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Lessons from 5 Years of Routine Whole-Genome Sequencing for Epidemiologic Surveillance of Shiga Toxin-Producing Escherichia coli, France, 2018-2022.

Emerging infectious diseases - 1 May 2025

Jones Gabrielle, Nodari Carolina Silva, Fabre Laëtitia, de Valk Henriette, Noel Harold, Cointe Aurélie, Bonacorsi Stéphane, Weill François-Xavier, Le Strat Yann

Abstract excerpt

Whole-genome sequencing (WGS) is routine for surveillance of Shiga toxin-producing Escherichia coli human isolates in France. Protocols use EnteroBase hierarchical clustering at <5 allelic differences (HC5) as screening for cluster detection. We assessed current implementation after 5 years for 1,002 sequenced isolates. From genomic distances of serotypes O26:H11, O157:H7, O80:H2, and O103:H2, we determined...

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Methodology Data sources Editorial policy Privacy About Contact Helena Bioinformatics

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Identifiers

PMID: 40359096
DOI: 10.3201/eid3113.241950
PMCID: PMC12078545

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