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Auteur Barberan, A.; Fernandez-Guerra, A.; Auguet, J.C.; Galand, P.E.; Casamayor, E.O. doi  openurl
  Titre Phylogenetic ecology of widespread uncultured clades of the Kingdom Euryarchaeota Type (up) Article scientifique
  Année 2011 Publication Revue Abrégée Mol Ecol  
  Volume 20 Numéro 9 Pages 1988-1996  
  Mots-Clés 16S/genetics Sequence Analysis; Biodiversity Databases; dna; Genetic *Ecosystem Environment Euryarchaeota/*classification/*genetics Genes; Ribosomal; rRNA/*genetics Phylogeny RNA  
  Résumé Despite its widespread distribution and high levels of phylogenetic diversity, microbes are poorly understood creatures. We applied a phylogenetic ecology approach in the Kingdom Euryarchaeota (Archaea) to gain insight into the environmental distribution and evolutionary history of one of the most ubiquitous and largely unknown microbial groups. We compiled 16S rRNA gene sequences from our own sequence libraries and public genetic databases for two of the most widespread mesophilic Euryarchaeota clades, Lake Dagow Sediment (LDS) and Rice Cluster-V (RC-V). The inferred population history indicated that both groups have undergone specific nonrandom evolution within environments, with several noteworthy habitat transition events. Remarkably, the LDS and RC-V groups had enormous levels of genetic diversity when compared with other microbial groups, and proliferation of sequences within each single clade was accompanied by significant ecological differentiation. Additionally, the freshwater Euryarchaeota counterparts unexpectedly showed high phylogenetic diversity, possibly promoted by their environmental adaptability and the heterogeneous nature of freshwater ecosystems. The temporal phylogenetic diversification pattern of these freshwater Euryarchaeota was concentrated both in early times and recently, similarly to other much less diverse but deeply sampled archaeal groups, further stressing that their genetic diversity is a function of environment plasticity. For the vast majority of living beings on Earth (i.e. the uncultured microorganisms), how they differ in the genetic or physiological traits used to exploit the environmental resources is largely unknown. Inferring population history from 16S rRNA gene-based molecular phylogenies under an ecological perspective may shed light on the intriguing relationships between lineage, environment, evolution and diversity in the microbial world.  
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Auteur Strauß, A.; Guilhaumon, F.; Randrianiaina, R.D.; Valero, K.C.W.; Vences, M.; Glos, J. url  doi
openurl 
  Titre Opposing Patterns of Seasonal Change in Functional and Phylogenetic Diversity of Tadpole Assemblages Type (up) Article scientifique
  Année 2016 Publication Revue Abrégée Plos One  
  Volume 11 Numéro 3 Pages e0151744  
  Mots-Clés Animal phylogenetics; Ecological metrics; Frogs; Phylogenetics; Polynomials; Seasons; species diversity; Tadpoles  
  Résumé Assemblages that are exposed to recurring temporal environmental changes can show changes in their ecological properties. These can be expressed by differences in diversity and assembly rules. Both can be identified using two measures of diversity: functional (FD) and phylogenetic diversity (PD). Frog communities are understudied in this regard, especially during the tadpole life stage. We utilised tadpole assemblages from Madagascan rainforest streams to test predictions of seasonal changes on diversity and assemblage composition and on diversity measures. From the warm-wet to the cool-dry season, species richness (SR) of tadpole assemblages decreased. Also FD and PD decreased, but FD less and PD more than expected by chance. During the dry season, tadpole assemblages were characterised by functional redundancy (among assemblages—with increasing SR), high FD (compared to a null model), and low PD (phylogenetic clustering; compared to a null model). Although mutually contradictory at first glance, these results indicate competition as tadpole community assembly driving force. This is true during the limiting cool-dry season but not during the more suitable warm-wet season. We thereby show that assembly rules can strongly depend on season, that comparing FD and PD can reveal such forces, that FD and PD are not interchangeable, and that conclusions on assembly rules based on FD alone are critical.  
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  Numéro d'Appel MARBEC @ isabelle.vidal-ayouba @ collection 1562  
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Auteur Moullec, F.; Barrier, N.; Drira, S.; Guilhaumon, F.; Marsaleix, P.; Somot, S.; Ulses, C.; Velez, L.; Shin, Y.-J. url  doi
openurl 
  Titre An End-to-End Model Reveals Losers and Winners in a Warming Mediterranean Sea Type (up) Article scientifique
  Année 2019 Publication Revue Abrégée Front. Mar. Sci.  
  Volume 6 Numéro Pages  
  Mots-Clés Biodiversity scenario; Climate Change; Ecosytem model; End-to-end model; Fishing; Mediterraenan sea; Osmose  
  Résumé The Mediterranean Sea is now recognized as a hotspot of global change, ranking among the fastest warming ocean regions. In order to project future plausible scenarios of marine biodiversity at the scale of the whole Mediterranean basin, the current challenge is to develop an explicit representation of the multispecies spatial dynamics under the combined influence of fishing pressure and climate change. Notwithstanding the advanced state-of-the-art modelling of food webs in the region, no previous studies have projected the consequences of climate change on marine ecosystems in an integrated way, considering changes in ocean dynamics, in phyto- and zoo-plankton productions, shifts in Mediterranean species distributions and their trophic interactions at the whole basin scale. We used an integrated modelling chain including a high-resolution regional climate model, a regional biogeochemistry model and a food web model OSMOSE to project the potential effects of climate change on biomass and catches for a wide array of species in the Mediterranean Sea. We showed that projected climate change would have large consequences for marine biodiversity by the end of the 21st century under a business-as-usual scenario (RCP8.5 with current fishing mortality). The total biomass of high trophic level species (fish and macroinvertebrates) is projected to increase by 5% and 22% while total catch is projected to increase by 0.3% and 7% by 2021-2050 and 2071-2100, respectively. However, these global increases masked strong spatial and inter-species contrasts. The bulk of increase in catch and biomass would be located in the southeastern part of the basin while total catch could decrease by up to 23% in the western part. Winner species would mainly belong to the pelagic group, are thermophilic and/or exotic, of smaller size and of low trophic level while loser species are generally large-sized, some of them of great commercial interest, and could suffer from a spatial mismatch with potential prey subsequent to a contraction or shift of their geographic range. Given the already poor conditions of exploited resources, our results suggest the need for fisheries management to adapt to future changes and to incorporate climate change impacts in future management strategy evaluation.  
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  ISSN 2296-7745 ISBN Médium  
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  Numéro d'Appel MARBEC @ isabelle.vidal-ayouba @ collection 2587  
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Auteur Catherine, A.; Selma, M.; Mouillot, D.; Troussellier, M.; Bernard, C. url  doi
openurl 
  Titre Patterns and multi-scale drivers of phytoplankton species richness in temperate peri-urban lakes Type (up) Article scientifique
  Année 2016 Publication Revue Abrégée Science of The Total Environment  
  Volume 559 Numéro Pages 74-83  
  Mots-Clés Lake- and catchment-scale; Phytoplankton; Productivity–diversity relationship; Random forest; Residuals analysis; species richness  
  Résumé Local species richness (SR) is a key characteristic affecting ecosystem functioning. Yet, the mechanisms regulating phytoplankton diversity in freshwater ecosystems are not fully understood, especially in peri-urban environments where anthropogenic pressures strongly impact the quality of aquatic ecosystems. To address this issue, we sampled the phytoplankton communities of 50 lakes in the Paris area (France) characterized by a large gradient of physico-chemical and catchment-scale characteristics. We used large phytoplankton datasets to describe phytoplankton diversity patterns and applied a machine-learning algorithm to test the degree to which species richness patterns are potentially controlled by environmental factors. Selected environmental factors were studied at two scales: the lake-scale (e.g. nutrients concentrations, water temperature, lake depth) and the catchment-scale (e.g. catchment, landscape and climate variables). Then, we used a variance partitioning approach to evaluate the interaction between lake-scale and catchment-scale variables in explaining local species richness. Finally, we analysed the residuals of predictive models to identify potential vectors of improvement of phytoplankton species richness predictive models. Lake-scale and catchment-scale drivers provided similar predictive accuracy of local species richness (R2 = 0.458 and 0.424, respectively). Both models suggested that seasonal temperature variations and nutrient supply strongly modulate local species richness. Integrating lake- and catchment-scale predictors in a single predictive model did not provide increased predictive accuracy; therefore suggesting that the catchment-scale model probably explains observed species richness variations through the impact of catchment-scale variables on in-lake water quality characteristics. Models based on catchment characteristics, which include simple and easy to obtain variables, provide a meaningful way of predicting phytoplankton species richness in temperate lakes. This approach may prove useful and cost-effective for the management and conservation of aquatic ecosystems.  
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  ISSN 0048-9697 ISBN Médium  
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  Numéro d'Appel MARBEC @ isabelle.vidal-ayouba @ collection 1566  
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Auteur Tisseuil, C.; Leprieur, F.; Grenouillet, G.; Vrac, M.; Lek, S. url  doi
openurl 
  Titre Projected impacts of climate change on spatio-temporal patterns of freshwater fish beta diversity: a deconstructing approach Type (up) Article scientifique
  Année 2012 Publication Revue Abrégée Global Ecology and Biogeography  
  Volume 21 Numéro 12 Pages 1213-1222  
  Mots-Clés Beta diversity; France; ensemble forecasting; freshwater fish; nestedness; species distribution model; temporal changes; turnover  
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  Numéro d'Appel MARBEC @ isabelle.vidal-ayouba @ collection 799  
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