A5086129164- Genomics and Phylogenetic Studies
- Microbial Community Ecology and Physiology
- Protist diversity and phylogeny
- RNA and protein synthesis mechanisms
- Methane Hydrates and Related Phenomena
- Bacterial Genetics and Biotechnology
- Bacteriophages and microbial interactions
- Enzyme Structure and Function
- HIV/AIDS Research and Interventions
- Legume Nitrogen Fixing Symbiosis
- RNA modifications and cancer
- Insect Resistance and Genetics
- HIV Research and Treatment
- Transgenic Plants and Applications
- Protein Structure and Dynamics
- Polyamine Metabolism and Applications
- Amino Acid Enzymes and Metabolism
- Metal Extraction and Bioleaching
- Photosynthetic Processes and Mechanisms
- Plant Virus Research Studies
- Plant Pathogenic Bacteria Studies
- DNA Repair Mechanisms
- Microbial Metabolic Engineering and Bioproduction
- Trace Elements in Health
- Chromium effects and bioremediation
Centre National de la Recherche Scientifique
2016-2025
Laboratoire de Biométrie et Biologie Evolutive
2016-2025
Université Claude Bernard Lyon 1
2016-2025
Hôpital Pellegrin
2025
Médecins du Monde
2025
Hôpital Paul-Brousse
2025
Institut Universitaire de France
2024-2025
VetAgro Sup
2024-2025
Inserm
2017-2020
Hôpital Lariboisière
2020
Ammonia-oxidizing archaea are ubiquitous in marine and terrestrial environments now thought to be significant contributors carbon nitrogen cycling. The isolation of Candidatus “ Nitrosopumilus maritimus ” strain SCM1 provided the opportunity for linking its chemolithotrophic physiology with a genomic inventory globally distributed archaea. Here we report 1,645,259-bp closed genome SCM1, revealing highly copper-dependent systems ammonia oxidation electron transport that distinctly different...
Significance An archaeal origin for eukaryotes is an exciting recent finding. Nevertheless, it has been based largely on the reconstruction of universal trees. The use alternative strategy markers shared between Archaea and Bacteria bypasses potential problems linked to analysis three domains simultaneously. Comparison phylogenies obtained by these two complementary sets supports a sister relationship Thaumarchaeota/“Aigarchaeota” (candidate phylum)/Crenarchaeota/Korarchaeota lineage but...
The candidate division Korarchaeota comprises a group of uncultivated microorganisms that, by their small subunit rRNA phylogeny, may have diverged early from the major archaeal phyla Crenarchaeota and Euryarchaeota. Here, we report initial characterization member with proposed name, "Candidatus Korarchaeum cryptofilum," which exhibits an ultrathin filamentous morphology. To investigate possible ancestral relationships between deep-branching other phyla, used whole-genome shotgun sequencing...
We used a phylogenetic approach to analyze the evolution of methanogenesis and methanogens. show that 23 vertically transmitted ribosomal proteins do not support monophyly methanogens, propose instead there are two distantly related groups extant archaea produce methane, which we have named Class I II. Based on this finding, subsequently investigated uniqueness origin by studying both enzymes synthesize its specific coenzymes. conclude hydrogenotrophic appeared only once during evolution....
Although capable to evolve, viruses are generally considered non-living entities because they acellular and devoid of metabolism. However, the recent publication genome sequence Mimivirus, a giant virus that parasitises amoebas, strengthened idea should be included in tree life. In fact, first phylogenetic analyses few Mimivirus genes also present cellular lineages suggested it could define an independent branch life addition three domains, Bacteria, Archaea Eucarya. We tested this...
Until recently, phylogenetic analyses of Archaea have mainly been based on ribosomal RNA (rRNA) sequence comparisons, leading to the distinction two major archaeal phyla: Euryarchaeota and Crenarchaeota. Here, thanks recent sequencing several genomes, we constructed a phylogeny fusion sequences 53 proteins present in most species. This was remarkably congruent with rRNA phylogeny, suggesting that both reflected actual domain even if some nodes remained unresolved. In cases, branches...
Abstract Background Blastocystis is a highly prevalent anaerobic eukaryotic parasite of humans and animals that associated with various gastrointestinal extraintestinal disorders. Epidemiological studies have identified different subtypes but no one subtype has been definitively correlated disease. Results Here we report the 18.8 Mb genome sequence 7 isolate, which smallest stramenopile sequenced to date. The compact contains intriguing rearrangements. Comparisons other available genomes...
Iron sulfur (Fe/S) proteins are ubiquitous and participate in multiple biological processes, from photosynthesis to DNA repair. highly reactive chemical species, the mechanisms allowing multiprotein systems ISC SUF assist Fe/S cluster formation vivo have attracted considerable attention. Here, A-Type components of these (ATCs for Carriers) studied by phylogenomic genetic analyses. ATCs that emerged last common ancestor bacteria were conserved most acquired eukaryotes few archaea via...
Bacteria of the Thiomonas genus are ubiquitous in extreme environments, such as arsenic-rich acid mine drainage (AMD). The genome one these strains, sp. 3As, was sequenced, annotated, and examined, revealing specific adaptations allowing this bacterium to survive grow its highly toxic environment. In order explore genomic diversity well genetic evolution spp., a comparative hybridization (CGH) approach used on eight different strains genus, including five same species. Our results suggest...
Significance Natural transformation is a major mechanism of horizontal gene transfer (HGT) by which bacteria take up exogenous DNA directly in their environment and integrate it genome. Acquiring new genetic information may confer an adaptive advantage but uncontrolled uptake foreign be harmful. We document previously unsuspected means to control HGT natural the human pathogen Legionella pneumophila . found that system required for subjected silencing. A member widespread ProQ/FinO...
The discovery of ∼20-kb gene clusters containing a family paralogs tRNA guanosine transglycosylase genes, called tgtA5, alongside 7-cyano-7-deazaguanine (preQ0) synthesis and DNA metabolism led to the hypothesis that 7-deazaguanine derivatives are inserted in DNA. This was established by detecting 2'-deoxy-preQ0 2'-deoxy-7-amido-7-deazaguanosine enzymatic hydrolysates extracted from pathogenic, Gram-negative bacteria Salmonella enterica serovar Montevideo. These modifications were absent...
The recent rise in cultivation-independent genome sequencing has provided key material to explore uncharted branches of the Tree Life. This been particularly spectacular concerning Archaea, projecting them at center stage as prominently relevant understand early stages evolution and emergence fundamental metabolisms well origin eukaryotes. Yet, resolving deep divergences remains a challenging task due well-known tree-reconstruction artefacts biases extracting robust ancient phylogenetic...
Cultivable archaeal species are assigned to two phyla -- the Crenarchaeota and Euryarchaeota by a number of important genetic differences, this ancient split is strongly supported phylogenetic analysis. The recently described hyperthermophile Nanoarchaeum equitans, harboring smallest cellular genome ever sequenced (480 kb), has been suggested as representative new phylum Nanoarchaeota that would have diverged before Crenarchaeota/Euryarchaeota split. Confirming position N. equitans thus...
Autotrophic acidophilic iron- and sulfur-oxidizing bacteria of the genus Acidithiobacillus constitute a heterogeneous taxon encompassing high degree diversity at phylogenetic genetic levels, though currently only two species are recognized ( ferrooxidans ferrivorans ). One major functional disparities concerns biochemical mechanisms iron sulfur oxidation, with discrepancies reported in literature concerning genes proteins involved these processes. These include types high-potential...