Service interruption on Monday 11 July from 12:30 to 13:00: all the sites of the CCSD (HAL, EpiSciences, SciencesConf, AureHAL) will be inaccessible (network hardware connection).
Skip to Main content Skip to Navigation
Journal articles

Genomic evolution of antimicrobial resistance in Escherichia coli

Abstract : 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.
Document type :
Journal articles
Complete list of metadata

https://hal-anses.archives-ouvertes.fr/anses-03444491
Contributor : Emmanuelle Chiffoleau Connect in order to contact the contributor
Submitted on : Tuesday, November 23, 2021 - 4:57:04 PM
Last modification on : Friday, December 3, 2021 - 3:44:29 AM
Long-term archiving on: : Thursday, February 24, 2022 - 7:57:09 PM

File

Leekitcharoenphon15108.pdf
Publisher files allowed on an open archive

Licence


Distributed under a Creative Commons Attribution 4.0 International License

Identifiers

Collections

Citation

Pimlapas Leekitcharoenphon, Markus Hans Kristofer Johansson, Patrick Munk, Burkhard Malorny, Magdalena Skarżyńska, et al.. Genomic evolution of antimicrobial resistance in Escherichia coli. Scientific Reports, Nature Publishing Group, 2021, 11 (1), pp.15108. ⟨10.1038/s41598-021-93970-7⟩. ⟨anses-03444491⟩

Share

Metrics

Record views

18

Files downloads

20