https://doi.org/10.1016/j.marpolbul.2017.10.064}, author = {Luiz C. Cotovicz and Bastiaan A. Knoppers and Nilva Brandini and Dominique Poirier and Suzan J. Costa Santos and Gwena{\"e}l Abril} } @article {5926, title = {Caridina variabilirostris (Crustacea: Decapoda: Atyidae), a new species of freshwater shrimp from Pohnpei (Micronesia)}, journal = {European Journal of Taxonomy}, volume = {453}, year = {2018}, pages = {1-16}, abstract = {

Recently de Mazancourt\ et al.(2017) highligted the {\textquotedblleft}Pinocchio-shrimp effect{\textquotedblright} on a new species of Atyid shrimp from Pohnpei (Micronesia). In combinating morphological data with a genetical analysis, this species is described here with its ecological distribution.\ The status of this new species is clarified and finally, neither\ C. brachydactyla\ De Man 1908nor\ C. mertoniJ. Roux, 1911 occur in Pohnpei.

}, author = {de Mazancourt, Valentin and Marquet, G{\'e}rard and Philippe Keith} } @article {6078, title = {Chemically-Mediated Interactions Between Macroalgae, Their Fungal Endophytes, and Protistan Pathogens}, journal = {Frontiers in Microbiology}, volume = {9}, year = {2018}, pages = {3161}, abstract = {

Filamentous fungi asymptomatically colonise the inner tissues of macroalgae, yet their ecological roles remain largely underexplored. Here, we tested if metabolites produced by fungal endophytes might protect their host against a phylogenetically broad spectrum of protistan pathogens. Accordingly, the cultivable fungal endophytes of four brown algal species were isolated and identified based on LSU and SSU sequencing. The fungal metabolomes were tested for their ability to reduce the infection by protistan pathogens in the algal model Ectocarpus siliculosus. The most active metabolomes effective against the oomycetes Eurychasma dicksonii and Anisolpidium ectocarpii, and the phytomixid Maullinia ectocarpii were further characterized chemically. Several pyrenocines isolated from Phaeosphaeria sp. AN596H efficiently inhibited the infection by all abovementioned pathogens. Strikingly, these compounds also inhibited the infection of nori (Pyropia yezoensis) against its two most devastating oomycete pathogens, Olpidiopsis pyropiae and Pythium porphyrae. We thus demonstrate that fungal endophytes associated with brown algae produce bioactive metabolites which might confer protection against pathogen infection. These results highlight the potential of metabolites to finely-tune the outcome of molecular interactions between algae, their endophytes and protistan pathogens. This also provide proof-of-concept towards the applicability of such metabolites in marine aquaculture to control otherwise untreatable diseases.

}, issn = {1664-302X}, doi = {10.3389/fmicb.2018.03161}, url = {https://www.frontiersin.org/article/10.3389/fmicb.2018.03161}, author = {Vallet, Marine and Strittmatter, Martina and Mur{\'u}a, Pedro and Lacoste, Sandrine and Dupont, Jo{\"e}lle and C{\'e}dric Hubas and Genta-Jouve, Gregory and Claire M. M. Gachon and Kim, Gwang Hoon and Prado, Soizic} } @article {8113, title = {Cryptic frenulates are the dominant chemosymbiotrophic fauna at Arctic and high latitude Atlantic cold seeps}, journal = {PLOS ONE}, volume = {13}, year = {2018}, month = {Apr-12-2020}, pages = {e0209273}, doi = {10.1371/journal.pone.0209273}, url = {https://dx.plos.org/10.1371/journal.pone.0209273}, author = {Sen, Arunima and Duperron, S{\'e}bastien and Hourdez, St{\'e}phane and Piquet, B{\'e}r{\'e}nice and L{\'e}ger, Nelly and Gebruk, Andrey and Le Port, Anne-Sophie and Svenning, Mette Marianne and Andersen, Ann C.}, editor = {Kiel, Steffen} } @article {5344, title = {Description of a new species of Caridina (Crustacea: Decapoda: Atyidae) from two Micronesian islands (Guam and Babeldaob)}, journal = {Zootaxa}, volume = {4377}, year = {2018}, pages = {039{\textendash}050}, abstract = {

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

}, author = {de Mazancourt, Valentin and Marquet, G{\'e}rard and Rogers, D Christopher and Philippe Keith} } @article {5422, title = {Differential expression of gonadotropin and estrogen receptors and oocyte cytology during follicular maturation associated with egg viability in European eel (Anguilla anguilla)}, journal = {Comparative Biochemistry and Physiology, Part A}, volume = {221}, year = {2018}, pages = {44-54}, url = {https://doi.org/10.1016/j.cbpa.2018.03.010}, author = {da Silva, F F G and Tveiten, H and Gersende Maugars and Anne-Gaelle Lafont and Sylvie Dufour and St{\o}ttrupa, J G and Kj{\o}rsvikd, E and Tomkiewicz, J} } @article {6665, title = {Digestive enzyme ratios are good indicators of hatchling yolk reserve and digestive gland maturation in early life stages of cuttlefish Sepia officinalis L.: application of these new tools in ecology and aquaculture}, journal = {Journal of Comparative Physiology B: Biochemical, Systemic, and Environmental Physiology}, volume = {188}, year = {2018}, pages = {57-76}, abstract = {In Sepia officinalis (Linnaeus, 1758), the digestive gland matures during the first month post-hatching, while a shift from intracellular acid to extracellular alkaline digestion occurs. The purpose of this study was to investigate the possibility of using enzymatic ratios for the description of digestive system maturation in early life stages of S. officinalis. Second, it is intended to apply these new tools as eco-physiological indicators for understanding the impact of cuttlefish eggs{\textquoteright} life history from different spawning sites of the English Channel on digestive performance of juveniles. An experimental rearing was performed over 35\ days after hatching (DAH) on juveniles from wild collected eggs in 2010 and 2011. Four digestive enzyme activities and their ratios [i.e., trypsin, cathepsin, acid (ACP), and alkaline (ALP) phosphatase, ALP/ACP, and trypsin/cathepsin] were studied along with histological features (e.g., internal yolk surface and digestive gland development). The two enzyme ratios were good indicators of digestive system maturation allowing the study of the digestive gland{\textquoteright}s development. They were highly correlated to juveniles{\textquoteright} weight increase and histological features of the gland in early DAH. These ratios described more accurately the shift occurring between the intracellular acid and the extracellular alkaline modes of digestion in S. officinalis and were more specific than separated enzyme activities. Their application as eco-physiological tools revealed that enzyme ratios reflected yolk content and digestive gland development in new hatching juveniles. Finally, ALP/ACP ratio was shown to be a powerful tool to describe growth performance of S. officinalis which is useful for aquaculture optimization. {\textcopyright} 2017, Springer-Verlag GmbH Germany.}, keywords = {Acid Phosphatase, alkaline phosphatase, anatomy and histology, animal, Animals, Aquaculture, cathepsin, Cathepsins, cuttlefish, Gastrointestinal Tract, Physiology, Sepia, Trypsin}, issn = {01741578}, doi = {10.1007/s00360-017-1115-4}, url = {https://link.springer.com/article/10.1007\%2Fs00360-017-1115-4}, author = {Safi, Georges and Anne-Sophie Martinez and Le Pabic, Charles and Estelle Le Bihan and Jean-Paul Robin and Koueta, Noussith{\'e}} } @article {7108, title = {The effect of dietary DHA and taurine on rotifer capture success, growth, survival and vision in the larvae of Atlantic bluefin tuna ( Thunnus thynnus )}, journal = {Aquaculture}, volume = {482}, year = {2018}, month = {Jan-01-2018}, pages = {137 - 145}, issn = {00448486}, doi = {10.1016/j.aquaculture.2017.09.039}, url = {https://linkinghub.elsevier.com/retrieve/pii/S0044848617303976}, author = {Koven, W. and Nixon, O. and Allon, G. and Gaon, A. and El Sadin, S. and Jack Falcon and Besseau, L. and Escande, M. and Vassallo Agius, R. and Gordin, H. and Tandler, A.} } @article {5343, title = {Genetic and morphological discrimination of three species of ninespined stickleback Pungitius spp. (Teleostei, Gasterosteidae) in France with the revalidation of Pungitius vulgaris (Mauduyt, 1848)}, journal = {J Zool Syst Evol Res }, volume = {2017}, year = {2018}, pages = {1{\textendash}25}, abstract = {

The taxonomy of French ninespined sticklebacks (Pungitius spp.) has long been controversial. To clarify the taxonomy in this group, we use mitochondrial (COI) and nuclear\  (RNF213) sequence markers, as well as morphological data. In France, both genetic markers discriminate three evolutionary lineages. Morphological analysis on fresh and type specimens supports the different lineages and the existence of three species in France. Pungitius pungitius, occurring in the North of France and Rhone basin, is characterized by specimens longer than 35 mm SL, by a flat head with a straight or slightly concave snout, typically 9{\textendash}10 dorsal spines, 10{\textendash}11 dorsal soft rays, 9{\textendash}10 anal soft rays, 0{\textendash}12 scutes on the caudal peduncle with a keel reaching the last anal-fin ray, longer pelvic fin, post-dorsal and caudal peduncle lengths, and a slim caudal peduncle (caudal peduncle depth/ length 11.8\%{\textendash}21.9\%). Pungitius laevis, occurring in France, in the English Channel basins and Loire drainage, differs from the other species by a head rounded with concave snout in specimens longer than 35 mm SL, accentuating the impression of fleshy lips, 0{\textendash}4 scutes on the caudal peduncle and a higher caudal peduncle depth/length ratio (15.7\%{\textendash} 34.5\%). Finally, Pungitius vulgaris, endemic to the Vienne River and rivers of south-western France as far north as the Garonne estuary, is differentiated by a rounded head with a straight or slightly convex snout, the absence of scutes on the caudal peduncle and by having 11 pectoral-fin rays. Our data confirm the existence of a hybridization zone in the North of France between P. pungitius and P. laevis. As a result, Pungitius lotharingus is invalid, as it was described based on hybrid specimens. A lectotype for P. laevis was designated because the syntypes included hybrids. This revision provides new perspectives for evolutionary biology studies and will have consequences for Pungitius conservation in France.

}, keywords = {France, Integrative taxonomy, mitochondrial DNA COI, Pungitius, RNF213}, author = {Denys, Ga{\"e}l and Persat, Henri and Dettai, Agn{\`e}s and Geiger Mathias and Freyhof, J and Fesquet, J and Philippe Keith} } @article {6817, title = {Gill chamber and gut microbial communities of the hydrothermal shrimp Rimicaris chacei Williams and Rona 1986: A possible symbiosis}, journal = {PLOS ONE}, volume = {13}, year = {2018}, month = {Feb-11-2018}, pages = {e0206084}, abstract = {
Rimicaris chacei Williams and Rona 1986, formerly named as Chorocaris chacei, is a caridean
shrimp living in deep-sea hydrothermal ecosystems. This shrimp is endemic to the Mid
Atlantic Ridge (MAR) and lives at the periphery of aggregates of its well-known congeneric
R. exoculata Williams and Rona 1986. Contrasting with the very dense and mobile clusters
formed by R. exoculata, R. chacei lives in small groups of several individuals that are not
very mobile. Although devoid of the characteristic hypertrophied cephalothorax of R. exoculata,
which harbors the ectosymbionts, a microbial community has also been reported in the
cephalothorax of R. chacei. Previous data on morphology, behavior and isotopic values indicate
a diet based on a combination of feeding on its epibiotic bacteria and scavenging or
occasional predation. In this study, our objective was to describe, for the first time, the distribution,
morphology and phylogeny of the microbial communities associated with R. chacei.
This species is significantly less studied than R. exoculata, but nevertheless represents the
only other known example of symbiosis in crustaceans of MAR hydrothermal vent sites.
Microbial communities have been observed at the same locations as in R. exoculata
(mouthparts, branchiostegites and digestive tract). However, in R. chacei, the surfaces
occupied by the bacteria are smaller. The main lineages are affiliated to Epsilon and Gammaproteobacteria
in the cephalothorax and to Deferribacteres, Mollicutes, Epsilon and
Gammaproteobacteria in the digestive tract. Comparison with the well-described bacterial
communities of R. exoculata and hypotheses about the role of these communities in R. chacei
are discussed.
}, 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 {5928, title = {Integrative taxonomy helps separate four species of freshwater shrimps commonly overlooked as Caridina longirostris (Crustacea: Decapoda: Atyidae) in Indo-West Pacific islands.}, journal = {Invertebrate systematics}, volume = {32}, year = {2018}, pages = {1422{\textendash}1447}, abstract = {

Caridina longirostris H. Milne Edwards, 1837 described from specimens supposedly from La Macta River near Oran, Algeria, is an emblematic species of the {\textquoteleft}C. nilotica complex{\textquoteright}. Until now this species was thought to have a wide distribution in the Indo-Pacific region. Recently, numerous specimens identified as C. longirostris were collected from various Indo-West Pacific localities. In the context of integrative taxonomy, both old and newly collected specimens were morphologically and genetically studied. Four species allied to C. longirostris are here identified: C. appendiculata Jalihal \& Shenoy, 1998, C. brevidactyla Roux, 1920, C. gracilipes De Man, 1892 and C. meridionalis Roux, 1926. Detailed re-descriptions of these four species are given as well as their geographical and ecological distributions. Caridina nilotica var. brevidactyla is revalidated as the species C. brevidactyla, and C. coulaborensis Richard\&Clark, 2014, C. fritzi Richard \& Clark, 2014 and C. solamulieres Richard \& Clark, 2014 are considered junior synonyms of C. meridionalis. The position of these species in the troublesome {\textquoteleft}C. nilotica complex{\textquoteright} is clarified and some species are synonymised. A key is provided to facilitate identification.

}, keywords = {16S rRNA, Indo-Pacific region, morphology}, author = {de Mazancourt, Valentin and Marquet, G{\'e}rard and Klotz, Werner and Philippe Keith} } @article {5364, title = {Latitudinal Patterns in European Seagrass Carbon Reserves: Influence of Seasonal Fluctuations versus Short-Term Stress and Disturbance Events}, journal = {Frontiers in Plant Science}, volume = {9}, year = {2018}, abstract = {

Seagrass meadows form highly productive and valuable ecosystems in the marine environment. Throughout the year, seagrass meadows are exposed to abiotic and biotic variations linked to (i) seasonal fluctuations, (ii) short-term stress events such as, e.g., local nutrient enrichment, and (iii) small-scale disturbances such as, e.g., biomass removal by grazing. We hypothesized that short-term stress events and smallscale disturbances may affect seagrass chance for survival in temperate latitudes. To test this hypothesis we focused on seagrass carbon reserves in the form of starch stored seasonally in rhizomes, as these have been defined as a good indicator for winter survival. Twelve Zostera noltei meadows were monitored along a latitudinal
gradient in Western Europe to firstly assess the seasonal change of their rhizomal starch content. Secondly, we tested the effects of nutrient enrichment and/or biomass removal on the corresponding starch content by using a short-term manipulative field experiment at a single latitude in the Netherlands. At the end of the growing season, we observed a weak but significant linear increase of starch content along the latitudinal gradient from south to north. This agrees with the contention that such reserves are essential for regrowth after winter, which is more severe in the north. In addition, we also observed a weak but significant positive relationship between starch content at the beginning of the growing season and past winter temperatures. This implies a lower regrowth potential after severe winters, due to diminished starch content at the beginning of the growing season. Short-term stress and disturbances
may intensify these patterns, because our manipulative experiments show that when nutrient enrichment and biomass loss co-occurred at the end of the growing season, Z. noltei starch content declined. In temperate zones, the capacity of seagrasses to accumulate carbon reserves is expected to determine carbon-based regrowth after winter. Therefore, processes affecting those reserves might affect seagrass resilience. With increasing human pressure on coastal systems, short- and small-scale stress events are expected to become more frequent, threatening the resilience of seagrass ecosystems, particularly at higher latitudes, where populations tend to have an annual cycle highly dependent on their storage capacity.

}, doi = {doi: 10.3389/fpls.2018.00088}, author = {L.M. Soissons and E.P. Haanstra and M.M. van Katwijk and R. Asmus and I. Auby and L. Barill{\'e} and F.G. Brun and P.G. Cardoso and Nicolas Desroy and J{\'e}r{\^o}me Fournier and F. Ganthy and J.M. Garmendia and Laurent Godet and T.F. Grilo and P. Kadel and B. Ondiviela and G. Peralta and A. Puente and M. Recio and L. Rigouin and M. Valle and P.M.J. Herman and T.J. Bouma} } @article {5812, title = {{Marine biodiversity and the chessboard of life}}, journal = {PLoS ONE}, volume = {13}, year = {2018}, abstract = {

{\textcopyright} 2018 Beaugrand et al. This is an open access article distributed under the terms of the Creative Commons Attribution License, which permits unrestricted use, distribution, and reproduction in any medium, provided the original author and source are credited. Species richness is greater in places where the number of potential niches is high. Consequently, the niche may be fundamental for understanding the arrangement of life and especially, the establishment and maintenance of the well-known Latitudinal Biodiversity Gradient (LBG). However, not all potential niches may be occupied fully in a habitat, as measured by niche vacancy/saturation. Here, we theoretically reconstruct oceanic biodiversity and analyse modeled and observed data together to examine patterns in niche saturation (i.e. the ratio between observed and theoretical biodiversity of a given taxon) for several taxonomic groups. Our results led us to hypothesize that the arrangement of marine life is constrained by the distribution of the maximal number of species{\textquoteright} niches available, which represents a fundamental mathematical limit to the number of species that can co-exist locally. We liken this arrangement to a type of chessboard where each square on the board is a geographic area, itself comprising a distinct number of sub-squares (species{\textquoteright} niches). Each sub-square on the chessboard can accept a unique species of a given ecological guild, whose occurrence is determined by speciation/extinction. Because of the interaction between the thermal niche and changes in temperature, our study shows that the chessboard has more sub-squares at mid-latitudes and we suggest that many clades should exhibit a LBG because their probability of emergence should be higher in the tropics where more niches are available. Our work reveals that each taxonomic group has its own unique chessboard and that global niche saturation increases when organismal complexity decreases. As a result, the mathematical influence of the chessboard is likely to be more prominent for taxonomic groups with low (e.g. plankton) than great (e.g. mammals) biocomplexity. Our study therefore reveals the complex interplay between a fundamental mathematical constraint on biodiversity resulting from the interaction between the species{\textquoteright} ecological niche and fluctuations in the environmental regime (here, temperature), which has a predictable component and a stochastic-like biological influence (diversification rates, origination and clade age) that may alter or blur the former.

}, issn = {19326203}, doi = {10.1371/journal.pone.0194006}, author = {Gr{\'e}gory Beaugrand and Christophe Luczak and Goberville, Eric and Richard R Kirby} } @article {5924, title = {A new species of Schismatogobius (Teleostei: Gobiidae) from Halmahera (Indonesia)}, journal = {Cybium}, volume = {42}, year = {2018}, pages = {195-200}, abstract = {

\ Anew species of Schismatogobius, a freshwater goby, is described from Halmahera (Indonesia). It differs from other species belonging to the genus by a high percentage of genetic divergence in partial COIgene (652 bp) and by several characters, including the number of pectoral fin rays, the pattern of the ventral surface of the head, the pectoral fin colour pattern and the jaw length/head length ratio of male and female.

}, keywords = {Gobiidae, Halmahera, Indonesia, New species, Schismatogobius}, author = {Philippe Keith and Darhuddin, H. and Limmon, G and Hubert, N} } @article {5864, title = {{OZCAR}: The French Network of Critical Zone Observatories}, journal = {Vadose Zone Journal}, volume = {17}, year = {2018}, doi = {10.2136/vzj2018.04.0067}, url = {https://doi.org/10.2136/vzj2018.04.0067}, author = {J. Gaillardet and I. Braud and F. Hankard and S. Anquetin and O. Bour and N. Dorfliger and J.R. de Dreuzy and S. Galle and C. Galy and S. Gogo and L. Gourcy and F. Habets and F. Laggoun and L. Longuevergne and T. Le Borgne and F. Naaim-Bouvet and G. Nord and V. Simonneaux and D. Six and T. Tallec and C. Valentin and Gwena{\"e}l Abril and P. Allemand and A. Ar{\`e}nes and B. Arfib and L. Arnaud and N. Arnaud and P. Arnaud and S. Audry and V. Bailly Comte and C. Batiot and A. Battais and H. Bellot and E. Bernard and C. Bertrand and H. Bessi{\`e}re and S. Binet and J. Bodin and X. Bodin and L. Boithias and J. Bouchez and B. Boudevillain and I. Bouzou Moussa and F. Branger and J. J. Braun and P. Brunet and B. Caceres and D. Calmels and B. Cappelaere and H. Celle-Jeanton and F. Chabaux and K. Chalikakis and C. Champollion and Y. Copard and C. Cotel and P. Davy and P. Deline and G. Delrieu and J. Demarty and C. Dessert and M. Dumont and C. Emblanch and J. Ezzahar and M. Est{\`e}ves and V. Favier and M. Faucheux and N. Filizola and P. Flammarion and P. Floury and O. Fovet and M. Fournier and A. J. Francez and L. Gandois and C. Gascuel and E. Gayer and C. Genthon and M. F. G{\'e}rard and D. Gilbert and I. Gouttevin and M. Grippa and G. Gruau and A. Jardani and L. Jeanneau and J. L. Join and H. Jourde and F. Karbou and D. Labat and Yvan Lagadeuc and E. Lajeunesse and R. Lastennet and W. Lavado and E. Lawin and T. Lebel and C. Le Bouteiller and C. Legout and Y. Lejeune and E. Le Meur and N. Le Moigne and J. Lions and A. Lucas and J. P. Malet and C. Marais-Sicre and J. C. Mar{\'e}chal and C. Marlin and P. Martin and J. Martins and J. M. Martinez and N. Massei and A. Mauclerc and N. Mazzilli and J. Mol{\'e}nat and P. Moreira-Turcq and E. Mougin and S. Morin and J. Ndam Ngoupayou and G. Panthou and C. Peugeot and G. Picard and M. C. Pierret and G. Porel and A. Probst and J. L. Probst and A. Rabatel and D. Raclot and L. Ravanel and F. Rejiba and P. Ren{\'e} and O. Ribolzi and J. Riotte and A. Rivi{\`e}re and H. Robain and L. Ruiz and J. M. Sanchez-Perez and W. Santini and S. Sauvage and P. Schoeneich and J. L. Seidel and M. Sekhar and O. Sengtaheuanghoung and N. Silvera and M. Steinmann and A. Soruco and G. Tallec and E. Thibert and D. Valdes Lao and C. Vincent and D. Viville and P. Wagnon and R. Zitouna} } @article {5925, title = {Phylogeography of Eleotris fusca (Teleostei: Gobioidei: Eleotridae) in the Indo-Pacific area reveals a cryptic species in the Indian Ocean.}, journal = {Conservation genetics}, volume = {19}, year = {2018}, pages = {1025-1038}, abstract = {

\ Indo-Pacific insular freshwater systems are mainly dominated by amphidromous species. Eleotris fusca\  is a widespread one, its life cycle is characterised by a marine pelagic larval phase allowing the species to disperse in the ocean and then to recruit to remote island rivers. In the present study, the population structure of E. fusca\  over its Indo-Pacific distribution range (Western Indian Ocean to French Polynesia, Pacific Ocean) was evaluated. We analysed a section of mitochondrial COI\  of 557 individuals sampled from 28 islands to visualise the population structure. Haplotypes diversity (Hd) was between 0.458 and 1 and, nucleotide diversity (π) was between 0.001 and 0.02. Two distinct genetic groups appeared, one in the Indian Ocean and the other in the Pacific Ocean (FST\  mean = 0.901; 5.2\% average divergence). Given these results, complete mitogenomes (mtDNA) were sequenced and combined with the nuclear Rhodopsin (Rh) gene for a subset of individuals. The two phylogenetic trees based on each analysis showed the same genetic pattern: two different groups belonging to the Indian and the Pacific oceans (6.6 and 1.6\% of divergence for mtDNA and Rh gene respectively), which supported species level differentiation. These analyses revealed the presence of two sister species confounded until present under the name of Eleotris fusca. One of them is cryptic and endemic of the Indian Ocean and the other one is the true E. fusca, which keeps, nevertheless, its status of widespread species.

}, keywords = {Amphidromous, Complete mitogenome, freshwater fish, Nuclear gene}, author = {Marion Mennesson and C{\'e}line Bonillo and Eric Feunteun and Philippe Keith} } @article {5919, title = {Predominance of phytoplankton-derived dissolved and particulate organic carbon in a highly eutrophic tropical coastal embayment (Guanabara Bay, Rio de Janeiro, Brazil)}, journal = {Biogeochemistry}, volume = {137}, year = {2018}, pages = {1{\textendash}14}, doi = {10.1007/s10533-017-0405-y}, url = {https://doi.org/10.1007/s10533-017-0405-y}, author = {Luiz C. Cotovicz and Bastiaan A. Knoppers and Nilva Brandini and Dominique Poirier and Suzan J. Costa Santos and Renato C. Cordeiro and Gwena{\"e}l Abril} } @article {5927, title = {Selectivity on epilithic diatom consumption for two tropical sympatric gobies: Sicydium punctatum (Perugia 1986) and Sicydium plumieri (Bloch 1786)}, journal = {Cybium }, volume = {42 }, year = {2018}, pages = {365-373}, abstract = {

\ Rivers of the Caribbean islands harbour a freshwater fauna mainly constituted of migrant diadromous species. In these hyperturbulent ecosystems, the primary producers are mostly represented by a thin epilithic biofilm, mainly composed of diatoms. Comparison of the diatoms available from the environment with the ones consumed and located in the digestive tracts of two gobiid fish, Sicydium punctatum Perugia, 1896 and Sicydium plumieri (Bloch, 1786) were made at twelve sampling locations, located upstream or downstream of six rivers, in Guadeloupe. One hundred and ninety-one epilithic diatom species were identified. A statistical approach was used to determine diatoms that best characterize the two species digestive tracts content (i.e. {\textquotedblleft}diagnostic species{\textquotedblright}) and to evaluate the statistical relationship between species abundances and groups of sites or conditions. Eight taxa belonging to five families were considered as significant diagnostic species of digestive tracts from fish collected upstream (Achnanthidium subhudsonis, Achnanthes rupestoides, Diadesmis contenta, Diadesmis sp., Eolimna sp., Navicula (dicta) seminulum, Navicula difficillima and Nupela sp.), and five taxa belonging to three families were considered as significant diagnostic species for fish collected downstream (Gomphonema parvulum, Navicula arvensis, Navicula cruxmeridionalis, Nitzschia frustulum and Navicula incarum). Results indicate selective consumption of epilithic diatoms by the two major fish observed in the mid and upper stream of Caribbean rivers

}, keywords = {Biofilm, Bioindication, Caribbean Islands, Gobiidae, Tropical rivers}, author = {Monti, Dominique and Lefran{\c c}ois, F and Clara Lord and Jean-Michel Mortillaro and Pascal Jean Lopez and Philippe Keith} } @article {5583, title = {Tachykinin-3 Genes and Peptides Characterized in a Basal Teleost, the European Eel: Evolutionary Perspective and Pituitary Role.}, journal = {Frontiers in Endocrinology}, volume = {9}, year = {2018}, pages = {304}, author = {Campo, Aurora and Anne-Gaelle Lafont and Lefranc, Benjamin and Leprince, J{\'e}r{\^o}me and Tostivint, Herv{\'e} and Kamech, Nedia and Sylvie Dufour and Karine Rousseau} } @article {6708, title = {Toxicological effects of CdSe nanocrystals on the marine diatom Phaeodactylum tricornutum: The first mass spectrometry-based proteomic approach}, journal = {Ecotoxicology and Environmental Safety}, volume = {152}, year = {2018}, month = {Jan-05-2018}, pages = {78 - 90}, issn = {01476513}, doi = {10.1016/j.ecoenv.2018.01.043}, url = {https://www.sciencedirect.com/science/article/abs/pii/S0147651318300514?via\%3Dihub}, author = {Poirier, Isabelle and Pallud, Marie and Kuhn, Lauriane and Hammann, Philippe and Demorti{\`e}re, Arnaud and Jamali, Arash and Chicher, Johana and Christelle Caplat and Gallon, R{\'e}gis Kevin and Bertrand, Martine} } @article {5923, title = {The unique functioning of a pre-Columbian Amazonian floodplain fishery}, journal = {Scientific Reports}, volume = {8}, year = {2018}, doi = {10.1038/s41598-018-24454-4}, url = {https://doi.org/10.1038/s41598-018-24454-4}, author = {Rumsa{\"\i}s Blatrix and Bruno Roux and Philippe B{\'e}arez and Gabriela Prestes-Carneiro and Marcelo Amaya and Jose Luis Aramayo and Leonor Rodrigues and Umberto Lombardo and Jose Iriarte and Jonas Gregorio de Souza and Mark Robinson and Cyril Bernard and Marc Pouilly and M{\'e}lisse Dur{\'e}cu and Carl F. Huchzermeyer and Mashuta Kalebe and Alex Ovando and Doyle McKey} } @article {7034, title = {Use of an acoustic telemetry array for fine scale fish behaviour assessment of captive Paiche, Arapaima gigas, breeders}, journal = {Aquaculture Research}, volume = {49}, year = {2018}, month = {Jan-06-2018}, pages = {2296 - 2304}, doi = {10.1111/are.2018.49.issue-610.1111/are.13692}, url = {http://doi.wiley.com/10.1111/are.2018.49.issue-6}, author = {Jesus Nu{\~n}ez-Rodriguez and Vela D{\'\i}az, Antonia and Bazan-Albitez, Roger and Rebaza Alfaro, Carmela and Koua, Daniel and N{\'u}{\~n}ez, Lucie and Testi, Baptiste and Renno, Jean-Francois and Duponchelle, Fabrice and Pella, Herv{\'e}} } @article {5628, title = {Use of an acoustic telemetry array for fine scale fish behaviour assessment of captive Paiche, Arapaima gigas, breeders}, journal = {Aquaculture Research }, volume = {49}, year = {2018}, pages = {2296-2304}, abstract = {

As\ Arapaima gigas\ is one of the most valuable species for the growing production of Amazonian aquaculture, knowledge of its reproductive behaviour and its application to increase reproduction success in captivity is of great importance as no hormonal spawning induction technique exists for this species. An acoustic positioning system (LOTEK Inc.) was used to observe the interactions of adult fish to better understand the formation of mating pairs. Fish were placed in a 4,500\ m2\ aquaculture pond over a 6-month period in the IIAP field station of Pucallpa, Per{\'u}. This paper describes the methodological protocols used to set up and test the hydrophone array and presents the methodology used for the analysis of the huge amount of collected data. This methodology is illustrated by the analysis of a 6-day period for a mating pair that showed a spawning event. The results indicated that male and female occupied mostly one preferential area in one pond edge where the nesting area is located. Different activity patterns were observed during the spawning event, with male and female being closer during the spawning day. The results also showed that male travelled less distance than female during the studied period. Finally these results demonstrated the suitability of such equipment to monitor fish interactions at fine spatial (sub meter) and temporal (5\ s) scales in confined environments like aquaculture ponds.

}, doi = {doi.org/10.1111/are.13692}, url = {https://onlinelibrary.wiley.com/doi/abs/10.1111/are.13692}, author = {Jesus Nu{\~n}ez-Rodriguez and Vela Diaz, A. and Bazan-Albitez, R and Koua, D and Nu{\~n}ez L. and Testi, B. and Renno, Jean-Francois and Duponchelle, F and Pella, H} } @article {5222, title = {Conservation of Three-Dimensional Helix-Loop-Helix Structure through the Vertebrate Lineage Reopens the Cold Case of Gonadotropin-Releasing Hormone-Associated Peptide}, journal = {Frontiers in Endocrinology}, volume = {8}, year = {2017}, pages = {207}, abstract = {

GnRH associated peptide (GAP) is the C-terminal portion of the GnRH preprohormone. Although it was reported in mammals that GAP may act as a prolactin-inhibiting factor and can be co-secreted with GnRH into the hypophyseal portal blood, GAP has been practically out of the research circuit for about 20 years. Comparative studies highlighted the low conservation of GAP primary amino acid sequences among vertebrates, contributing to consider that this peptide only participates in the folding or carrying process of GnRH. Considering that the tridimensional (3D) structure of a protein may define its function, the aim of this study was to evaluate if GAP sequences and 3D structures are conserved in the vertebrate lineage. GAP sequences from various vertebrates were retrieved from databases. Analysis of primary amino acid sequence identity and similarity, molecular phylogeny, and prediction of 3D structures were performed. Amino acid sequence comparison and phylogeny analyses confirmed the large variation of GAP sequences throughout vertebrate radiation. In contrast, prediction of the 3D structure revealed a striking conservation of the 3D structure of GAP1 (GAP associated with the hypophysiotropic type 1 GnRH), despite low amino acid sequence conservation. This GAP1 peptide presented a typical helix-loop-helix (HLH) structure in all the vertebrate species analyzed. This HLH structure could also be predicted for GAP2 in some but not all vertebrate species, and in none of the GAP3 analyzed. These results allowed us to infer that selective pressures have maintained GAP1 HLH structure throughout the vertebrate lineage. The conservation of the HLH motif, known to confer biological activity to various proteins, suggests that GAP1 peptides may exert some hypophysiotropic biological functions across vertebrate radiation.

}, issn = {1664-2392}, doi = {10.3389/fendo.2017.00207}, url = {https://www.frontiersin.org/article/10.3389/fendo.2017.00207}, author = {P{\'e}rez Sirkin, Daniela I. and Anne-Gaelle Lafont and Kamech, Nedia and Somoza, Gustavo M. and Vissio, Paula G. and Sylvie Dufour} } @article {6667, title = {Dynamics of particulate organic matter composition in coastal systems: A spatio-temporal study at multi-systems scale}, journal = {Progress in Oceanography}, volume = {156}, year = {2017}, pages = {221-239}, abstract = {In coastal systems, the multiplicity of sources fueling the pool of particulate organic matter (POM) leads to divergent estimations of POM composition. Eleven systems (two littoral systems, eight embayments and semi-enclosed systems and one estuary) distributed along the three maritime fa{\c c}ades of France were studied for two to eight years in order to quantify the relative contribution of organic matter sources to the surface-water POM pool in coastal systems. This study was based on carbon and nitrogen elemental and isotopic ratios, used for running mixing models. The POM of the estuary is dominated by terrestrial material (93\% on average), whereas the POM of the other systems is dominated by phytoplankton (84\% on average). Nevertheless, for the latter systems, the POM composition varies in space, with (1) systems where POM is highly composed of phytoplankton (>=93\%), (2) systems characterized by a non-negligible contribution of benthic (8{\textendash}19\%) and/or river (7{\textendash}19\%) POM sources, and (3) the Mediterranean systems characterized by the contribution of diazotroph organisms (ca. 14\%). A continent-to-ocean gradient of river and/or benthic POM contribution is observed. Finally, time series reveal (1) seasonal variations of POM composition, (2) differences in seasonality between systems, and (3) an inshore-offshore gradient of seasonality within each system that were sampled at several stations. Spatial and seasonal patterns of POM composition are mainly due to local to regional processes such as hydrodynamics and sedimentary hydrodynamic (e.g. resuspension processes, changes in river flows, wind patterns influencing along-shore currents) but also due to the geomorphology of the systems (depth of the water column, distance to the shore). Future studies investigating the link between these forcings and POM composition would help to better understand the dynamics of POM composition in coastal systems. {\textcopyright} 2017 Elsevier Ltd}, keywords = {bacterium, benthos, biogeochemistry, Biological materials, C and n stable isotopes, C:N ratio, Carbon, carbon isotope, Coastal systems, coastal zone, Fluid dynamics, France, geomorphology, Hydrodynamics, Isotopes, isotopic ratio, Mediterranean sea, Meta analysis, meta-analysis, Mixing, Mixing models, nitrogen isotope, Organic compounds, particulate organic matter, Particulate organic matters, Phytoplankton, prokaryote, Rivers, seasonality, spatiotemporal analysis, stable isotope, Surface water, Surface waters, terrestrial deposit, Time series}, issn = {00796611}, doi = {10.1016/j.pocean.2017.03.001}, url = {https://www.sciencedirect.com/science/article/abs/pii/S0079661116301914}, author = {Li{\'e}nart, Camilla and Savoye, Nicolas and Bozec, Yann and Elsa Breton and Conan, Pascal and David, Val{\'e}rie and Eric Feunteun and Karine Granger{\'e} and Kerherv{\'e}, P. and Lebreton, B. and S{\'e}bastien Lefebvre and St{\'e}phane L{\textquoteright}Helguen and Mousseau, Laure and Raimbault, P and Richard, P. and Riera, P. and Sauriau, P.-G. and Gauthier Schaal and Aubert, F. and Aubin, S. and Bichon, S. and Boinet, C. and Bourasseau, L. and Br{\'e}ret, M. and Caparros, J. and Cariou, T. and Charlier, K. and Claquin, P. and Vincent Cornille and Corre, A.-M. and Costes, L. and Crispi, O. and Muriel Crouvoisier and Czamanski, M. and Del Amo, Y. and Derriennic, H. and Dindinaud, F. and Durozier, M. and Hanquiez, V. and Antoine Nowaczyk and Devesa, J. and Ferreira, S. and Fornier, M. and Garcia, F. and Garcia, N. and Geslin, S. and Emilie Grossteffan and Gueux, A. and Guillaudeau, J. and Guillou, G. and Joly, O. and Lachauss{\'e}e, N. and Lafont, M. and Lamoureux, J. and Lecuyer, E. and Lehodey, J.-P. and Lemeille, D. and Leroux, C. and Mac{\'e}, E. and Maria, E. and Pineau, P. and Petit, F. and Pujo-Pay, M. and Rimelin-Maury, P. and Sultan, E.} } @article {5021, title = {Evidence of two species currently under the name of Eleotris fusca (Gobioidei: Eleotridae) in the Indian Ocean}, journal = {Cybium}, volume = {41}, year = {2017}, month = {06/2017}, pages = {213-220}, abstract = {

The observation of the cephalic free neuromast pattern of the genus Eleotris allows to classify the specimens in different groups of species but, as diagnostic characters without overlap are scarce, the morphological identification of the species is difficult. However, genetic analyses, particularly with barcoding (COI), facilitate the discrimination between species. In a recent study on the phylogeography of Eleotris fusca Bloch \& Schneider, 1801 in the Indo-Pacific area, two species have been revealed although they present the same cephalic free neuromast pattern. The first one included specimens mainly from the Pacific Ocean and the second one, specimens from the Indian Ocean. They are separated with a mean pairwise divergence of 5.6\% and present 32 diagnostic nucleotide substitutions in the 585 bp of COI sequenced. After the examination of all the available types of the synonym of E. fusca from the Indian Ocean, we revalidated the name of Eleotris klunzingerii Pfeffer, 1893.

}, author = {Marion Mennesson and Philippe Keith} } @article {5019, title = {Genetic and morphological evidence for cryptic species in Macrobrachium australe and resurrection of M. ustulatum (Crustacea, Palaemonidae)}, journal = {European Journal of Taxonomy}, volume = {289}, year = {2017}, month = {03/2017}, pages = {1{\textendash}27}, abstract = {

\ Macrobrachium australe is an amphidromous prawn living in the insular freshwater systems of the Indo-Pacific. Because it possesses few informative morphological characters, that often vary from one habitat to another, M. australe has produced much taxonomic confusion and has historically been described under eight synonyms. Here, 53 specimens collected throughout the Indo-Pacific under the name M. australe were phylogenetically and morphologically examined. Results revealed that what has been called M. australe belongs to at least two distinct species: M. australe, distributed from the Southwest Indian Ocean to the Central Pacific Ocean, and a cryptic species potentially restricted to the Northwest Pacific Ocean, here identified as M. ustulatum, which until now was considered as a junior synonym. Although they are not quite found in the same habitat (lentic-lotic), the presence of these distinct, and reciprocally monophyletic entities in the same rivers on the islands of Palau and Santo strongly favors the hypothesis of two reproductively isolated entities. Six morphological characters, including the proportions of the joints of the male second pereiopod, the shape of the epistome lobe and the armature of the fourth thoracic sternite, are evidenced as diagnostic. A neotype of M. australe is designated and deposited in the Mus{\'e}um national d{\textquoteright}Histoire naturelle in Paris.

}, keywords = {Amphidromous prawn, Indo-West Pacific, morphology, multi-locus phylogeny}, author = {Castelin, Magalie and de Mazancourt, Valentin and Marquet, G{\'e}rard and Zimmermann, Gabrielle and Philippe Keith} } @article {5908, title = {Geography and life history traits account for the accumulation of cryptic diversity among {Indo}-{West} {Pacific} coral reef fishes}, journal = {Marine Ecology Progress Series}, volume = {583}, year = {2017}, pages = {179{\textendash}193}, author = {Hubert, Nicolas and Dettai, Agn{\`e}s and Patrice Pruvost and Cruaud, Corinne and Kulbicki, Michel and Myers, Robert F. and Borsa, Philippe} } @article {8575, title = {Habitat use and diving behaviour of gravid olive ridley sea turtles under riverine conditions in French Guiana}, journal = {Journal of Marine Systems}, volume = {165}, year = {2017}, month = {Jan-01-2017}, pages = {115 - 123}, issn = {09247963}, doi = {10.1016/j.jmarsys.2016.10.005}, url = {https://linkinghub.elsevier.com/retrieve/pii/S0924796316301889}, author = {Chambault, Philippine and Giraudou, Lucie and de Thoisy, Beno{\^\i}t and Bonola, Marc and Kelle, Laurent and Reis, Virginie Dos and Blanchard, Fabian and Le Maho, Yvon and Chevallier, Damien} } @article {8571, title = {Marine Mammals Exploring the Oceans Pole to Pole: A Review of the MEOP Consortium}, journal = {Oceanography}, volume = {30}, year = {2017}, month = {Jan-06-2017}, pages = {132 - 138}, issn = {10428275}, doi = {10.5670/oceanog10.5670/oceanog.2017.234}, url = {https://tos.org/oceanography/}, author = {Treasure, Anne and Roquet, Fabien and Ansorge, Isabelle and Bester, Marth{\'a}n and Boehme, Lars and Bornemann, Horst and Charrassin, Jean-Beno{\^\i}t and Chevallier, Damien and Costa, Daniel and Fedak, Mike and Guinet, Christophe and Hammill, Mike and Harcourt, Robert and Hindell, Mark and Kovacs, Kit and Lea, Mary-Anne and Lovell, Phil and Lowther, Andrew and Lydersen, Christian and McIntyre, Trevor and McMahon, Clive and Muelbert, M{\^o}nica and Nicholls, Keith and Picard, Baptiste and Reverdin, Gilles and Trites, Andrew and Williams, Guy and de Bruyn, P.J. Nico} } @article {4724, title = {Multi-approach analysis to assess diet of harbour porpoises Phocoena phocoena in the southern North Sea}, journal = {Marine Ecology and Progress Series}, volume = {563}, year = {2017}, month = {01/2017}, pages = {249-259}, abstract = {

Over the past decade, the distribution of harbour porpoises Phocoena phocoena has undergone a southward shift in the North Sea, which has led to an increase in the number of stranded porpoises in its southern part. Since the changes in distribution and relative abundance of porpoises may be linked to the changes in prey availability, the aim of the present work was to investigate whether any changes in the feeding habits of harbour porpoises along the North Sea occurred in the past decade. The diet of harbour porpoises stranded along the southern North Sea (northern France and Belgian coast) was assessed through 3 complementary methods: stomach content analysis, stable isotopes (carbon and nitrogen) analysis determined from muscle samples, and fatty acids analysis determined from blubber samples. Fatty acid patterns and stable isotope values from 52 porpoises were compared to 14 potential prey species collected from the southern North Sea. Our results showed that the diet of porpoises along the southern North Sea comprises fish species that are among the most abundant and widely distributed in the area, except for the sardine Sardina pilchardus that appeared to be a new potential prey. Moreover, our results suggested that the decline in sandeel (Ammodytidae) in the northern parts of the North Sea along with the re-invasion of the southern North Sea by sardine species might affect the distribution of harbour porpoises.

}, author = {Mahfouz, C and Tarik Meziane and Henry, F and Abi-Ghanem, C and Spitz, J and Jauniaux, T and Bouveroux, T and Khalef, G} } @article {8572, title = {New epizoic diatom (Bacillariophyta) species from sea turtles in the Eastern Caribbean and South Pacific}, journal = {Diatom Research}, volume = {32}, year = {2017}, month = {Feb-01-2017}, pages = {109 - 125}, issn = {0269-249X}, doi = {10.1080/0269249X.2017.1299042}, url = {https://www.tandfonline.com/doi/full/10.1080/0269249X.2017.1299042}, author = {Riaux-Gobin, Catherine and Witkowski, Andrzej and Kociolek, J. Patrick and Ector, Luc and Chevallier, Damien and Comp{\`e}re, Pierre} } @article {9367, title = {New insights on the musculature of filospermoid Gnathostomulida}, journal = {Zoomorphology}, volume = {136}, year = {2017}, month = {Jan-12-2017}, pages = {413 - 424}, issn = {0720-213X}, doi = {10.1007/s00435-017-0367-6}, url = {http://link.springer.com/10.1007/s00435-017-0367-6}, author = {G{\k a}siorowski, Ludwik and Bekkouche, Nicolas and S{\o}rensen, Martin V. and Kristensen, Reinhardt M. and Sterrer, Wolfgang and Worsaae, Katrine} } @article {5143, title = {Nutrient ratios influence variability in Pseudo-nitzschia species diversity and particulate domoic acid production in the Bay of Seine (France)}, journal = {Harmful Algae}, volume = {68}, year = {2017}, pages = {192 - 205}, abstract = {

The population dynamics of different Pseudo-nitzschia species, along with particulate domoic acid (pDA) concentrations, were studied from May 2012 to December 2013 in the Bay of Seine (English Channel, Normandy). While Pseudo-nitzschia spp. blooms occurred during the two years of study, Pseudo-nitzschia species diversity and particulate domoic acid concentrations varied greatly. In 2012, three different species were identified during the spring bloom (P. australis, P. pungens and P. fraudulenta) with high pDA concentrations (\~{}1400\ ng\ l-1) resulting in shellfish harvesting closures. In contrast, the 2013 spring was characterised by a P. delicatissima bloom without any toxic event. Above all, the results show that high pDA concentrations coincided with the presence of P. australis and with potential silicate limitation (Si:N\ \<\ 1), while nitrate concentrations were still replete. The contrasting environmental conditions between 2012 and 2013 highlight different environmental controls that might favour the development of either P. delicatissima or P. australis. This study points to the key role of Pseudo-nitzschia diversity and cellular toxicity in the control of particulate domoic acid variations and highlights the fact that diversity and toxicity are influenced by nutrients, especially nutrient ratios.

}, keywords = {Bloom dynamics, Domoic acid, English Channel, Nutrient ratios, Pseudo-nitzschia Species diversity}, issn = {1568-9883}, doi = {https://doi.org/10.1016/j.hal.2017.07.005}, url = {http://www.sciencedirect.com/science/article/pii/S1568988317300148}, author = {Thorel, Maxine and Pascal Claquin and Mathilde Schapira and Romain Le Gendre and Riou, Philippe and Goux, Didier and Le Roy, Bertrand and Raimbault, V and Deton-Cabanillas, Anne-Flore and Bazin, Pauline and Kientz-Bouchart, Val{\'e}rie and Juliette Fauchot} } @article {5023, title = {The {\textquotedblleft}Pinocchio-shrimp effect{\textquotedblright}: first evidence of variation in rostrum length with the environment in Caridina H. Milne-Edwards, 1837 (Decapoda: Caridea: Atyidae)}, journal = {Journal of Crustacean Biology}, volume = {37}, year = {2017}, month = {05/2017}, pages = {243-248}, abstract = {

External morphology has always been the first criterion used to separate species of shrimps,

especially in the freshwater genus Caridina H. Milne-Edwards, 1837, but more doubts have been

expressed regarding the relevance of some of the morphological characters. We collected 27

specimens of Caridina from seven different localities during field work conducted on the island

of Pohnpei (Federated States of Micronesia). After genetic verification that they all belonged to

the same species, 19 morphological variables were measured and correlated with the elevation

of the collecting stations using correlation analyses. We provide evidence that the length of the

rostrum showed strong negative correlation with the elevation. This could be explained either

by the physical stress exerted on the rostrum by the stronger water currents in the stations at a

higher elevation, as a defence against predators in the lower stations, or a combination of both

possibilities. The taxonomy of these shrimps is thus challenging and should not rely only on

rostrum length, but on other characters such as the number of teeth on the dorsal margin of

the carapace, which is not correlated with rostrum length and therefore, with the environment.

}, keywords = {correlation analysis, effect of elevation, freshwater shrimps, Micronesia, morphology, taxonomy}, author = {de Mazancourt, Valentin and Marquet, G{\'e}rard and Philippe Keith} } @article {5016, title = {Rapid de novo assembly of the European eel genome from nanopore sequencing reads}, journal = {Scientific Reports}, volume = {7}, year = {2017}, pages = {7213}, author = {J. Jansen and M. Liem and S. Jong-Raadsen and Sylvie Dufour and Weltzien, Finn-Arne and W. Swinkels and A. Koelewijn and A. Palstra and B. Pelster and H. Spaink and G. van den Thillart and Dirks, Ron and Christiaan V Henkel} } @article {4757, title = {Recurrent DCC gene losses during bird evolution}, journal = {Scientific Reports}, volume = {7}, year = {2017}, pages = {37569}, author = {Friocourt, Fran{\c c}ois and Anne-Gaelle Lafont and Kress, Cl{\'e}mence and Pain, Bertrand and Manceau, Marie and Sylvie Dufour and Chedotal, Alain} } @article {8718, title = {Responses of primary cultured haemocytes derived from the marine gastropod Haliotis tuberculata to an industrial effluent exposure}, journal = {Cytotechnology}, volume = {69}, year = {2017}, month = {Jan-04-2017}, pages = {191 - 200}, issn = {0920-9069}, doi = {10.1007/s10616-016-0050-7}, url = {http://link.springer.com/10.1007/s10616-016-0050-7}, author = {Ladhar-Chaabouni, Rim and Houel, Thomas and Serpentini, Antoine and Karray, Sahar and Lebel, Jean-Marc and Hamza-Chaffai, Amel} } @article {5017, title = {Review of Schismatogobius (Gobiidae) from Papua New Guinea to Samoa, with description of seven new species}, journal = {Cybium}, volume = {41}, year = {2017}, month = {03/2017}, pages = {45-66}, abstract = {

The species of Schismatogobius from Papua New Guinea to Samoa are reviewed and compared to

the three known species described from the area. Eleven species are recognized including seven new species.

These are described using genetic and morphomeristic approaches. The species differ by a high percentage of

divergence in partial COI gene (636 bp) and by several characters including the number of pectoral fin rays, the

pattern of the ventral surface of the head in males and/or females, the pectoral fin colour pattern, the jaw length/

head length ratio or the jaw length of male and/or female, and the fin lengths.

}, keywords = {Australia, New species, Papua New Guinea, Samoa, Schismatogobius, Solomon}, author = {Philippe Keith and Clara Lord and Larson, Helen K} } @article {7512, title = {Revision of the species complex{\textquoteright}Neritina pulligera{\textquoteright}(Gastropoda, Cyclonetimorpha: Neritidae) using taxonomy and barcoding}, journal = {Vie et Milieu / Life \& Environment}, volume = {67}, year = {2017}, month = {2017}, pages = {149-161}, author = {Ahmed Abdou and Ren{\'e} Galzin and Clara Lord and Denys, Ga{\"e}l PJ and Philippe Keith} } @article {6811, title = {Saving Our Marine Archives}, journal = {Eos}, year = {2017}, month = {Dec-02-2018}, doi = {10.1029/2017EO068159}, url = {https://eos.org/project-updates/saving-our-marine-archives}, author = {Dassi{\'e}, Emilie and DeLong, Kristine and Kilbourne, Hali and Williams, Branwen and Abram, Nerilie and Brenner, Logan and Brahmi, Chlo{\'e} and Cobb, Kim and Corr{\`e}ge, Thierry and Dissard, Delphine and Emile-Geay, Julien and Evangelista, Heitor and Evans, Michael and Farmer, Jesse and Felis, Thomas and Gagan, Michael and Gillikin, David and Goodkin, Nathalie and Khodri, Myriam and Lavagnino, Ana and LaVigne, Mich{\`e}le and Claire E. Lazareth and Linsley, Braddock and Lough, Janice and McGregor, Helen and Nurhati, Intan and Ouellette, Gilman and Perrin, Laura and Raymo, Maureen and Rosenheim, Brad and Sandstrom, Michael and Sch{\"o}ne, Bernd and Sifeddine, Abdelfettah and Stevenson, Samantha and Thompson, Diane and Waite, Amanda and Wanamaker, Alan and Wu, Henry} } @article {5024, title = {Schismatogobius (Gobiidae) from Indonesia, with description of four new species}, journal = {Cybium}, volume = {41}, year = {2017}, month = {06/2017}, pages = {195-211}, abstract = {

The species of Schismatogobius from Indonesia are reviewed and compared to the known species described from the area. Eight species are recognized including four new species. These are described using genetic and morphomeristic approaches. The species differ by a high percentage of genetic divergence in partial COI gene (652 bp) and by several characters including the number of pectoral fin rays, the pattern of the ventral surface of the head in males and/or females, the pectoral fin colour pattern, the jaw length/head length ratio or the jaw length of male and/or female.

}, keywords = {Gobiidae, Indonesia, New species, Schismatogobius}, author = {Philippe Keith and Clara Lord and Darhuddin, H. and Limmon, G and Sukmono, T and Hadiaty, Renny and Hubert, Nicolas} } @article {5000, title = {Seasonal and latitudinal variation in seagrass mechanical traits across Europe: The influence of local nutrient status and morphometric plasticity}, journal = {Limnology and Oceanography}, year = {2017}, abstract = {

Seagrasses are marine flowering plants distributed worldwide. They are however threatened, mostly due to the increase of human activities. Seagrasses have the capacity to adapt their morphological, physiological, and mechanical traits to their local conditions. Mechanical traits have been identified as a good tool to investigate a plant-species capacity to withstand physical forces or disturbances but are still sparsely studied in seagrasses. With this study, we aimed to assess how the mechanical traits of a broadly spread seagrass species vary along a latitudinal gradient in relation to its morphometric plasticity and nutrient status. We found that seagrasses acclimate their mechanical traits in relation to their physiological or morphological traits, both over the growing season and across a latitudinal range: leaves were weaker and thinner in northern areas, particularly at the end of the growing season. Besides the influence of the latitudinal gradient, leaf mechanical strength and stiffness were both strongly affected by their morphometric plasticity. Moreover, we showed that leaves mechanical traits change depending on their nutrient status: leaves were stronger and stiffer in oligotrophic conditions as compared to more eutrophic conditions. Thus, our results imply that, under eutrophication, leaves become weaker and thus more vulnerable to physical forces. This vulnerability is higher in the north at the end of the growing season. The latter is consistent with the more ephemeral character of northern seagrass meadows, in contrast to the more evergreen southern meadows.

}, doi = {10.1002/lno.10611}, url = {http://onlinelibrary.wiley.com/doi/10.1002/lno.10611/full}, author = {L.M. Soissons and M.M. van Katwijk and G. Peralta and F.G. Brun and P.G. Cardoso and T.F. Grilo and B. Ondiviela and M. Recio and M. Valle and J.M. Garmendia and F. Ganthy and I. Auby and L. Rigouin and Laurent Godet and J{\'e}r{\^o}me Fournier and Nicolas Desroy and L. Barill{\'e} and P. Kadel and R. Asmus and P.M.J. Herman and T.J. Bouma} } @article {4584, title = {Specific gravity and migratory patterns of amphidromous gobioid fish from Okinawa Island, Japan}, journal = {Journal of Experimental Marine Biology and Ecology}, volume = {486}, year = {2017}, pages = {160-169}, abstract = {

Amphidromy is a diadromous life history pattern where fish spawn in freshwater, and their larvae drift downstream to the sea; the larvae develop in marine environments then migrate back in rivers to grow and reproduce. Two amphidromous types with different life history characteristics, such as egg and larval sizes, exist. To understand the ecology and early life history of amphidromous gobioid fish, six species from Okinawa Island were selected{\textemdash}two large egg-type species (Rhinogobius similis and Tridentiger kuroiwae) and four small egg-type species (Stiphodon percnopterygionus, Stenogobius sp., Sicyopterus lagocephalus, and Eleotris acanthopoma). The migratory pattern of four of these species was confirmed using otolith Sr:Ca and Ba:Ca ratios combined with water chemistry analysis. Although these species showed amphidromous migratory patterns, the timing of migration from estuarine to freshwater habitats was species-specific. The large egg-type, R. similis, showed three different migratory patterns: a long marine larval phase with a relatively fast migration from estuarine to freshwater habitats, a short marine larval phase with a relatively fast migration, and a gradual migration. Similar patterns of a long and fast migration or a gradual migration were seen in T. kuroiwae; however, the two small eggtype species, Sti. percnopterygionus and Stenogobius sp., showed rapid migration to freshwater after entering the river. To estimate larval ecology in the sea, ontogenetic changes in specific gravity (SG) were examined in all species. The SG was measured day and night for 1{\textendash}5 days until settlement in R. similis and T. kuroiwae, and until 10 days after hatching in the other species. The SG of all species ranged from 1.0138 to 1.0488, and varied among ontogenetic stages and between day and night and species. Larval SG was relatively similar between R. similis and T. kuroiwae, with low SG in the early stages and high SG after yolk absorption. During the late larval stages and until settlement, T. kuroiwae showed diel changes in SG, with higher SG during the day, whereas R. similis had a relatively constant pattern. The diel changes of T. kuroiwae larvae suggest different activity during the day and at night (e.g. diel vertical migration). In the four small egg-type species, SG was high at hatching and decreased thereafter, not showing large diel changes. The results suggest that sympatric amphidromous gobioid species have various early life histories that may be influenced by several larval traits, including SG.

}, keywords = {Buoyancy, diadromy, Early life history, Migratory history, otolith, Specific gravity}, author = {Iida, Midori and Masashi Kondo and H{\'e}l{\`e}ne Tabouret and Maeda, Ken and P{\'e}cheyran, C and Atsushi Hagiwara and Philippe Keith and Katsunori Tachihara} } @article {5022, title = {Visual census, photographic records and the trial of a video network provide first evidence of the elusive Sicyopterus cynocephalus in Australia}, journal = {Cybium}, volume = {41}, year = {2017}, month = {06/2017}, pages = {117-125}, abstract = {

Opportunistic encounters with an elusive large-bodied sicydiine goby in a single plunge pool led us to photograph and deploy three video cameras to detect individuals in that pool. Subsequently, a catchment-wide search indicated that the species, eventually identified as Sicyopterus cynocephalus, was confined to the single pool where it was originally detected. A network of ten video cameras was then deployed to estimate the number of individuals of that species and of a congener, S. lagocephalus, by non-destructive means. This study provides the first record of S. cynocephalus in Australia, and showcases the synergy of active snorkel searches and a remote camera network in counting individuals of two sympatric species of Sicyopterus.

}, keywords = {Australia, Coastal stream, Elusive species, First record, Gobiidae, Sicyopterus cynocephalus, Underwater video, Visual census}, author = {Ebner, Brendan C and Donaldson, James and Allen, Gerald and Philippe Keith} } @article {5020, title = {When molecules and morphology work together: lines of evidence for the validity of Caridina buehleri Roux (Crustacea :Decapoda : Atyidae) and for C. gueryi Marquet, Keith and Kalfatak as its junior synonym}, journal = {Invertebrate Systematics}, volume = {31}, year = {2017}, month = {01/2017}, pages = {220-230}, abstract = {

The taxonomy of the freshwater shrimps Caridina (Atyidae) is very complex and confused mostly because the morphological characters that have traditionally been used for species delimitation and identification are highly plastic. There is thus a need for an integrative approach to their taxonomy. In total, 42 specimens belonging to either Caridina buehleri Roux, 1934 or Caridina gueryi Marquet, Keith \& Kalfatak, 2009 were examined. We combined here morphological data from 12 specimens from the whole distributional range of the species, including type specimens with 16S mtDNA analyses from seven freshly sampled specimens, to verify the specific status of Caridina buehleri from Papua New-Guinea, Central Sulawesi, Western Samoa and the Solomon Islands, and C. gueryi from Vanuatu. The comparison of 24 morphological characters showed that morphological variations of character traits between C. gueryi and C. buehleri are widely overlapping and that no morphological feature can effectively split specimens into two clear groups. Molecular characters corroborated these results, as specimens from both groups were only separated by a 2\% p-distance, a genetic distance that is coherent with their potentially high dispersal abilities. We thus consider C. gueryi as a junior synonym of C. buehleri. Finally, C. buehleri is characterised mainly by a styliform and characteristically indented rostrum and a long stylocerite. Detailed re-descriptions of the type specimens of C. buehleri and C. gueryi are given, as well as their geographical and ecological distribution.

}, keywords = {16S., freshwater shrimp, Indo-Pacific, Integrative taxonomy}, author = {de Mazancourt, Valentin and Marquet, G{\'e}rard and Klotz, Werner and Philippe Keith and Castelin, Magalie} } @article {6707, title = {Ability of the marine bacterium Pseudomonas fluorescens BA3SM1 to counteract the toxicity of CdSe nanoparticles}, journal = {Journal of Proteomics}, volume = {148}, year = {2016}, month = {Jan-10-2016}, pages = {213 - 227}, issn = {18743919}, doi = {10.1016/j.jprot.2016.07.021}, url = {https://www.sciencedirect.com/science/article/pii/S187439191630330X?via\%3Dihub}, author = {Poirier, Isabelle and Kuhn, Lauriane and Demorti{\`e}re, Arnaud and Mirvaux, Boris and Hammann, Philippe and Chicher, Johana and Christelle Caplat and Pallud, Marie and Bertrand, Martine} } @article {5814, title = {{Climate change and the ash dieback crisis}}, journal = {Scientific Reports}, volume = {6}, year = {2016}, abstract = {

{\textcopyright} The Author(s) 2016. Beyond the direct influence of climate change on species distribution and phenology, indirect effects may also arise from perturbations in species interactions. Infectious diseases are strong biotic forces that can precipitate population declines and lead to biodiversity loss. It has been shown in forest ecosystems worldwide that at least 10{\%} of trees are vulnerable to extinction and pathogens are increasingly implicated. In Europe, the emerging ash dieback disease caused by the fungus Hymenoscyphus fraxineus, commonly called Chalara fraxinea, is causing a severe mortality of common ash trees (Fraxinus excelsior); this is raising concerns for the persistence of this widespread tree, which is both a key component of forest ecosystems and economically important for timber production. Here, we show how the pathogen and climate change may interact to affect the future spatial distribution of the common ash. Using two presence-only models, seven General Circulation Models and four emission scenarios, we show that climate change, by affecting the host and the pathogen separately, may uncouple their spatial distribution to create a mismatch in species interaction and so a lowering of disease transmission. Consequently, as climate change expands the ranges of both species polewards it may alleviate the ash dieback crisis in southern and occidental regions at the same time.

}, issn = {20452322}, doi = {10.1038/srep35303}, author = {Goberville, Eric and Nina-Coralie Hautek{\`e}ete and Richard R Kirby and Yves Piquot and Christophe Luczak and Gr{\'e}gory Beaugrand} } @article {5238, title = {Differential protein expression during sperm maturation and capacitation in an hermaphroditic bivalve, Pecten maximus (Linnaeus, 1758)}, journal = {J. of Molluscan Studies}, volume = {82}, year = {2016}, month = {11/2016}, pages = {575-584}, type = {research}, abstract = {

In order to investigate the mechanisms of final maturation and capacitation of spermatozoa in Pecten maximus, we used a 2D proteomic approach coupled with MALDI-TOF/TOF mass spectrometry (MS) and bioinformatics search against the Pecten database, to set up a reference map of the proteome of spawned spermatozoa, and identified 133 proteins on the basis of the EST database. These proteins are mainly involved in energy production, ion and electron transport (44\%), cell movement (22\%) and developmental processes (10\%). Comparison between proteomes of spermatozoa collected before and after transit through the genital ducts of P. maximus led to the identification of differentially expressed proteins. Most of them are associated with energy metabolism (aconitate hydratase, malate dehydrogenase, glyceraldehyde-3-phosphate dehydrogenase), indicating important modifications of energy production during transit in gonoducts, potentially linked with acquisition of sperm motility. Three proteins involved in cell movement (Tektin-2, tubulin and microtubule-associated protein RP/EB family member 3) were down-regulated in spermatozoa stripped from the gonad. 40S ribosomal protein SA, involved in maturation of 40S ribosomal subunits, was also found to be down-regulated in spermatozoa obtained by induced spawning, suggesting reduction of the effi- ciency of RNA translation, a characteristic of late spermatozoon differentiation. These results confirm that maturation processes of P. maximus spermatozoa during transit through the gonoduct involve RNA translation, energy metabolism and structural proteins implicated in cell movement. Spermatozoa maturation processes clearly differ between P. maximus and gonochoric or alternately hermaphroditic bivalves, potentially in relation to reproductive strategies: the final maturation of the spermatozoon along the genital tract probably contributes to reduction of autofertilization in this simultaneously hermaphroditic species

}, doi = {doi:10.1093/mollus/eyw028}, author = {Boonmee, A and Clothilde Berthelin and Kingtong, S and Pauletto, M and Bernay, B and Suquet, M and Pascal Sourdaine and Kellner K} } @article {4530, title = {Differential protein expression during sperm maturation and capacitation in an hermaphroditic bivalve, Pecten maximus (Linnaeus, 1758)}, journal = {Journal of Molluscan Studies}, year = {2016}, month = {09/2016}, pages = {1-10}, author = {Boonmee, A and Clothilde Heude-Berthelin and Kingtong, S and Pauletto, M and Bernay, B and Adeline, B and Suquet, M and Pascal Sourdaine and Kristell Kellner-Cousin} } @article {4226, title = {Geographic variation in stable isotopic and fatty acid composition of anguilliform leptocephali and particulate organic matter in the South Pacific}, journal = {Marine Ecology and Progress Series}, volume = {544}, year = {2016}, pages = {225-241}, abstract = {

The feeding ecology of leptocephali has remained poorly understood because they apparently feed on particulate organic matter (POM), which varies in composition, and it is unclear which components of the POM they assimilate. The δ13C and δ15N stable isotope (SI) and fatty acid (FA) compositions of 3 families of leptocephali and POM were compared in 3 latitudinal current zones of the western South Pacific. The δ15N signatures of leptocephali and POM overlapped, with both having their lowest values in the southern current zone. POM in general (across all zones) contained 38 FAs and was rich in saturated FAs (SFA) (16:0, 18:0, 14:0), while leptocephali contained 50 FAs, with high proportions of 16:0, and higher contributions of 22:6ω3, 20:5ω3, 18:1ω9, 16:1ω7 and other FAs than found in the POM. Serrivomeridae leptocephali in the north had higher δ15N signatures and were also distinguished from Nemichthyidae and Muraenidae larvae by their FA compositions (higher SFAs, lower 22:6ω3 and 20:5ω3). Although SI signatures of the Serrivomeridae larvae did not clearly vary with size, 16:0 and 18:0 FA proportions decreased with increasing larval size, and 22:6ω3 and 16:1ω7 increased in larger larvae. Correspondences between the latitudinal variations in nitrogen SI signatures and FA compositions of POM with those of leptocephali and the presence of FA markers of both autotrophic and heterotrophic organisms were consistent with leptocephali feeding on POM. POM can contain various materials from primary producers and heterotrophic microorganisms, but differences in the SI signatures and FA compositions in leptocephali remain to be explained through further research.

}, keywords = {Leptocephali {\textperiodcentered} Fatty acids {\textperiodcentered} Stable isotopes {\textperiodcentered} Biomarkers {\textperiodcentered} Trophic ecology {\textperiodcentered} Oceanic currents}, isbn = {doi:10.3354/meps11575 }, author = {Li{\'e}nart, Camilla and Eric Feunteun and Miller, M J and Aoyama, J and Jean-Michel Mortillaro and C{\'e}dric Hubas and Kuroki, M and Watanabe, S and Christine Dupuy and Alexandre Carpentier and Otake, T and Tsukamoto, K and Tarik Meziane} } @article {5813, title = {{Global impacts of the 1980s regime shift}}, journal = {Global Change Biology}, volume = {22}, year = {2016}, abstract = {

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

}, keywords = {Climate, Earth systems, Global change, Regime shift, Statistical analysis, Time series, Volcanic forcing}, issn = {13652486}, doi = {10.1111/gcb.13106}, author = {Philip Chris Reid and Renata E. Hari and Gr{\'e}gory Beaugrand and David M. Livingstone and Christoph Marty and Dietmar Straile and Jonathan Barichivich and Goberville, Eric and Rita Adrian and Yasuyuki Aono and Ross Brown and James Foster and Pavel Groisman and Pierre H{\'e}laou{\"e}t and Huang-Hsiung Hsu and Richard R Kirby and Jeff Knight and Alexandra Kraberg and Jianping Li and Tzu-Ting Lo and Ranga B. Myneni and Ryan P. North and Alan J. Pounds and Tim Sparks and Ren{\'e} St{\"u}bi and Yongjun Tian and Karen H. Wiltshire and Dong Xiao and Zaichun Zhu} } @article {8577, title = {The influence of oceanographic features on the foraging behavior of the olive ridley sea turtle Lepidochelys olivacea along the Guiana coast}, journal = {Progress in Oceanography}, volume = {142}, year = {2016}, month = {Jan-03-2016}, pages = {58 - 71}, issn = {00796611}, doi = {10.1016/j.pocean.2016.01.006}, url = {https://linkinghub.elsevier.com/retrieve/pii/S0079661115300094}, author = {Chambault, Philippine and de Thoisy, Beno{\^\i}t and Heerah, Karine and Conchon, Anna and Barrioz, S{\'e}bastien and Dos Reis, Virginie and Berzins, Rachel and Kelle, Laurent and Picard, Baptiste and Roquet, Fabien and Le Maho, Yvon and Chevallier, Damien} } @article {4540, title = {International Perspectives on the Effects of Climate Change on Inland Fisheries}, journal = {Fisheries}, volume = {41}, year = {2016}, month = {07/2016}, pages = {399-405}, doi = {10.1080/03632415.2016.1182513}, author = {I.J. Winfield and C. Baigun and P.A. Balykin and B. Becker and Y. Chen and A.F. Filipe and Y.V. Gerasimov and A.L. Godinho and R.M. Hugues and J.D. Koehn and D.N. Kutsyn and V. Mendoza-Portillo and Thierry Oberdorff and A.M. Orlov and A.P. Pedchenko and F. Pletterbauer and I.G. Prado and R. R{\"o}sch and S.J. Vatland} } @article {8576, title = {Inter-nesting behavioural adjustments of green turtles to an estuarine habitat in French Guiana}, journal = {Marine Ecology Progress Series}, volume = {555}, year = {2016}, month = {Jun-08-2017}, pages = {235 - 248}, issn = {0171-8630}, doi = {10.3354/meps11813}, url = {http://www.int-res.com/abstracts/meps/v555/p235-248/}, author = {Chambault, P and de Thoisy, B and Kelle, L and Berzins, R and Bonola, M and Delvaux, H and Le Maho, Y and Chevallier, D} } @article {3846, title = {Larval traits of the Caribbean amphidromous goby Sicydium punctatum (Gobioidei: Sicydiinae) in Guadeloupe}, journal = {ECOLOGY OF FRESHWATER FISH}, volume = {25}, year = {2016}, pages = {272-280}, keywords = {amphidromy, larval dispersal, Lesser Antilles, otolith, Sicydiinae}, author = {L{\'e}a Lejeune and H{\'e}l{\`e}ne Tabouret and Taillebois, Laura and Monti, Dominique and Philippe Keith} } @article {3727, title = {Morphological changes during the transition from freshwater to sea water in an amphidromous goby, Sicyopterus lagocephalus (Pallas 1770) (Teleostei).}, journal = {Ecology of Freshwater fish}, volume = {25}, year = {2016}, pages = {48-59}, abstract = {

The widely distributed amphidromous goby Sicyopterus lagocephalus needs drastic change of habitat to
fulfil its life cycle: adults live and spawn in rivers, where eggs hatch into prolarvae that have to reach the sea to
acquire characteristics of planktonic larvae. Postlarvae return to rivers where they recruit and grow to the adult
reproductive stage. Here, we describe the prolarval stages, namely from hatching to first contact with sea water, as
well as the first marine larval stages. The observations were made under experimental conditions. We described 3
prolarval substages in freshwater (L1a{\textendash}L1c). Prolarvae present a slight but visible ontogenetic development in
freshwater, during which the yolk sac begins to reduce, the pigmentation increases on the body and in the eyes, and
the lenses appear, although the eyes are not functional. Prolarvae need to reach the sea in a maximum of 96 h to
pursue their development. Their transfer in sea water at a salinity of 36.5 induces important morphological
modifications (i.e. yolk sac full absorption, appearance of pectoral fins, migration of the eyes in anterolateral
position of the head, opening of mouth and anus), enabling the organisms to adapt to their new environment. This
marine stage is divided into two substages: L2a corresponding to the organisation of the morphological structures
adapted to the marine environment and L2b during which these morphological structures become functional.
Whether it is in freshwater or sea water, the duration of the substages depends on the water temperature, but is
similar for all individuals for a given temperature.

}, keywords = {amphidromy, larval development, larval morphology, Reunion Island, Sicyopterus lagocephalus}, author = {Ellien, C{\'e}line and Werner, Ugo and Philippe Keith} } @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 {4430, title = {A new species of Eleotris (Teleostei: Gobioidei: Eleotridae) from the Solomon Islands}, journal = {Pacific Science}, volume = { in press}, year = {2016}, author = {Marion Mennesson and Philippe Keith and Ebner, Brendan C and Gerbeaux, Philippe} } @article {4366, title = {A new species of Lentipes (Teleostei: Gobiidae) from Solomon islands.}, journal = {Cybium}, volume = {40}, year = {2016}, pages = {139-146}, author = {Philippe Keith and Clara Lord and Boseto, David and Ebner, Brendan C} } @article {7178, title = {Planktonic foraminiferal biogeography in the Indian sector of the Southern Ocean: Contribution from CPR data}, journal = {Deep Sea Research Part I: Oceanographic Research Papers}, volume = {110}, year = {2016}, month = {Jan-04-2016}, pages = {75 - 89}, issn = {09670637}, doi = {10.1016/j.dsr.2015.12.014}, url = {https://linkinghub.elsevier.com/retrieve/pii/S0967063716300280}, author = {Meilland, Julie and Fabri-Ruiz, Salom{\'e} and Koubbi, Philippe and Monaco, Claire Lo and Cott{\'e}, C{\'e}dric and Hosie, Graham W. and Sanchez, Sophie and Howa, H{\'e}l{\`e}ne} } @article {4372, title = {Pollen limitation may be a common Allee effect in marine hydrophilous plants: implications for decline and recovery in seagrasses}, journal = {Oecologia}, year = {2016}, pages = {1-15}, doi = {10.1007/s00442-016-3665-7}, author = {B.I. Van Tussenbroek and L.M. Soissons and T.J. Bouma and R. Asmus and I. Auby and F.G. Brun and P.G. Cardoso and Nicolas Desroy and J{\'e}r{\^o}me Fournier and F. Ganthy and J.M. Garmendia and Laurent Godet and T.F. Grilo and P. Kadel and B. Ondiviela and G. Peralta and M. Recio and M. Valle and T. Van der Heide and van Katwijk, M M} } @article {4677, title = {Present-day African analogue of a pre-European Amazonian floodplain fishery shows convergence in cultural niche construction}, journal = {Proceedings of the National Academy of Sciences}, year = {2016}, abstract = {

Erickson [Erickson CL (2000) Nature 408 (6809):190{\textendash}193] interpreted features in seasonal floodplains in Bolivia{\textquoteright}s Beni savannas as vestiges of pre-European earthen fish weirs, postulating that they supported a productive, sustainable fishery that warranted cooperation in the construction and maintenance of perennial structures. His inferences were bold, because no close ethnographic analogues were known. A similar present-day Zambian fishery, documented here, appears strikingly convergent. The Zambian fishery supports Erickson{\textquoteright}s key inferences about the pre-European fishery: It allows sustained high harvest levels; weir construction and operation require cooperation; and weirs are inherited across generations. However, our comparison suggests that the pre-European system may not have entailed intensive management, as Erickson postulated. The Zambian fishery{\textquoteright}s sustainability is based on exploiting an assemblage dominated by species with life histories combining high fecundity, multiple reproductive cycles, and seasonal use of floodplains. As water rises, adults migrate from permanent watercourses into floodplains, through gaps in weirs, to feed and spawn. Juveniles grow and then migrate back to dry-season refuges as water falls. At that moment fishermen set traps in the gaps, harvesting large numbers of fish, mostly juveniles. In nature, most juveniles die during the first dry season, so that their harvest just before migration has limited impact on future populations, facilitating sustainability and the adoption of a fishery based on inherited perennial structures. South American floodplain fishes with similar life histories were the likely targets of the pre-European fishery. Convergence in floodplain fish strategies in these two regions in turn drove convergence in cultural niche construction.

}, doi = {10.1073/pnas.1613169114}, url = {http://www.pnas.org/content/early/2016/12/09/1613169114.abstract}, author = {McKey, Doyle B. and Dur{\'e}cu, M{\'e}lisse and Marc Pouilly and Bearez, Philippe and Ovando, Alex and Kalebe, Mashuta and Carl F. Huchzermeyer} } @article {4365, title = {Revisiting the ichthyodiversity of Java and Bali through DNA barcodes: taxonomic coverage, identification accuracy, cryptic diversity and identification of exotic species.}, journal = {Mol Ecol Resour}, year = {2016}, month = {2016 Mar 22}, abstract = {

Among the 899 species of freshwater fishes reported from Sundaland biodiversity hotspot, nearly 50\% are endemics. The functional integrity of aquatic ecosystems is currently jeopardized by human activities and landscape conversion led to the decline of fish populations in several part of Sundaland, particularly in Java. The inventory of the Javanese ichthyofauna has been discontinuous and the taxonomic knowledge is scattered in the literature. The present study provides a DNA barcode reference library for the inland fishes of Java and Bali with the aim to streamline the inventory of fishes in this part of Sundaland. Owing to the lack of available checklist for estimating the taxonomic coverage of the present study, a checklist was compiled based on online catalogs. A total of 95 sites were visited and a library including 1,046 DNA barcodes for 159 species was assembled. Nearest neighbor distance was 28-fold higher than maximum intra-specific distance on average and a DNA barcoding gap was observed. The list of species with DNA barcodes displayed large discrepancies with the checklist compiled here as only 36\% (i.e. 77 species) and 60\% (i.e.24 species) of the known species were sampled in Java and Bali, respectively. This result was contrasted by a high number of new occurrences and the ceiling of the accumulation curves for both species and genera. These results highlight the poor taxonomic knowledge of this ichthyofauna and the apparent discrepancy between present and historical occurrence data is to be attributed to species extirpations, synonymy and misidentifications in previous studies. This article is protected by copyright. All rights reserved.

}, issn = {1755-0998}, doi = {10.1111/1755-0998.12528}, author = {Dahruddin, Hadi and Hutama, Aditya and Fr{\'e}d{\'e}ric Busson and Sauri, Sopian and Hanner, Robert and Philippe Keith and Hadiaty, Renny and Hubert, Nicolas} } @article {4176, title = {Spatial and seasonal contrasts of sedimentary organic matter in floodplain lakes of the central Amazon basin}, journal = {Biogeosciences}, volume = {13}, year = {2016}, type = {original}, abstract = {


In this study, we investigated the seasonal and spatial pattern of sedimentary organic matter (SOM) in five floodplain lakes of the central Amazon basin (Cabaliana, Janauaca, Cana{\c c}ari, Mirituba and Curuai) which have different morphologies, hydrodynamics and vegetation coverages. Surface sediments were collected in four hydrological seasons: low water (LW), rising water (RW), high water (HW) and falling water (FW) in 2009 and 2010. We inves-tigated commonly used bulk geochemical tracers such as the C/N ratio and the stable isotopic composition of organic carbon (13Cor). These results were compared with lignin phenol parameters as an indicator of vascular plant detritus and branched glycerol dialkyl glycerol tetraethers (brGDGTs) to trace the input of soil organic matter (OM) from land to the aquatic settings. We also applied the crenarchaeol as an indi- cator of aquatic (rivers and lakes) OM. Our data showed that during the RW and FW seasons, the surface sediments were enriched in lignin and brGDGTs in comparison to other seasons. Our study also indicated that floodplain lake sediments primarily consisted of allochthonous, C3 plant-derived OM. However, a downstream increase in C4 macrophyte-derivedOM contribution was observed along the gradient of increas-ing open waters {\textendash} i.e., from upstream to downstream. Accordingly, we attribute the temporal and spatial difference in SOM composition to the hydrological dynamics between the floodplain lakes and the surrounding flooded forests.

}, author = {Sobrinho, R L and Bernardes, Marcelo C and Gwena{\"e}l Abril and Kim, J-H and Zell, C and Jean-Michel Mortillaro and Tarik Meziane and Moreira-Turcq, P and J S Sinningh Damst{\'e}} } @article {6829, title = {Starving seabirds: unprofitable foraging and its fitness consequences in Cape gannets competing with fisheries in the Benguela upwelling ecosystem}, journal = {Marine biology}, volume = {163}, year = {2016}, pages = {35}, author = {Gr{\'e}millet, David and Clara P{\'e}ron and Kato, Akiko and Am{\'e}lineau, Fran{\c c}oise and Ropert-Coudert, Yan and Ryan, Peter G and Pichergru, Lorien} } @article {4197, title = {Age, growth, and mortality of the Atlantic goliath grouper Epinephelus itajara in French Guiana. }, journal = {Endangered Species Research}, volume = {28}, year = {2015}, month = {2015}, pages = {275-287}, author = {C. Artero and D.J. Murie and C.C. Koenig and R. Berzins and C. Bouchon and L. Lampert} } @article {4361, title = {Amphidromous life cycle of Eleotris fusca (Teleostei: Gobioidei: Eleotridae) a widespread species from the Indo-Pacific studied by otolith analyses.}, journal = {Cybium}, volume = {39 }, year = {2015}, pages = {249-260.}, author = {Marion Mennesson and H{\'e}l{\`e}ne Tabouret and Pecheyran, Christophe and Philippe Keith} } @article {4358, title = {Comparative phylogeography of Javanese and Balinese freshwater fishes: DNA barcodes shed light on Quaternary range expansion dynamic in a biodiversity hotspot.}, journal = {Genome}, volume = {58}, year = {2015}, pages = {230}, author = {Hutama, A. and Darhuddin, H. and Fr{\'e}d{\'e}ric Busson and Sauri, S and Hanner, R and Philippe Keith and Hadiaty, Renny and Hubert, N} } @article {9369, title = {Detailed reconstruction of the nervous and muscular system of Lobatocerebridae with an evaluation of its annelid affinityAbstractBackgroundResultsConclusions}, journal = {BMC Evolutionary Biology}, volume = {15}, year = {2015}, month = {Jan-12-2015}, doi = {10.1186/s12862-015-0531-x}, url = {https://bmcevolbiol.biomedcentral.com/articles/10.1186/s12862-015-0531-x}, author = {Kerbl, Alexandra and Bekkouche, Nicolas and Sterrer, Wolfgang and Worsaae, Katrine} } @article {8584, title = {Dispersal and diving adjustments of green turtles in response to dynamic environmental conditions during post-nesting migration}, journal = {PLOS ONE}, volume = {10}, year = {2015}, month = {Nov-09-2016}, pages = {e0137340}, doi = {10.1371/journal.pone.0137340}, url = {https://dx.plos.org/10.1371/journal.pone.0137340}, author = {Chambault, Philippine and Pinaud, David and Vantrepotte, Vincent and Kelle, Laurent and Entraygues, Mathieu and Guinet, Christophe and Berzins, Rachel and Bilo, Karin and Gaspar, Philippe and de Thoisy, Beno{\^\i}t and Le Maho, Yvon and Chevallier, Damien} } @article {4102, title = {DNA Barcoding Indonesian freshwater fishes: challenges and prospects.}, journal = {DNA barcode}, volume = {3}, year = {2015}, pages = {144-169}, keywords = {Checklist, DNA barcoding, Southeast Asia}, author = {Hubert, Nicolas and Kadarusman and Wibowo, A and Fr{\'e}d{\'e}ric Busson and Caruso, D. and Sulandari, S. and Nafiqoh, N and R{\"u}ber, L and Pouyaud, L and Avarre, JC and Herder, F and Hanner, R and Philippe Keith and Hadiaty, Renny} } @article {4356, title = {DNA barcoding of Javanese and Balinese freshwater fishes: molecular insights into a poorly known ichthyofauna.}, journal = {Genome}, volume = {58}, year = {2015}, pages = {209}, author = {Darhuddin, H. and Hutama, A. and Fr{\'e}d{\'e}ric Busson and Sauri, S and Philippe Keith and Hanner, R and Hadiaty, Renny and Hubert, Nicolas} } @article {4099, title = {Do Sicydium punctatum adults move in the Caribbean estuaries? New insight from strontium isotopes.}, journal = {Life and environment}, volume = {65}, year = {2015}, pages = {85-89.}, keywords = {INSULAR RIVERS, MICROCHEMISTRY, MIGRATIONS, otolith, SICYDIINAE., STRONTIUM}, author = {H{\'e}l{\`e}ne Tabouret and Monti, Dominique and Martin, J and Berail, S and P{\'e}cheyran, C and Philippe Keith and Bareille, Gilles} } @article {5237, title = {The endocrine-disrupting effect and other physiological responses of municipal effluent on the clam Ruditapes decussatus}, journal = {Environ Sci Pollut Res Int. }, volume = {22}, year = {2015}, pages = {19716-28}, type = {research}, author = {Mezghani-Chaari, Sawssan and Monia Machreki-Ajmi and Gauthier Tremolet and Kristell Kellner-Cousin and Alain Geffard and Christophe Minier and Hamza-Chaffai, Amel} } @article {4420, title = {The endocrine-disrupting effect and other physiological responses of municipal effluent on the clam Ruditapes decussatus.}, journal = {Environ Sci Pollut Res Int}, volume = {22}, year = {2015}, month = {2015 Dec}, pages = {19716-28}, abstract = {

In order to document the potential endocrine disrupting and toxic effect of the municipal wastewater effluents discharged into the Sfax coastal area (South of Tunisia), specimens of clam R. decussatus were collected from a reference site and were in vivo exposed to treated sewage effluent for 30 days. To this end, estrogenic and androgenic activities were measured in the gills to assess potential accumulation and regulation of active compounds. After effluent exposure androgenic activity in organic extracts increased up to fivefold compared to controls and remained elevated, while estrogenic activity was not significantly affected by exposure. As a consequence, remarkable disruptions in the gametogenesis activity, glycogen content, and Vitellogenin-like protein levels in male clams were observed. A parallel analysis of heavy metals in clam tissues was determined. A significant uptake of Ni, Zn, and Pb in soft tissues of exposed clams was observed. The significant increase of malondialdehyde (MDA) concentrations as a function of exposure time implies that clams have been exposed to an oxidative stress probably due to the presence of high metal concentrations in sewage effluent. Correlation analysis has revealed a statistically significant and positive relationship between MDA levels and metal concentrations in clams{\textquoteright} tissues. The acetylcholinesterase activity was not significantly affected by exposure. Altogether, these results showed that a short-term exposure to a mixture of chemical compounds released by the Sfax wastewater treatment plant induce adverse physiological and reproductive effects in R. decussatus. Further studies are underway in order to evaluate its long-term impacts on aquatic wildlife in the gulf of Gabes area.

}, issn = {1614-7499}, doi = {10.1007/s11356-015-5199-7}, author = {Mezghani-Chaari, Sawssan and Machreki-Ajmi, Monia and Tremolet, Gauthier and Kristell Kellner-Cousin and Geffard, Alain and Minier, Christophe and Hamza-Chaffai, Amel} } @article {4429, title = {The freshwater fish fauna history between Rhine and Ebro: general considerations and comments from on-going developments in fish taxonomy.}, journal = {Frontiers in Marine Science}, volume = {2}, year = {2015}, author = {Persat, Henri and Denys, Ga{\"e}l and Dettai, Agn{\`e}s and Philippe Keith} } @article {4355, title = {Freshwater neritids (Mollusca: Gastropoda) of tropical islands, amphidromy as a life cycle, a review}, journal = {Revue d{\textquoteright}{\'e}cologie (Terre et Vie)}, volume = {70}, year = {2015}, pages = {387-397}, author = {Ahmed Abdou and Philippe Keith and Ren{\'e} Galzin} } @article {5817, title = {{Future vulnerability of marine biodiversity compared with contemporary and past changes}}, journal = {Nature Climate Change}, volume = {5}, year = {2015}, abstract = {

{\textcopyright} 2015 Macmillan Publishers Limited. Many studies have implied significant effects of global climate change on marine life. Setting these alterations into the context of historical natural change has not been attempted so far, however. Here, using a theoretical framework, we estimate the sensitivity of marine pelagic biodiversity to temperature change and evaluate its past (mid-Pliocene and Last Glacial Maximum (LGM)), contemporaneous (1960-2013) and future (2081-2100; 4 scenarios of warming) vulnerability. Our biodiversity reconstructions were highly correlated to real data for several pelagic taxa for the contemporary and the past (LGM and mid-Pliocene) periods. Our results indicate that local species loss will be a prominent phenomenon of climate warming in permanently stratified regions, and that local species invasion will prevail in temperate and polar biomes under all climate change scenarios. Although a small amount of warming under the RCP2.6 scenario is expected to have a minor influence on marine pelagic biodiversity, moderate warming (RCP4.5) will increase by threefold the changes already observed over the past 50 years. Of most concern is that severe warming (RCP6.0 and 8.5) will affect marine pelagic biodiversity to a greater extent than temperature changes that took place between either the LGM or the mid-Pliocene and today, over an area of between 50 (RCP6.0: 46.9-52.4{\%}) and 70{\%} (RCP8.5: 69.4-73.4{\%}) of the global ocean.

}, issn = {17586798}, doi = {10.1038/nclimate2650}, author = {Gr{\'e}gory Beaugrand and Martin Edwards and Raybaud, V. and Goberville, Eric and Richard R Kirby} } @article {4419, title = {GigaTON: an extensive publicly searchable database providing a new reference transcriptome in the pacific oyster Crassostrea gigas.}, journal = {BMC Bioinformatics}, volume = {16}, year = {2015}, month = {2015}, pages = {401}, abstract = {

BACKGROUND: The Pacific oyster, Crassostrea gigas, is one of the most important aquaculture shellfish resources worldwide. Important efforts have been undertaken towards a better knowledge of its genome and transcriptome, which makes now C. gigas becoming a model organism among lophotrochozoans, the under-described sister clade of ecdysozoans within protostomes. These massive sequencing efforts offer the opportunity to assemble gene expression data and make such resource accessible and exploitable for the scientific community. Therefore, we undertook this assembly into an up-to-date publicly available transcriptome database: the GigaTON (Gigas TranscriptOme pipeliNe) database.

DESCRIPTION: We assembled 2204 million sequences obtained from 114 publicly available RNA-seq libraries that were realized using all embryo-larval development stages, adult organs, different environmental stressors including heavy metals, temperature, salinity and exposure to air, which were mostly performed as part of the Crassostrea gigas genome project. This data was analyzed in silico and resulted into 56621 newly assembled contigs that were deposited into a publicly available database, the GigaTON database. This database also provides powerful and user-friendly request tools to browse and retrieve information about annotation, expression level, UTRs, splice and polymorphism, and gene ontology associated to all the contigs into each, and between all libraries.

CONCLUSIONS: The GigaTON database provides a convenient, potent and versatile interface to browse, retrieve, confront and compare massive transcriptomic information in an extensive range of conditions, tissues and developmental stages in Crassostrea gigas. To our knowledge, the GigaTON database constitutes the most extensive transcriptomic database to date in marine invertebrates, thereby a new reference transcriptome in the oyster, a highly valuable resource to physiologists and evolutionary biologists.

}, keywords = {Animals, Base Sequence, Computational Biology, Crassostrea, Databases, Genetic, Gene Library, Gene Ontology, Genome, High-Throughput Nucleotide Sequencing, Molecular Sequence Data, Sequence Analysis, RNA, Software, Transcriptome}, issn = {1471-2105}, doi = {10.1186/s12859-015-0833-4}, author = {Guillaume Rivi{\`e}re and Klopp, Christophe and Ibouniyamine, Nabihoudine and Huvet, Arnaud and Boudry, Pierre and Pascal Favrel} } @article {8585, title = {Identification of key marine areas for conservation based on satellite tracking of post-nesting migrating green turtles (Chelonia mydas)}, journal = {Biological Conservation}, volume = {184}, year = {2015}, month = {Jan-04-2015}, pages = {36 - 41}, issn = {00063207}, doi = {10.1016/j.biocon.2014.12.021}, url = {https://linkinghub.elsevier.com/retrieve/pii/S000632071400500X}, author = {Baudouin, Marie and de Thoisy, Beno{\^\i}t and Chambault, Philippine and Berzins, Rachel and Entraygues, Mathieu and Kelle, Laurent and Turny, Avasania and Le Maho, Yvon and Chevallier, Damien} } @article {5041, title = {Incorporating food-web parameter uncertainty into Ecopath-derived ecological network indicators}, journal = {ECOLOGICAL MODELLING}, volume = {313}, year = {2015}, month = {OCT 10}, pages = {29-40}, abstract = {

Ecological network analysis (ENA) provides numerous ecosystem level indices offering a valuable approach to compare and categorize the ecological structure and function of ecosystems. The inclusion of ENA methods in Ecopath with Ecosim (EwE) has insured their continued contribution to ecosystem-based management. In EwE, ENA-derived ecological conclusions are currently based on single values of ENA indices calculated from a unique input flow matrix. Here, we document an easy-to-use routine that allows EwE users to incorporate uncertainty in EwE input data into the calculation of ENA indices. This routine, named ENAtool, is a suite of Matlab functions that performs three main steps: (1) import of an existing Ecopath model and its associated parameter uncertainty values in the form of uncertainty intervals into Matlab; (2) generation of an ensemble of Ecopath models with the same structure as the original, and with parameter values varying based on the prescribed uncertainty limits; and (3) calculation of a set of 13 ENA indices for each ensemble member (one set of flow values) and of summary statistics across the whole ensemble. This novel routine offers the opportunity to calculate ENA indices ranges and confidence intervals, and thus to perform quantitative data analyses. An application of ENAtool on a pre-existing Ecopath model of the Bay of Biscay continental shelf is presented, with a focus on the robustness of previously published ENA-based ecological traits of this ecosystem when the newly introduced uncertainty values are added. We also describe the sensitivity of the ENAtool results to both the number of ensemble members used and to the uncertainty interval set around each input parameter. Ecological conclusions derived from EwE, particularly those regarding the comparison of structural and functional elements for a range of ecosystem types or the assessment of ecosystem properties along gradients of environmental conditions or anthropogenic disturbances, will gain in statistical interpretability. (C) 2015 Elsevier B.V. All rights reserved.

}, issn = {{0304-3800}}, doi = {{10.1016/j.ecolmodel.2015.05.036}}, author = {Guesnet, Vanessa and G{\'e}raldine Lassalle and Chaalali, Aur{\'e}lie and Kearney, Kelly and Saint-B{\'e}at, B and Karimi, Battle and Grami, Boutheina and Samuele Tecchio and Nathalie Niquil and Lobry, Jeremy} } @book {4364, title = {Indo-Pacific Sicydiine Gobies: biodiversity, life traits and conservation.}, year = {2015}, pages = {256}, publisher = { Soci{\'e}t{\'e} Fran{\c c}aise d{\textquoteright}Icthyologie}, organization = { Soci{\'e}t{\'e} Fran{\c c}aise d{\textquoteright}Icthyologie}, address = {Paris}, author = {Philippe Keith and Clara Lord and Maeda, Ken} } @article {4021, title = {Inputs from Microchemistry to the understanding of three Sicydiinae species{\textquoteright} life cycle. }, journal = {Life and environment}, volume = {65}, year = {2015}, pages = {73-84}, keywords = {amphidromy, LIFE HISTORY, MICROCHEMISTRY, Sicydiinae}, author = {Taillebois, Laura and H{\'e}l{\`e}ne Tabouret and P{\'e}cheyran, C and Philippe Keith} } @article {4100, title = {Inputs from Microchemistry to the understanding of three Sicydiinae species{\textquoteright} life cycle. }, journal = { Life and environment.}, volume = {65}, year = {2015}, pages = {73-84}, keywords = {amphidromy, LIFE HISTORY, MICROCHEMISTRY, Sicydiinae}, author = {Taillebois, Laura and H{\'e}l{\`e}ne Tabouret and P{\'e}cheyran, C and Philippe Keith} } @article {3847, title = {Invalidity of Gasterosteus gymnurus (Cuvier, 1829) (Actinopterygii, Gasterosteidae) according to integrative taxonomy. }, journal = {Cybium}, volume = {39}, year = {2015}, pages = {37-45}, keywords = {Cytochrome C, Gasterosteidae Gasterosteus aculeatus Gasterosteus gymnurus Gasterosteus islandicus, Integrative taxonomy, oxidase subunit 1}, author = {Denys, Ga{\"e}l and Geiger Mathias and Persat, Henri and Philippe Keith and Dettai, Agn{\`e}s} } @article {3848, title = {INVENTAIRES ET ATLAS NATIONAUX DE DISTRIBUTION : POUR UNE APPROCHE PLUS IT{\'E}RATIVE ET UN R{\'E}{\'E}QUILIBRAGE TAXINOMIQUE}, journal = {Revue d{\textquoteright}Ecologie (Terre et Vie)}, volume = {70}, year = {2015}, pages = {97-120}, author = {Julien Touroult and Laurent PONCET and Philippe Keith and Vincent Boullet and G{\'e}rard ARNAL and Herv{\'e} Brustel and Jean-Philippe SIBLET} } @article {4363, title = {A new species of Sicyopterus (Teleostei: Gobiidae) from Indonesia. }, journal = {Cybium}, volume = {39}, year = {2015}, pages = {243-248}, author = {Philippe Keith and Clara Lord and Sauri, S and Fr{\'e}d{\'e}ric Busson and Hubert, Nicolas and Hadiaty, Renny} } @article {4103, title = {A new Stiphodon from Indonesia (Teleostei: Gobiidae)}, journal = {Cybium}, volume = {39.}, year = {2015}, pages = {219-225}, keywords = {Freshwater, Gobiidae, Indonesia, New species, Stiphodon aureofuscus}, author = {Philippe Keith and Fr{\'e}d{\'e}ric Busson and Sauri, S and Hubert, N and Hadiaty, Renny} } @article {4360, title = {A new Stiphodon from Indonesia (Teleostei: Gobiidae)}, journal = {Cybium}, volume = {39}, year = {2015}, pages = {219-225}, keywords = {Indonesia, New species, Stiphodon}, author = {Philippe Keith and Clara Lord and Fr{\'e}d{\'e}ric Busson and Sauri, S and Hubert, Nicolas and Hadiaty, Renny} } @article {4196, title = {Ontogenetic dietary and habitat shifts in Goliath grouper, Epinephelus itajara, from French Guiana.}, journal = {Endangered species Research}, volume = {27}, year = {2015}, month = {2015}, pages = {155-168}, author = {C Artero and C.C. Koenig and P. Richard and R. Berzins and G. Guillou and C. Bouchon and L. Lampert} } @article {4098, title = {Population structure of the Asian amphidromous Sicydiinae goby, Stiphodon percnopterygionus with comments on larval dispersal in the northwest Pacific Ocean. }, journal = {Life and Environment}, volume = {65}, year = {2015}, pages = {63-71}, keywords = {amphidromy, larval dispersal, POPULATION STRUCTURE, Sicydiinae, Stiphodon}, author = {Clara Lord and Maeda, Ken and Philippe Keith and Watanabe, S} } @article {4019, title = {Population structure of the Asian amphidromous Sicydiinae goby, Stiphodon percnopterygionus with comments on larval dispersal in the northwest Pacific Ocean.}, journal = {Life and Environment,}, volume = { 65}, year = {2015}, pages = {63-71}, keywords = {amphidromy, Larval dispersa, Population structure., Sicydiinae, Stiphodon}, author = {Clara Lord and Maeda, Ken and Philippe Keith and Watanabe, S} } @article {3385, title = {Relationships between biodiversity and the stability of marine ecosystems: Comparisons at a European scale using meta-analysis}, journal = {Journal of Sea Research}, volume = {98}, year = {2015}, pages = {5-14}, abstract = {

Abstract The relationship between biodiversity and stability of marine benthic assemblages was investigated through meta-analyses using existing data sets (n\ =\ 28) covering various spatial (m{\textendash}km) and temporal (1973{\textendash}2006; ranging from 5 to \>\ 250\ months) scales in different benthic habitats (emergent rock, rock pools and sedimentary habitats) over different European marine systems (North Atlantic and western Mediterranean). Stability was measured by a lower variability in time, and variability was estimated as temporal variance of species richness, total abundance (density or \% cover) and community structure (using Bray{\textendash}Curtis dissimilarities on species composition and abundance). Stability generally decreased with species richness. Temporal variability in species richness increased with the number of species at both quadrat (\<\ 1\ m2) and site (\ \ 100\ m2) scales, while no relationship was observed by multivariate analyses. Positive relationships were also observed at the scale of site between temporal variability in species richness and variability in community structure with evenness estimates. This implies that the relationship between species richness or evenness and species richness variability is slightly positive and depends on the scale of observation. Thus, species richness does not stabilize temporal fluctuations in species number, rather species rich assemblages are those most likely to undergo the largest fluctuations in species numbers and abundance from time to time. Changes within community assemblages in terms of structure are, however, generally independent of biodiversity. Except for sedimentary and rock pool habitats, no relationship was observed between temporal variation of total abundances and diversity at either scale. Overall, our results emphasize that the relation between species richness and species-level measures of temporal variability depends on scale of measurements, type of habitats and the marine system (North Atlantic and Mediterranean) considered.

}, keywords = {Benthic Marine Coastal Habitats, Biodiversity Ecosystem Functioning, Community Variability, Diversity{\textendash}Stability Relationships, Temporal Variability}, issn = {1385-1101}, doi = {http://dx.doi.org/10.1016/j.seares.2014.08.004}, url = {http://www.sciencedirect.com/science/article/pii/S1385110114001609}, author = {Cusson, Mathieu and Tasman P. Crowe and Rita Ara{\'u}jo and Francisco Arenas and Rebbecca Aspden and Fabio Bulleri and Dominique Davoult and Kirstie Dyson and Simonetta Fraschetti and Kristjan Herk{\"u}l and C{\'e}dric Hubas and Stuart Jenkins and Jonne Kotta and Patrik Kraufvelin and Migne, A and Markus Molis and Olwyen Mulholland and Laure M.-L.J. No{\"e}l and Paterson, David M and James Saunders and Paul J. Somerfield and Isabel Sousa-Pinto and Nicolas Spilmont and Antonio Terlizzi and Lisandro Benedetti-Cecchi} } @article {4156, title = {Review of the Eulimnadia (Branchiopoda: Spinicaudata) from North Africa and adjacent regions, with two new species from Mauritania }, journal = {Journal of Crustacean Biology}, volume = {35}, year = {2015}, pages = {461-472}, type = {Research Article}, author = {Nicolas Rabet and Fran{\c c}ois Clarac and Pascal Lluch and Eric Gallerne and Michael Korn} } @article {4362, title = {Revision of vernacular names for the freshwater fish of French Guiana.}, journal = {Cybium}, volume = {39}, year = {2015}, pages = {279-300}, author = {Grenand, Pierre and Chapuis, Jean and Cognat Andr{\'e} and Cristinoi Antonia and Davy Damien and Grenand Fran{\c c}oise and Michel J{\'e}gu and Philippe Keith and Martin, Emmanuel and Nemo Fran{\c c}ois and Pagezy H{\'e}l{\`e}ne and Le Bail, Pierre-Yves} } @article {3941, title = {Spatial changes in fatty acids signatures of the great scallop Pecten maximus across the Bay of Biscay continental shelf}, journal = {Continental Shelf Research}, volume = {109}, year = {2015}, month = {15/10/2015}, pages = {1-9}, abstract = {

The spatial variability of food resources along continental margins can strongly influence the physiology and ecology of benthic bivalves. We explored the variability of food sources of the great scallop Pecten maximus, by determining their fatty acid (FA) composition along an inshore{\textendash}offshore gradient in the Bay of Biscay (from 15 to 190\ m depth). The FA composition of the digestive gland showed strong differences between shallow and deep-water habitats. This trend was mainly driven by their content in diatom-characteristic fatty acids, which are abundant near the coast. Scallops collected from the middle of the continental shelf were characterized by higher contents of flagellate markers than scallops from shallow habitats. This could be related to a permanent vertical stratification in the water column, which reduced vertical mixing of waters, thereby enhancing organic matter recycling through the microbial loop. In the deeper water station (190\ m), FA compositions were close to the compositions found in scallops from shallow areas, which suggest that scallops could have access to the same resources (i.e. diatoms). Muscle FA composition was more indicative of the physiological state of scallops over this depth range, revealing contrasting reproductive strategies among the two coastal sites and metabolic or physiological adaptation at greater depth (e.g. structural and functional adjustments of membrane composition). This study therefore revealed contrasted patterns between shallow and deeper habitats for both P. maximus muscle and digestive gland tissues. This emphasizes the variability in the diet of this species along its distribution range, and stresses the importance of analyzing different tissues for their FA composition in order to better understand their physiology and ecology.

}, keywords = {Depth gradient, fatty acids, Metabolism, Pecten maximus, Trophic markers}, author = {Nerot, C and Tarik Meziane and Gauthier Schaal and Grall, J and Lorrain, A and Paullet, Y-M and Kraffe, E} } @article {9379, title = {Spiralian Phylogeny Informs the Evolution of Microscopic Lineages}, journal = {Current Biology}, volume = {25}, year = {2015}, month = {Jan-08-2015}, pages = {2000 - 2006}, issn = {09609822}, doi = {10.1016/j.cub.2015.06.068}, url = {https://linkinghub.elsevier.com/retrieve/pii/S0960982215007952}, author = {Laumer, Christopher~E. and Bekkouche, Nicolas and Kerbl, Alexandra and Goetz, Freya and Neves, Ricardo~C. and S{\o}rensen, Martin~V. and Kristensen, Reinhardt~M. and Hejnol, Andreas and Dunn, Casey~W. and Giribet, Gonzalo and Worsaae, Katrine} } @article {3849, title = {Stiphodon annieae, a new species of freshwater goby from Indonesia (Teleostei: Gobiidae). }, journal = {Cybium}, volume = {38}, year = {2015}, pages = {267-272}, keywords = {Freshwater, Halmahera, Indonesia, New species, Stiphodon annieae}, author = {Philippe Keith and Hadiaty, Renny} } @article {3900, title = {Stock structure of the {English} {Channel} common cuttlefish {Sepia} officinalis ({Linnaeus}, 1758) during the reproduction period}, journal = {Journal of the Marine Biological Association of the United Kingdom}, year = {2015}, pages = {1{\textendash}10}, abstract = {

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

}, issn = {0025-3154, 1469-7769}, doi = {10.1017/S0025315415001162}, url = {http://www.journals.cambridge.org/abstract_S0025315415001162}, author = {Gras, Michael and Safi, Georges and Lebredonchel, Hugo and Quinquis, J{\'e}r{\^o}me and Foucher, Eric and Koueta, Noussith{\'e} and Jean-Paul Robin} } @article {3619, title = {Trace metal concentrations in post-hatching cuttlefish Sepia officinalis and consequences of dissolved zinc exposure.}, journal = {Aquat Toxicol}, volume = {159}, year = {2015}, month = {2015 Feb}, pages = {23-35}, abstract = {

In this study, we investigated the changes of 13 trace metal and metalloid concentrations (i.e. Ag, As, Cd, Co, Cr, Cu, Fe, Mn, Ni, Pb, Se, V, Zn) and their subcellular fractionation in juvenile cuttlefish Sepia officinalis reared in controlled conditions between hatching and 2 months post-hatching. In parallel, metallothionein concentrations were determined. Our results highlighted contrasting changes of studied metals. Indeed, As and Fe concentrations measured in hatchlings suggested a maternal transfer of these elements in cuttlefish. The non-essential elements Ag and Cd presented the highest accumulation during our study, correlated with the digestive gland maturation. During the 6 first weeks of study, soluble fractions of most of essential trace metals (i.e. Co, Cr, Cu, Fe, Se, Zn) slowly increased consistently with the progressive needs of cuttlefish metabolism during this period. In order to determine for the first time in a cephalopod how metal concentrations and their subcellular distributions are impacted when the animals are trace metal-exposed, we studied previously described parameters in juveniles exposed to dissolved Zn at environmental (i.e. 50 μg l(-1)) and sublethal (i.e. 200 μg l(-1)) levels. Moreover, oxidative stress (i.e. glutathione S-transferase (GST), superoxide dismutase (SOD) and catalase activities, and lipid peroxidation (LPO)) was assessed in digestive gland and gills after 1 and 2 months exposures. Our results highlighted no or low ability of this stage of life to regulate dissolved Zn accumulation during the studied period, consistently with high sensitivity of this organism. Notably, Zn exposures caused a concentration-dependent Mn depletion in juvenile cuttlefish, and an increase of soluble fraction of Ag, Cd, Cu without accumulation modifications, suggesting substitution of these elements (i.e. Mn, Ag, Cd, Cu) by Zn. In parallel, metallothionein concentrations decreased in individuals most exposed to Zn. Finally, no perturbations in oxidative stress management were detected in gills, whereas modifications of GST, SOD and catalase activity levels were recorded in digestive gland, resulting in an increase of LPO content after a 6-week exposure to low Zn concentration. Altogether, these perturbations are consistent with previously described high sensitivity of juvenile cuttlefish towards Zn. Our results underlined the need to study deeply contamination impact on this animal at this stage of life.

}, issn = {1879-1514}, doi = {10.1016/j.aquatox.2014.11.012}, author = {Le Pabic, C and Christelle Caplat and Lehodey Jean-Paul and Milinkovitch, Thomas and Sim{\'e}oni Koueta-Noussith{\'e} and Cosson, Richard Philippe and Paco Bustamante} } @article {3930, title = {The use of {Depletion} {Methods} to assess {Mediterranean} cephalopod stocks under the current {EU} {Data} {Collection} {Framework}}, journal = {Mediterranean Marine Science}, year = {2015}, pages = {513{\textendash}523}, doi = {DOI: http://dx.doi.org/10.12681/mms.1127}, url = {http://www.medit-mar-sc.net/index.php/marine/article/view/1127/671}, author = {Keller, S and Jean-Paul Robin and Valls, M and Gras, Michael and Cabanellas-Reboredo, M and Quetglas, A} } @article {5040, title = {Using ecological models to assess ecosystem status in support of the European Marine Strategy Framework Directive}, journal = {ECOLOGICAL INDICATORS}, volume = {58}, year = {2015}, month = {NOV}, pages = {175-191}, abstract = {

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

}, issn = {{1470-160X}}, doi = {{10.1016/j.ecolind.2015.05.037}}, author = {Piroddi, Chiara and Teixeira, Heliana and Lynam, Christopher P. and Smith, Chris and Alvarez, Maria C. and Mazik, Krysia and Andonegi, Eider and Churilova, Tanya and Tedesco, Letizia and Chifflet, Marina and Chust, Guillem and Galparsoro, Ibon and Garcia, Ana Carla and Kamari, Maria and Kryvenko, Olga and G{\'e}raldine Lassalle and Neville, Suzanna and Nathalie Niquil and Papadopoulou, Nadia and Rossberg, Axel G. and Suslin, Vjacheslav and Uyarra, Maria C.} } @article {Abril2014, title = {{Amazon River carbon dioxide outgassing fuelled by wetlands}}, journal = {Nature}, volume = {505}, year = {2014}, pages = {395-398}, publisher = {Nature}, doi = {10.1038/nature12797}, author = {Gwena{\"e}l Abril and Martinez, Jean Michel and Luis Felipe Artigas and Moreira-Turcq, Patricia and Marc F Benedetti and Vidal, Luciana and Tarik Meziane and Kim, Jung-Hyun and Bernardes, Marcelo C and Savoye, Nicolas and Deborde, Jonathan and Lima Souza, Edivaldo and Alb{\'e}ric, Patrick and Fernandes, Marcelo and de Souza, Landim and Roland, Fabio} } @article {3722, title = {Amphidromy and marine larval phase of ancestral Gobioids Rhyacichthys guilberti and Protogobius attiti (Teleostei: Rhyacichthyidae).}, journal = {Marine and Freshwater Research}, volume = {65}, year = {2014}, pages = {776{\textendash}783}, abstract = {

Even if amphidromous fish species contribute most to the diversity of fish communities in the tropical insular
rivers, their biological cycle remain poorly known. For the first time, the otolith elemental composition and microstructure
of two ancestral gobioids, Rhyacichthys guilberti and Protogobius attiti, were investigated to describe their biological
cycle and pelagic larval duration (PLD). The otolith analysis using a femtosecond laser ablation coupled to an inductively
coupled plasma{\textendash}mass spectrometer (fs-LA-ICP-MS) revealed an amphidromous life history for R. guilberti and it
suggested a progressive habitat shift from a marine habitat to a freshwater environment for P. attiti. For the first time, an
endemic species, P. attiti, showed longer and more variable PLD (55.213.5 days) than did a widespread one
(R. guilberti: ,30 days). These results need to be confirmed by analysing more samples but suggest that factors other
than the PLD control endemism and dispersal processes. In association with this first description of the biological cycle for
both species, such an approach is a prerequisite for the management and conservation of both patrimonial species.

}, keywords = {diadromy, freshwater gobies, otolith microchemistry, tropical islands.}, author = {H{\'e}l{\`e}ne Tabouret and Tomadin, Marina and Taillebois, Laura and Iida, Midori and Clara Lord and P{\'e}cheyran, C and Philippe Keith} } @inbook {3857, title = { Biogeographic patterns of fish}, booktitle = { The Biogeographic Atlas of the Southern Ocean }, year = {2014}, author = {Percy-Alexander Hulley and Causse, Romain and Koubbi, Philippe and Vacchi, Marino} } @article {3264, title = {Cephalopods in neuroscience: regulations, research and the 3Rs.}, journal = {Invert Neurosci}, volume = {14}, year = {2014}, month = {2014 Mar}, pages = {13-36}, abstract = {

Cephalopods have been utilised in neuroscience research for more than 100\ years particularly because of their phenotypic plasticity, complex and centralised nervous system, tractability for studies of learning and cellular mechanisms of memory (e.g. long-term potentiation) and anatomical features facilitating physiological studies (e.g. squid giant axon and synapse). On 1 January 2013, research using any of the about 700 extant species of "live cephalopods" became regulated within the European Union by Directive 2010/63/EU on the "Protection of Animals used for Scientific Purposes", giving cephalopods the same EU legal protection as previously afforded only to vertebrates. The Directive has a number of implications, particularly for neuroscience research. These include: (1) projects will need justification, authorisation from local competent authorities, and be subject to review including a harm-benefit assessment and adherence to the 3Rs principles (Replacement, Refinement and Reduction). (2) To support project evaluation and compliance with the new EU law, guidelines specific to cephalopods will need to be developed, covering capture, transport, handling, housing, care, maintenance, health monitoring, humane anaesthesia, analgesia and euthanasia. (3) Objective criteria need to be developed to identify signs of pain, suffering, distress and lasting harm particularly in the context of their induction by an experimental procedure. Despite diversity of views existing on some of these topics, this paper reviews the above topics and describes the approaches being taken by the cephalopod research community (represented by the authorship) to produce "guidelines" and the potential contribution of neuroscience research to cephalopod welfare.

}, keywords = {3Rs, Animal welfare, Cephalopods, Directive2010/63/EU, Neuroscience}, issn = {1439-1104}, doi = {10.1007/s10158-013-0165-x}, author = {Fiorito, Graziano and Affuso, Andrea and Anderson, David B and Basil, Jennifer and Laure Bonnaud-Ponticelli and Botta, Giovanni and Cole, Alison and D{\textquoteright}Angelo, Livia and De Girolamo, Paolo and Dennison, Ngaire and Dickel, Ludovic and Di Cosmo, Anna and Di Cristo, Carlo and Gestal, Camino and Fonseca, Rute and Grasso, Frank and Kristiansen, Tore and Kuba, Michael and Maffucci, Fulvio and Manciocco, Arianna and Mark, Felix Christopher and Melillo, Daniela and Osorio, Daniel and Palumbo, Anna and Perkins, Kerry and Ponte, Giovanna and Raspa, Marcello and Shashar, Nadav and Smith, Jane and Smith, David and Sykes, Ant{\'o}nio and Villanueva, Roger and Tublitz, Nathan and Zullo, Letizia and Andrews, Paul} } @inbook {5148, title = {Chapter 7. Biogeographic patterns of fish}, booktitle = {Biogeographic Atlas of the Southern Ocean}, year = {2014}, pages = {327{\textendash}362}, edition = {In: De Broyer C., Koubbi P., Griffiths H.J., Raymond B., Udekem d{\textquoteright}Acoz C. d{\textquoteright}, et al. (eds.)}, chapter = {7}, isbn = {978-0-948277-28-3}, author = {Guy Duhamel and Percy-Alexander Hulley and Causse, Romain and Koubbi, Philippe and Vacchi, Marino and Patrice Pruvost and Vigetta, Stephanie and Irisson, J.-O. and Mormede, Sophie and Belchier, Mark and others} } @article {9378, title = {Detailed reconstruction of the musculature in Limnognathia maerski (Micrognathozoa) and comparison with other Gnathifera}, journal = {Frontiers in Zoology}, volume = {11}, year = {2014}, month = {Jan-12-2014}, doi = {10.1186/s12983-014-0071-z}, url = {https://frontiersinzoology.biomedcentral.com/articles/10.1186/s12983-014-0071-z}, author = {Bekkouche, Nicolas and Kristensen, Reinhardt M and Hejnol, Andreas and S{\o}rensen, Martin V and Worsaae, Katrine} } @article {3725, title = {Distocyclus guchereauae a new species of Neotropical electric fish, (Gymnotiformes: Sternopygidae), from French Guiana.}, journal = {Cybium}, volume = {38}, year = {2014}, pages = {223-230}, keywords = {Distocyclus guchereauae, French Guiana, Gymnotiformes, New species, Sternopygidae}, author = {Fran{\c c}ois J Meunier and Philippe Keith and Michel J{\'e}gu} } @article {3605, title = {The effect of cold stress on the proteome of the marine bacteriumPseudomonas fluorescens BA3SM1 and its ability to copewith metal excess}, journal = {Aquatic Toxicology}, volume = {157}, year = {2014}, month = {10/2014}, pages = {120-133}, abstract = {

This study examined the effect of cold stress on the proteome and metal tolerance of Pseudomonas fluo-rescens BA3SM1, a marine strain isolated from tidal flat sediments. When cold stress (+10{\textopenbullet}C for 36 h)was applied before moderate metal stress (0.4 mM Cd, 0.6 mM Cd, 1.5 mM Zn, and 1.5 mM Cu), growthdisturbances induced by metal, in comparison with respective controls, were reduced for Cd and Znwhile they were pronounced for Cu. This marine strain was able to respond to cold stress through a num-ber of changes in protein regulation. Analysis of the predicted differentially expressed protein functionsdemonstrated that some mechanisms developed under cold stress were similar to those developed inresponse to Cd, Zn, and Cu. Therefore, pre-cold stress could help this strain to better counteract toxicityof moderate concentrations of some metals. P. fluorescens BA3SM1 was able to remove up to 404.3 mgCd/g dry weight, 172.5 mg Zn/g dry weight, and 11.3 mg Cu/g dry weight and its metal biosorption abilityseemed to be related to the bacterial growth phase. Thus, P. fluorescens BA3SM1 appears as a promisingagent for bioremediation processes, even at low temperatures.

}, keywords = {Cold stress, Marine strain, Metal biosorptiona, Proteomics, Pseudomonas fluorescens}, author = {Isabelle Poirier and Lauriane Kuhn and Christelle Caplat and Philippe Hammann and Martine Bertrand} } @article {3511, title = {Effects of acute exposures to mecoprop, mecoprop-p and their biodegradation product (2-MCP) on the larval stages of the Pacific oyster, Crassostrea gigas.}, journal = {Aquat Toxicol}, volume = {146}, year = {2014}, month = {2014 Jan}, pages = {165-75}, abstract = {

Studies have shown that pesticides are sometimes detected at rather high levels in seawater and it has been suggested that these chemical compounds could act as additional stress factor for oysters cultured in coastal environments. The effects of pesticides on marine molluscs could be particularly harmful in the early stages which correspond to critical life stages. This study aimed to assess the effects of mecoprop, mecoprop-p and their degradation compound 2-methyl-4-chlorophenol on two larval stages of Crassostrea gigas. Embryotoxic effects were assessed on veliger larvae after 36 h exposures, and both percentages of normal larvae and types of abnormalities were taken into account. The effects of the three substances were evaluated on 21-day-old pediveliger larvae by calculating metamorphosis rates after 24h exposures. The results of the embryotoxicity assay indicated that 2-methyl-4-chlorophenol was more toxic (EC50: 10.81 mg L(-1)) than its parent compounds (EC50 mecoprop: 42.55 mg L(-1); EC50 mecoprop-p: 78.85 mg L(-1)). Mecoprop in particular injured shell formation with an increase of shell abnormalities following herbicide concentrations. The active substances were not toxic to metamorphosis processes, but 2-MCP was revealed to be more toxic to the success of metamorphosis (EC50: 7.20 mg L(-1)) than to embryo-larval development. However, the toxic concentrations were several orders of magnitude higher than environmental concentrations.

}, keywords = {2-Methyl-4-chlorophenoxyacetic Acid, Animals, Chlorophenols, Crassostrea, Embryo, Nonmammalian, Larva, Metamorphosis, Biological, Water Pollutants, Chemical}, issn = {1879-1514}, doi = {10.1016/j.aquatox.2013.11.008}, author = {Mottier, A and Kientz-Bouchart, Val{\'e}rie and Dubreule, Christelle and Antoine Serpentini and Jean-Marc Lebel and Katherine Costil} } @article {3508, title = {Hemocyte morphology and phagocytic activity in the common cuttlefish (Sepia officinalis).}, journal = {Fish Shellfish Immunol}, volume = {40}, year = {2014}, month = {2014 Oct}, pages = {362-73}, abstract = {

Little is known about the immune system of cephalopods, in spite of their many highly derived characters within the molluscan clade, including a vertebrate-like high-pressure closed circulatory system. Further the economic importance of cephalopod fisheries, potential for aquaculture, and use as ecotoxicology models demand a thorough understanding of their immune system. In this study, we present a comprehensive characterization of hemocytes in the common cuttlefish Sepia officinalis. Cytological stainings, electron microscopy- and flow cytometry-observations highlight a single granulocyte population with various densities of eosinophilic granules and unstained vesicles. These hemocytes contain acid phosphatase-, lysozyme- and proPO system enzymes, and have high activity in bead phagocytosis assays. Interestingly, bead pre-incubation in plasma results in time-dependent aggregation perhaps resulting from hemocyanin-coating, and decrease in phagocytosis. This study provides the basis for understanding hemocyte-mediated immunity in the common cuttlefish, and essential background for future studies on cephalopod immunity.

}, issn = {1095-9947}, doi = {10.1016/j.fsi.2014.07.020}, author = {Le Pabic, C and Goux, Didier and Guillamin, Maryline and Safi, Georges and Jean-Marc Lebel and Sim{\'e}oni Koueta-Noussith{\'e} and Antoine Serpentini} } @article {3413, title = {Interactive effects of irradiance and temperature on growth and domoic acid production of the toxic diatom Pseudo-nitzschia australis (Bacillariophyceae)}, journal = {Harmful Algae}, volume = {39}, year = {2014}, pages = {232-241}, abstract = {The influence of temperature and light on the growth, physiology and domoic acid (DA) production of the pennate toxic diatom Pseudo-nitzschia australis isolated from the English Channel was studied in semicontinuous culture. The effects of eight irradiances (35{\textendash}400 mmol photons m2 s-1) and a temperature gradient (3.5{\textendash}25.5 8C) were investigated. The highest growth rates (0.47{\textendash}0.83 d-1) were observed between 18.6 and 13.5 8C, with an optimum irradiance for growth at 100 mmol photons m2 s-1. A decrease in the optimum growth temperature was observed with an increase in irradiance. Cell chlorophyll a content decreased at both low and high extreme temperatures and high irradiances. Stable and high values of Fv/Fm ratios below 21.8C highlight the great acclimation capacity of P. australis, which may explain its wide biogeographic distribution. The strain studied produced DA without nutrient limitation and during exponential growth although at lower levels than in other studies (0.15{\textendash} 2.0 pg DA cell-1). Results underline the importance of light{\textendash}temperature interactions for growth and DA production. Toxin production increased with increasing temperature and light, and DA production increased exponentially with the growth rate. These results show that DA is not only produced under nutrient stress or by unhealthy cells in P. australis. This study underlines the need to take the ability of P. australis to produce DA during the exponential growth into consideration to understand the link between toxin production and bloom dynamics. These results will not only help explore the processes involved, but also help parameterize future models of growth and DA production especially for P. australis.}, keywords = {Domoic acid, Growth Irradiance, Pseudo-nitzschia australis, Temperature}, author = {Thorel, Maxine and Juliette Fauchot and Morelle, J{\'e}r{\^o}me and Raimbault, V and Le Rou, B and Miossec, C and Kientz-Bouchard, V and Pascal Claquin} } @article {5818, title = {{Marine biological shifts and climate}}, journal = {Proceedings of the Royal Society B: Biological Sciences}, volume = {281}, year = {2014}, pages = {20133350}, abstract = {

Phenological, biogeographic and community shifts are among the reported responses of marine ecosystems and their species to climate change. However, despite both the profound consequences for ecosystem functioning and ser- vices, our understanding of the root causes underlying these biological changes remains rudimentary. Here, we show that a significant proportion of the responses of species and communities to climate change are determinis- tic at some emergent spatio-temporal scales, enabling testable predictions and more accurate projections of future changes.We propose a theory based on the concept of the ecological niche to connect phenological, biogeographic and long-term community shifts. The theory explains approximately 70{\%} of the phenological and biogeographic shifts of a key zooplankton Calanus finmarch- icus in the North Atlantic and approximately 56{\%} of the long-term shifts in copepods observed in the North Sea during the period 1958{\textendash}2009.

}, keywords = {environmental science}, issn = {1471-2954}, author = {Gr{\'e}gory Beaugrand and Goberville, Eric and Christophe Luczak and Richard R Kirby} } @article {3211, title = {Molecular evolution of GPCRs: Kisspeptin/kisspeptin receptors.}, journal = {J. Mol. Endocrinol.}, volume = {52}, year = {2014}, pages = {101-117}, author = {Pasquier, J and Kamech, Nedia and Anne-Gaelle Lafont and H Vaudry and Karine Rousseau and Sylvie Dufour} } @article {3131, title = {Morphological and molecular evidence of three species of pikes Esox spp. (Actinopterygii, Esocidae) in France, including the description of a new species}, journal = {Comptes Rendus Biologies}, volume = {337}, year = {2014}, pages = {521-534}, abstract = {

This integrative taxonomy study of French pikes compares morphological characters and molecular sequence data (mitochondrial COI and nuclear Plagl2 genes). In addition to the expected E.\ lucius, DNA sequences and morphology both support a new species in France, E.\ aquitanicus sp. nov. from the Charente to the Adour drainages. It is characterized by a color pattern of sides with narrow 1{\textendash}1.5-scale-wide oblique vertical bands, conferring it a marbled coat, a snout only 0.9 times larger than the postorbital length, an anal fin basis 1.1{\textendash}1.2 times larger than the caudal peduncle length, 101 to 121 lateral scales, 53 to 57 vertebrae, as well as 24 diagnostic sites in the COI gene and 3 in the Plagl2 gene. Partial COI sequences (131bp) from modern and historical specimens indicate also the presence of E.\ cisalpinus and E.\ lucius during the 19th century in Lake Geneva. Morphological and molecular data points to a possible hybridization between E.\ lucius with both other local pike species, representing a risk for them. Their endangerment status should be evaluated rapidly in order to take conservation measures.

}, keywords = {Cytochrome c oxidase subunit 1, Esox aquitanicus, Esox cisalpinus, France, Integrative taxonomy, New species, Pleiomorphic adenoma gene-like 2}, issn = {16310691}, doi = {10.1016/j.crvi.2014.07.002}, author = {Denys, Ga{\"e}l and Dettai, Agn{\`e}s and Persat, Henri and M{\'e}lyne Hautecoeur and Philippe Keith} } @inbook {3726, title = {New data on freshwater fish of New Caledonia}, booktitle = {in Guilbert {\'E}., Robillard T., Jourdan H., \& Grandcolas P.(eds), Zoologia Neocaledonica 8. Biodiversity studies in New Caledonia. }, number = {206}, year = {2014}, pages = {127-132 }, publisher = {Mus{\'e}um national d{\textquoteright}Histoire naturelle}, organization = {Mus{\'e}um national d{\textquoteright}Histoire naturelle}, edition = {M{\'e}moires du Mus{\'e}um national d{\textquoteright}Histoire naturelle }, address = {Paris }, abstract = {

Since 1861, freshwater fishes have been studied at different periods in New Caledonia. The first list was published in 1915, but the
major inventories were done between 1998 and 2003. These inventories allowed the discovery of many new species and the publication,
in 2003, of the Atlas of Freshwater fish and crustaceans of New Caledonia, which listed 64 freshwater fish species. Between 2004
and 2010, additional specific surveys were conducted by the MNHN and 9 species were added. Among them, 3 were new for science.
Gobiidae family represents 30\% of the freshwater fishes of New Caledonia. This high percentage is explained by their particular life
cycle adapted to insular systems.

}, author = {Philippe Keith and Clara Lord and Taillebois, Laura and Feutry, Pierre} } @article {3486, title = {New Sicydiinae phylogeny (Teleostei: Gobioidei) inferred from mitochondrial and nuclear genes: insights on systematics and ancestral areas.}, journal = {Mol Phylogenet Evol}, volume = {70}, year = {2014}, month = {2014 Jan}, pages = {260-71}, abstract = {

The Sicydiinae subfamily (Teleostei: Gobioidei) is the biggest contributor to the diversity of fish communities in river systems of tropical islands. These species are found in the Indo-Pacific area, the Caribbean region and West Africa. They spawn in freshwater, their planktotrophic larvae drift downstream to the sea where they develop, before returning to the rivers to grow and reproduce. Hence, they are called amphidromous. Their phylogeny has been explored using a total of 3545 sites from 5 molecular markers (mitochondrial DNA: 16S rDNA, cytochrome oxidase I, cytochrome b; nuclear DNA: rhodopsin gene and a nuclear marker specially developed for this study, the interferon regulatory factor 2 binding protein 1-IRF2PB1). Sequences were obtained for 59 Sicydiinae specimens of 9 known genera. The Bayesian and maximum likelihood analyses support the monophyly of the subfamily as well as the monophylyof all genera except Sicydium, which is paraphyletic. Five major clades were identified within this subfamily. One clade contained the genus Stiphodon. Another clade contained Sicyopterus, Sicydium and Parasicydium with Sicyopterus as sister genus of Sicydium. The non-monophyly of Sicydium subclade, because it includes the monotypic genus Parasicydium, challenged the validity of Parasicydium genus. Ancestral area reconstruction showed that the subfamily emerged in the Central West Pacific region implying that previous hypotheses proposing a dispersal route for Sicydiinae into the Atlantic Ocean are unsupported by the present analysis. Our results suggest that the hypotheses for the dispersal route of the genus Sicydium should be reconsidered.

}, keywords = {Animals, Bayes Theorem, Cell Nucleus, Cytochromes b, DNA, Mitochondrial, DNA, Ribosomal, Electron Transport Complex IV, Evolution, Molecular, Female, Mitochondria, Perciformes, Phylogeny, Sequence Analysis, DNA}, issn = {1095-9513}, doi = {10.1016/j.ympev.2013.09.026}, author = {Taillebois, Laura and Castelin, Magalie and Clara Lord and Chabarria, Ryan and Dettai, Agn{\`e}s and Philippe Keith} } @article {3724, title = {A new species of Sicyopus (Gobioidei) from Java and Bali}, journal = {Cybium}, volume = {38}, year = {2014}, pages = {173-178}, abstract = {

Sicyopus rubicundus n. sp., a sicydiine goby, is described from specimens collected in streams of\ Java and Bali (Indonesia). It differs from other species of this amphidromous genus by a combination of characters\ including a first dorsal fin with five spines in both sexes, a second dorsal fin with one spine and nine segmented\ rays, an anal fin with one spine and nine segmented rays, and a distinctive body colour in male.

}, keywords = {Freshwater, Gobiidae, Indonesia, New species, Sicyopus rubicundus}, author = {Philippe Keith and Hadiaty, Renny and Fr{\'e}d{\'e}ric Busson and Hubert, Nicolas} } @article {3306, title = {Prophenoloxidase system, lysozyme and protease inhibitor distribution in the common cuttlefish Sepia officinalis}, year = {2014}, author = {Le Pabic, C and Safi, Georges and Antoine Serpentini and Jean-Marc Lebel and Jean-Paul Robin and Sim{\'e}oni Koueta-Noussith{\'e}} } @article {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 {3427, title = {Shell extracts from the marine bivalve Pecten maximus regulate the synthesis of extracellular matrix in primary cultured human skin fibroblasts.}, journal = {PLoS One}, volume = {9}, year = {2014}, month = {2014}, pages = {e99931}, abstract = {

Mollusc shells are composed of more than 95\% calcium carbonate and less than 5\% of an organic matrix consisting mostly of proteins, glycoproteins and polysaccharides. Previous studies have elucidated the biological activities of the shell matrices from bivalve molluscs on skin, especially on the expression of the extracellular matrix components of fibroblasts. In this work, we have investigated the potential biological activities of shell matrix components extracted from the shell of the scallop Pecten maximus on human fibroblasts in primary culture. Firstly, we demonstrated that shell matrix components had different effects on general cellular activities. Secondly, we have shown that the shell matrix components stimulate the synthesis of type I and III collagens, as well as that of sulphated GAGs. The increased expression of type I collagen is likely mediated by the recruitment of transactivating factors (Sp1, Sp3 and human c-Krox) in the -112/-61 bp COL1A1 promoter region. Finally, contrarily to what was obtained in previous works, we demonstrated that the scallop shell extracts have only a small effect on cell migration during in vitro wound tests and have no effect on cell proliferation. Thus, our research emphasizes the potential use of shell matrix of Pecten maximus for dermo-cosmetic applications.

}, issn = {1932-6203}, doi = {10.1371/journal.pone.0099931}, author = {Latire, T and Legendre, Florence and Bigot, Nicolas and Carduner, Ludovic and Kellouche, Sabrina and Bouyoucef, Mouloud and Carreiras, Franck and Marin, F and Jean-Marc Lebel and Gal{\'e}ra, Philippe and Antoine Serpentini} } @article {3430, title = {The skeleton of the staghorn coral Acropora millepora: molecular and structural characterization.}, journal = {PLoS One}, volume = {9}, year = {2014}, month = {2014}, pages = {e97454}, abstract = {

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

}, keywords = {Acetic Acid, Amination, Animals, Anthozoa, Bone and Bones, Calcium Carbonate, Crystallization, Gels, Monosaccharides, Proteins, Solubility, Spectroscopy, Fourier Transform Infrared, Spectrum Analysis, Raman}, issn = {1932-6203}, doi = {10.1371/journal.pone.0097454}, author = {Ramos-Silva, Paula and Kaandorp, Jaap and Herbst, Fr{\'e}d{\'e}ric and Plasseraud, Laurent and Alcaraz, G and Stern, Christine and Corneillat, Marion and Guichard, N and Durlet, Christophe and Gilles Luquet and Marin, F} } @article {3720, title = {Status and distribution of Smilosicyopus species (Teleostei, Gobioidei)}, journal = {Cybium}, volume = {38 }, year = {2014}, pages = {69-73}, abstract = {

Status and distribution of Smilosicyopus species are unclear, as they are rare, difficult to sample and to distinguish. During thirteen years, many specimens were collected by the MNHN and collaborators in Pacific islands, including samples in all type localities. These specimens were compared and sequenced with COI gene. Seven species over the eight known were confirmed; indeed S.\ mystax is considered to be a synonym of S.\ leprurus. Further Smilosicyopus species have finally a broader distribution than thought and endemicity seems to be not the main rule in this genus. A key to species is given.

}, keywords = {Distribution, Gobiidae, Sicydiinae, Smilosicyopus}, author = {Philippe Keith and Taillebois, Laura} } @article {3723, title = {Three new species of Lentipes (Teleostei: Gobiidae) from Indonesia. }, journal = {Cybium}, volume = {38}, year = {2014}, pages = {133-146}, abstract = {

Three new species of Lentipes (L. argenteus, L. ikeae and L. mekonggaensis), freshwater gobies, are
described from streams of Sumatra, Java, Bali and Sulawesi (Indonesia). They differ from other species of the
genus by a combination of characters including an urogenital papilla lacking lateral lobes and retractable into a
sheath-like groove, the number of pectoral fin rays, the number of scales, tricuspid teeth in the upper jaw, and a
specific body colour in males.

}, keywords = {Bali, Freshwater, Gobiidae, Java, Lentipes, New species, Sulawesi, Sumatra}, author = {Philippe Keith and Hadiaty, Renny and Hubert, Nicolas and Fr{\'e}d{\'e}ric Busson and Clara Lord} } @article {3212, title = {Trichoplaxin - a new membrane-active antimicrobial peptide from placozoan cDNA.}, journal = {Biochim. Biophys. Acta}, volume = {1838}, year = {2014}, pages = {1430-1438}, author = {Simunic, J and Petrov, D and Bouceba, T and Kamech, Nedia and Benincasa, M and Juretic, D} } @article {3721, title = {Tropical and temperate freshwater amphidromy: a comparison between life history characteristics of Sicydiinae, ayu, sculpins and galaxiids.}, journal = {Rev Fish Biol Fisheries}, volume = {24}, year = {2014}, pages = {1:14}, abstract = {

Amphidromy is a distinctive form of
diadromy, but differences in the life histories of
tropical and temperate amphidromous fishes suggest
that there are two types of freshwater amphidromy.
The life histories of Sicydiinae gobies, ayu (Plecoglossus
altivelis), Japanese sculpins (Cottus) and galaxiids
(Galaxiidae), suggest that the Sicydiinae are
representatives of tropical freshwater amphidromy,
whereas ayu, sculpins and galaxiids are representatives
of temperate freshwater amphidromy. The Sicydiine
larval stage may be required to occur in the
ocean for all species, but ayu, sculpins and galaxiids
have landlocked or fluvial forms with larvae that do
not need to enter the ocean for larval feeding and
growth. This suggests that Sicydiine larvae have a high
oceanic dependency whereas ayu, sculpins and galaxiid
larvae have a low oceanic dependency. Freshwater
amphidromous fish in tropical and temperate zones
appear to have developed two different strategies in
the evolution of their life histories. It is likely that the
evolutionary direction of the larval stage of tropical
amphidromy is to remain in the sea and that of
temperate amphidromy is towards having the ability to
remain in freshwater if needed. Tropical and temperate
amphidromy appear to be biologically informative
categories and evaluations of this hypothesis will
facilitate better understanding of the various forms of
amphidromy in the future.

}, keywords = {Amphidromous species, Fluvial form, Landlocked form, Oceanic dependency, Sicydiine species}, doi = {DOI 10.1007/s11160-013-9316-8}, author = {Watanabe, S and Iida, Midori and Clara Lord and Philippe Keith and Tsukamoto, Katsumi} } @article {7331, title = {Highly Dynamic Cellular-Level Response of Symbiotic Coral to a Sudden Increase in Environmental NitrogenABSTRACT}, journal = {mBio}, volume = {4}, year = {2013}, month = {Jan-07-2013}, doi = {10.1128/mBio.00052-13}, url = {https://mbio.asm.org/content/4/3/e00052-13}, author = {Kopp, C. and Pernice, M. and Domart-Coulon, I. and Djediat, C. and Spangenberg, J. E. and Alexander, D. T. L. and Hignette, M. and Tarik Meziane and Meibom, A.}, editor = {Orphan, Victoria and McFall-Ngai, Margaret J.} } @article {5823, title = {{Long-term phenological shifts in raptor migration and climate}}, journal = {PLoS ONE}, volume = {8}, year = {2013}, abstract = {

Climate change is having a discernible effect on many biological and ecological processes. Among observed changes, modifications in bird phenology have been widely documented. However, most studies have interpreted phenological shifts as gradual biological adjustments in response to the alteration of the thermal regime. Here we analysed a long-term dataset (1980-2010) of short-distance migratory raptors in five European regions. We revealed that the responses of these birds to climate-induced changes in autumn temperatures are abrupt and synchronous at a continental scale. We found that when the temperatures increased, birds delayed their mean passage date of autumn migration. Such delay, in addition to an earlier spring migration, suggests that a significant warming may induce an extension of the breeding-area residence time of migratory raptors, which may eventually lead to residency.

}, author = {Jaffre, Mikael and Gr{\'e}gory Beaugrand and Goberville, Eric and Jiguet, Fr{\'e}d{\'e}ric and Kjell{\'e}n, Nils and Troost, Gerard and Dubois, Philippe J. and Lepr{\^e}tre, Alain and Christophe Luczak} } @article {9944, title = {Collaborative study for the detection of toxic compounds in shellfish extracts using cell-based assays. Part II: application to shellfish extracts spiked with lipophilic marine toxins}, journal = {Analytical and Bioanalytical Chemistry}, volume = {403}, year = {2012}, month = {Jan-06-2012}, pages = {1995 - 2007}, issn = {1618-2642}, doi = {10.1007/s00216-012-6029-0}, url = {http://link.springer.com/10.1007/s00216-012-6029-0}, author = {Ledreux, Aur{\'e}lie and S{\'e}randour, Anne-Laure and Morin, B{\'e}n{\'e}dicte and Derick, Sylvain and Lanceleur, Rachelle and Sahima Hamlaoui and Furger, Christophe and Bir{\'e}, Ronel and Krys, Sophie and Fessard, Val{\'e}rie and Troussellier, Marc and Bernard, C{\'e}cile} } @article {9943, title = {Collaborative study for the detection of toxic compounds in shellfish extracts using cell-based assays. Part I: screening strategy and pre-validation study with lipophilic marine toxins}, journal = {Analytical and Bioanalytical Chemistry}, volume = {403}, year = {2012}, month = {Jan-06-2012}, pages = {1983 - 1993}, issn = {1618-2642}, doi = {10.1007/s00216-012-6028-1}, url = {http://link.springer.com/10.1007/s00216-012-6028-1}, author = {S{\'e}randour, Anne-Laure and Ledreux, Aur{\'e}lie and Morin, B{\'e}n{\'e}dicte and Derick, Sylvain and Augier, Elie and Lanceleur, Rachelle and Sahima Hamlaoui and Moukha, Serge and Furger, Christophe and Bir{\'e}, Ronel and Krys, Sophie and Fessard, Val{\'e}rie and Troussellier, Marc and Bernard, C{\'e}cile} } @article {7339, title = {Ontogenetic change in the lipid and fatty acid composition of scleractinian coral larvae}, journal = {Coral Reefs}, volume = {31}, year = {2012}, month = {Jan-06-2012}, pages = {613 - 619}, issn = {0722-4028}, doi = {10.1007/s00338-012-0874-3}, url = {http://link.springer.com/10.1007/s00338-012-0874-3}, author = {Figueiredo, J. and Baird, A. H. and Cohen, M. F. and Flot, J.-F. and Kamiki, T. and Tarik Meziane and Tsuchiya, M. and Yamasaki, H.} } @article {7341, title = {Responses of juvenile sea bass, Dicentrarchus labrax, exposed to acute concentrations of crude oil, as assessed by molecular and physiological biomarkers}, journal = {Chemosphere}, volume = {87}, year = {2012}, month = {Jan-05-2012}, pages = {692 - 702}, issn = {00456535}, doi = {10.1016/j.chemosphere.2011.12.059}, url = {https://linkinghub.elsevier.com/retrieve/pii/S0045653511014287}, author = {Kerambrun, E. and Le Floch, S. and Sanchez, W. and Thomas Guyon, H. and Tarik Meziane and Henry, F. and Amara, R.} } @article {9185, title = {DNA barcoding of two amphidromous goby post-larvae (penja) morphotypes from Mandar River, West Sulawesi, Indonesia.}, volume = {45}, year = {201}, month = {08/2021}, pages = {243-249}, author = {Nurjirana and Philippe Keith and Burhanuddin, A I and Afrisal, Muhammad and Haris, A} }