Carbapenemase-producing Klebsiella pneumoniae strains in Switzerland: Human and non-human settings may share high-risk clones

Campos-Madueno, Edgar I.; Moser, Aline I.; Jost, Géraldine; Maffioli, Carola; Bodmer, Thomas; Perreten, Vincent; Endimiani, Andrea (2022). Carbapenemase-producing Klebsiella pneumoniae strains in Switzerland: Human and non-human settings may share high-risk clones. Journal of global antimicrobial resistance, 28, pp. 206-215. Elsevier 10.1016/j.jgar.2022.01.016

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Background: The spread of carbapenemase-producing K. pneumoniae (CP-Kp) strains belonging to high-risk sequence types (STs) is a concern. For Switzerland, national data about the molecular features (especially the STs) of the CP-Kp of human origin is not available, while in veterinary clinics ST11 and ST307 blaOXA-48-possessing Kp strains have been recently reported.

Methods: We analyzed a collection of 285 Kp genomes (170 were CP-Kp) isolated in Switzerland from human and non-human sources during 2006-2020. Whole-genome sequencing, core genome phylogenies and public databases were implemented to present a detailed overview regarding their carbapenemases, STs, and plasmids.

Results: The top 5 STs were (main carbapenemase gene): ST512 (blaKPC-3), ST258 (blaKPC-2) and ST101 (blaOXA-48) consisting of strains of human origin only, ST11 (blaOXA-48) and ST307 (blaOXA-48) strains isolated from human, animal, and environmental sources. However, during 2016-2020, the main STs for CP-Kp were ST11 (17.6%), ST307 and ST101 (both 14.7%), while ST258 (5.9%) and ST512 (4.4%) significantly declined. Most of the carbapenemase genes were carried on plasmids already described. Core genome analysis revealed that ST11 Kp of animal and human origins were closely-related, while those of ST307 were distant.

Conclusions: We described, for the first time, the features of the CP-Kp circulating in Switzerland among human and non-human settings. Our genomic analysis revealed that the emerging high-risk ST11 and ST307 lineages were often isolated from non-human settings. This study provided a baseline for further WGS-based One-Health surveillance of CP-Kp and emphasized the need of metadata to track dissemination routes between the different settings.

Item Type:

Journal Article (Original Article)

Division/Institute:

05 Veterinary Medicine > Department of Infectious Diseases and Pathobiology (DIP) > Institute of Veterinary Bacteriology > Molecular Bacterial Epidemiology and Infectiology
04 Faculty of Medicine > Service Sector > Institute for Infectious Diseases > Research
04 Faculty of Medicine > Service Sector > Institute for Infectious Diseases
04 Faculty of Medicine > Service Sector > Institute for Infectious Diseases > Bacteriology
04 Faculty of Medicine > Service Sector > Institute for Infectious Diseases > Bacteriology (Specialist Field)
05 Veterinary Medicine > Department of Infectious Diseases and Pathobiology (DIP) > Institute of Veterinary Bacteriology

Graduate School:

Graduate School for Cellular and Biomedical Sciences (GCB)

UniBE Contributor:

Campos-Madueno, Edgar Igor, Moser, Aline, Perreten, Vincent, Endimiani, Andrea

Subjects:

500 Science > 570 Life sciences; biology
600 Technology > 610 Medicine & health
600 Technology > 630 Agriculture

ISSN:

2213-7165

Publisher:

Elsevier

Funders:

[4] Swiss National Science Foundation

Projects:

[1501] Multidrug-Resistant Enterobacterales Colonizing Swiss Embassy Employees and Relatives Worldwide: Molecular Features, Metagenomics, and Transmission to the Householders at Return Official URL
[1124] Whole Genome and Plasmid Sequencing for MDR Enterobacteriaceae Simultaneously Isolated from Multiple Human and Non-Human Settings: Deciphering Impact, Risks, and Dynamics for Resistance Transmission and Spread

Language:

English

Submitter:

Andrea Endimiani

Date Deposited:

15 Feb 2022 14:26

Last Modified:

20 Dec 2022 14:49

Publisher DOI:

10.1016/j.jgar.2022.01.016

Related URLs:

PubMed ID:

35085791

BORIS DOI:

10.48350/164918

URI:

https://boris.unibe.ch/id/eprint/164918

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