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Chevrinais, M., Jacquet, C., & Cloutier, R. (2017). Early establishment of vertebrate trophic interactions: Food web structure in Middle to Late Devonian fish assemblages with exceptional fossilization. Bull. Geosci., 92(4), 491–510.
Résumé: In past and present ecosystems, trophic interactions determine material and energy transfers among species, regulating population dynamics and community stability. Food web studies in past ecosystems are helpful to assess the persistence of ecosystem structure throughout geological times and to explore the existence of general principles of food web assembly. We determined and compared the trophic structure of two Devonian fish assemblages [(1) the Escuminac assemblage (ca. 380 Ma), Miguasha, eastern Canada and (2) the Lode assemblage (ca. 390 Ma), Straupe, Latvia] with a closer look at the Escuminac assemblage. Both localities are representative of Middle to Late Devonian aquatic vertebrate assemblages in terms of taxonomic richness (ca. 20 species), phylogenetic diversity (all major groups of lower vertebrates) and palaeoenvironment (palaeoestuaries). Fossil food web structures were assessed using different kinds of direct (i.e. digestive contents and bite marks in fossils) and indirect (e.g. ecomoiphological measurements, stratigraphic species co-occurrences) indicators. First, the relationships between predator and prey body size established for the Escuminac fishes are comparable to those of recent aquatic ecosystems, highlighting a consistency of aquatic food web structure across geological time. Second, non-metric dimensional scaling on ecomorphological variables and cluster analysis showed a common pattern of functional groups for both fish assemblages; top predators, predators, primary and secondary consumers were identified. We conclude that Devonian communities were organized in multiple trophic levels and that size-based feeding interactions were established early in vertebrate history.
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Descombes, P., Gaboriau, T., Albouy, C., Heine, C., Leprieur, F., & Pellissier, L. (2018). Linking species diversification to palaeo-environmental changes: A process-based modelling approach. Glob. Ecol. Biogeogr., 27(2), 233–244.
Résumé: Aim: The importance of quantifying the contribution of historical processes in shaping current biodiversity patterns is now recognized, but quantitative approaches that explicitly link speciation, extinction and dispersal processes to palaeo-environmental changes are currently lacking. Here, we propose a spatial diversification model of lineages through time (SPLIT) based on the reconstruction of palaeo-environments. We illustrate our approach using mangroves as a case study and evaluate whether habitat changes caused by plate tectonics explain the current biodiversity patterns of this group. Innovations: The SPLIT model allows one to simulate the evolutionary dynamics of species ranges by spatially linking speciation, extinction and dispersal processes to habitat changes over geological time periods. The SPLIT model provides a mechanistic expectation of speciation and extinction assuming that species are ecologically identical and not interacting. The likelihood of speciation and extinction is equivalent across species and depends on two dispersal parameters interacting with habitat dynamics (d a maximum dispersal distance and ds a distance threshold beyond which gene flow is absent). Beyond classical correlative approaches, this model tracks biodiversity dynamics under palaeo-environmental changes and provides multiple expectations (i.e., alpha-, beta-diversity, phylogenies) that can be compared to empirical patterns. Main conclusions: The SPLIT model allows a better understanding of the origin of biodiversity by explicitly accounting for habitat changes over geological times. The simulations applied to the mangrove case study reproduced the observed longitudinal gradient in species richness, the empirical pattern of beta-diversity and also provided inference on diversification rates. Future developments may include niche evolution and species interactions to evaluate the importance of non-neutral mechanisms. The method is fully implemented in the InsideDNA platform for bioinformatics analyses, and all modelling results can be accessed via interactive web links.
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Descombes, P., Wisz, M. S., Leprieur, F., Parravicini, V., Heine, C., Olsen, S. M., et al. (2015). Forecasted coral reef decline in marine biodiversity hotspots under climate change. Glob Change Biol, 21(7), 2479–2487.
Résumé: Coral bleaching events threaten coral reef habitats globally and cause severe declines of local biodiversity and productivity. Related to high sea surface temperatures (SST), bleaching events are expected to increase as a consequence of future global warming. However, response to climate change is still uncertain as future low-latitude climatic conditions have no present-day analogue. Sea surface temperatures during the Eocene epoch were warmer than forecasted changes for the coming century, and distributions of corals during the Eocene may help to inform models forecasting the future of coral reefs. We coupled contemporary and Eocene coral occurrences with information on their respective climatic conditions to model the thermal niche of coral reefs and its potential response to projected climate change. We found that under the RCP8.5 climate change scenario, the global suitability for coral reefs may increase up to 16% by 2100, mostly due to improved suitability of higher latitudes. In contrast, in its current range, coral reef suitability may decrease up to 46% by 2100. Reduction in thermal suitability will be most severe in biodiversity hotspots, especially in the Indo-Australian Archipelago. Our results suggest that many contemporary hotspots for coral reefs, including those that have been refugia in the past, spatially mismatch with future suitable areas for coral reefs posing challenges to conservation actions under climate change.
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Kadarusman, Sugeha, H. Y., Pouyaud, L., Hocdé, R., Hismayasari, I. B., Gunaisah, E., et al. (2020). A thirteen-million-year divergence between two lineages of Indonesian coelacanths. Sci Rep, 10(1), 192.
Résumé: Coelacanth fishes of the genus Latimeria are the only surviving representatives of a basal lineage of vertebrates that originated more than 400 million years ago. Yet, much remains to be unveiled about the diversity and evolutionary history of these 'living fossils' using new molecular data, including the possibility of 'cryptic' species or unknown lineages. Here, we report the discovery of a new specimen in eastern Indonesia allegedly belonging to the species L. menadoensis. Although this specimen was found about 750km from the known geographical distribution of the species, we found that the molecular divergence between this specimen and others of L. menadoensis was great: 1.8% compared to 0.04% among individuals of L. chalumnae, the other living species of coelacanth. Molecular dating analyses suggested a divergence date of ca. 13 million years ago between the two populations of Indonesian coelacanths. We elaborate a biogeographical scenario to explain the observed genetic divergence of Indonesian coelacanth populations based on oceanic currents and the tectonic history of the region over Miocene to recent. We hypothesize that several populations of coelacanths are likely to live further east of the present capture location, with potentially a new species that remains to be described. Based on this, we call for an international effort to take appropriate measures to protect these fascinating but vulnerable vertebrates which represent among the longest branches on the Tree of Life.
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Qian, H., Jin, Y., Leprieur, F., Wang, X., & Deng, T. (2020). Patterns of phylogenetic beta diversity measured at deep evolutionary histories across geographical and ecological spaces for angiosperms in China. J. Biogeogr., .
Résumé: Aim Understanding patterns and drivers of phylogenetic beta diversity in a region is important to understanding the origin and maintenance of the regional species diversity and variation in species diversity between local sites. Here we used a phylogenetic beta diversity metric quantifying deep evolutionary histories to explore geographical and ecological patterns of phylogenetic beta diversity in angiosperm assemblages across China. Location China. Taxon Flowering plants (angiosperms). Methods China was divided into 100 x 100 km grid cells. Species composition in each grid cell was documented. We used a basal-weighted metric (D-pw) to quantify phylogenetic beta diversity among angiosperm assemblages with two sampling approaches (neighbourhood approach and pairwise approach). D-pw was related to latitude and climatic conditions of angiosperm assemblages and to geographical and climatic distances between angiosperm assemblages across China. Results We found that the southeastern portion of China has much higher D-pw than the northwestern portion of China. The line of high versus low values of D-pw across China is generally consistent with the line of 500-mm precipitation per year. Our study shows that precipitation is associated with D-pw more strongly than temperature, and D-pw decreases with latitude, particularly in the eastern part of China. Main conclusions The emergence of the observed pattern of basal-weighted phylogenetic beta diversity is at least partly because the southeastern portion of China retains a large number of Tertiary relicts, making it a biogeographical museum, whereas many Tertiary relicts went extinct from the northwestern portion of China, particularly the Tibetan Plateau, due to the uplift of the plateau and the Himalayas, which makes the region a biogeographical grave for Tertiary relicts.
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