A5011360276- Genomics and Phylogenetic Studies
- Genetic and Environmental Crop Studies
- Plant Pathogens and Fungal Diseases
- Chromosomal and Genetic Variations
- Legume Nitrogen Fixing Symbiosis
- Reproductive tract infections research
- Protist diversity and phylogeny
- Microbial Community Ecology and Physiology
- Plant Disease Resistance and Genetics
- Environmental DNA in Biodiversity Studies
- Gene expression and cancer classification
- Botanical Research and Chemistry
- Pelvic floor disorders treatments
- Reproductive System and Pregnancy
- RNA and protein synthesis mechanisms
- Yeasts and Rust Fungi Studies
- Plant Reproductive Biology
- Plant-Microbe Interactions and Immunity
- Plant Pathogenic Bacteria Studies
- Agricultural pest management studies
- Cancer-related molecular mechanisms research
CEA Paris-Saclay - Etablissement de Fontenay-aux-roses
2018-2022
Commissariat à l'Énergie Atomique et aux Énergies Alternatives
2015-2020
Genoscope
2015-2020
Université Paris-Saclay
2018-2020
Centre National de la Recherche Scientifique
2020
CEA Paris-Saclay
2020
Direction de la Recherche Fondamentale
2019
CEA Cadarache
2016
CEA Grenoble
2016
We report the first annotated chromosome-level reference genome assembly for pea, Gregor Mendel's original genetic model. Phylogenetics and paleogenomics show genomic rearrangements across legumes suggest a major role repetitive elements in pea evolution. Compared to other sequenced Leguminosae genomes, shows intense gene dynamics, most likely associated with size expansion when Fabeae diverged from its sister tribes. During Pisum evolution, translocation transposition differentially...
Marine planktonic eukaryotes play critical roles in global biogeochemical cycles and climate. However, their poor representation culture collections limits our understanding of the evolutionary history genomic underpinnings ecosystems. Here, we used 280 billion
Abstract Background: Oxford Nanopore Technologies Ltd (Oxford, UK) have recently commercialized MinION, a small single-molecule nanopore sequencer, that offers the possibility of sequencing long DNA fragments from genomes in matter seconds. The technology is truly disruptive; it has potential to revolutionize genomic applications due its portability, low cost, and ease use compared with existing reads technologies. MinION sequencer enables rapid eukaryotic genomes, such as yeast genome....
Abstract Leptosphaeria maculans and biglobosa are ascomycete phytopathogens of Brassica napus (oilseed rape, canola). Here we report the complete sequence three genomes ( L. JN3, Nz-T4 G12-14). G12-14 genome assemblies were generated de novo reference JN3 assembly was improved using Oxford Nanopore MinION reads. The new showed existence AT rich regions pointed to a compartmentalization previously unsuspected following Illumina sequencing. Moreover nanopore sequencing allowed us generate...
Abstract Marine planktonic eukaryotes play a critical role in global biogeochemical cycles and climate. However, their poor representation culture collections limits our understanding of the evolutionary history genomic underpinnings ecosystems. Here, we used 280 billion Tara Oceans metagenomic reads from polar, temperate, tropical sunlit oceans to reconstruct manually curate more than 700 abundant widespread eukaryotic environmental genomes ranging 10 Mbp 1.3 Gbp. This resource covers wide...
Background Chlamydiosis, a sexually transmitted infection (STI) induced by Chlamydia trachomatis (CT), increases local inflammation (cytokine production, recruitment of immune cells such as neutrophils). Few is known on the impact CT phenotype cervicovaginal neutrophils. Vaginal microbiota (VM) key factor in regulation responses and STI acquisition where Lactobacillus spp are associated with protection. In this study, VM cynomolgus macaques was enriched crispatus after metronidazole...
Abstract Oxford Nanopore Technologies Ltd (Oxford, UK) have recently commercialized MinION, a small and low-cost single-molecule nanopore sequencer, that offers the possibility of sequencing long DNA fragments. The technology is truly disruptive can sequence genomes in matter seconds. It has potential to revolutionize genomic applications due its portability, low-cost, ease use compared with existing reads technologies. MinION sequencer enables rapid eukaryotic genomes, such as yeast genome....
Background The female reproductive tract (FRT) mucosa is the first line of defense against sexually transmitted infection (STI). FRT environmental factors, including immune-cell composition and vaginal microbiota, interact with each other to modulate susceptibility STIs. Moreover, menstrual cycle induces important modifications within mucosa. Cynomolgus macaques are used as a model for pathogenesis prophylaxis In addition, their morphology similar women. cynomolgus macaque microbiota highly...
Abstract Background Scaffolding is an essential step in the genome assembly process. Current methods based on large fragment paired-end reads or long allow increase contiguity but often lack consistency repetitive regions, resulting fragmented assemblies. Here, we describe a novel tool to link assemblies map aid complex reconstruction by detecting errors and allowing scaffold ordering anchoring. Results We present MaGuS (map-guided scaffolding), modular that uses draft assembly, Whole Genome...
Abstract Background Scaffolding is a crucial step in the genome assembly process. Current methods based on large fragment paired-end reads or long allow an increase continuity but often lack consistency repetitive regions, resulting fragmented assemblies. Here, we describe novel tool to link assemblies map aid complex reconstruction by detecting errors and allowing scaffold ordering anchoring. Results We present MaGuS (map-guided scaffolding), modular that uses draft assembly, map,...