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Auteur (up) Chao, A.; Chiu, C.-H.; Villeger, S.; Sun, I.-F.; Thorn, S.; Lin, Y.-C.; Chiang, J.-M.; Sherwin, W.B. doi  openurl
  Titre An attribute-diversity approach to functional diversity, functional beta diversity, and related (dis)similarity measures Type Article scientifique
  Année 2019 Publication Revue Abrégée Ecol. Monogr.  
  Volume 89 Numéro 2 Pages Unsp-e01343  
  Mots-Clés attribute diversity; biodiversity; biological diversity; consensus; conservation; differentiation measures; diversity decomposition; evenness; framework; functional (dis)similarity; functional beta diversity; functional diversity; Hill numbers; phylogenetic diversity; quadratic entropy; similarity; species diversity; species richness; species traits; trait diversity  
  Résumé Based on the framework of attribute diversity (a generalization of Hill numbers of order q), we develop a class of functional diversity measures sensitive not only to species abundances but also to trait-based species-pairwise functional distances. The new method refines and improves on the conventional species-equivalent approach in three areas: (1) the conventional method often gives similar values (close to unity) to assemblages with contrasting levels of functional diversity; (2) when a distance metric is unbounded, the conventional functional diversity depends on the presence/absence of other assemblages in the study; (3) in partitioning functional gamma diversity into alpha and beta components, the conventional gamma is sometimes less than alpha. To resolve these issues, we add to the attribute-diversity framework a novel concept: tau, the threshold of functional distinctiveness between any two species; here, tau can be chosen to be any positive value. Any two species with functional distance >= tau are treated as functionally equally distinct. Our functional diversity quantifies the effective number of functionally equally distinct species (or “virtual functional groups”) with all pairwise distances at least tau for different species pairs. We advocate the use of two complementary diversity profiles (tau profile and q profile), which depict functional diversity with varying levels of tau and q, respectively. Both the conventional species-equivalent method (i.e., tau is the maximum of species-pairwise distances) and classic taxonomic diversity (i.e., tau is the minimum of non-zero species-pairwise distances) are incorporated into our proposed tau profile for an assemblage. For any type of species-pairwise distance matrices, our attribute-diversity approach allows proper diversity partitioning, with the desired property gamma >= alpha and thus avoids all the restrictions that apply to the conventional diversity decomposition. Our functional alpha and gamma are interpreted as the effective numbers of functionally equally distinct species, respectively, in an assemblage and in the pooled assemblage, while beta is the effective number of equally large assemblages with no shared species and all species in the assemblages being equally distinct. The resulting beta diversity can be transformed to obtain abundance-sensitive Sorensen- and Jaccard-type functional (dis)similarity profiles. Hypothetical and real examples are used to illustrate the framework. Online software and R codes are available to facilitate computations.  
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  Volume de collection Numéro de collection Edition  
  ISSN 0012-9615 ISBN Médium  
  Région Expédition Conférence  
  Notes WOS:000477640700001 Approuvé pas de  
  Numéro d'Appel MARBEC @ isabelle.vidal-ayouba @ collection 2620  
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Auteur (up) Cheng, L.; Blanchet, S.; Loot, G.; Villeger, S.; Zhang, T.; Lek, S.; Lek-Ang, S.; Li, Z. url  doi
openurl 
  Titre Temporal changes in the taxonomic and functional diversity of fish communities in shallow Chinese lakes: the effects of river–lake connections and aquaculture Type Article scientifique
  Année 2014 Publication Revue Abrégée Aquatic Conservation: Marine and Freshwater Ecosystems  
  Volume 24 Numéro 1 Pages 23-34  
  Mots-Clés biodiversity loss; biotic homogenization; Functional richness; lakes; Yangtze River basin  
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  Volume de collection Numéro de collection Edition  
  ISSN 1099-0755 ISBN Médium  
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  Numéro d'Appel MARBEC @ alain.herve @ collection 1160  
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Auteur (up) Chiarello, M.; Auguet, J.-C.; Bettarel, Y.; Bouvier, C.; Claverie, T.; Graham, N.A.J.; Rieuvilleneuve, F.; Sucre, E.; Bouvier, T.; Villeger, S. doi  openurl
  Titre Skin microbiome of coral reef fish is highly variable and driven by host phylogeny and diet Type Article scientifique
  Année 2018 Publication Revue Abrégée Microbiome  
  Volume 6 Numéro Pages 147  
  Mots-Clés bacterial communities; divergence; diversity; evolution; insights; life-history; Microbiota; mucus; patterns; Phylogenetic diversity; Phylogenetic signal; Phylosymbiosis; sequence data; Teleost; Tropical; vulnerability  
  Résumé Background: The surface of marine animals is covered by abundant and diversified microbial communities, which have major roles for the health of their host While such microbiomes have been deeply examined in marine invertebrates such as corals and sponges, the microbiomes living on marine vertebrates have received less attention. Specifically, the diversity of these microbiomes, their variability among species, and their drivers are still mostly unknown, especially among the fish species living on coral reefs that contribute to key ecosystem services while they are increasingly affected by human activities. Here, we investigated these knowledge gaps analyzing the skin microbiome of 138 fish individuals belonging to 44 coral reef fish species living in the same area. Results: Prokaryotic communities living on the skin of coral reef fishes are highly diverse, with on average more than 600 OTUs per fish, and differ from planktonic microbes. Skin microbiomes varied between fish individual and species, and interspecific differences were slightly coupled to the phylogenetic affiliation of the host and its ecological traits. Conclusions: These results highlight that coral reef biodiversity is greater than previously appreciated, since the high diversity of macro-organisms supports a highly diversified microbial community. This suggest that beyond the loss of coral reefs-associated macroscopic species, anthropic activities on coral reefs could also lead to a loss of still unexplored host-associated microbial diversity, which urgently needs to be assessed.  
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  Volume de collection Numéro de collection Edition  
  ISSN 2049-2618 ISBN Médium  
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  Numéro d'Appel MARBEC @ alain.herve @ collection 2421  
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Auteur (up) Chu, T.V.; Torréton, J.-P.; Mari, X.; Nguyen, H.M.T.; Pham, K.T.; Pham, T.T.; Bouvier, T.; Bettarel, Y.; Pringault, O.; Bouvier, C.; Rochelle-Newall, E. url  doi
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  Titre Nutrient ratios and the complex structure of phytoplankton communities in a highly turbid estuary of Southeast Asia Type Article scientifique
  Année 2014 Publication Revue Abrégée Environ Monit Assess  
  Volume 186 Numéro 12 Pages 8555-8572  
  Mots-Clés Hab; Phytoplankton diversity; Southeast Asia; vietnam  
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  ISSN 0167-6369 ISBN Médium  
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  Numéro d'Appel MARBEC @ alain.herve @ collection 1161  
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Auteur (up) Cocquempot, L.; Delacourt, C.; Paillet, J.; Riou, P.; Aucan, J.; Castelle, B.; Charria, G.; Claudet, J.; Conan, P.; Coppola, L.; Hocdé, R.; Planes, S.; Raimbault, P.; Savoye, N.; Testut, L.; Vuillemin, R. doi  openurl
  Titre Coastal Ocean and Nearshore Observation: A French Case Study Type Article scientifique
  Année 2019 Publication Revue Abrégée Front. Mar. Sci.  
  Volume 6 Numéro Pages Unsp-324  
  Mots-Clés 2013/2014 winter; atlantic coast; coastal ocean; coastline; diversity; ecosystem; increases; interdisciplinary; national structuration; nutrient ratios; observation infrastructure; phytoplankton community; temperature; variability; wave activity  
  Résumé To understand and predict the physical, chemical, and biological processes at play in coastal and nearshore marine areas requires an integrated, interdisciplinary approach. The case study of the French structuration of coastal ocean and nearshore observing systems provides an original overview on a federative research infrastructure named ILICO. It is a notable example of national structuration and pan-institution efforts to investigate the forefront of knowledge on the processes at work within the critical coastal zone. ILICO comprises, in a pluridisciplinary approach, eight distributed network-systems of observation and data analysis that are accredited and financially supported by French research institutions and the French Ministry for Higher Education, Research, and Innovation. ILICO observation points are implemented along metropolitan and overseas French coasts, where coastline dynamics, sea level evolution, physical and biogeochemical water properties, coastal water dynamics, phytoplankton composition, and health of coral reefs are monitored in order to address a wide range of scientific questions. To give an overview of the diversity and potential of the observations carried out, this paper offers a detailed presentation of three constituting networks: Service Observation en Milieu LITtoral (SOMLIT), with homogeneous sampling strategies, DYNALIT, with heterogeneous sampling strategies adapted to different environments, and Mediterranean Ocean Observing System for the Environment (MOOSE), an integrated, pluri-disciplinary coasta/offshore regional observatory in the north-western Mediterranean Sea. ILICO was conceived using a European framework. It addresses the great challenges of the next decade in terms of sustainability, cost-efficiency, interoperability, and innovation. This paper emphasizes the added-value of federating these systems, and highlights some recommendations for the future.  
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  Numéro d'Appel MARBEC @ isabelle.vidal-ayouba @ collection 2604  
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