2019 |
Jensen, M. P., et al. "The evolutionary history and global phylogeography of the green turtle (Chelonia mydas)." Journal of Biogeography. 46.5 (2019): 860–870.
Résumé: Aim To examine the genetic structure and global phylogeography of the endangered green sea turtle, Chelonia mydas, in light of past climatic events and current conservation needs. Location Tropical and subtropical beaches around the world. Methods We analysed 386 base pairs of the mitochondrial (mt)DNA control region of 4,878 individual nesting green turtle samples from 127 rookeries globally. We used phylogeographic analysis to assess how demographic history, dispersal and barriers to gene flow have led to the current distribution of mtDNA lineages. Results We identified 11 divergent lineages that were tied to specific biogeographical regions. The phylogenetic analyses revealed an ancient origin for the species centred in the Indo-Pacific and more recent colonization of the Central/Eastern Pacific as well as the Atlantic Basin. Overall the phylogeographic structure was strong but with a clear pattern of regional connectivity among rookeries. A Large genetic separation was found where there were obvious barriers to dispersal such as between the Atlantic and Pacific oceans and across the Pacific Ocean, as well as less obvious barriers to dispersal. Admixture of mtDNA haplotype lineages was detected at latitudinal extremes across the Indian Ocean and western Pacific Ocean resulting in these areas being nucleotide diversity hotspots. The highest regional genetic diversity and high endemic richness was observed in the SW Pacific, NW Pacific, SW Indian and NW Indian oceans. Main conclusions Past climatic fluctuations greatly affected the distribution of genetic diversity in the highly migratory green turtle. Our data suggest that past climatic events influenced local populations in different ways and the species appears to have survived the last glaciations in multiple glacial refugia.
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2018 |
Mazel, F., et al. "Prioritizing phylogenetic diversity captures functional diversity unreliably." Nat. Commun.. 9 (2018): 2888.
Résumé: In the face of the biodiversity crisis, it is argued that we should prioritize species in order to capture high functional diversity (FD). Because species traits often reflect shared evolutionary history, many researchers have assumed that maximizing phylogenetic diversity (PD) should indirectly capture FD, a hypothesis that we name the “phylogenetic gambit”. Here, we empirically test this gambit using data on ecologically relevant traits from >15,000 vertebrate species. Specifically, we estimate a measure of surrogacy of PD for FD. We find that maximizing PD results in an average gain of 18% of FD relative to random choice. However, this average gain obscures the fact that in over one-third of the comparisons, maximum PD sets contain less FD than randomly chosen sets of species. These results suggest that, while maximizing PD protection can help to protect FD, it represents a risky conservation strategy.
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Santos, B. S., et al. "Likely locations of sea turtle stranding mortality using experimentally-calibrated, time and space-specific drift models." Biol. Conserv.. 226 (2018): 127–143.
Résumé: Sea turtle stranding events provide an opportunity to study drivers of mortality, but causes of strandings are poorly understood. A general sea turtle carcass oceanographic drift model was developed to estimate likely mortality locations from coastal sea turtle stranding records. Key model advancements include realistic direct wind forcing on carcasses, temperature driven carcass decomposition and the development of mortality location predictions for individual strandings. We applied this model to 2009-2014 stranding events within the Chesapeake Bay, Virginia. Predicted origin of vessel strike strandings were compared to commercial vessel data, and potential hazardous turtle-vessel interactions were identified in the southeastern Bay and James River. Commercial fishing activity of gear types with known sea turtle interactions were compared to predicted mortality locations for stranded turtles with suggested fisheries-induced mortality. Probable mortality locations for these strandings varied seasonally, with two distinct areas in the southwest and southeast portions of the lower Bay. Spatial overlap was noted between potential mortality locations and gillnet, seine, pot, and pound net fisheries, providing important information for focusing future research on mitigating conflict between sea turtles and human activities. Our ability to quantitatively assess spatial and temporal overlap between sea turtle mortality and human uses of the habitat were hindered by the low resolution of human use datasets, especially those for recreational vessel and commercial fishing gear distributions. This study highlights the importance of addressing these data gaps and provides a meaningful conservation tool that can be applied to stranding data of sea turtles and other marine megafauna worldwide.
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2016 |
Leprieur, F., et al. "Historical and contemporary determinants of global phylogenetic structure in tropical reef fish faunas." Ecography. 39.9 (2016): 825–835.
Résumé: Identifying the main determinants of tropical marine biodiversity is essential for devising appropriate conservation measures mitigating the ongoing degradation of coral reef habitats. Based on a gridded distribution database and phylogenetic information, we compared the phylogenetic structure of assemblages for three tropical reef fish families (Labridae: wrasses, Pomacentridae: damselfishes and Chaetodontidae: butterflyfishes) using the net relatedness (NRI) and nearest taxon (NTI) indices. We then related these indices to contemporary and historical environmental conditions of coral reefs using spatial regression analyses. Higher levels of phylogenetic clustering were found for fish assemblages in the Indo-Australian Archipelago (IAA), and more particularly when considering the NTI index. The phylogenetic structure of the Pomacentridae, and to a lower extent of the Chaeotodontidae and Labridae, was primarily associated with the location of refugia during the Quaternary period. Phylogenetic clustering in the IAA may partly result from vicariance events associated with coral reef fragmentation during the glacial periods of the Quaternary. Variation in the patterns among fish families further suggest that dispersal abilities may have interacted with past habitat availability in shaping the phylogenetic structure of tropical reef fish assemblages.
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2014 |
Capietto, A., et al. "Mortality of marine megafauna induced by fisheries: Insights from the whale shark, the world’s largest fish." Biological Conservation. 174 (2014): 147–151.
Résumé: The expansion of human activities is endangering megafauna in both terrestrial and marine ecosystems. While large marine vertebrates are often vulnerable and emblematic species, many are considered to be declining, primarily due to fisheries activities. In the open ocean, certain fisheries improve their efficiency of detecting tuna schools by locating and fishing close to some macro-organisms, such as whale sharks or marine mammals. However, collecting accurate data on the accidental capture and mortality of these organisms is a complex process. We analyzed a large database of logbooks from 65 industrial vessels with and without scientific observers on board (487,272 and 16,096 fishing sets since 1980 and 1995 respectively) in both the Atlantic and Indian Oceans. Distribution maps of Sightings Per Unit of Effort highlights major hotspots of interactions between the fishery and whale sharks in the coastal area from Gabon to Angola in the Atlantic from April to September, and in the Mozambique Channel in the Indian Ocean between April and May. The incidence of apparent whale shark mortality due to fishery interaction is extremely low (two of the 145 whale sharks encircled by the net died, i.e. 1.38%). However, these two hotspots presented a relatively high rate of incidental whale shark capture. Thus, we underline the importance of estimating long-term post-release mortality rates by tracking individuals and/or by photographic identification to define precise conservation management measures.
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D'Agata, S., et al. "Human-Mediated Loss of Phylogenetic and Functional Diversity in Coral Reef Fishes." Current Biology. 24.5 (2014): 555–560.
Résumé: Beyond the loss of species richness [1-3], human activities may also deplete the breadth of evolutionary history (phylogenetic diversity) and the diversity of roles (functional diversity) carried out by species within communities, two overlooked components of biodiversity. Both are, however, essential to sustain ecosystem functioning and the associated provision of ecosystem services, particularly under fluctuating environmental conditions [1-7]. We quantified the effect of human activities on the taxonomic, phylogenetic, and functional diversity of fish communities in coral reefs, while teasing apart the influence of biogeography and habitat along a gradient of human pressure across the Pacific Ocean. We detected nonlinear relationships with significant breaking points in the impact of human population density on phylogenetic and functional diversity of parrot-fishes, at 25 and 15 inhabitants/km(2), respectively, while parrot-fish species richness decreased linearly along the same population gradient. Over the whole range, species richness decreased by 11.7%, while phylogenetic and functional diversity dropped by 35.8% and 46.6%, respectively. Our results call for caution when using species richness as a benchmark for measuring the status of ecosystems since it appears to be less responsive to variation in human population densities than its phylogenetic and functional counterparts, potentially imperiling the functioning of coral reef ecosystems.
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Mazel, F., et al. "Multifaceted diversity-area relationships reveal global hotspots of mammalian species, trait and lineage diversity." Global Ecology and Biogeography. 23.8 (2014): 836–847.
Résumé: Aim To define biome-scale hotspots of phylogenetic and functional mammalian biodiversity (PD and FD, respectively) and compare them with 'classical' hotspots based on species richness (SR) alone. Location Global. Methods SR, PD and FD were computed for 782 terrestrial ecoregions using the distribution ranges of 4616 mammalian species. We used a set of comprehensive diversity indices unified by a recent framework incorporating the relative species coverage in each ecoregion. We built large-scale multifaceted diversity-area relationships to rank ecoregions according to their levels of biodiversity while accounting for the effect of area on each facet of diversity. Finally we defined hotspots as the top-ranked ecoregions. Results While ignoring relative species coverage led to a fairly good congruence between biome-scale top ranked SR, PD and FD hotspots, ecoregions harbouring a rich and abundantly represented evolutionary history and FD did not match with the top-ranked ecoregions defined by SR. More importantly PD and FD hotspots showed important spatial mismatches. We also found that FD and PD generally reached their maximum values faster than SR as a function of area. Main conclusions The fact that PD/FD reach their maximum value faster than SR could suggest that the two former facets might be less vulnerable to habitat loss than the latter. While this point is expected, it is the first time that it has been quantified at a global scale and should have important consequences for conservation. Incorporating relative species coverage into the delineation of multifaceted hotspots of diversity led to weak congruence between SR, PD and FD hotspots. This means that maximizing species number may fail to preserve those nodes (in the phylogenetic or functional tree) that are relatively abundant in the ecoregion. As a consequence it may be of prime importance to adopt a multifaceted biodiversity perspective to inform conservation strategies at a global scale.
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Parravicini, V., et al. "Global mismatch between species richness and vulnerability of reef fish assemblages." Ecology Letters. 17.9 (2014): 1101–1110.
Résumé: The impact of anthropogenic activity on ecosystems has highlighted the need to move beyond the biogeographical delineation of species richness patterns to understanding the vulnerability of species assemblages, including the functional components that are linked to the processes they support. We developed a decision theory framework to quantitatively assess the global taxonomic and functional vulnerability of fish assemblages on tropical reefs using a combination of sensitivity to species loss, exposure to threats and extent of protection. Fish assemblages with high taxonomic and functional sensitivity are often exposed to threats but are largely missed by the global network of marine protected areas. We found that areas of high species richness spatially mismatch areas of high taxonomic and functional vulnerability. Nevertheless, there is strong spatial match between taxonomic and functional vulnerabilities suggesting a potential win-win conservation-ecosystem service strategy if more protection is set in these locations.
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Pellissier, L., et al. "Quaternary coral reef refugia preserved fish diversity." Science. 344.6187 (2014): 1016–1019.
Résumé: The most prominent pattern in global marine biogeography is the biodiversity peak in the Indo-Australian Archipelago. Yet the processes that underpin this pattern are still actively debated. By reconstructing global marine paleoenvironments over the past 3 million years on the basis of sediment cores, we assessed the extent to which Quaternary climate fluctuations can explain global variation in current reef fish richness. Comparing global historical coral reef habitat availability with the present-day distribution of 6316 reef fish species, we find that distance from stable coral reef habitats during historical periods of habitat loss explains 62% of the variation in fish richness, outweighing present-day environmental factors. Our results highlight the importance of habitat persistence during periods of climate change for preserving marine biodiversity.
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Zupan, L., et al. "Spatial mismatch of phylogenetic diversity across three vertebrate groups and protected areas in Europe." Diversity and Distributions. 20.6 (2014): 674–685.
Résumé: Aim We investigate patterns of phylogenetic diversity in relation to species diversity for European birds, mammals and amphibians to evaluate their congruence and highlight areas of particular evolutionary history. We estimate the extent to which the European network of protected areas (PAs) network retains interesting evolutionary history areas for the three groups separately and simultaneously. Location Europe Methods Phylogenetic (QE(PD)) and species diversity (SD) were estimated using the Rao's quadratic entropy at 10 ' resolution. We determined the regional relationship between QE(PD) and SD for each taxa with a spatial regression model and used the tails of the residuals (QE(RES)) distribution to identify areas of higher and lower QE(PD) than predicted. Spatial congruence of biodiversity between groups was assessed with Pearson correlation coefficient. A simple classification scheme allowed building a convergence map where a convergent pixel equalled to a QE(RES) value of the same sign for the three groups. This convergence map was overlaid to the current PAs network to estimate the level of protection in convergent pixels and compared it to a null expectation built on 1000 randomization of PAs over the landscape. Results QE(RES) patterns across vertebrates show a strong spatial mismatch highlighting different evolutionary histories. Convergent areas represent only 2.7% of the Western Palearctic, with only 8.4% of these areas being covered by the current PAs network while a random distribution would retain 10.4% of them. QE(RES) are unequally represented within PAs: areas with higher QE(PD) than predicted are better covered than expected, while low QE(PD) areas are undersampled. Main conclusions Patterns of diversity strongly diverge between groups of vertebrates in Europe. Although Europe has the world's most extensive PAs network, evolutionary history of terrestrial vertebrates is unequally protected. The challenge is now to reconcile effective conservation planning with a contemporary view of biodiversity integrating multiple facets.
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2013 |
Dobrovolski, R., et al. "Global agricultural expansion and carnivore conservation biogeography." Biol. Conserv.. 165 (2013): 162–170.
Résumé: Global conservation prioritization must address conflicting land uses. We tested for spatial congruence between agricultural expansion in the 21st century and priority areas for carnivore conservation worldwide. We evaluated how including agricultural expansion data in conservation planning reduces such congruence and estimated the consequences of such an approach for the performance of resulting priority area networks. We investigated the correlation between projections of agricultural expansion and the solutions of global spatial prioritizations for carnivore conservation through the implementation of different goals: (1) purely maximizing species representation and (2) representing species while avoiding sites under high pressure for agriculture expansion. We also evaluated the performance of conservation solutions based on species' representation and their spatial congruence with established global prioritization schemes. Priority areas for carnivore conservation were spatially correlated with future agricultural distribution and were more similar to global conservation schemes with high vulnerability. Incorporating future agricultural expansion in the site selection process substantially reduced spatial correlation with agriculture, resulting in a spatial solution more similar to global conservation schemes with low vulnerability. Accounting for agricultural expansion resulted in a lower representation of species, as the average proportion of the range represented reduced from 58% to 32%. We propose that priorities for carnivore conservation could be integrated into a strategy that concentrates different conservation actions towards areas where they are likely to be more effective regarding agricultural expansion. (C) 2013 Elsevier Ltd. All rights reserved.
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Mouillot, D., et al. "The challenge of delineating biogeographical regions: nestedness matters for Indo-Pacific coral reef fishes." Journal of Biogeography. 40.12 (2013): 2228–2237.
Résumé: AimThe delineation of regions is a critical procedure in biogeography, but there is still no consensus about the best approach. Traditionally, a compositional dissimilarity index and a clustering algorithm are used to partition locations into regions. However, the choice of index and algorithm may have a profound impact on the final result, particularly when locations display different levels of species richness and when they are nested within each other. Our objective was to estimate the influence of species nestedness among locations on the delineation of biogeographical regions. LocationAs a case study, we used coral reef fishes (families Chaetodontidae, Pomacentridae and Labridae) from the Indo-Pacific, where a large richness gradient extends, often as a series of nested assemblages, from the species-rich Indo-Australian Archipelago (Coral Triangle) to species-poor peripheral locations. MethodsWe used the turnover and nestedness components of the SOrensen and Jaccard dissimilarity indices to estimate the effect of nestedness on the delineation of biogeographical regions. In addition, we compared the results with those obtained using a parsimony analysis of endemicity (PAE). ResultsLow Mantel correlation values revealed that the PAE method assembled locations in a very different way than methods based on dissimilarity indices for Indo-Pacific coral reef fishes. We also found that nestedness mattered when delineating biogeographical units because, for both the SOrensen and the Jaccard indices, reef fish assemblages were grouped differently depending on whether we used the turnover component of each index or the complete index, including the nestedness component. The turnover component ignored variation in species richness attributable to differences in habitat area between locations, and permitted a delineation based solely on species replacement. Main conclusionsWe demonstrate that the choice of the component used to measure dissimilarity between species assemblages is critical, because it may strongly influence regional delineations, at least for Indo-Pacific coral reef fishes. We conclude that the two components of the dissimilarity indices can reveal complementary insights into the role that history may have played in shaping extant patterns of biodiversity.
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