@article {10009, title = {Daily and seasonal spatial behaviour of waved whelk Buccinum undatum: implications for fishery management and restoration}, journal = {Canadian Journal of Zoology}, year = {2025}, month = {Aug-01-2026}, abstract = {Many marine invertebrate fisheries are vulnerable to overexploitation and require conservation measures to ensure their sustainability. In recent years, landings of waved whelk Buccinum undatum (Linnaeus, 1758) have fallen considerably along the coasts of the St. Lawrence (Canada), dropping by up to 76\% in some fishing areas. Local overfishing may be explained, in part, by the species{\textquoteright} oviparous reproduction, which limits larval dispersion and population interactions. Using a two year long-term acoustic telemetry study, we tracked 20 individuals to assess their general movement behaviour and potential to disperse within an area. Tagged individuals displayed considerable daily movements (from a mean of 2 to 16 m/h), with no sensible differences between day and night. Both speed and habitat usage potential (HUP) varied among seasons, most likely due to the species{\textquoteright} reproductive cycle: HUP was significantly larger during the breeding season of May (4570 m2) and June (2779 m2) than in the preceding winter months (1046 m2). Although some individuals moved over a considerable depth range, we did not observe seasonality over the bathymetric gradient of the area. Overall, the species{\textquoteright} restricted HUP limits individual dispersal, resulting in very poor connection between neighbouring populations and making B. undatum vulnerable to local overfishing.}, keywords = {Acoustic telemetry, Behaviour, Buccinum undatum, fishery management, Gastropoda, maritime estuary, movement ecology, overfishing, shellfish}, issn = {0008-4301}, doi = {10.1139/cjz-2024-0056}, url = {https://cdnsciencepub.com/doi/10.1139/cjz-2024-0056}, author = {Uboldi, Thomas and MacGregor, K. A. and Lavoie, M-F. and McKindsey, C. W. and Gendreau, Y. and Pettr{\'e}, J. and Chauvaud, Laurent and Olivier, F. and Tremblay, Rejean} } @article {9825, title = {Acclimation capacity of Echinarachnius parma sand dollars enduring a highly seasonal sub-Arctic coastal system}, journal = {Marine Ecology Progress Series}, volume = {747}, year = {2024}, month = {May-10-2025}, pages = {83 - 97}, abstract = {Marine poikilotherm organisms have evolved several physiological strategies to acclimate to different thermal conditions occurring in coastal environments. This study aimed to describe the acclimation capacity of sand dollars Echinarachnius parma found in the highly seasonal sub-Arctic archipelago of Saint Pierre and Miquelon. Fatty acid composition was quantified in cell membranes and energy reserve of sand dollars collected at specific stations according to depth and seasons. We hypothesized that perceived temperatures, seasonal thermal conditions and the trophic environment may considerably influence E. parma fatty acid profiles. In the polar fraction, E. parma showed high relative contributions of eicosapentaenoic acid (20:5ω3; 28.5\%) followed by 16:0 (10.83\%), 14:0 (6.67\%) and 18:4ω3 (3.49\%). Whereas variations in 20:5ω3 relative contributions seemed to be mainly related to spawning events, docosahexaenoic acid (22:6ω3; 2.48\%) and arachidonic acid (20:4ω6; 2.49\%) varied according to the thermal gradient of the water column. Furthermore, the seasonal thermal internal wave acting throughout the archipelago appeared to lack sufficient intensity to trigger modifications in the polar concentration in individuals. In the neutral fraction, the strong dominance of diatom markers (20:5ω3; 24.2\% and 16:1ω7; 21.9\%) suggests that the diet of sand dollars mostly reflects the composition of the organic matter available over the sediment. Our study (1) highlights specific fatty acid functions in the metabolic regulation of echinoids, (2) defines the feeding ecology of sand dollars and (3) describes the effects of different thermal conditions on the physiology of locally adapted poikilotherm animals.}, keywords = {Echinarachnius, Feeding ecology, Sand dollars, Thermal acclimation}, issn = {0171-8630}, doi = {10.3354/meps14692}, url = {https://www.int-res.com/abstracts/meps/v747/p83-97/}, author = {Uboldi, Thomas and Bridier, Guillaume and Fr{\'e}d{\'e}ric Olivier and Grall, Jacques and Chauvaud, Laurent and Tremblay, Rejean} } @article {9763, title = {Approaches and methods to study wildlife cancerAbstract}, journal = {Journal of Animal Ecology}, year = {2024}, month = {Mar-08-2026}, abstract = {The last few years have seen a surge of interest from field ecologists and evolutionary biologists to study neoplasia and cancer in wildlife. This contributes to the One Health Approach, which investigates health issues at the intersection of people, wild and domestic animals, together with their changing environments. Nonetheless, the emerging field of wildlife cancer is currently constrained by methodological limitations in detecting cancer using non-invasive sampling. In addition, the suspected differential susceptibility and resistance of species to cancer often make the choice of a unique model species difficult for field biologists.
Here, we provide an overview of the importance of pursuing the study of cancer in non-model organisms and we review the currently available methods to detect, measure and quantify cancer in the wild, as well as the methodological limitations to be overcome to develop novel approaches inspired by diagnostic techniques used in human medicine.
The methodology we propose here will help understand and hopefully fight this major disease by generating general knowledge about cancer, variation in its rates, tumour-suppressor mechanisms across species as well as its link to life history and physiological characters. Moreover, this is expected to provide key information about cancer in wildlife, which is a top priority due to the accelerated anthropogenic change in the past decades that might favour cancer progression in wild populations.}, issn = {0021-8790}, doi = {10.1111/1365-2656.14144}, url = {https://besjournals.onlinelibrary.wiley.com/doi/10.1111/1365-2656.14144https://besjournals.onlinelibrary.wiley.com/doi/pdf/10.1111/1365-2656.14144}, author = {Giraudeau, Mathieu and Vincze, Orsolya and Dupont, Sophie M. and Sepp, Tuul and Baines, Ciara and Lemaitre, Jean-Francois and Lemberger, Karin and Gent{\`e}s, Sophie and Boddy, Amy and Dujon, Antoine M. and Bramwell, Georgina and Harris, Valerie and Ujvari, Beata and Alix-Panabi{\`e}res, Catherine and Lair, Stephane and Sayag, David and Conde, Dalia A. and Colchero, Fernando and Harrison, Tara M. and Pavard, Samuel and Padilla-Morales, Benjamin and Chevallier, Damien and Hamede, Rodrigo and Roche, Benjamin and Malkocs, Tamas and Aktipis, Athena C. and Maley, Carlo and DeGregori, James and Le~Loc{\textquoteright}h, Guillaume and Thomas, Fr{\'e}d{\'e}ric} } @article {9967, title = {eDNA-based survey of the marine vertebrate biodiversity off the west coast of Guadeloupe (French West Indies)}, journal = {Biodiversity Data Journal}, volume = {12}, year = {2024}, month = {Sep-06-2025}, issn = {1314-2836}, doi = {10.3897/BDJ.12.e125348}, url = {https://pubmed.ncbi.nlm.nih.gov/38948133/}, author = {Haderl{\'e}, Rachel and Bouveret, Laurent and Chazal, Jordane and Girardet, Justine and Igl{\'e}sias, Samuel and Pascal Jean Lopez and Millon, C{\'e}dric and Valentini, Alice and Ung, Visotheary and Jung, Jean-Luc and Haderl{\'e}, Rachel and Bouveret, Laurent and Chazal, Jordane and Girardet, Justine and Igl{\'e}sias, Samuel and Millon, C{\'e}dric and Valentini, Alice and Ung, Visotheary and Jung, Jean-Luc} } @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 {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 {9290, title = {Artificial reef effectiveness changes among types as revealed by underwater hyperspectral imagery}, journal = {Restoration Ecology}, year = {2023}, month = {Dec-07-2024}, pages = {e13978}, abstract = {Artificial reefs (ARs) are designed to mimic natural habitats and promote marine life. Their effectiveness is however debatable and can depend on factors such as structural complexity and construction material. Old artificial reefs (OARs) were made of concrete mold of simple geometric shapes, limiting their ability to mimic the complexity of natural reefs. Recent advancements in three-dimentional (3D)-printing technology have enabled the creation of 3D-printed artificial reefs (3DRs) with biocompatible material and complex structures that can better simulate the natural habitats. We employed underwater hyperspectral technology to estimate the performance of these reefs and compare the benthic photosynthetic signal of natural reefs (NATs) with those of ARs (OARs and 3DRs) in coastal area of the north-western Mediterranean (France and Monaco Principality). We expected differences in reflectance signals between OARs and NATs, and signals closer to NATs in 3DRs than OARs. Underwater hyperspectral technology was able to detect higher chlorophyll-a\ derived signals on NATs than OARs. Moreover, the magnitude of differences between 3DRs and NATs was smaller than that between OARs and NATs. Although ARs were not capable of mimicking natural reefs, the use of 3D-printed ARs might ameliorate their effectiveness for coastal reconciliation.}, issn = {1061-2971}, doi = {10.1111/rec.13978}, url = {https://onlinelibrary.wiley.com/doi/10.1111/rec.13978}, author = {Elisabeth Riera and C{\'e}dric Hubas and Ungermann, Mischa and Rigot, Guy and Pey, Alexis and Patrice Francour and Rossi, Fracesca} } @article {9138, title = {How ocean warming and acidification affect the life cycle of six worldwide commercialised sea urchin species: A review}, journal = {Aquaculture, Fish and Fisheries}, year = {2023}, month = {Jul-04-2023}, abstract = {Ongoing global changes are expected to affect the worldwide production of many fisheries and aquaculture systems. Because invertebrates represent a relevant industry, it is crucial to anticipate challenges that are resulting from the current environmental alterations. In this review, we rely on the estimated physiological limits of six commercialised species of sea urchins (Loxechinus albus, Mesocentrotus franciscanus, Paracentrotus lividus, Strongylocentrotus droebachiensis, Strongylocentrotus\  intermedius and Strongylocentrotus purpuratus) to define the vulnerability (or resilience) of their populations facing ocean warming and acidification (OW\&A). Considering that coastal systems do not change uniformly and that the populations{\textquoteright} response to stressors varies depending on their origin, we investigate the effects of OW\&A by including studies that estimate future environmental mutations within their distribution areas. Crossreferencing 79 studies, we find that several sea urchin populations are potentially vulnerable to the predicted OW\&A as environmental conditions in certain regions are expected to shift beyond their estimated physiological limit of tolerance. Specifically, while upper thermal thresholds seem to be respected for L. albus along the SW American coast, M. franciscanus and S. purpuratus southern populations appear to be vulnerable in NW America. Moreover, as a result of the strong warming expected in the Arctic and sub-Arctic regions, the local productivity of S. droebachiensis is also potentially largely affected. Finally, populations of S. intermedius and P. lividus found in northern Japan and eastern Mediterranean respectively, are supposed to decline due to large environmental changes brought about by OW\&A. This review highlights the status and the potential of local adaptation of a number of sea urchin populations in response to changing environmental conditions, revealing possible future challenges for various local fishing industries.}, keywords = {Aquaculture, ecophysiology, fishery, Ocean acidification, ocean warming, sea urchin}, issn = {2693-8847}, doi = {10.1002/aff2.107}, url = {https://onlinelibrary.wiley.com/doi/10.1002/aff2.107}, author = {Uboldi, Thomas and Fr{\'e}d{\'e}ric Olivier and Chauvaud, Laurent and Tremblay, Rejean} } @article {9462, title = {Size-dependent response of the mussel collective behaviour to plastic leachates and predator cues}, journal = {Science of The Total Environment}, volume = {888}, year = {2023}, month = {2023}, issn = {0048-9697}, doi = {https://doi.org/10.1016/j.scitotenv.2023.164037}, author = {Marine Uguen and Sylvie M Gaudron and Nicastro, Katy R. and Zardi, Gerardo I. and Nicolas Spilmont and Seuront, Laurent} } @article {8454, title = {Isolation-by-distance and male-biased dispersal at a fine spatial scale: a study of the common European adder (Vipera berus) in a rural landscape}, journal = {Conservation Genetics}, volume = {22}, year = {2021}, month = {Jan-10-2021}, pages = {823 - 837}, issn = {1566-0621}, doi = {10.1007/s10592-021-01365-y}, url = {https://link.springer.com/10.1007/s10592-021-01365-y}, author = {Fran{\c c}ois, Donatien and Ursenbacher, Sylvain and Boissinot, Alexandre and Fr{\'e}d{\'e}ric Ysnel and Lourdais, Olivier} } @article {8093, title = {Local perceptions of socio-ecological drivers and effects of coastal armoring: the case of Moorea, French Polynesia}, journal = {Population and Environment}, year = {2021}, month = {08/2021}, doi = {10.1007/s11111-021-00391-9}, url = {https://doi.org/10.1007/s11111-021-00391-9}, author = {Calandra, Ma{\"e}lle and Wenc{\'e}lius, Jean and Madi Moussa, Rakamaly and Gache, Camille and Berthe, C{\'e}cile and Waqalevu, Viliame and Ung, Pascal and Lerouvreur, Franck and Bambridge, Tamatoa and Galzin, Ren{\'e} and Fr{\'e}d{\'e}ric Bertucci and Lecchini, David} } @article {8095, title = {Marine biodiversity of a pristine coral reef in French Polynesia}, journal = {Island Studies Journal}, volume = {16}, year = {2021}, month = {Jan-05-2021}, pages = {292 - 307}, doi = {10.24043/isj10.24043/isj.16.110.24043/isj.150}, url = {https://www.islandstudies.ca/}, author = {Lecchini, David and Fr{\'e}d{\'e}ric Bertucci and Fogg, Lily and Gache, Camille and Ung, Pascal and Lacube, Yann and Berthe, C{\'e}cile and Waqalevu, Viliame and Siu, Alain and Bambridge, Tamatoa} } @article {8390, title = {Observations of Sea Lampreys, attached to Humpback whales, off Saint Pierre and Miquelon archipelago (Northwestern Atlantic)}, journal = {Cahiers de Biologie Marine}, volume = {62}, year = {2021}, pages = {77-81}, abstract = {We report the two first observations of Sea Lampreys Petromyzon marinus attached to Humpback whales Megaptera novaeangliae during two whales surveys by boat the 5th September 2012 and 8th July 2020. Their size and marbled coloration certified their species identification. However, the lack of scarring does not allow to affirm a parasite/host relationship. These observations are also the first occurrences of this lamprey species in the exclusive economic zone of the French territory of Saint Pierre and Miquelon archipelago, and will be helpful for French managers.}, author = {Urtizberea, Frank and Detcheverry, Jo{\"e}l and Denys, Ga{\"e}l} } @article {8083, title = {Photoperiodic regulation of pituitary thyroid-stimulating hormone and brain deiodinase in Atlantic salmon}, journal = {Molecular and Cellular Endocrinology}, volume = {519}, year = {2021}, month = {Jan-01-2021}, pages = {111056}, issn = {03037207}, doi = {10.1016/j.mce.2020.111056}, url = {https://linkinghub.elsevier.com/retrieve/pii/S0303720720303580}, author = {Irachi, Shotaro and Hall, Daniel J. and Fleming, Mitchell S. and Maugars, Gersende and Bj{\"o}rnsson, Bj{\"o}rn Thrandur and Sylvie Dufour and Uchida, Katsuhisa and McCormick, Stephen D.} } @article {8060, title = {Unraveling salinity extreme events in coastal environments: a winter focus on the Bay of Brest}, journal = {Frontiers in Marine Science}, volume = {8}, year = {2021}, pages = {966}, abstract = {Extreme weather events affect coastal marine ecosystems. The increase in intensity and occurrence of such events drive modifications in coastal hydrology and hydrodynamics. Here, focusing on the winter period (from December to March), we investigated long-term (2000-2018) changes in the hydrological properties of the Bay of Brest (French Atlantic coast) as an example of the response of a semi-enclosed bay to extreme weather episodes and large-scale atmospheric circulation patterns. The relationships between extreme weather events and severe low salinity conditions (as a proxy for changes in water density) were investigated using high-frequency in situ observations and high-resolution numerical simulations. The identification of intense episodes was based on the timing, duration and annual occurrence of extreme events. By examining the interannual variability of extreme low salinity events, we detect a patent influence of local and regional weather conditions on atmospheric and oceanic circulation patterns, precipitation and river runoff. We revealed that low salinity events in Brittany were controlled by large-scale forcings: they prevailed during the positive phase of the North Atlantic Oscillation and periods of low occurrences of the Atlantic Ridge weather regime. The increase in severe storms observed in western France since 2010 has led to a doubling of the occurrence and duration of extreme low salinity events in Brittany.}, url = {https://doi.org/10.3389/fmars.2021.705403}, author = {Poppeschi, Coline and Charria, Guillaume and Goberville, Eric and Rimmelin-Maury, Peggy and Barrier, Nicolas and Petton, S{\'e}bastien and Unterberger, Maximilian and Emilie Grossteffan and R{\'e}p{\'e}caud, Michel and Qu{\'e}m{\'e}ner, Loic and Theetten, S{\'e}bastien and Le roux, Jean-Fran{\c c}ois and Paul Tr{\'e}guer} } @article {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 {7469, title = {Highly variable taxa-specific coral bleaching responses to thermal stresses}, journal = {Marine Ecology Progress Series}, volume = {648}, year = {2020}, month = {27-08-2020}, pages = {135 - 151}, abstract = {Complex histories of chronic and acute sea surface temperature (SST) stresses are expected to trigger taxon- and location-specific responses that will ultimately lead to novel coral communities. The 2016 El Ni{\~n}o-Southern Oscillation provided an opportunity to examine largescale and recent environmental histories on emerging patterns in 226 coral communities distributed across 12 countries from East Africa to Fiji. Six main coral communities were identified that largely varied across a gradient of Acropora to massive Porites dominance. Bleaching intensity was taxon-specific and was associated with complex interactions among the 20 environmental variables that we examined. Coral community structure was better aligned with the historical temperature patterns between 1985 and 2015 than the 2016 extreme temperature event. Additionally, bleaching responses observed during 2016 differed from historical reports during past warm years. Consequently, coral communities present in 2016 are likely to have been reorganized by both long-term community change and acclimation mechanisms. For example, less disturbed sites with cooler baseline temperatures, higher mean historical SST background variability, and infrequent extreme warm temperature stresses were associated with Acropora-dominated communities, while more disturbed sites with lower historical SST background variability and frequent acute warm stress were dominated by stress-resistant massive Porites corals. Overall, the combination of taxon-specific responses, community-level reorganization over time, geographic variation, and multiple environmental stressors suggest complex responses and a diversity of future coral communities that can help contextualize management priorities and activities.}, keywords = {acclimation, Adaptation, Climate Change, community structure, Geography, Stress responses}, issn = {0171-8630}, doi = {10.3354/meps13402}, url = {https://www.int-res.com/abstracts/meps/v648/p135-151/}, author = {McClanahan, T.R. and Darling, E.S. and Maina, J.M. and Muthiga, NA and D{\textquoteright}agata, S. and Leblond, J. and Arthur, R. and Jupiter, S.D. and Wilson, S.K. and Mangubhai, S. and Ussi, A.M. and Mireille M.M. Guillaume and Humphries, A.T. and Patankar, V. and Shedrawi, G. and Pagu, J. and Grimsditch, G.} } @article {7470, title = {Large geographic variability in the resistance of corals to thermal stress}, journal = {Global Ecology and Biogeography}, year = {2020}, month = {May-10-2020}, abstract = {Aim: Predictions for the future of coral reefs are largely based on thermal exposure and poorly account for potential geographic variation in biological sensitivity to thermal stress. Without accounting for complex sensitivity responses, simple climate exposure models and associated predictions may lead to poor estimates of future coral survival and lead to policies that fail to identify and implement the most appropriate interventions. To begin filling this gap, we evaluated a number of attributes of coral taxa and communities that are predicted to influence coral resistance to thermal stress over a large geographic range.
Location:\ Western Indo-Pacific and Central Indo-Pacific Ocean Realms.
Major taxa studied:\ Zooxanthellate Scleractinia {\textendash} hard corals.
Methods:\ We evaluated the geographic variability of coral resistance to thermal stress as the ratio of thermal exposure and sensitivity in 12 countries during the 2016 global-bleaching event. Thermal exposure was estimated by two metrics: (a) historical excess summer heat (cumulative thermal anomaly, CTA), and (b) a multivariate index of sea-surface temperature (SST), light, and water flow (climate exposure, CE). Sensitivity was estimated for 226 sites using coordinated bleaching observations and underwater surveys of coral communities. We then evaluated coral resistance to thermal stress using 48 generalized linear mixed models (GLMMs) to compare the potential influences of geography, historical SST variation, coral cover and coral richness.
Results:\ Geographic faunal provinces and ecoregions were the strongest predictors of coral resistance to thermal stress, with sites in the Australian, Indonesian and Fiji-Caroline Islands coral provinces having higher resistance to thermal stress than Africa-India and Japan-Vietnam provinces. Ecoregions also showed strong gradients in resistance with highest resistance to thermal stress in the western Pacific and Coral Triangle and lower resistance in the surrounding ecoregions. A more detailed evaluation of Coral Triangle and non-Coral Triangle sites found higher resistance to thermal stress within the Coral Triangle, associated with\ c.\ 2.5 times more recent historical thermal anomalies and more centralized, warmer, and cool-water skew SST distributions, than in non-Coral Triangle sites. Our findings identify the importance of environmental history and geographic context in future predictions of bleaching, and identify some potential drivers of coral resistance to thermal stress.
Main conclusions:\ Simple threshold models of heat stress and coral acclimation are commonly used to predict the future of coral reefs. Here and elsewhere we show that large-scale responses of coral communities to heat stress are geographically variable and associated with differential environmental stresses and histories.}, issn = {1466-822X}, doi = {10.1111/geb.13191}, url = {https://onlinelibrary.wiley.com/doi/10.1111/geb.13191}, author = {McClanahan, Timothy R. and Maina, Joseph M. and Darling, Emily S. and Mireille M.M. Guillaume and Muthiga, Nyawira A. and D{\textquoteright}agata, Stephanie and Leblond, Julien and Arthur, Rohan and Jupiter, Stacy D. and Wilson, Shaun K. and Mangubhai, Sangeeta and Ussi, Ali M. and Humphries, Austin T. and Patankar, Vardhan and Shedrawi, George and Julius, Pagu and Ndagala, January and Grimsditch, Gabriel} } @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 {8571, title = {Marine Mammals Exploring the Oceans Pole to Pole: A Review of the MEOP Consortium}, journal = {Oceanography}, volume = {30}, year = {2017}, month = {Jan-06-2017}, pages = {132 - 138}, issn = {10428275}, doi = {10.5670/oceanog10.5670/oceanog.2017.234}, url = {https://tos.org/oceanography/}, author = {Treasure, Anne and Roquet, Fabien and Ansorge, Isabelle and Bester, Marth{\'a}n and Boehme, Lars and Bornemann, Horst and Charrassin, Jean-Beno{\^\i}t and Chevallier, Damien and Costa, Daniel and Fedak, Mike and Guinet, Christophe and Hammill, Mike and Harcourt, Robert and Hindell, Mark and Kovacs, Kit and Lea, Mary-Anne and Lovell, Phil and Lowther, Andrew and Lydersen, Christian and McIntyre, Trevor and McMahon, Clive and Muelbert, M{\^o}nica and Nicholls, Keith and Picard, Baptiste and Reverdin, Gilles and Trites, Andrew and Williams, Guy and de Bruyn, P.J. Nico} } @article {5231, title = {Mercury contamination level and speciation inventory in Lakes Titicaca and Uru-Uru (Bolivia): Current status and future trends}, journal = {Environmental Pollution}, volume = {231, Part 1}, year = {2017}, pages = {262 - 270}, abstract = {

Aquatic ecosystems of the Bolivian Altiplano (\~{}3800 m a.s.l.) are characterized by extreme hydro-climatic constrains (e.g., high UV-radiations and low oxygen) and are under the pressure of increasing anthropogenic activities, unregulated mining, agricultural and urban development. We report here a complete inventory of mercury (Hg) levels and speciation in the water column, atmosphere, sediment and key sentinel organisms (i.e., plankton, fish and birds) of two endorheic Lakes of the same watershed differing with respect to their size, eutrophication and contamination levels. Total Hg (THg) and monomethylmercury (MMHg) concentrations in filtered water and sediment of Lake Titicaca are in the lowest range of reported levels in other large lakes worldwide. Downstream, Hg levels are 3-10 times higher in the shallow eutrophic Lake Uru-Uru than in Lake Titicaca due to high Hg inputs from the surrounding mining region. High percentages of MMHg were found in the filtered and unfiltered water rising up from \<1 to \~{}50\% THg from the oligo/hetero-trophic Lake Titicaca to the eutrophic Lake Uru-Uru. Such high \%MMHg is explained by a high in situ MMHg production in relation to the sulfate rich substrate, the low oxygen levels of the water column, and the stabilization of MMHg due to abundant ligands present in these alkaline waters. Differences in MMHg concentrations in water and sediments compartments between Lake Titicaca and Uru-Uru were found to mirror the offset in MMHg levels that also exist in their respective food webs. This suggests that in situ MMHg baseline production is likely the main factor controlling MMHg levels in fish species consumed by the local population. Finally, the increase of anthropogenic pressure in Lake Titicaca may probably enhance eutrophication processes which favor MMHg production and thus accumulation in water and biota.

}, keywords = {Titicaca}, issn = {0269-7491}, doi = {https://doi.org/10.1016/j.envpol.2017.08.009}, url = {https://www.sciencedirect.com/science/article/pii/S0269749117320572}, author = {S. Gu{\'e}dron and D. Point and D. Acha and S. Bouchet and P.A. Baya and E. Tessier and M. Monperrus and C.I. Molina and A. Groleau and Laurent Chauvaud and J. Thebault and E. Amice and L. Alanoca and C. Duwig and G. Uzu and Lazzaro, Xavier and A. Bertrand and S. Bertrand and C. Barbraud and K. Delord and Gibon, Francois-Marie and C. Ibanez and M. Flores and P. Fernandez Saavedra and M.E. Ezpinoza and C. Heredia and F. Rocha and C. Zepita and D. Amouroux} } @article {5044, title = {Uses of innovative modeling tools within the implementation of the marine strategy framework directive}, journal = {Bridging the Gap Between Policy and Science in Assessing the Health Status of Marine Ecosystems}, year = {2017}, pages = {75}, author = {Lynam, Christopher P. and Uusitalo, Laura and Patr{\'\i}cio, Joana and Piroddi, Chiara and Queir{\'o}s, Ana M and Teixeira, Heliana and Rossberg, Axel G. and Sagarminaga, Yolanda and Hyder, Kieran and Nathalie Niquil and M{\"o}llmann, C and Wilson, C and Chust, Guillem and Galpasoro, I and Forster, R and Verissimo, H and Tedesco, Letizia and Revilla, M and Neville, Suzanna} } @article {4592, title = {Review of the Eulimnadia (Branchiopoda: Spinicaudata: Limnadiidae) from Argentina with the description of a new species.}, journal = {Zootaxa}, volume = {4158}, year = {2016}, month = {2016 Aug 30}, pages = {419-32}, abstract = {

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

}, issn = {1175-5334}, doi = {10.11646/zootaxa.4158.3.7}, author = {Marinone, Mar{\'\i}a Cristina and Urcola, Juan Ignacio and Nicolas Rabet} } @article {3790, title = {Impact of sediment grain-size and biofilm age on epipelic microphytobenthos resuspension}, journal = {Journal of Experimental Biology and ecology}, volume = {467}, year = {2015}, month = {03/2015}, pages = {52-64}, type = {Journal article}, author = {Martin Ubertini and S{\'e}bastien Lefebvre and Rakotomalala, C and Francis Orvain} } @article {3743, title = {An improved taxonomic sampling is a necessary but not sufficient condition for resolving inter-families relationships in Caridean decapods.}, journal = {Genetica}, volume = {143}, year = {2015}, month = {2015 Apr}, pages = {195-205}, abstract = {

During the past decade, a large number of multi-gene analyses aimed at resolving the phylogenetic relationships within Decapoda. However relationships among families, and even among sub-families, remain poorly defined. Most analyses used an incomplete and opportunistic sampling of species, but also an incomplete and opportunistic gene selection among those available for Decapoda. Here we test in the Caridea if improving the taxonomic coverage following the hierarchical scheme of the classification, as it is currently accepted, provides a better phylogenetic resolution for the inter-families relationships. The rich collections of the Mus{\'e}um National d{\textquoteright}Histoire Naturelle de Paris are used for sampling as far as possible at least two species of two different genera for each family or subfamily. All potential markers are tested over this sampling. For some coding genes the amplification success varies greatly among taxa and the phylogenetic signal is highly saturated. This result probably explains the taxon-heterogeneity among previously published studies. The analysis is thus restricted to the genes homogeneously amplified over the whole sampling. Thanks to the taxonomic sampling scheme the monophyly of most families is confirmed. However the genes commonly used in Decapoda appear non-adapted for clarifying inter-families relationships, which remain poorly resolved. Genome-wide analyses, like transcriptome-based exon capture facilitated by the new generation sequencing methods might provide a sounder approach to resolve deep and rapid radiations like the Caridea.

}, issn = {1573-6857}, doi = {10.1007/s10709-014-9807-0}, author = {Aznar-Cormano, L and Brisset, J and Chan, T-Y and Laure Corbari and Puillandre, N and Utge, J and Magali Zbinden and Zuccon, D and Samadi, S} } @article {4232, title = {Modelling the effect of Cerastoderma edule bioturbation on microphytobenthos resuspension towards the planktonic food web of estuarine ecosystem}, journal = {Ecological Modelling}, volume = {316}, year = {2015}, month = {09/2015}, pages = {155-167}, abstract = {

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

}, author = {Rakotomalala, C and Karine Granger{\'e} and Martin Ubertini and For{\^e}t, M and Francis Orvain} } @article {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 {4126, title = {Diversity of cultivable fungi associated with Antarctic marine sponges and screening for their antimicrobial, antitumoral and antioxidant potential.}, journal = {World J Microbiol Biotechnol}, volume = {30}, year = {2014}, month = {2014 Jan}, pages = {65-76}, abstract = {

The diversity of sponge-associated fungi has been poorly investigated in remote geographical areas like Antarctica. In this study, 101 phenotypically different fungal isolates were obtained from 11 sponge samples collected in King George Island, Antarctica. The analysis of ITS sequences revealed that they belong to the phylum Ascomycota. Sixty-five isolates belong to the genera Geomyces, Penicillium, Epicoccum, Pseudeurotium, Thelebolus, Cladosporium, Aspergillus, Aureobasidium, Phoma, and Trichocladium but 36 isolates could not be identified at genus level. In order to estimate the potential of these isolates as producers of interesting bioactivities, antimicrobial, antitumoral and antioxidant activities of fungal culture extracts were assayed. Around 51\% of the extracts, mainly from the genus Geomyces and non identified relatives, showed antimicrobial activity against some of the bacteria tested. On the other hand, around 42\% of the extracts showed potent antitumoral activity, Geomyces sp. having the best performance. Finally, the potential of the isolated fungi as producers of antioxidant activity seems to be moderate. Our results suggest that fungi associated with Antarctic sponges, particularly Geomyces, would be valuable sources of antimicrobial and antitumoral compounds. To our knowledge, this is the first report describing the biodiversity and the metabolic potential of fungi associated with Antarctic marine sponges.

}, keywords = {Animals, Antarctic Regions, Anti-Bacterial Agents, Antineoplastic Agents, Antioxidants, Ascomycota, DNA, Ribosomal Spacer, Porifera, Sequence Analysis, DNA}, issn = {1573-0972}, doi = {10.1007/s11274-013-1418-x}, author = {Henr{\'\i}quez, Marlene and Vergara, Karen and Norambuena, Javiera and Beiza, Andrea and Maza, Felipe and Ubilla, Pamela and Araya, Ivanna and Ch{\'a}vez, Renato and San-Mart{\'\i}n, Aurelio and Darias, Jos{\'e} and Darias, Maria and Vaca, Inmaculada} }