A5025356493- Plant Pathogens and Fungal Diseases
- Genetic diversity and population structure
- Genomics and Phylogenetic Studies
- Fungal Plant Pathogen Control
- Scientific Computing and Data Management
- Plant Disease Resistance and Genetics
- Epigenetics and DNA Methylation
- Antifungal resistance and susceptibility
- Yeasts and Rust Fungi Studies
- Plant Virus Research Studies
- Genetic Mapping and Diversity in Plants and Animals
- Plant and animal studies
- Insect and Arachnid Ecology and Behavior
- Bioenergy crop production and management
- Infectious Diseases and Mycology
- Insect-Plant Interactions and Control
- Wheat and Barley Genetics and Pathology
- Evolution and Genetic Dynamics
- Wildlife Ecology and Conservation
- Yersinia bacterium, plague, ectoparasites research
- Forensic and Genetic Research
- Animal Ecology and Behavior Studies
- Dermatological diseases and infestations
- Environmental DNA in Biodiversity Studies
- Cephalopods and Marine Biology
Centre d'Études Scientifiques et Techniques d'Aquitaine
2019-2024
UMR BIOdiversity, GEnes & Communities
2018-2024
Université de Bordeaux
2019-2024
Institut National de Recherche pour l'Agriculture, l'Alimentation et l'Environnement
2019-2024
Centre National de la Recherche Scientifique
2011-2024
Centre de Coopération Internationale en Recherche Agronomique pour le Développement
2024
Université de Montpellier
2011-2024
Institut Agro Montpellier
2024
Université d'Orléans
2024
Direction de la Recherche Fondamentale
2024
Abstract Inferring the history of isolation and gene flow during species differentiation can inform us on processes underlying their formation. Following recent expansion in Europe, two subspecies house mouse ( Mus musculus domesticus ) have formed a hybrid zone maintained by incompatibilities possibly behavioural reinforcement, offering good model incipient speciation. We reconstruct divergence using an approximate Bayesian computation framework sequence variation at 57 autosomal loci. find...
Genetic variation shared between closely related species may be due to retention of ancestral polymorphisms because incomplete lineage sorting (ILS) and/or introgression following secondary contact. It is challenging distinguish ILS and they generate similar patterns genetic diversity, but this nonetheless essential for inferring accurately the history with overlapping distributions. To address issue, we sequenced 33 independent intron loci across genome two pine (Pinus massoniana Lamb....
Host-race formation in phytophagous insects is thought to provide the opportunity for local adaptation and subsequent ecological speciation. Studying gene expression differences amongst host races may help identify phenotypes under (or resulting from) divergent selection their genetic, molecular physiological bases. The pea aphid (Acyrthosiphon pisum) comprises specializing on numerous plants Fabaceae provides a unique system examining early stages of diversification along gradient genetic...
The number and demographic history of colonists can have dramatic consequences for the way in which genetic diversity is distributed maintained a metapopulation. bed bug (Cimex lectularius) re-emerging pest species whose close association with humans has led to frequent local extinction colonization, that is, metapopulation dynamics. Pest control limits lifespan subpopulations, causing extinctions, human-facilitated dispersal allows colonization empty patches. Founder events often result...
Abstract The Venturia genus comprises fungal species that are pathogens on Rosaceae host plants, including V. inaequalis and asperata apple, aucupariae sorbus pirina pear. Although the genetic structure of populations has been investigated in detail, genomic features underlying these subdivisions remain poorly understood. Here, we report whole genome sequencing 87 strains represent each population within inaequalis. We present a PacBio assembly for EU-B04 reference isolate. size selected...
Motivation: DNA methylation plays a crucial role in gene regulation and epigenetic inheritance, making it essential information for studies of genotype-environment interactions. As whole genome sequencing analysis is still expensive at the population level, focus on regions interest. However, data matrices may contain missing some individuals, which can hamper analyses. Here, several methods imputing were evaluated targeted two species. Results: We compare seven different imputation obtained...
Copy number variation (CNV) makes a major contribution to overall genetic and is suspected play an important role in adaptation. However, aside from few model species, the extent of CNV natural populations has seldom been investigated. Here, we report on pea aphid Acyrthosiphon pisum, powerful system for studying architecture host-plant adaptation speciation thanks multiple host races forming continuum divergence. Recent studies have highlighted potential importance chemosensory genes,...
Some species responded successfully to prehistoric changes in climate [1Robson K.M. Lamb C.T. Russello M.A. Low genetic diversity, restricted dispersal, and elevation-specific patterns of population decline American pikas an atypical environment.J. Mammal. 2015; 97: 464-472Crossref Scopus (15) Google Scholar, 2Kumar V. Kutschera V.E. Nilsson Janke A. Genetic signatures adaptation revealed from transcriptome sequencing Arctic red foxes.BMC Genomics. 16: 585Crossref PubMed (18) Scholar], while...
Host-associated races of phytophagous insects provide a model for understanding how adaptation to new environment can lead reproductive isolation and speciation, ultimately enabling us connect barriers gene flow adaptive causes divergence. The pea aphid (Acyrthosiphon pisum) comprises host specializing on legume species provides unique system examining the early stages diversification along gradient genetic associated As choice produces assortative mating, underlying mechanisms will...
Abstract In the last 20 years, several techniques have been developed for quantifying DNA methylation, most studied epigenetic marks in eukaryotes, including gold standard method, whole-genome bisulfite sequencing (WGBS). WGBS quantifies genome-wide methylation but has inconveniences rendering it less suitable population-scale studies. The high cost of deep and large amounts data generated prompted us to seek an alternative approach. Restricting studies parts genome would be a satisfactory...
Understanding the distribution of genetic diversity in exploited species is fundamental to successful conservation. Genetic structure and degree gene flow among populations must be assessed design appropriate strategies prevent loss distinct populations. The cephalopod Nautilus pompilius fished unsustainably Philippines for ornamental shell trade has limited legislative protection, despite species' recent dramatic decline region. Here, we use 14 microsatellite markers evaluate population N....
Abstract The evolution of assortative mating is a key part the speciation process. Stronger assortment, or greater divergence in traits, between species pairs with overlapping ranges commonly observed, but possible causes this pattern reproductive character displacement are difficult to distinguish. We use multidisciplinary approach provide rare example where it distinguish among hypotheses concerning displacement. build on an earlier comparative analysis that illustrated strong penis form...
The opportunistic fungal pathogen Scedosporium boydii is the most common species in French patients with cystic fibrosis. Here we present first genome report for S. boydii, providing a resource which may enable elucidation of pathogenic mechanisms this species.
Epidemiology of fungaemia and fungal meningitis in Sweden : a nationwide retrospective observational survey from sept 2015-aug 2016
Secondary contact between crops and their wild relatives poses a threat to species, not only through gene flow plants, but also the dispersal of crop pathogens genetic exchanges involving these pathogens, particularly those that have become more virulent by indirect selection on resistant crops, phenomenon known as "pestification." Joint analyses domesticated hosts are essential address this issue, such remain rare. We used population genetics approaches, demographic inference pathogenicity...
SUMMARY How perennial organisms adapt to environments is a key question in biology. To address this question, we investigated ten natural black poplar ( Populus nigra ) populations from Western Europe, keystone forest tree of riparian ecosystems. We assessed the role (epi)genetic regulation driving species evolution and adaptation over several millions years (macro-evolution) up few generations (micro-evolution). At macro-evolution scale, polar experienced differential structural (gene loss)...
We developed a strategy and workflow for quantifying epigenetic diversity in natural populations combining whole genome targeted capture sequencing DNA methylation. first identified regions of highly variable methylation representative subset genotypes the biological population by WGBS. then analysed variations these at level Sequencing Capture Bisulphite (SeqCapBis).
Abstract The Venturia genus comprises fungal species that are pathogens on Rosaceae host plants, including V. inaequalis and asperata apple, aucupariae sorbus pirina pear. Although the genetic structure of populations has been investigated in detail, genomic features underlying these subdivisions remain poorly understood. Here, we report whole genome sequencing 87 strains represent each population within . We present a PacBio assembly for EU-B04 reference isolate. size selected genomes was...
The Alpine Marmot (Marmota marmota) is a rodent remnant of the ‘ice-age’ climate Pleistocene steppe, and since disappearance this habitat, persists in high altitude meadow. Sequencing its genome, we reveal that long-term cold-climate adaptation has altered metabolism, particular biosynthesis storage fatty acids. Paradoxically, despite successful large population size, detected levels genetic variation are among lowest for mammals, purifying selection ineffective. Reconstructing demographic...