Uses of GBIF in scientific research

Peer-reviewed research citing GBIF as a data source, with at least one author from France.
Extracted from the Mendeley GBIF Public Library.

List of publications

  • Bellard C, Genovesi P, Jeschke J (2016)

    Global patterns in threats to vertebrates by biological invasions

    Proceedings of the Royal Society B: Biological Sciences 283(1823) 20152454.

    Biological invasions as drivers of biodiversity loss have recently been challenged. Fundamentally, we must know where species that are threatened by invasive alien species (IAS) live, and the degree to which they are threatened. We report the first study linking 1372 vertebrates threatened by more than 200 IAS from the completely revised Global Invasive Species Database. New maps of the vulnerability of threatened vertebrates to IAS permit assessments of whether IAS have a major influence on biodiversity, and if so, which taxonomic groups are threatened and where they are threatened. We found that centres of IAS-threatened vertebrates are concentrated in the Americas, India, Indonesia, Australia and New Zealand. The areas in which IAS-threatened species are located do not fully match the current hotspots of invasions, or the current hotspots of threatened species. The relative importance of biological invasions as drivers of biodiversity loss clearly varies across regions and taxa, and changes over time, with mammals from India, Indonesia, Australia and Europe are increasingly being threatened by IAS. The chytrid fungus primarily threatens amphibians, whereas invasive mammals primarily threaten other vertebrates. The differences in IAS threats between regions and taxa can help efficiently target IAS, which is essential for achieving the Strategic Plan 2020 of the Convention on Biological Diversity.

  • Bocksberger G, Schnitzler J, Chatelain C, Daget P, Janssen T, Schmidt M et al. (2016)

    Climate and the distribution of grasses in West Africa

    Journal of Vegetation Science.

    Questions Which environmental variables influence grass diversity in West Africa? What are the effects of climate and grass functional traits on the spatial patterns (richness and abundance) of the grass clades Andropogoneae, Paniceae and Chloridoideae? Location West Africa, demarcated by the Atlantic Ocean in the west and south (20° W and 4° N), the Sahara desert in the north (25° N) and the border between Niger and Chad in the east (20° E). Methods Based on 38 912 georeferenced occurrence records, we modelled the distribution of 302 grass species (51% of West African grass diversity). We integrated species richness, abundance and functional traits (life cycle, photosynthetic type and height) to determine the contribution of the most speciose grass clades (Andropogoneae, Paniceae and Chloridoideae) to overall grass diversity in West Africa. Results Precipitation is the variable most often influencing the species distribution models of grasses in West Africa. Richness and relative abundance of the tribe Andropogoneae show a centre of diversity in Sudanian savanna regions. The height of Andropogoneae species, generally >150 cm, is driving this ecological dominance. Species richness of the tribe Paniceae is more dispersed and shows two main centres of abundance: The southern regions with higher mean annual precipitation and tree density are dominated by C3 Paniceae species. The Sahelian regions in the north are dominated by short Paniceae species with the C4 NAD-ME photosynthetic subtype, as well as Chloridoideae possessing the same functional attributes. Conclusions Our study provides insight into the environmental correlates of grass species richness in West Africa and contributes to the much-needed research on tropical rangelands. Moreover, the integration of evolutionary history significantly improves our understanding of large-scale biodiversity patterns.

    Keywords: Andropogoneae, Chloridoideae, Maxent, Paniceae, Poaceae, Savanna, Species distribution modelling, West Africa, species richness

  • Deblauwe V, Droissart V, Bose R, Sonké B, Blach-Overgaard A, Svenning J et al. (2016)

    Remotely sensed temperature and precipitation data improve species distribution modelling in the tropics

    Global Ecology and Biogeography.

    Aim Species distribution modelling typically relies completely or partially on climatic variables as predictors, overlooking the fact that these are themselves predictions with associated uncertainties. This is particularly critical when such predictors are interpolated between sparse station data, such as in the tropics. The goal of this study is to provide a new set of satellite-based climatic predictor data and to evaluate its potential to improve modelled species–climate associations and transferability to novel geographical regions. Location Rain forests areas of Central Africa, the Western Ghats of India and South America. Methods We compared models calibrated on the widely used WorldClim station-interpolated climatic data with models where either temperature or precipitation data from WorldClim were replaced by data from CRU, MODIS, TRMM and CHIRPS. Each predictor set was used to model 451 plant species distributions. To test for chance associations, we devised a null model with which to compare the accuracy metric obtained for every species. Results Fewer than half of the studied rain forest species distributions matched the climatic pattern better than did random distributions. The inclusion of MODIS temperature and CHIRPS precipitation estimates derived from remote sensing each allowed for a better than random fit for respectively 40% and 22% more species than models calibrated on WorldClim. Furthermore, their inclusion was positively related to a better transferability of models to novel regions. Main conclusions We provide a newly assembled dataset of ecologically meaningful variables derived from MODIS and CHIRPS for download, and provide a basis for choosing among the plethora of available climate datasets. We emphasize the need to consider the method used in the production of climate data when working on a region with sparse meteorological station data. In this context, remote sensing data should be the preferred choice, particularly when model transferability to novel climates or inferences on causality are invoked.

    Keywords: Association test, CHIRPS, GLM, MODIS, MaxEnt, TRMM, WorldClim, ecological niche model, habitat suitability, null model

  • Godefroid M, Rasplus J, Rossi J (2016)

    Is phylogeography helpful for invasive species risk assessment? The case study of the bark beetle genus Dendroctonus ?


    Despite evidence that conspecific lineages may display different climatic tolerances, most invasion risk assessment tools are calibrated without considering phylogeographic information. This study aims to investigate the existence of intraspecific niche divergence within a group of insect pests and to explore how the inclusion of phylogeographic information into species distribution models may alter the estimation of the potential distribution of a species. We studied North American bark beetles belonging to the genus Dendroctonus, a group of pests of conifers that are listed as quarantine species in numerous countries. Most Dendroctonus species exhibit strong genetic divergence that appears to be geographically structured and shaped by historical events and biotic factors. We modeled all lineage distributions within five species, using MaxEnt and Boosted Regression Trees, and compared the results with the models fitted at the species scale. Multivariate analysis and niche similarity and equivalency tests were additionally performed to investigate the existence and magnitude of climatic niche divergence between conspecific lineages. We also tested the ability of lineage-based models to predict the region invaded by D. valens in China. Conspecific lineages showed a climatic niche more similar than expected by chance, but displayed different climatic envelopes in their native range and, consequently, different estimates of potential distributions. We also observed that classical models calibrated using the entire range of the species could potentially under- or overestimate the potential range of the species when compared to a global prediction built by aggregating lineage-based projections. This study showed that the invasive phylogeographic lineage of D. valens has invaded regions characterized by climatic conditions highly similar to those encountered in its native range suggesting that preadaptations to environment might have played a role in this invasion. This study highlights how our perception of the invasion risk of pests may be altered when integrating phylogeographic information

    Keywords: DNA barcoding, Dendroctonus, Pinus., assessment, bark beetles, biological invasion, climate matching, phylogeography, quarantine pests, risk, species distribution models

  • Hattab T, Leprieur F, Lasram F, Gravel D, Loc'h F, Albouy C (2016)

    Forecasting fine-scale changes in the food-web structure of coastal marine communities under climate change


    Climate change is inducing deep modifications in local communities worldwide as a consequence of individualistic species range shifts. Understanding how complex interaction networks will be reorganized under climate change represents a major challenge in the fields of ecology and biogeography. However, forecasting the potential effects of climate change on local communities, and more particularly on food-web structure, requires the consideration of highly structuring processes, such as trophic interactions. A major breakthrough is therefore expected by combining predictive models integrating habitat selection processes, the physiological limits of marine species and their trophic interactions. In this study, we forecasted the potential impacts of climate change on the local food-web structure of the highly threatened Gulf of Gabes ecosystem located in the south of the Mediterranean Sea. We coupled the climatic envelope and habitat models to an allometric niche food web model, hence taking into account the different processes acting at regional (climate) and local scales (habitat selection and trophic interactions). Our projections under the A2 climate change scenario showed that future food webs would be composed of smaller species with fewer links, resulting in a decrease of connectance, generality, vulnerability and mean trophic level of communities and an increase of the average path length, which may have large consequences on ecosystem functioning. The unified framework presented here, by connecting food-web ecology, biogeography and seascape ecology, allows the exploration of spatial aspects of interspecific interactions under climate change and improves our current understanding of climate change impacts on local marine food webs.

    Keywords: DNA barcoding, Dendroctonus, Pinus., assessment, bark beetles, biological invasion, climate matching, phylogeography, quarantine pests, risk, species distribution models

  • Onstein R, Peter Linder H (2016)

    Beyond climate: convergence in fast evolving sclerophylls in Cape and Australian Rhamnaceae predates the mediterranean climate

    Journal of Ecology.

    Morphological convergence in mediterranean-type ecosystems (MTEs) has long been interpreted as adaptation to climatic similarities among the five MTEs of the world. Here, we challenge this model using the globally distributed Rhamnaceae. We collected functional trait data (specific leaf area, leaf area, spinescence, leaf phenology, growth form and leaf margin type) and biome data to test for trait convergence in MTEs, for models of trait evolution and ancestral state reconstruction and for the effect of traits on speciation and extinction rates, using a phylogenetic framework. We show that leaf functional traits evolve to three optima, which correspond to (a) the edaphically specialized Australian and Cape MTEs (AC), (b) the mediterranean-type climates, but edaphically normal Chile, California and Mediterranean Basin (CCM), and (c) the non-mediterranean habitats. We find that Rhamnaceae in CCM are predominantly characterized by non-sclerophylly, the ancestral state in Rhamnaceae, and Rhamnaceae in AC by sclerophylly. These leaf character syndromes have evolved prior to mediterranean climates in MTEs, thereby failing to be adaptive to this selective regime. However, sclerophylly evolved contemporaneously with the transitions to AC, and may therefore be an adaptation to nutrient-poor soils. The evolution of sclerophylly has contributed to increased diversification rates of Pomaderreae in Australia and Phyliceae in the Cape, by reducing extinction rates and thereby facilitating evolutionary persistence. The historical relatively stable conditions in AC are consistent with this persistence hypothesis. Synthesis. In this study we integrate the fields of macroevolution and ecology and show that low extinction rates may not only account for the ecological, but also for the floristic dominance of sclerophylly in the hyperdiverse Australian and Cape mediterranean-type ecosystems.

    Keywords: Cape flora, character syndrome, diversification rate, extinction rate, fynbos, kwongan, plant-climate interactions, sclerophylly, specific leaf area

  • Sniderman J, Woodhead J, Hellstrom J, Jordan G, Drysdale R, Tyler J et al. (2016)

    Pliocene reversal of late Neogene aridification.

    Proceedings of the National Academy of Sciences of the United States of America 1520188113-.

    The Pliocene epoch (5.3-2.6 Ma) represents the most recent geological interval in which global temperatures were several degrees warmer than today and is therefore considered our best analog for a future anthropogenic greenhouse world. However, our understanding of Pliocene climates is limited by poor age control on existing terrestrial climate archives, especially in the Southern Hemisphere, and by persistent disagreement between paleo-data and models concerning the magnitude of regional warming and/or wetting that occurred in response to increased greenhouse forcing. To address these problems, here we document the evolution of Southern Hemisphere hydroclimate from the latest Miocene to the middle Pliocene using radiometrically-dated fossil pollen records preserved in speleothems from semiarid southern Australia. These data reveal an abrupt onset of warm and wet climates early within the Pliocene, driving complete biome turnover. Pliocene warmth thus clearly represents a discrete interval which reversed a long-term trend of late Neogene cooling and aridification, rather than being simply the most recent period of greater-than-modern warmth within a continuously cooling trajectory. These findings demonstrate the importance of high-resolution chronologies to accompany paleoclimate data and also highlight the question of what initiated the sustained interval of Pliocene warmth.

    Keywords: Neogene, aridification, paleoclimate, pollen, speleothems

  • Auber A, Travers-Trolet M, Villanueva M, Ernande B (2015)

    Regime Shift in an Exploited Fish Community Related to Natural Climate Oscillations.

    PloS one 10(7) e0129883.

    Identifying the various drivers of marine ecosystem regime shifts and disentangling their respective influence are critical tasks for understanding biodiversity dynamics and properly managing exploited living resources such as marine fish communities. Unfortunately, the mechanisms and forcing factors underlying regime shifts in marine fish communities are still largely unknown although climate forcing and anthropogenic pressures such as fishing have been suggested as key determinants. Based on a 24-year-long time-series of scientific surveys monitoring 55 fish and cephalopods species, we report here a rapid and persistent structural change in the exploited fish community of the eastern English Channel from strong to moderate dominance of small-bodied forage fish species with low temperature preferendum that occurred in the mid-1990s. This shift was related to a concomitant warming of the North Atlantic Ocean as attested by a switch of the Atlantic Multidecadal Oscillation from a cold to a warm phase. Interestingly, observed changes in the fish community structure were opposite to those classically induced by exploitation as larger fish species of higher trophic level increased in abundance. Despite not playing a direct role in the regime shift, fishing still appeared as a forcing factor affecting community structure. Moreover, although related to climate, the regime shift may have been facilitated by strong historic exploitation that certainly primed the system by favoring the large dominance of small-bodied fish species that are particularly sensitive to climatic variations. These results emphasize that particular attention should be paid to multidecadal natural climate variability and its interactions with both fishing and climate warming when aiming at sustainable exploitation and ecosystem conservation.

    Keywords: Neogene, aridification, paleoclimate, pollen, speleothems

  • Capblancq T, Després L, Rioux D, Mavárez J (2015)

    Hybridization promotes speciation in Coenonympha butterflies.

    Molecular ecology.

    Hybridization has become a central element in theories of animal evolution during the last decade. New methods in population genomics and statistical model testing now allow the disentangling of the complexity that hybridization brings into key evolutionary processes such as local adaptation, colonization of new environments, species diversification and extinction. We evaluated the consequences of hybridization in a complex of three alpine butterflies in the genus Coenonympha, by combining morphological, genetic and ecological analyses. A series of Approximate Bayesian Computation procedures based on a large SNP dataset strongly suggest that the Darwin's Heath (C. darwiniana) originated through hybridization between the Pearly Heath (C. arcania) and the Alpine Heath (C. gardetta) with different parental contributions. As a result of hybridization, the Darwin's Heath presents an intermediate morphology between the parental species while its climatic niche seems more similar to the Alpine Heath. Our results also reveal a substantial genetic and morphologic differentiation between the two geographically disjoint Darwin's Heath lineages leading us to propose the splitting of this taxon into two different species. This article is protected by copyright. All rights reserved.

    Keywords: Lepidoptera, approximate Bayesian computation, ddRAD sequencing, geometric morphometrics, hybrid species, species diversification

  • Comte L, Hugueny B, Grenouillet G (2015)

    Climate interacts with anthropogenic drivers to determine extirpation dynamics


    Theoretical studies suggest that the dynamics of a species’ range during a period of climate change depends upon the existence and interplay of various ecological and evolutionary processes. Here we tested how anthropogenic pressures contribute to climate-mediated extirpation patterns of 32 freshwater fish species over the last 20 years. We contrasted two extreme cases to determine whether extirpations were governed by patterns of climate exposure, assuming full adaptation of species to local climate, or instead by the interplay between climate exposure and the distance from the centroid of species’ climatic niches, assuming a fixed niche, and asked whether anthropogenic disturbances interact with these climatic drivers. We found strong support for the fixed niche hypothesis, but showed that species-specific local adaptation to climate may also be important in determining extirpation dynamics. We also demonstrated that anthropogenic disturbance acted in concert with climate, ultimately determining population changes. Our results add novel evidence that unravelling the direct links between range dynamics and climate requires a multifaceted treatment, and that accounting for the cumulative effects of anthropogenic pressures deserves special attention in the context of climate change.

    Keywords: climate exposure, climatic niche, life-history traits, local adaptation, species’ range