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Publications (58)
Global biodiversity is under accelerating threats, and species are succumbing to extinction before being described. Madagascar’s biota represents an extreme example of this scenario, with the added complication that much of its endemic biodiversity is cryptic. Here we illustrate best practices for clarifying cryptic diversification processes by pre...
Self-incompatibility (SI) has evolved independently multiple times and prevents self-fertilization in hermaphrodite angiosperms. Several groups of Oleaceae such as jasmines exhibit distylous flowers, with two compatibility groups each associated with a specific floral morph. Other Oleaceae species in the olive tribe have two compatibility groups wi...
Context
Fungi represent a large part of soil biodiversity as well as an essential role for tree hydromineral nutrition, survival, and carbon cycling. While their local diversity has proven to be shaped by abiotic and biotic factors related to soil, climate and vegetation, their response to landscape fragmentation is still debated.
Objectives
In th...
Habitat loss and fragmentation are of concern to conservation biologists worldwide. However, not all organisms are affected equally by these processes; thus, it is important to study the effects of living in fragmented habitats on species that differ in lifestyle and habitat requirements. In this study, we examined the dispersal and connectivity pa...
Habitat loss and fragmentation are of concern to conservation biologists worldwide. However, not all organisms are affected equally by these processes, thus it is important to study the effects of living in fragmented habitats on species that differ in lifestyle and habitat requirements. In this study we examined dispersal and connectivity patterns...
Understanding landscape changes is central to predicting evolutionary trajectories and defining conservation practices. While human‐driven deforestation is intense throughout Madagascar, exceptions in areas like the Loky‐Manambato region (North) raise questions. Such regions also harbor a rich and endemic flora, whose evolutionary origin remains po...
The diversification processes underlying why Amazonia hosts the most species-rich vertebrate fauna on earth remain poorly understood. We studied the spatio-temporal diversification of a tree frog clade distributed throughout Amazonia (Anura: Hylidae: Osteocephalus , Tepuihyla , and Dryaderces ) and tested the hypothesis that Miocene mega wetlands l...
Madagascar exhibits extraordinarily high level of species richness and endemism, while being severely threatened by habitat loss and fragmentation (HL&F). In front of such threat to biodiversity, conservation effort can be directed, for instance, in the documentation of species that are still unknown to science, or in investigating how species resp...
Aim: The Andean superpáramo ecosystem, above c. 4200 m a.s.l., currently forms an archipelago of isolated “sky islands” which provides a unique setting to study biogeography. However, there is still a poor understanding of how past geological events and climatic changes have shaped the distribution of life in this ecosystem. Our aim was to investig...
The biogeography of neotropical fungi remains poorly understood. Here, we reconstruct the origins and diversification of neotropical lineages in one of the largest clades of ectomycorrhizal fungi in the globally widespread family Russulaceae.
We inferred a supertree of 3285 operational taxonomic units, representing worldwide internal transcribed sp...
Purpose
Primary succession of vegetation in post-mining areas offers an opportunity to study how plant species and individuals interact in space and notably how biotic interactions such as mycorrhizal symbiosis contribute to the revegetalization of degraded environments. Our study aimed to characterize the taxonomical and spatial structure of mycor...
Genetic exchanges between closely related groups of organisms with different adaptations have well-documented beneficial and detrimental consequences. In plants, pollen-mediated exchanges affect the sorting of alleles across physical landscapes and influence rates of hybridization. How these dynamics affect the emergence and spread of novel phenoty...
Changes in biodiversity may impact infectious disease transmission through multiple mechanisms. We explored the impact of biodiversity changes on the transmission of Amazonian leishmaniases, a group of wild zoonoses transmitted by phlebotomine sand flies (Psychodidae), which represent an important health burden in a region where biodiversity is bot...
Background
Quaternary climate fluctuations have been acknowledged as major drivers of the geographical distribution of the extraordinary biodiversity observed in tropical biomes, including Madagascar. The main existing framework for Pleistocene Malagasy diversification assumes that forest cover was strongly shaped by warmer Interglacials (leading t...
Themeda and Heteropogon are closely related grass genera frequently dominant in tropical C4 grasslands. Relationships between them are poorly resolved, impeding ecological study, especially of T. triandra with a broad distribution from Africa to East Asia, and H. contortus with a pantropical distribution. Our analyses of plastome and nuclear genome...
The betel nut (Areca catechu L., Arecaceae) is a monoecious cultivated palm tree that is widespread in tropical regions. It is mainly cultivated for producing areca nuts, from which seeds are extracted and chewed by local populations principally in the Indo-Pacific region. Seeds contain alkaloids which are central nervous system stimulants and are...
Urban expansion and associated habitat transformation drives shifts in biodiversity, with declines in taxonomic and functional diversity. Forests fragments within urban landscapes offer a number of ecosystem services, and help to maintain biodiversity and ecosystem functions. Here, we focus on a tropical forest environment, and on the soil biota. U...
Root-knot nematodes ( Meloidogyne spp.) cause serious damages on most crops. Here, we report a high-quality genome sequence of Meloidogyne exigua (population Mex1, Costa Rica), a major pathogen of coffee. Its mitogenome (20,974 bp) was first assembled and annotated. The nuclear genome was then constructed consisting of 206 contigs, with an N50 leng...
In the absence of strong reproductive barriers, genetic exchanges between closely related groups of organisms with different adaptations have well-documented beneficial and detrimental consequences. In plants, pollen-mediated exchanges affect the sorting of alleles across physical landscapes, and influence rates of hybridisation. How these dynamics...
The olive family, Oleaceae, is a group of woody plants comprising 28 genera and ca. 700 species, distributed on all continents (except Antarctica) in both temperate and tropical environments. It includes several genera of major economic and ecological importance such as olives, ash trees, jasmines, forsythias, osmanthuses, privets and lilacs. The n...
Understanding landscape changes is central to predicting evolutionary trajectories and defining conservation practices. While human-driven deforestation is intense throughout Madagascar, exception in areas like the Loky-Manambato region (North) raises questions. This region also harbors a rich and endemic flora, whose evolutionary origin remains po...
C4 photosynthesis evolved multiple times independently in angiosperms, but most origins are relatively old so that the early events linked to photo- synthetic diversification are blurred. The grass Alloteropsis semialata is an exception, as this species encompasses C4 and non-C4 populations. Using phylogenomics and population genomics, we infer the...
Mouse lemurs (Microcebus) are a radiation of morphologically cryptic primates distributed throughout Madagascar for which the number of recognized species has exploded in the past two decades. This taxonomic revision has prompted understandable concern that there has been substantial oversplitting in the mouse lemur clade. Here, we investigate mous...
Theory surrounding landscape ecology has been built on the species distribution of birds and plants, but increasing evidence now exists for below-ground organisms, whose dispersal may also be affected by above-ground landscape structures. Uncertainties remain for how communities of microorganisms respond to landscape structure over time, and whethe...
C 4 photosynthesis evolved multiple times independently in angiosperms, but most origins are relatively old so that the early events linked to photosynthetic diversification are blurred. The grass Alloteropsis semialata is an exception, as this single species encompasses C 4 and non-C 4 populations.
Using phylogenomics and population genomics, we i...
Community assembly theory assumes that ecological communities are spatially delimited into patches. Within these patches, coexistence results from environmental filtering, competition and immigration. Truly delineated communities exist in laboratory studies of microbial cultures in Petri dishes, yet empirical tests conducted in continuous environme...
The influence exerted by tree communities, topography, and soil chemistry on the assembly of macrofungal communities remains poorly understood, especially in highly diverse tropical forests. Here, we used a large dataset that combines inventories of macrofungal Basidiomycetes fruiting bodies, tree species composition, and measurements for 16 soil p...
Leaf-inhabiting fungal and bacterial endophytes are at their most diverse in tropical
rainforest plant hosts, with some influencing host plant fitness as either symbionts or
pathogens. Endophyte activity and community composition is thought to depend on
competition amongst co-occurring species for resources. Here, we reveal the strength
of competit...
In Amazonia, the knowledge about Fungi remains patchy and biased towards accessible sites. This is particularly the case in French Guiana where the existing collections have been confined to few coastal localities. Here, we aimed at filling the gaps of knowledge in undersampled areas of this region, particularly focusing on the Basidiomycota. From...
A bstract
Mouse lemurs ( Microcebus ) are a radiation of morphologically cryptic primates distributed throughout Madagascar for which the number of recognized species has exploded in the past two decades. This taxonomic explosion has prompted understandable concern that there has been substantial oversplitting in the mouse lemur clade. Here, we tak...
Succession is generally well described above-ground in the boreal forest, and several studies have demonstrated the role of interspecific facilitation in tree species establishment. However, the role of mycorrhizal communities for tree establishment and interspecific facilitation, has been little explored. At the ecotone between the mixed boreal fo...
Aims
While fungi are key drivers of the carbon cycle and obligate symbionts of trees, the link between plant-fungal interactions and landscape vegetation changes has been largely overlooked. Our aim was to test whether a local difference in dominant tree species would shape the composition of soil fungi communities.
Methods
Fungal communities were...
Natural history collections are traditionally used for taxonomic research, but their relevance can extend into studies of molecular evolution as illustrated here using the example of C4 photosynthesis. This complex trait boosts growth in open and warm conditions and evolved numerous times, providing multiple comparisons among C3 and C4 relatives. P...
We investigated whether the diversity, endemicity and specificity of alder symbionts could be changed by isolation in a Mediterranean glacial refugium. We studied both ectomycorrhizal (EM) fungi and nitrogen‐fixing actinobacteria associated with alders, and compared their communities in Corsica and on the European continent.
Nodules and root tips w...
Alders (Alnus spp.) represent keystone species trees of riparian and mountainous habitats of the northern hemisphere. Previous genetic studies have suggested a complex intrageneric diversification with numerous events of interspecific hybridization and polyploidization. Here, we first aim to test the present taxonomical treatment of Alnus by genera...
Background
Recent climatic history has strongly impacted plant populations, but little is known about its effect on microbes. Alders, which host few and specific symbionts, have high genetic diversity in glacial refugia. Here, we tested the prediction that communities of root symbionts survived in refugia with their host populations. We expected to...
Appendix S1
Additional Supporting Information may be found in the online version of this article: Appendix S1. Supplementary Tables. Table S1. Site characteristics, location, and occurrence of Frankia and EM MOTUs among sites. *putative endemic MOTUs Table S2. Matrix reporting occurrence of EM MOTU among sites located in Turkey, Iran and Georgia. T...
matK sequence from Georgia
ITS sequences for fungi
Plant ITS from Georgia
Since the mid twentieth-century, subalpine grasslands undergo a progressive encroachment by Alnus viridis shrubs. Thanks to its rapid vegetative reproduction, its nitrogen fixing symbiosis with Frankia and its ectomycorrhizal cohorts, green alders are vigorous colonizers that quickly form mosaic of alder patches that evolves into a close canopy shr...
Acacias (Mimosoideae) represent a major woody group in arid and sub-arid habitats of all tropical and subtropical regions. The genetic diversity and population dynamic of African species are still poorly investigated, in particular due to ploidy variation among and within species. Here, we aim to investigate the diversity of the plastid genome (or...
The genus Alnicola (Hymenogastraceae) contains a majority of host-specific ectomycorrhizal species, associated with various species of alders (Alnus spp.). Three species associated specifically with Alnus alnobetula are described as new and illustrated: Alnicola badiofusca P.-A. Moreau sp. nov., A. pallidifolia P.-A. Moreau & Peintner sp. nov., and...
Global‐scale analyses of ectomycorrhizal ( ECM ) fungi communities emphasize host plant families as the main drivers of diversity. This study aims to test, on A lnus – ECM communities, which fungi are said to be ‘host‐specific’, to what extent host species, habitat and distance explain their alpha and beta diversity variations, and their specificit...
A new ectomycorrhizal species, Alpova komoviana, is described from several collections from Montenegro (south-eastern Europe), in association with Alnus incana ssp. incana (Betulaceae). Its interesting basal position in the strictly Alnus-associated Alpova lineage is discussed through morphology and phylogenetic analyses based on ITS, gpd and rpb2...
M orphological analysis of basidiomata of gastroid Boletales (Alpova and Melanogaster)f ound in relation with Alnus trees in France revealed the existence of five distinct Alnus-associated species: Alpova alpestris sp. nov., A. corsicus sp. nov.,M elano-gaster luteus Zeller, M. rivularis sp. nov., and an unnamed species (Alpova sp. related to the N...
List of tree sequences used in this study. Sequences of Alnus and Betula species are either generated by the authors or downloaded from GenBank. Vouchers (leaves) are preserved at the Laboratoire Evolution et Diversité Biologique, Toulouse (F).
List of fungal sequences used in this study. Sequences are either generated by the authors (402 sequences) or downloaded from GenBank or UNITE databases (89 sequences). (1): not a genuine Alpova but a Melanogaster [28]. Abbreviations of host names: Aacum: Alnus acuminata; Aalnobet: Alnus alnobetula; Acord: Alnus cordata; Afrut: Alnus fruticulosa; A...
Mycorrhizal fungi form intimate associations with their host plants that constitute their carbon resource and habitat. Alnus spp. (Betulaceae) are known to host an exceptional species-poor and specialized ectomycorrhizal (ECM) fungal community compared to other tree species, but the host-specificity pattern and its significance in terms of fungal d...
The molecular evolution of the V6 and V9 domains of the mitochondrial SSU-rDNA was investigated to evaluate the use of these sequences for DNA barcodes in the Basidiomycota division. The PCR products from 27 isolates belonging to 11 Tricholoma species were sequenced. Both domains in the isolates belonging to the same species had identical sequences...
