A5023705811- Genomics and Phylogenetic Studies
- Microbial Community Ecology and Physiology
- Identification and Quantification in Food
- Animal Genetics and Reproduction
- Chromosomal and Genetic Variations
- Environmental DNA in Biodiversity Studies
- Insect and Arachnid Ecology and Behavior
- Protist diversity and phylogeny
- Insect and Pesticide Research
- Genetic diversity and population structure
- Insect Pheromone Research and Control
- Bacteriophages and microbial interactions
- Insect symbiosis and bacterial influences
- Plant Diversity and Evolution
- Marine Biology and Ecology Research
- Legume Nitrogen Fixing Symbiosis
- Mycorrhizal Fungi and Plant Interactions
- Seed Germination and Physiology
- Insect-Plant Interactions and Control
- Developmental Biology and Gene Regulation
- Plant and Fungal Species Descriptions
- Probiotics and Fermented Foods
- Ichthyology and Marine Biology
- Genetic Mapping and Diversity in Plants and Animals
- Plant Disease Resistance and Genetics
Commissariat à l'Énergie Atomique et aux Énergies Alternatives
2011-2025
Genoscope
2011-2025
Université Paris-Saclay
2019-2025
CEA Paris-Saclay
2019-2025
Centre National de la Recherche Scientifique
2008-2025
Génomique Métabolique du Genoscope
2012
Saccharomyces cerevisiae has been used for millennia in winemaking, but little is known about the selective forces acting on wine yeast genome. We sequenced complete genome of diploid commercial EC1118, resulting an assembly 31 scaffolds covering 97% S288c reference The differed strikingly from other S. isolates possessing 3 unique large regions, 2 which were subtelomeric, being inserted within EC1118 chromosome. These regions encompass 34 genes involved key fermentation functions. Phylogeny...
Abstract Ecosystems across the globe are threatened by climate change and human activities. New rapid survey approaches for monitoring biodiversity would greatly advance assessment understanding of these threats. Taking advantage next‐generation DNA sequencing, we tested an approach call metabarcoding: high‐throughput simultaneous taxa identification based on a very short (usually <100 base pairs) but informative fragment. Short fragments allow use degraded from environmental samples. All...
Abstract A unique collection of oceanic samples was gathered by the Tara Oceans expeditions (2009–2013), targeting plankton organisms ranging from viruses to metazoans, and providing rich environmental context measurements. Thanks recent advances in field genomics, extensive sequencing has been performed for a deep genomic analysis this huge samples. strategy based on different approaches, such as metabarcoding, metagenomics, single-cell genomics metatranscriptomics, chosen size-fractionated...
Abstract Background Nocturnal insects such as moths are ideal models to study the molecular bases of olfaction that they use, among examples, for detection mating partners and host plants. Knowing how an odour generates a neuronal signal in insect antennae is crucial understanding physiological olfaction, also could lead identification original targets development olfactory-based control strategies against herbivorous moth pests. Here, we describe Expressed Sequence Tag (EST) project...
Abstract Background Although bivalves are among the most-studied marine organisms because of their ecological role and economic importance, very little information is available on genome sequences oyster species. This report documents three large-scale cDNA sequencing projects for Pacific Crassostrea gigas initiated to provide a large number expressed sequence tags that were subsequently compiled in publicly accessible database. resource allowed identification transcripts provides valuable...
Here, we sequenced the 5,419,609 bp circular genome of an Enterobacter aerogenes clinical isolate that killed a patient and was resistant to almost all current antibiotics (except gentamicin) commonly used treat Enterobacterial infections, including colistin. Genomic phylogenetic analyses explain discrepancies this bacterium show its core originates from another genus, Klebsiella. Atypical characteristics (i.e., motility, presence ornithine decarboxylase, lack urease activity) are attributed...
Biogeographical studies have traditionally focused on readily visible organisms, but recent technological advances are enabling analyses of the large-scale distribution microscopic whose biogeographical patterns long been debated. Here we assessed global structure plankton geography and its relation to biological, chemical, physical context ocean (the ‘seascape’) by analyzing metagenomes communities sampled across oceans during Tara Oceans expedition, in light environmental data current...
Wolbachia are intracellular bacteria known to be facultative reproductive parasites of numerous arthropod hosts. Apart from these manipulations, recent findings indicate that may also modify the host's physiology, notably its immune function. In parasitoid wasp, Asobara tabida, is necessary for oogenesis completion, and aposymbiotic females unable produce viable offspring. The absence egg production associated with an increase in programmed cell death ovaries females, suggesting a mechanism...
Abstract Background Wolbachia are vertically transmitted bacteria known to be the most widespread endosymbiont in arthropods. They induce various alterations of reproduction their host, including feminization genetic males isopod crustaceans. In pill bug Armadillidium vulgare , presence is also associated with detrimental effects on host fertility and lifespan. Deleterious have been demonstrated hemocyte density, phenoloxidase activity, natural hemolymph septicemia, suggesting that infected...
Legume roots show a remarkable plasticity to adapt their architecture biotic and abiotic constraints, including symbiotic interactions. However, global analysis of miRNA regulation in is limited, view the evolution miRNA-mediated diversification different ecotypes lacking. In model legume Medicago truncatula, we analyze small RNA transcriptome submitted pathogenic Genome mapping computational pipeline identify 416 candidates, known novel variants 78 families present miRBase. Stringent...
Chemical senses are crucial for all organisms to detect various environmental information.Different protein families, expressed in chemosensory organs, involved the detection of this information, such as odorant-binding proteins, olfactory and gustatory receptors, ionotropic receptors.We recently reported an Expressed Sequence Tag (EST) approach on male antennae noctuid moth, Spodoptera littoralis, with which we could identify a large array genes species no genomic data available.Here...
Abstract Coral reef science is a fast-growing field propelled by the need to better understand coral health and resilience devise strategies slow loss resulting from environmental stresses. Key are symbiotic interactions established within complex holobiont, i.e . multipartite assemblages comprising host organism, endosymbiotic dinoflagellates, bacteria, archaea, fungi, viruses. Tara Pacific an ambitious project built upon experience of previous Oceans expeditions, leveraging...
Arthrobacter arilaitensis is one of the major bacterial species found at surface cheeses, especially in smear-ripened where it contributes to typical colour, flavour and texture properties final product. The A. Re117 genome composed a 3,859,257 bp chromosome two plasmids 50,407 8,528 bp. shares large regions synteny with chromosomes three environmental strains for which sequences are available: aurescens TC1, chlorophenolicus A6 sp. FB24. In contrast however, 4.92% ISs elements, portion that...
Among small photosynthetic eukaryotes that play a key role in oceanic food webs, picoplanktonic Mamiellophyceae such as Bathycoccus, Micromonas, and Ostreococcus are particularly important coastal regions. By using combination of cell sorting by flow cytometry, whole genome amplification (WGA), 454 pyrosequencing, we obtained metagenomic data for two natural picophytoplankton populations from the upwelling waters off central Chile. About 60% reads each sample could be mapped to Bathycoccus...
A large double-stranded DNA (dsDNA) virus that produces occlusion bodies, typical of baculoviruses, has been described to infect crane fly larvae the genus Tipula (Diptera, Tipulidae). Because a lack genomic data, this remained unclassified. Electron microscopy an archival isolated from oleracea, T. oleracea nudivirus (ToNV), showed irregularly shaped bodies measuring 2 5 μm in length and middiameter, filled with rod-shape virions containing single nucleocapsids within bilayer envelope....
INTRODUCTIONDue to their large size and long generation times, chondrichthyans have been largely ignored by geneticists. However, key phylogenetic position makes them ideal subjects study the molecular bases of important morphological physiological innovations that characterize jawed vertebrates. Such analyses are crucial understanding origin complex genetic mechanisms unraveled in osteichthyans. The small spotted dogfish Scyliorhinus canicula, a representative largest order extant sharks,...
Abstract S1 is the most important locus acting as a reproductive barrier between Oryza sativa and O. glaberrima. It complex locus, with factors that may affect male female fertility separately. Recently, component causing allelic elimination of pollen was fine mapped. However, position nature sterility remains unknown. To map factor affecting fertility, we developed mapping approach based on evaluation degree transmission ratio distortion (fTRD) markers. Through implementing this methodology...
Insects thriving on nutritionally poor habitats have integrated mutualistic intracellular symbiotic bacteria (endosymbionts) in a bacteria-bearing tissue (the bacteriome) that isolates the endosymbionts and protects them against host systemic immune response. Whilst metabolic physiological features of long-term insect associations been investigated detail over past decades, cellular regulations determine response to pathogens attracted interest more recently.To investigate bacteriome...
Madagascar is surrounded by archipelagos varying widely in origin, age and structure. Although small geologically young, these have accumulated disproportionate numbers of unique lineages comparison to Madagascar, highlighting the role waif-dispersal rapid situ diversification processes generating endemic biodiversity. We reconstruct evolutionary biogeographical history genus Psiadia (Asteraceae), a plant with near equal species surrounding islands. Analyzing patterns diversification, we...
Abstract Biogeographical studies have traditionally focused on readily visible organisms, but recent technological advances are enabling analyses of the large-scale distribution microscopic whose biogeographical patterns long been debated. Here we assessed global structure plankton geography and its relation to biological, chemical physical context ocean (the ‘seascape’) by analyzing metagenomes communities sampled across oceans during Tara Oceans expedition, in light environmental data...
Abstract An exhaustive analysis was performed on more than 2000 microbiotas from French Protected Designation of Origin (PDO) cheeses, covering most cheese families produced throughout the world. Thanks to a complete and accurate set associated metadata, we have carried out deep ecological drivers microbial communities in milk “terroir” cheeses. We show that bacterial fungal microbiota differed significantly across dairy species while sharing core microbiome consisting four species. By...
<title>Abstract</title> The Southern Ocean (SO) plays a key role in regulating global biogeochemical cycles and climate, yet microbial genes sustaining its biological activity remain poorly characterized. We introduce comprehensive SO collection from 218 metagenomes sampled during the Antarctic Circumnavigation Expedition, majority of which are missing functional databases. 38% even lack homologs current reference marine gene catalogs, defining singular genetic seascape. show that...
<title>Abstract</title> We present a decade-long research initiative of biodiversity genomics, which aimed at sequencing all vascular plant species occurring in the hotspot European Alps, along with related lineages other mountain ranges and arctic region. detail sampling strategies, an online database for genome skimming datasets, bioinformatic procedures to retrieve sequence data. Based on low coverage shotgun 6,105 species, we generated dataset 81 orthologous chloroplast loci, including...