Strain phylogroup and environmental constraints shape Escherichia coli dynamics and diversity over a 20-year human gut time series.

doi:10.1093/ismejo/wrae245

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Article

Strain phylogroup and environmental constraints shape Escherichia coli dynamics and diversity over a 20-year human gut time series.

The ISME journal - 2 Jan 2025

Condamine Bénédicte, Morel-Journel Thibaut, Tesson Florian, Royer Guilhem, Magnan Mélanie, Bernheim Aude, Denamur Erick, Blanquart François, Clermont Olivier

Abstract excerpt

Escherichia coli is an increasingly antibiotic-resistant opportunistic pathogen. Few data are available on its ecological and evolutionary dynamics in its primary commensal niche, the vertebrate gut. Using Illumina and/or Nanopore technologies, we sequenced whole genomes of 210 E. coli isolates from 22 stools sampled during a 20-year period from a healthy man (ED) living in Paris, France. All phylogroups, except...

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Topics

Humans
Escherichia coli
Feces
Male
Genome, Bacterial
Phylogeny

Methodology Data sources Editorial policy Privacy Delete account & data About Contact Helena Bioinformatics

Gastrointestinal Microbiome

Paris

Polymorphism, Single Nucleotide

Gastrointestinal Tract

Whole Genome Sequencing

France

Adult

Genetic Variation

Source

Open in PubMed Open full text

Identifiers

PMID: 39665373
DOI: 10.1093/ismejo/wrae245
PMCID: PMC11728103

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