Genomic evolution of antimicrobial resistance in Escherichia coli.

Autor: Leekitcharoenphon P; National Food Institute, Technical University of Denmark, Kemitorvet, Building 204, 2800, Kgs. Lyngby, Denmark. pile@food.dtu.dk., Johansson MHK; National Food Institute, Technical University of Denmark, Kemitorvet, Building 204, 2800, Kgs. Lyngby, Denmark., Munk P; National Food Institute, Technical University of Denmark, Kemitorvet, Building 204, 2800, Kgs. Lyngby, Denmark., Malorny B; Department Biological Safety, German Federal Institute for Risk Assessment, Berlin, Germany., Skarżyńska M; National Veterinary Research Institute, Puławy, Poland., Wadepohl K; University of Veterinary Medicine Hannover, Bakum, Germany., Moyano G; Department of Animal Health and Health Surveillance Center (VISAVET), Complutense University of Madrid, Madrid, Spain., Hesp A; Wageningen Bioveterinary Research, Lelystad, The Netherlands., Veldman KT; Wageningen Bioveterinary Research, Lelystad, The Netherlands., Bossers A; Wageningen Bioveterinary Research, Lelystad, The Netherlands.; Faculty of Veterinary Medicine, Institute for Risk Assessment Sciences, Utrecht University, Utrecht, The Netherlands., Zając M; National Veterinary Research Institute, Puławy, Poland., Wasyl D; National Veterinary Research Institute, Puławy, Poland., Sanders P; Fougeres Laboratory, French Agency for Food, Environmental and Occupational Health and Safety, Fougères, France., Gonzalez-Zorn B; Department of Animal Health and Health Surveillance Center (VISAVET), Complutense University of Madrid, Madrid, Spain., Brouwer MSM; Wageningen Bioveterinary Research, Lelystad, The Netherlands., Wagenaar JA; Department of Infectious Diseases and Immunology, Utrecht University, Utrecht, The Netherlands., Heederik DJJ; Faculty of Veterinary Medicine, Institute for Risk Assessment Sciences, Utrecht University, Utrecht, The Netherlands., Mevius D; Wageningen Bioveterinary Research, Lelystad, The Netherlands., Aarestrup FM; National Food Institute, Technical University of Denmark, Kemitorvet, Building 204, 2800, Kgs. Lyngby, Denmark.
Jazyk: angličtina
Zdroj: Scientific reports [Sci Rep] 2021 Jul 23; Vol. 11 (1), pp. 15108. Date of Electronic Publication: 2021 Jul 23.
DOI: 10.1038/s41598-021-93970-7
Abstrakt: The emergence of antimicrobial resistance (AMR) is one of the biggest health threats globally. In addition, the use of antimicrobial drugs in humans and livestock is considered an important driver of antimicrobial resistance. The commensal microbiota, and especially the intestinal microbiota, has been shown to have an important role in the emergence of AMR. Mobile genetic elements (MGEs) also play a central role in facilitating the acquisition and spread of AMR genes. We isolated Escherichia coli (n = 627) from fecal samples in respectively 25 poultry, 28 swine, and 15 veal calf herds from 6 European countries to investigate the phylogeny of E. coli at country, animal host and farm levels. Furthermore, we examine the evolution of AMR in E. coli genomes including an association with virulence genes, plasmids and MGEs. We compared the abundance metrics retrieved from metagenomic sequencing and whole genome sequenced of E. coli isolates from the same fecal samples and farms. The E. coli isolates in this study indicated no clonality or clustering based on country of origin and genetic markers; AMR, and MGEs. Nonetheless, mobile genetic elements play a role in the acquisition of AMR and virulence genes. Additionally, an abundance of AMR was agreeable between metagenomic and whole genome sequencing analysis for several AMR classes in poultry fecal samples suggesting that metagenomics could be used as an indicator for surveillance of AMR in E. coli isolates and vice versa.
(© 2021. The Author(s).)
Databáze: MEDLINE
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