@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 {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 {7825, title = {Water temperature influences larval survival of the amphidromous goby Sicyopterus lagocephalus}, journal = {Ecology of Freshwater Fish}, year = {2021}, month = {May-02-2022}, abstract = {Water warming induced by human activities can impact fish larvae survival, notably because it influences larval development and prey abundances. Amphidromous gobies of the subfamily Sicydiinae are particularly sensitive to this threat as the newly hatched free embryos are poorly developed and the first feeding opportunity only occurs after they reach the ocean. Here, we studied how water temperature (21, 23, 25, 29 and 31{\textdegree}C) impacts early development stages of Sicyopterus lagocephalus in both freshwater and marine aquaria (salinity 35). We monitored survival time, larval condition and the occurrence of critical developmental events such as mouth opening, yolk sac and oil globule resorption. In freshwater, the survival exceeded 150 hours at 21{\textdegree}C, while it dropped below 50 hours at 31{\textdegree}C. In seawater, the larval development of unfed larvae was significantly affected by temperature, survival time being greatly reduced in warmer waters. Accounting for the observed duration between mouth opening and the resorption of the oil globule, we estimated that larvae need to find suitable prey in seawater within a short time: around 30 hours during the peak of reproduction in summer. Otherwise, their endogenous reserves become depleted and their condition degrades. This study emphasises the sensitivity of free embryos to stream flow alterations, which contributes to the increase in water temperature and to the slowing down of larvae drift to the ocean. We conclude that once in seawater the temperature and feeding conditions experienced by amphidromous larvae are critical for survival.}, keywords = {amphidromy, Early life history, larval survival, mixed feeding period, starvation, water warming}, issn = {0906-6691}, doi = {10.1111/eff.12602}, url = {https://onlinelibrary.wiley.com/doi/10.1111/eff.12602}, author = {Teichert, Nils and Lagarde, Rapha{\"e}l and Occelli, Nicolas and Ponton, Dominique and Gaudin, Philippe} } @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 {8702, title = {Whale depredation in the South Georgia Patagonian toothfish (Dissostichus eleginoides ) fishery in the South Atlantic: a comparison of estimation methods}, journal = {ICES Journal of Marine Science}, volume = {78}, year = {2021}, month = {Mar-11-2023}, pages = {3817 - 3833}, issn = {1054-3139}, doi = {10.1093/icesjms/fsab212}, url = {https://academic.oup.com/icesjms/article/78/10/3817/6444887}, author = {Earl, Timothy and MacLeod, Eleanor and S{\"o}ffker, Marta and Gasco, N and Massiot-Granier, F{\'e}lix and Tixier, Paul and Darby, Christopher}, editor = {Northridge, Simon} } @article {8701, title = {Whale depredation in the South Georgia Patagonian toothfish (Dissostichus eleginoides ) fishery in the South Atlantic: a comparison of estimation methods}, journal = {ICES Journal of Marine Science}, volume = {78}, year = {2021}, month = {Mar-11-2023}, pages = {3817 - 3833}, issn = {1054-3139}, doi = {10.1093/icesjms/fsab212}, url = {https://academic.oup.com/icesjms/article/78/10/3817/6444887}, author = {Earl, Timothy and MacLeod, Eleanor and S{\"o}ffker, Marta and Nicolas Gasco and Massiot-Granier, F{\'e}lix and Tixier, Paul and Darby, Christopher}, editor = {Northridge, Simon} } @article {7480, title = {What evidence exists on the impacts of chemicals arising from human activity on tropical reef-building corals? A systematic map protocol}, journal = {Environmental Evidence}, volume = {9}, year = {2020}, month = {Aug-03-2020}, abstract = {Background: Tropical coral reefs cover ca. 0.1\% of the Earth{\textquoteright}s surface but host an outstanding biodiversity and provide important ecosystem services to millions of people living nearby. However, they are currently threatened by both local (e.g. nutrient enrichment and chemical pollution of coastal reefs, arising from poor land management, agriculture and industry) and global stressors (mainly seawater warming and acidification, i.e. climate change). Global and local stressors interact together in different ways, but the presence of one stressor often reduces the tolerance to additional stress. While global stressors cannot be halted by local actions, local stressors can be reduced through ecosystem management, therefore minimizing the impact of climate change on reefs. To inform decision-makers, we propose here to systematically map the evidence of impacts of chemicals arising from anthropogenic activities on tropical reef-building corals, which are the main engineer species of reef ecosystems. We aim to identify the combinations of chemical and coral responses that have attracted the most attention and for which evidence can be further summarized in a systematic review that will give practical information to decision-makers.
Methods: The systematic map will follow the Collaboration for Environmental Evidence Guidelines and Standards for Evidence Synthesis in Environmental Management. We will search the relevant literature using English terms combined in a tested search string in two publication databases (Web Of Science Core Collection and Scopus). The search string will combine terms describing the population (tropical reef-building corals) and the exposure (chemicals). We will supplement this literature with some more obtained through search engines, specialist websites, and through a call to local stakeholders. Titles, abstracts, and full-texts will then be successively screened using pre-defined eligibility criteria. A list of pre-defined variables will then be extracted from full-texts. Finally, a database of all studies included in the map with coded metadata will be produced. The evidence will be described in a map report with text, figures and tables, and a matrix showing the distribution and frequency of included study into types of exposure and types of outcomes will be computed to identify potential knowledge gaps and knowledge clusters.}, keywords = {Contamination, Hermatypic, Nutrients, pollution, Scleractinian}, doi = {10.1186/s13750-020-00203-x}, url = {https://environmentalevidencejournal.biomedcentral.com/articles/10.1186/s13750-020-00203-x}, author = {Ou{\'e}draogo, Dakis-Yaoba and Sordello, Romain and Brugneaux, S. and Burga, K. and Calvayrac, C. and Castelin, Magalie and Domart-Coulon, Isabelle and Ferrier-Pages, C and Mireille M.M. Guillaume and H{\'e}douin, L. and Joannot, P. and Perceval, O. and Reyjol, Yorick} } @article {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 {6730, title = {When {\textquotedblleft}safe{\textquotedblright} dams kill: Analyzing combination of impacts of overflow dams on the migration of silver eels}, journal = {Ecological Engineering}, volume = {145}, year = {2020}, pages = {105741}, abstract = {1. The drastic decline in European eel\ Anguilla anguilla\ stock is now widely recognized. However, while various causes for this decline have been identified, the relative importance of each cause remains unclear.

2. During the catadromous migration of silver eels, the negative impact of dams is frequently highlighted, but mainly for powered dams (with turbines) or where connectivity is completely ruptured. Mechanical impact due to turbine blades is often considered the most important cause of mortality of silver eels during downstream migration. Consequently, non-powered dams equipped with spillways are often considered safe for the passage of migrating silver eels.

3. We hypothesized that, to understand the negative impacts of dams, a much wider context must be considered than turbine mortality alone. Using an acoustic telemetry survey of silver eels, we demonstrated the negative effects of non-powered dams on downstream migration.

4. Five main impacts on eel populations were highlighted: (i) the attenuation or loss of triggering factors, leading to an absence of or delay in migration; (ii) extra delays and extra distances travelled when crossing the dam; (iii) extra energetic costs of the additional distance travelled as result of exploring the dam and the reservoir to find other escape passages; (iv) the selection of a more risky behavioral phenotype, i.e., bold eels; and (v) direct blocking once migration has started. Mortality was evaluated as a supplementary impact. Some of these effects (attenuation of triggers, extra delays to cross the dam) might be more important than the same effect from powered dams, probably due to the constant high water discharge required for turbines that facilitate the passage of eels.

5. As these {\textquotedblleft}safe{\textquotedblright} dams are very widespread, they must be considered a potential threat to effective eel conservation.}, keywords = {Acoustic telemetry, Migration, mortality, Non-powered dams, Silver eels, Turbines drinking water intake}, issn = {0925-8574}, doi = {https://doi.org/10.1016/j.ecoleng.2020.105741}, url = {http://www.sciencedirect.com/science/article/pii/S092585742030029X}, author = {Thomas Trancart and Alexandre Carpentier and Anthony Acou and Fabien Charrier and Virgile Mazel and Valentin Danet and Eric Feunteun} } @article {6686, title = {Without quality presence-absence data, discrimination metrics such as TSS can be misleading measures of model performance}, journal = {Journal of Biogeography}, volume = {45}, year = {2018}, month = {Jan-09-2018}, pages = {1994 - 2002}, doi = {10.1111/jbi.2018.45.issue-910.1111/jbi.13402}, url = {http://doi.wiley.com/10.1111/jbi.2018.45.issue-9http://doi.wiley.com/10.1111/jbi.13402http://onlinelibrary.wiley.com/wol1/doi/10.1111/jbi.13402/fullpdfhttps://api.wiley.com/onlinelibrary/tdm/v1/articles/10.1111\%2Fjbi.13402}, author = {Leroy, Boris and Delsol, Robin and Hugueny, Bernard and Meynard, Christine N. and Barhoumi, Ch{\'e}{\"\i}ma and Barbet-Massin, Morgane and Bellard, C{\'e}line} } @article {5045, title = {What Is Marine Biodiversity? Towards Common Concepts and Their Implications for Assessing Biodiversity Status. Front}, journal = {Bridging the Gap Between Policy and Science in Assessing the Health Status of Marine Ecosystems}, volume = {3}, year = {2017}, pages = {377}, author = {Cochrane, SKJ and Andersen, JH and Berg, T and Hugues Blanchet and Borja, A and Carstensen, J and Elliott, M and Hummel, H and Nathalie Niquil and Renaud, PE} } @article {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 {4215, title = {Which factors determine the altitudinal distribution of tropical Andean riverine fishes?}, journal = {Revista de Biologia Tropical}, volume = {64}, year = {2016}, month = {03/2016}, pages = {173-192}, abstract = {

Abstract: Which factors determine the altitudinal distribution of tropical Andean riverine fishes?

Altitudinal gradients represent an appropriate system to assess whether there is a relationship between richness patterns, environmental variables, and the ecological processes that determine the species type and number inhabiting a given area. In mountain streams freshwater fishes, the most prevalent relationship is a monotonic decrease in species richness with elevation. The objective of this study was to evaluate four hypotheses that can explain the negative relationship between local fish species richness and altitude, 1) the hypothesis of decreasing energy availability, 2) the hypothesis of increasing climate severity, 3) the hypothesis of habitat diversity, and 4) the hypothesis of isolation by physical severity of the environment. Fish and macro-invertebrates were col- lected following standard methods from 83 sites (between 200-4 000 meters) of two river basins in the Bolivian Amazon. The first hypothesis was tested by analyzing relationships between the density of macro-invertebrates, the richness of invertivorous fish species and altitude; while the second and third hypotheses were assessed by a multiple regression analysis (GLM) between fish species richness and several local and regional factors. Besides, assemblage dissimilarity between sites along the altitudinal gradient was analyzed using βsim and βness indices. Fish richness decreases linearly with increasing altitude. The density of macro-invertebrates tends to increase at higher altitudes, contrary to invertivorous fish species richness, suggesting that energy availability is not a limiting factor for fish species colonization. The GLM explained 86 \% of the variation in fish species richness, with a significant contribution of water temperature, maximum slope in the river mainstem, and stream width. There is a higher species turnover (βsim) between sites at low elevation. Inversely, βness shows higher values in the upper parts, corresponding to change in assemblages mainly due to species loss. Taken together, these results suggest that climatic and physical severities create strong barriers to colonization, further explaining the decrease in fish richness along the altitudinal gradient.

}, issn = {ISSN-0034-7744}, author = {E. De La Barra and J. Zubieta and G. Aguilera and M. Maldonado and Marc Pouilly and Thierry Oberdorff} } @article {4216, title = {Worldwide freshwater fish homogenization is driven by a few widespread non-native species}, journal = {Biological Invasions}, year = {2016}, abstract = {

Introduction of non-native species have changed the composition of freshwater fish assem- blages throughout the world and hence the dissimilar- ity between them, either toward homogenization (i.e. decrease in dissimilarity) or differentiation (i.e. increase in dissimilarity). However, there is still no assessment of individual contributions of non-native species to this overall trend at the global scale. Here, we disentangle individual non-native species effect from the global effect of the whole introduced species pool at the biogeographic realm scale and test which determinant can explain the effect of non-native species on changes in assemblage dissimilarity. Our results show that the contribution of introduced species on changes in dissimilarity is highly variable and all directions of changes are observed through the introduction process, i.e. either toward homogeniza- tion, differentiation or no change. Overall, only a few widespread species contribute to the worldwide homogenization pattern, whereas most of introduced species slightly contribute to the global change in dissimilarity. The effect of species on change in dissimilarity was influenced by the introduction pres- sure but also by whether introduced species were translocated (i.e. introduced to other basins within their biogeographic realm) or exotic (i.e. introduced from other biogeographic realms). Homogenization is strongly determined by the species translocated within a realm and only by few widespread exotic species whereas the majority of exotics contribute to a differentiation effect. Nevertheless, under future intensified human pressure, the exotic species spread across realms is predicted to increase and their differentiation effect might turn towards homogeniza- tion, and might trigger the global homogenization trend.

}, doi = {DOI 10.1007/s10530-016-1067-8}, author = {A. Toussaint and O. Beauchard and Thierry Oberdorff and S. Brosse and S. Vill{\'e}ger} } @article {3769, title = {What did we learn from PEGASEAS forum "Science and Governance of the Channel Marine Ecosystem"?}, journal = {Mar Pollut Bull}, volume = {93}, year = {2015}, month = {2015 Apr 15}, pages = {1-4}, abstract = {

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

}, issn = {1879-3363}, doi = {10.1016/j.marpolbul.2015.02.021}, author = {L Evariste and Claquin, Pascal and Jean-Paul Robin and Arnaud Auber and Abigail McQuatters-Gollop and Fletcher, Stephen and Glegg, Gillian and Jean-Claude Dauvin} } @article {4678, title = {Which factors determine the altitudinal distribution of tropical Andean riverine fishes?}, journal = {Revista de Biolog{{\'\i}a Tropical/International Journal of Tropical Biology and Conservation}, volume = {64}, year = {2015}, pages = {157{\textendash}176}, author = {De La Barra, Evans and Zubieta, Jos{\'e} and Aguilera, Gast{\'o}n and Maldonado, Mabel and Marc Pouilly and Oberdorff, Thierry} } @article {6834, title = {Windscape and tortuosity shape the flight costs of northern gannets}, journal = {Journal of Experimental Biology}, volume = {217}, year = {2014}, pages = {876{\textendash}885}, doi = {10.1242/jeb.097915 }, url = {https://jeb.biologists.org/content/217/6/876.short}, author = {Am{\'e}lineau, Fran{\c c}oise and Clara P{\'e}ron and Lescro{\"e}l, Am{\'e}lie and Authier, Matthieu and Provost, Pascal and Gr{\'e}millet, David} }