Genomic Surveillance of Enterococcus faecium Reveals Limited Sharing of Strains and Resistance Genes between Livestock and Humans in the United Kingdom.
Horner, Carolyne S
Hadjirin, Nazreen F
Brown, Nicholas M
American Society for Microbiology
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Gouliouris, T., Raven, K., Ludden, C., Blane, B., Corander, J., Horner, C. S., Hernandez-Garcia, J., et al. (2018). Genomic Surveillance of Enterococcus faecium Reveals Limited Sharing of Strains and Resistance Genes between Livestock and Humans in the United Kingdom.. mBio, 9 (6)https://doi.org/10.1128/mbio.01780-18
Vancomycin-resistant Enterococcus faecium (VREfm) is a major cause of nosocomial infection and is categorized as high priority by the World Health Organization global priority list of antibiotic-resistant bacteria. In the past, livestock have been proposed as a putative reservoir for drug-resistant E. faecium that infect humans, and isolates of the same lineage have been found in both reservoirs. We undertook cross-sectional surveys to isolate E. faecium (including VREfm) from livestock farms, retail meat and wastewater treatment plants in the United Kingdom (UK). Over 600 isolates from these sources were sequenced and their relatedness and antibiotic resistance genes compared with genomes of almost 800 E. faecium isolated from patients with bloodstream infection in the UK and Ireland. E. faecium was isolated from 28/29 farms, none of which were VREfm, suggesting a decrease in VREfm prevalence since the last UK livestock survey in 2003. However, VREfm was isolated from 1-2% of retail meat products, and was ubiquitous in wastewater treatment plants. Phylogenetic comparison demonstrated that the majority of human and livestock-related isolates were genetically distinct, although pig isolates from three farms were more genetically related to human isolates from 2001-2004 (minimum of 50 SNPs). Analysis of accessory (variable) genes added further evidence for distinct niche adaptation. An analysis of acquired antibiotic resistance genes and their variants revealed limited sharing between humans and livestock. Our findings indicate that the majority of E. faecium infecting patients are largely distinct from those from livestock in this setting, with limited sharing of strains and resistance genes.
Animals, Swine, Humans, Enterococcus faecium, Gram-Positive Bacterial Infections, Anti-Bacterial Agents, Microbial Sensitivity Tests, Prevalence, Cross-Sectional Studies, Phylogeny, Drug Resistance, Multiple, Bacterial, Vancomycin Resistance, Genotype, Polymorphism, Single Nucleotide, Genome, Bacterial, Meat Products, Livestock, Epidemiological Monitoring, Waste Water, Vancomycin-Resistant Enterococci, United Kingdom, Farms, Whole Genome Sequencing
Wellcome Trust (098600/Z/12/Z)
Wellcome Trust (103387/Z/13/Z)
External DOI: https://doi.org/10.1128/mbio.01780-18
This record's URL: https://www.repository.cam.ac.uk/handle/1810/286267
Attribution 4.0 International
Licence URL: https://creativecommons.org/licenses/by/4.0/