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Horizontally acquired papGII-containing pathogenicity islands underlie the emergence of invasive uropathogenic Escherichia coli lineages

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Escherichia coli is the leading cause of urinary tract infection, one of the most common bacterial infections in humans. Despite this, a genomic perspective is lacking regarding the phylogenetic distribution of isolates associated with different clinical syndromes. Here, we present a large-scale phylogenomic analysis of a spatiotemporally and clinically diverse set of 907 E. coli isolates, including 722 uropathogenic E. coli (UPEC) isolates. A genome-wide association approach identifies the (P-fimbriae-encoding) papGII locus as the key feature distinguishing invasive UPEC, defined as isolates associated with severe UTI, i.e., kidney infection (pyelonephritis) or urinary-source bacteremia, from non-invasive UPEC, defined as isolates associated with asymptomatic bacteriuria or bladder infection (cystitis). Within the E. coli population, distinct invasive UPEC lineages emerged through repeated horizontal acquisition of diverse papGII-containing pathogenicity islands. Our findings elucidate the molecular determinants of severe UTI and have implications for the early detection of this pathogen.

Original languageEnglish
Article number5968
JournalNature Communications
Volume11
Issue number1
Pages (from-to)5968
ISSN2041-1723
DOIs
Publication statusPublished - 24 Nov 2020

    Research areas

  • Adhesins, Escherichia coli/genetics, DNA, Bacterial/genetics, Escherichia coli Infections/microbiology, Fimbriae, Bacterial/genetics, Gene Transfer, Horizontal/genetics, Genome, Bacterial, Genome-Wide Association Study, Genomic Islands/genetics, Humans, Phylogeny, Urinary Tract/microbiology, Urinary Tract Infections/microbiology, Uropathogenic Escherichia coli/genetics, Virulence Factors/genetics

ID: 61827370