E. Denamur

Strain intrinsic properties and environmental constraints together shape Escherichia coli dynamics and diversity over a twenty-year human gut time series

This study tracks E. coli dynamics in a human gut over 20 years, showing how strain properties and environmental factors influence diversity and persistence.

Escherichia coli extra-intestinal population translocation in leukemia patients

This study examines E. coli translocation from the gut to extra-intestinal compartments in immunosuppressed patients, finding compartment-specific selection patterns and mutator strains.

Predicting phage-bacteria interactions at the strain level from genomes

This paper predicts phage-bacteria interactions at the strain level using genomic data from Escherichia isolates and shows tailored phage cocktails are more effective.

Inter-phylum circulation of a beta-lactamase - encoding gene: a rare but observable event

The paper reports the first inter-phylum transfer of an ESBL-encoding gene, blaMUN-1, between Bacteroidota and Pseudomonadota, highlighting rare but possible horizontal gene transfer events.

Residence-colonization trade-off and niche differentiation enable the coexistence of Escherichia coli phylogroups in healthy humans

The paper identifies a residence-colonization trade-off and niche differentiation among E. coli phylogroups in healthy humans, enabling their coexistence through equalizing and stabilizing mechanisms.

Uridine as a potentiator of aminoglycosides through activation of carbohydrate transporters

This study identifies uridine as a molecule that enhances aminoglycoside uptake in Gram-negative bacteria by activating carbohydrate transporters, improving antibiotic efficacy against resistant strains.

Dissemination of IncI plasmid encoding blaCTX-M-1 is not hampered by its fitness cost in the pig's gut.

The study shows that an IncI plasmid encoding blaCTX-M-1 does not significantly reduce bacterial fitness in the pig gut, allowing its dissemination despite a minor growth rate difference.

The bacterial genetic determinants of Escherichia coli capacity to cause bloodstream infections in humans

This study identifies genetic determinants of Escherichia coli's ability to cause bloodstream infections using genomic and machine learning analyses of clinical isolates.

High pathogenicity island, aer and sit operons: a "menage a trois" in Escherichia coli extra-intestinal virulence

The paper shows that virulence in E. coli depends on the presence of the HPI, aer, and sit operons, with their co-occurrence and genomic location shaped by strain phylogeny.

Variable effects on virulence of bacteriophage resistance mechanisms in extraintestinal pathogenic Escherichia coli

This study examines phage resistance mechanisms in E. coli and finds that resistance can be predicted from in vitro conditions, often reduces virulence, and can be mitigated with phage cocktails.

Faecal carriage of ESBL-producing Escherichia coli in a remote region of Niger

The paper uses whole genome sequencing to analyze ESBL-E. coli carriage in rural Niger, finding high prevalence of CTX-M-15 with chromosomal and plasmid integration.

The cnf1 gene is associated to an expanding Escherichia coli ST131 H30Rx/C2 sublineage and confers a competitive advantage for host colonization

This study identifies the cnf1 gene's role in enhancing host colonization by ST131-H30Rx/C2 E. coli, driving its global spread alongside antibiotic resistance genes.

Chlorhexidine reduced susceptibility associated to tetracycline resistance in clinical isolates of Escherichia coli

The paper identifies two distinct mechanisms of chlorhexidine resistance in E. coli: mlaA mutations in vitro and tetA efflux pumps in clinical isolates.

Interplay between bacterial clone and plasmid in the spread of antibiotic resistance genes in the gut: lessons from a temporal study in veal calves

The paper investigates how bacterial clones and plasmids spread antibiotic resistance genes in veal calves, finding that specific gene-plasmid-clonal combinations dominate due to efficient colonization and plasmid transfer.

Success of Escherichia coli O25b:H4 ST131 clade C associated with a decrease in virulence

This study compares virulence and colonization abilities of antibiotic-susceptible clade B and multidrug-resistant clade C ST131 E. coli strains, finding clade C strains have reduced virulence and are outcompeted by clade B in vivo.

Phylum barrier and Escherichia coli intra-species phylogeny drive the acquisition of resistome in E. coli

This study characterizes the resistome in 70,301 E. coli genomes, showing that phylogroup lineage and phylum barriers drive antibiotic resistance gene acquisition.

Major role of iron uptake systems in the intrinsic extra-intestinal virulence of the genus Escherichia revealed by a genome-wide association study

This study identifies iron uptake systems, particularly the high-pathogenicity island, as key drivers of extra-intestinal virulence in Escherichia through a genome-wide association analysis in a mouse sepsis model.

Phylogenetic background and habitat drive the genetic diversification of Escherichia coli

The paper studies the genetic diversification of Escherichia coli across different habitats and phylogenetic groups using a large dataset of non-clinical isolates from Australia.