A role for ColV plasmids in the evolution of pathogenic Escherichia coli ST58

Cameron J. Reid (), Max L. Cummins, Stefan Börjesson, Michael S. M. Brouwer, Henrik Hasman, Anette M. Hammerum, Louise Roer, Stefanie Hess, Thomas Berendonk, Kristina Nešporová, Marisa Haenni, Jean-Yves Madec, Astrid Bethe, Geovana B. Michael, Anne-Kathrin Schink, Stefan Schwarz, Monika Dolejska and Steven P. Djordjevic ()
Additional contact information
Cameron J. Reid: iThree Institute, University of Technology Sydney
Max L. Cummins: iThree Institute, University of Technology Sydney
Stefan Börjesson: National Veterinary Institute (SVA)
Michael S. M. Brouwer: Wageningen Bioveterinary Research
Henrik Hasman: Statens Serum Institut
Anette M. Hammerum: Statens Serum Institut
Louise Roer: Statens Serum Institut
Stefanie Hess: Technische Universität Dresden
Thomas Berendonk: Technische Universität Dresden
Kristina Nešporová: CEITEC VETUNI, University of Veterinary Sciences Brno
Marisa Haenni: Université de Lyon-ANSES, Unité Antibiorésistance et Virulence Bactériennes
Jean-Yves Madec: Université de Lyon-ANSES, Unité Antibiorésistance et Virulence Bactériennes
Astrid Bethe: Freie Universität Berlin
Geovana B. Michael: Freie Universität Berlin
Anne-Kathrin Schink: Freie Universität Berlin
Stefan Schwarz: Freie Universität Berlin
Monika Dolejska: CEITEC VETUNI, University of Veterinary Sciences Brno
Steven P. Djordjevic: iThree Institute, University of Technology Sydney

Nature Communications, 2022, vol. 13, issue 1, 1-15

Abstract: Abstract Escherichia coli ST58 has recently emerged as a globally disseminated uropathogen that often progresses to sepsis. Unlike most pandemic extra-intestinal pathogenic E. coli (ExPEC), which belong to pathogenic phylogroup B2, ST58 belongs to the environmental/commensal phylogroup B1. Here, we present a pan-genomic analysis of a global collection of 752 ST58 isolates from diverse sources. We identify a large ST58 sub-lineage characterized by near ubiquitous carriage of ColV plasmids, which carry genes encoding virulence factors, and by a distinct accessory genome including genes typical of the Yersiniabactin High Pathogenicity Island. This sub-lineage includes three-quarters of all ExPEC sequences in our study and has a broad host range, although poultry and porcine sources predominate. By contrast, strains isolated from cattle often lack ColV plasmids. Our data indicate that ColV plasmid acquisition contributed to the divergence of the major ST58 sub-lineage, and different sub-lineages inhabit poultry, swine and cattle.

Date: 2022
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DOI: 10.1038/s41467-022-28342-4

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