A5046289689- Escherichia coli research studies
- Antibiotic Resistance in Bacteria
- Bacterial Genetics and Biotechnology
- Bacteriophages and microbial interactions
- Gut microbiota and health
- Neurogenetic and Muscular Disorders Research
- Evolution and Genetic Dynamics
- Genomics and Phylogenetic Studies
- Vibrio bacteria research studies
- RNA modifications and cancer
- Urinary Tract Infections Management
- Enterobacteriaceae and Cronobacter Research
- Salmonella and Campylobacter epidemiology
- Probiotics and Fermented Foods
- RNA and protein synthesis mechanisms
- RNA Research and Splicing
- Clostridium difficile and Clostridium perfringens research
- CRISPR and Genetic Engineering
- Viral gastroenteritis research and epidemiology
- Fecal contamination and water quality
- Pharmaceutical and Antibiotic Environmental Impacts
- Antibiotics Pharmacokinetics and Efficacy
- Microbial infections and disease research
- Antimicrobial Resistance in Staphylococcus
- Mycobacterium research and diagnosis
Inserm
2016-2025
Université Paris Cité
2016-2025
Sorbonne Paris Cité
2013-2025
Université Sorbonne Paris Nord
2018-2025
Sorbonne Université
2021-2025
Infection, Anti-microbiens, Modélisation, Evolution
2013-2024
Délégation Paris 7
2011-2022
Hôpital Bichat-Claude-Bernard
2018
GGD Amsterdam
2014
Hôpital de la Conception
2014
ABSTRACT Phylogenetic analysis has shown that Escherichia coli is composed of four main phylogenetic groups (A, B1, B2, and D) virulent extra-intestinal strains mainly belong to B2 D. Actually, can be determined by multilocus enzyme electrophoresis or ribotyping, both which are complex, time-consuming techniques. We describe a simple rapid grouping technique based on triplex PCR. The method, uses combination two genes ( chuA yjaA ) an anonymous DNA fragment, was tested with 230 showed...
There is extensive genetic substructure within the species Escherichia coli. In 2000 a simple triplex PCR method was described by Clermont and colleagues that enables an E. coli isolate to be assigned one of phylo-groups A, B1, B2 or D. The growing body multi-locus sequence data genome for has refined our understanding coli's phylo-group structure eight are now recognized: seven (A, B2, C, D, E, F) belong sensu stricto, whereas eighth cryptic clade I. Here new PCR-based developed which...
The Escherichia coli species represents one of the best-studied model organisms, but also encompasses a variety commensal and pathogenic strains that diversify by high rates genetic change. We uniformly (re-) annotated genomes 20 E. strain fergusonii (the closest related species), including seven we sequenced to completion. Within approximately 18,000 families orthologous genes, found 2,000 common all strains. Although recombination are much higher than mutation rates, show, both...
The genus Escherichia is composed of albertii, E. fergusonii, five cryptic clades and coli sensu stricto. Furthermore, the species can be divided into seven main phylogroups termed A, B1, B2, C, D, E F. As specific lifestyles and/or hosts attributed to these species/phylogroups, their identification meaningful for epidemiological studies. Classical phenotypic tests fail identify non-sensu stricto as well phylogroups. Clermont colleagues have developed PCR assays that allow most...
Recently, a CTX-M-15 extended-spectrum β-lactamase (ESBL)-producing Escherichia coli O25b-ST131 clone, belonging to the B2 phylogenetic group and with high virulence potential, has been reported all over world, representing major public health problem. The present study was carried out develop rapid simple detection assay that identifies members of this clone. A total 627 E. isolates which 373 produced an ESBL, collected across four continents, were screened using clone allele-specific PCR...
In bacteria, the evolution of pathogenicity seems to be result constant arrival virulence factors (VFs) into bacterial genome. However, integration, retention, and/or expression these may interaction between new arriving genes and genomic background. To test this hypothesis, a phylogenetic analysis was done on collection 98 Escherichia coli/Shigella strains representing pathogenic commensal diversity species. The distribution 17 VFs associated different E. coli pathovars superimposed tree....
Abstract Background Extraintestinal pathogenic Escherichia coli (ExPEC) strains represent a huge public health burden. Knowledge of their clonal diversity and the association clones with genomic content clinical features is prerequisite to recognize high invasive potential. In order provide an unbiased view E. responsible for bacteremia, we studied 161 consecutive isolates from patients positive blood culture obtained during one year in two French university hospitals. We collected precise...
It is well recognized that Escherichia coli consists of a number distinct phylo-groups and strains the different vary in their ecological niches, life-history characteristics propensity to cause disease. Consequently, much can be learnt by assigning strain E. one phylo-groups. A triplex PCR-based method enables assigned phylo-group using dichotomous key approach based on presence or absence two genes (chuA yjaA) an anonymous DNA fragment (TSPE4.C2) has been developed. However, accuracy with...
A clone of CTX-M-15-producing Escherichia coli has recently been reported to be spreading through Europe and Africa. The aim this work was thoroughly characterize clone.Representative isolates were subjected multilocus sequence typing, O virulence gene detection, adhesion assay on human cells, biofilm production mouse lethality assay.The clone: (i) belongs a unique B2 phylogenetic subgroup encompassing the pyelonephritogenic diffusely adhering EC7372 strain; (ii) exhibits specific O25b...
The phylogeny of the Escherichia coli species, with identification seven phylogroups (A, B1, B2, C, D, E and F), is linked to lifestyle strains. With accumulation whole genome sequence data, it became clear that some strains belong a group intermediate between F B2 phylogroups, designated as phylogroup G. Here, we studied complete sequences 112 representative G diversity showed composed one main type complex (STc)117 four other STcs (STc657, STc454, STc738 STc174). STc117, which...
An intraspecies phylogenetic grouping of 168 human commensal Escherichia coli strains isolated from the stools three geographically distinct populations (France, Croatia, Mali) was generated by triplex PCR. The distributions seven known extraintestinal virulence determinants (ibeA, pap, sfa/foc, afa, hly, cnf1, aer) were also determined data compiled, which showed that groups A (40%) and B1 (34%) most common, followed group D (15%). Strains B2 rare (11%). However, a significant specific...
Spinal muscular atrophies (SMAs) represent the second most common fatal autosomal recessive disorder after cystic fibrosis. Childhood spinal are divided into severe (type I) and mild forms (types II III). By a combination of genetic physical mapping, yeast artificial chromosome contig 5q13 region spanning disease locus was constructed that showed presence low copy repeats in this region. Allele segregation analyzed at closest loci detected by markers C212 C272 201 SMA families. Inherited de...
The selective pressures leading to the evolution and maintenance of virulence in case facultative pathogens are quite unclear. For example, Escherichia coli, a commensal gut warm-blooded animals humans, can cause severe extraintestinal diseases, such as septicemia meningitis, which represent evolutionary dead ends for pathogen they associated rapid host death poor interhost transmission. Such infectious process has been linked presence so-called "virulence genes." To understand forces that...
Numerous tools allowing the rapid and universal identification of clones/clonal complexes/phylogroups Escherichia coli have been developed, as it is a commensal vertebrate gut, major pathogen in veterinary human medicine, bacterial indicator faecal contamination. The ability to identify crucial, strain's ecological niche, lifestyle propensity cause disease vary with its phylogenetic origins. There are currently three multi-locus sequence typing (MLST) schemes for E. coli, well several...
ABSTRACT In order to get further insights into the role of clustered, regularly interspaced, short palindromic repeats (CRISPRs) in Escherichia coli , we analyzed CRISPR diversity a collection 290 strains, phylogenetic framework strains represented by multilocus sequence typing (MLST). The set included 263 natural E. isolates exposed various environments and isolated over 20-year period from humans animals, as well 27 fully sequenced strains. Our analyses confirm that there are two largely...
ABSTRACT Escherichia coli , a commensal bacterium from the intestinal tracts of humans and vertebrate animals, has been used as one two bacterial indicators fecal contamination, along with enterococci, to monitor microbiological quality water. However, water environments are now recognized secondary habitat where some strains can survive. We investigated survival E. isolates collected bodies in France exhibiting distinct profiles defined according following criteria: vicinity point sources...