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Auteur Bender, M.G.; Leprieur, F.; Mouillot, D.; Kulbicki, M.; Parravicini, V.; Pie, M.R.; Barneche, D.R.; Oliveira-Santos, L.G.R.; Floeter, S.R. doi  openurl
  Titre Isolation drives taxonomic and functional nestedness in tropical reef fish faunas Type Article scientifique
  Année 2017 Publication Revue Abrégée Ecography  
  Volume 40 Numéro 3 Pages 425-435  
  Mots-Clés assembly rules; biodiversity; communities; coral-reef; diversity; global patterns; islands; null model analysis; species richness; traits  
  Résumé Taxonomic nestedness, the degree to which the taxonomic composition of species-poor assemblages represents a subset of richer sites, commonly occurs in habitat fragments and islands differing in size and isolation from a source pool. However, species are not ecologically equivalent and the extent to which nestedness is observed in terms of functional trait composition of assemblages still remains poorly known. Here, using an extensive database on the functional traits and the distributions of 6316 tropical reef fish species across 169 sites, we assessed the levels of taxonomical vs functional nestedness of reef fish assemblages at the global scale. Functional nestedness was considerably more common than taxonomic nestedness, and generally associated with geographical isolation, where nested subsets are gradually more isolated from surrounding reef areas and from the center of biodiversity. Because a nested pattern in functional composition implies that certain combinations of traits may be represented by few species, we identified these groups of low redundancy that include large herbivore-detritivores and omnivores, small piscivores, and macro-algal herbivores. The identified patterns of nestedness may be an outcome of the interaction between species dispersal capabilities, resource requirements, and gradients of isolation among habitats. The importance of isolation in generating the observed pattern of functional nestedness within biogeographic regions may indicate that disturbance in depauperate and isolated sites can have disproportionate effects on the functional structure of their reef fish assemblages.  
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  Volume de collection (down) Numéro de collection Edition  
  ISSN 0906-7590 ISBN Médium  
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  Numéro d'Appel MARBEC @ alain.herve @ collection 2107  
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Auteur Ottimofiore, E.; Albouy, C.; Leprieur, F.; Descombes, P.; Kulbicki, M.; Mouillot, D.; Parravicini, V.; Pellissier, L. doi  openurl
  Titre Responses of coral reef fishes to past climate changes are related to life-history traits Type Article scientifique
  Année 2017 Publication Revue Abrégée Ecol. Evol.  
  Volume 7 Numéro 6 Pages 1996-2005  
  Mots-Clés climate change; dispersal; diversity; environmental-change; future; global patterns; Indo-Pacific Ocean; range shifts; refugia; richness; sea-level; species distribution; species distribution models; temperature  
  Résumé Coral reefs and their associated fauna are largely impacted by ongoing climate change. Unravelling species responses to past climatic variations might provide clues on the consequence of ongoing changes. Here, we tested the relationship between changes in sea surface temperature and sea levels during the Quaternary and present-day distributions of coral reef fish species. We investigated whether species-specific responses are associated with life-history traits. We collected a database of coral reef fish distribution together with life-history traits for the Indo-Pacific Ocean. We ran species distribution models (SDMs) on 3,725 tropical reef fish species using contemporary environmental factors together with a variable describing isolation from stable coral reef areas during the Quaternary. We quantified the variance explained independently by isolation from stable areas in the SDMs and related it to a set of species traits including body size and mobility. The variance purely explained by isolation from stable coral reef areas on the distribution of extant coral reef fish species largely varied across species. We observed a triangular relationship between the contribution of isolation from stable areas in the SDMs and body size. Species, whose distribution is more associated with historical changes, occurred predominantly in the Indo-Australian archipelago, where the mean size of fish assemblages is the lowest. Our results suggest that the legacy of habitat changes of the Quaternary is still detectable in the extant distribution of many fish species, especially those with small body size and the most sedentary. Because they were the least able to colonize distant habitats in the past, fish species with smaller body size might have the most pronounced lags in tracking ongoing climate change.  
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  Volume de collection (down) Numéro de collection Edition  
  ISSN 2045-7758 ISBN Médium  
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  Numéro d'Appel MARBEC @ alain.herve @ collection 2108  
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Auteur 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 (down) Numéro de collection Edition  
  ISSN 0012-9615 ISBN Médium  
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  Numéro d'Appel MARBEC @ isabelle.vidal-ayouba @ collection 2620  
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Auteur Maire, Eva; Grenouillet, G.; Brosse, S.; Villeger, S. url  doi
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  Titre How many dimensions are needed to accurately assess functional diversity? A pragmatic approach for assessing the quality of functional spaces Type Article scientifique
  Année 2015 Publication Revue Abrégée Global Ecology and Biogeography  
  Volume 24 Numéro 6 Pages 728-740  
  Mots-Clés Diversity indices; functional dendrogram; functional dissimilarity; functional ecology; functional traits; multidimensional space  
  Résumé Aim Functional diversity is a key facet of biodiversity that is increasingly being measured to quantify its changes following disturbance and to understand its effects on ecosystem functioning. Assessing the functional diversity of assemblages based on species traits requires the building of a functional space (dendrogram or multidimensional space) where indices will be computed. However, there is still no consensus on the best method for measuring the quality of functional spaces. Innovation Here we propose a framework for evaluating the quality of a functional space (i.e. the extent to which it is a faithful representation of the initial functional trait values). Using simulated datasets, we analysed the influence of the number and type of functional traits used and of the number of species studied on the identity and quality of the best functional space. We also tested whether the quality of the functional space affects functional diversity patterns in local assemblages, using simulated datasets and a real study case. Main conclusions The quality of functional space strongly varied between situations. Spaces having at least four dimensions had the highest quality, while functional dendrograms and two-dimensional functional spaces always had a low quality. Importantly, we showed that using a poor-quality functional space could led to a biased assessment of functional diversity and false ecological conclusions. Therefore, we advise a pragmatic approach consisting of computing all the possible functional spaces and selecting the most parsimonious one.  
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  Volume de collection (down) Numéro de collection Edition  
  ISSN 1466-8238 ISBN Médium  
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  Numéro d'Appel MARBEC @ alain.herve @ collection 1341  
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Auteur Durand, J.-D.; Hubert, N.; Shen, K.-N.; Borsa, P. doi  openurl
  Titre DNA barcoding grey mullets Type Article scientifique
  Année 2017 Publication Revue Abrégée Rev. Fish. Biol. Fish.  
  Volume 27 Numéro 1 Pages 233-243  
  Mots-Clés coi; fish assemblages; genetics; identification; level; management; marine fishes; maximum-parsimony methods; mitochondrial phylogeny; Mugilidae; new-caledonia; south-america; species diversity; Taxonomy; teleostei mugilidae  
  Résumé Despite the ecological and commercial importance of grey mullets (fish family Mugilidae), their taxonomy and systematics are still much debated. Reasons for this are the low level of morphometric variability and the relatively poor phylogenetic information borne by the morpho-anatomical characters used thus far in diagnosing species. Here, we evaluate the potential of DNA barcoding to accurately delineate species and assign unknown specimens to taxa in the family Mugilidae. Our reference sample consists of 257 individuals from 91 lineages characterized by their nucleotide sequences at the COI, cytochrome b, and 16S rRNA loci. These lineages correspond to 55 species according to the current taxonomy, and 36 presumed cryptic species. All known and presumed cryptic species within the 'Mugil cephalus' (n = 15) and 'M. curema' (n = 6) species complexes, as well as within genera Chelon (n = 10), Crenimugil (n = 6), Osteomugil (n = 6), and Planiliza (n = 18) were successfully recovered as distinct lineages by COI gene sequences (598 bp), demonstrating the utility of this marker to delineate species in the family Mugilidae. Inconsistencies in the labeling of sequences deposited in GenBank were ascribed to species misidentification. A proportion of these misidentifications occurred in the course of dedicated barcoding surveys, further emphasizing the need for an accurate and exhaustive reference barcoding database for Mugilidae.  
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  Volume de collection (down) Numéro de collection Edition  
  ISSN 0960-3166 ISBN Médium  
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  Numéro d'Appel MARBEC @ alain.herve @ collection 2109  
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