Genomic characterization of ST38 NDM-5-producing Escherichia coli isolates from an outbreak in the Czech Republic

Katerina Chudejova; Tsolaire Sourenian; Jana Palkovicova; Katarina Stredanska; Lucie Nechutna; Katerina Vlkova; Vendula Studentova; Working Group for Monitoring of Antibiotic Resistance; Jaroslav Hrabak; Costas C Papagiannitsis; Monika Dolejska; Ibrahim Bitar; Working group for monitoring of antibiotic resistance

doi:10.1128/aac.00133-24

Genomic characterization of ST38 NDM-5-producing Escherichia coli isolates from an outbreak in the Czech Republic

Antimicrob Agents Chemother. 2024 Apr 16:e0013324. doi: 10.1128/aac.00133-24. Online ahead of print.

Authors

Collaborators

Marian Glasnak, Dana Krckova, Beata Horvathova, Jana Jurankova, Renata Tejkalova, Zora Pokorna, Vladimir Fibiger, David Sus, Marian Mednansky, Lenka Ryskova, Miriam Koupilova, Jana Kotalikova, Miroslava Prejzkova, Marie Bohackova, Marie Smolikova, Helena Skacan, Denisa Vesela, Blanka Puchalkova, Galina Eliasova, Helena Nedvedova, Lenka Unuckova, Yvona Barinkova, Hana Kremeckova, Daniela Fackova, Jana Janeckova, Roman Jirsa, Roman Zaruba, Eva Vesela, Dana Zamazalova, Marie Dovalova, Iva Vagnerova, Vladimir Kurfurst, Blanka Ochvatova, Eva Chmelarova, Eva Krejci, Eva Zalabska, Vera Kurkova, Simona Blahova, Tamara Bergerova, Vaclava Adamkova, Jan Kubele, Marketa Skruzna, Daniela Balikova, Alena Steinerova, Zuzana Semerakova, Miloslava Kocianova, Martina Curdova, Helena Zemlickova, Vladislav Jakubu, Zuzana Kadleckova, Elka Nycova, Helena Jordakova, Otakar Nyc, Filip Prusik, Ivana Kohnova, Renata Holnova, Eva Simeckova, Erika Czyzova, Alice Kucharova, Ladislav Trojan, Danuta Urbusova, Eva Vitova, Jana Repiscakova, Jarmila Miklova, Lenka Dvorakova, Jirina Jiresova, Jan Tkadlec, Zdena Pitakova, Natasa Bartonikova, Michal Stanek

Affiliations

¹ Department of Microbiology, Faculty of Medicine, University Hospital in Pilsen, Charles University, Pilsen, Czech Republic.
² Central European Institute of Technology, University of Veterinary Sciences Brno, Brno, Czech Republic.
³ Department of Microbiology, University Hospital of Larissa, Larissa, Greece.
⁴ Department of Biology and Wildlife Diseases, Faculty of Veterinary Hygiene and Ecology, University of Veterinary Sciences Brno, Brno, Czech Republic.
⁵ Department of Clinical Microbiology and Immunology, Institute of Laboratory Medicine, The University Hospital Brno, Brno, Czech Republic.

PMID: 38624228
DOI: 10.1128/aac.00133-24

Abstract

A 2-year national genomic screening in the Czech Republic identified a notable prevalence of the New Delhi metallo-β-lactamase 5 (NDM-5)-producing Escherichia coli sequence type 38 (ST38) in the city of Brno. Forty-two ST38 E. coli isolates harbored the bla_NDM-5 gene on the chromosome. Virulence factors confirmed the persistence of these isolates through biofilm formation. Single Nucleotide Polymorphisms (SNPs)-based phylogeny and CRISPR assay typing showed minimal genomic variations, implying a clonally driven outbreak. Results suggest that this high-risk clone may impose a nationwide problem.

Keywords: Escherichia coli; ST38; blaNDM-5.