Comparative genomics of Enterococcus spp. isolated from bovine feces

Background Enterococcus is ubiquitous in nature and is a commensal of both the bovine and human gastrointestinal (GI) tract. It is also associated with clinical infections in humans. Subtherapeutic administration of antibiotics to cattle selects for antibiotic resistant enterococci in the bovine GI...

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Vydáno v:	BMC microbiology Ročník 17; číslo 1; s. 52
Hlavní autoři:	Beukers, Alicia G., Zaheer, Rahat, Goji, Noriko, Amoako, Kingsley K., Chaves, Alexandre V., Ward, Michael P., McAllister, Tim A.
Médium:	Journal Article
Jazyk:	angličtina
Vydáno:	London BioMed Central 08.03.2017 Springer Nature B.V
Témata:	Animals Anti-Bacterial Agents - pharmacology Antibiotic resistance Antibiotics Antimicrobial agents Bacteria Bacteriophages Biological Microscopy Biomedical and Life Sciences Bovidae Cattle Cattle - microbiology Cattle Diseases - microbiology Cluster Analysis Clustering CRISPR-Cas Systems Deoxyribonucleic acid DNA DNA Transposable Elements - genetics DNA, Bacterial - isolation & purification Drug resistance Drug Resistance, Multiple, Bacterial - genetics Enterococcus Enterococcus - classification Enterococcus - drug effects Enterococcus - genetics Enterococcus - isolation & purification Enterococcus casseliflavus Enterococcus durans Enterococcus faecalis Enterococcus faecalis - drug effects Enterococcus faecalis - genetics Enterococcus faecalis - isolation & purification Enterococcus faecalis - pathogenicity Enterococcus faecium Enterococcus faecium - drug effects Enterococcus faecium - genetics Enterococcus faecium - isolation & purification Enterococcus faecium - pathogenicity Enterococcus gallinarum Enterococcus hirae Enterococcus hirae - drug effects Enterococcus hirae - genetics Enterococcus hirae - isolation & purification Enterococcus hirae - pathogenicity Enterococcus thailandicus Enterococcus villorum Feces Feces - microbiology Food processing industry Gastrointestinal Microbiome Gastrointestinal tract Genome, Bacterial - genetics Genomes Genomics genomics and proteomics Humans Infections Interspersed Repetitive Sequences - genetics Life Sciences Lincosamides - pharmacology Livestock Macrolides - pharmacology Microbial genetics Microbial Sensitivity Tests Microbiology Multilocus Sequence Typing - methods Mycology Nosocomial infections Parasitology Pathogens Phylogeny Polymorphism, Single Nucleotide Research Article Sepsis Streptogramin B - pharmacology Tetracycline Resistance - genetics Virology Virulence Virulence Factors - genetics Comparative genomics Bovine feces Enterococcus
ISSN:	1471-2180, 1471-2180
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Shrnutí:	Background Enterococcus is ubiquitous in nature and is a commensal of both the bovine and human gastrointestinal (GI) tract. It is also associated with clinical infections in humans. Subtherapeutic administration of antibiotics to cattle selects for antibiotic resistant enterococci in the bovine GI tract. Antibiotic resistance genes (ARGs) may be present in enterococci following antibiotic use in cattle. If located on mobile genetic elements (MGEs) their dissemination between Enterococcus species and to pathogenic bacteria may be promoted, reducing the efficacy of antibiotics. Results We present a comparative genomic analysis of twenty-one Enterococcus spp. isolated from bovine feces including Enterococcus hirae ( n = 10), Enterococcus faecium ( n = 3), Enterococcus villorum ( n = 2), Enterococcus casseliflavus ( n = 2), Enterococcus faecalis ( n = 1), Enterococcus durans ( n = 1), Enterococcus gallinarum ( n = 1) and Enterococcus thailandicus ( n = 1). The analysis revealed E. faecium and E. faecalis from bovine feces share features with human clinical isolates, including virulence factors. The Tn 917 transposon conferring macrolide-lincosamide-streptogramin B resistance was identified in both E. faecium and E. hirae , suggesting dissemination of ARGs on MGEs may occur in the bovine GI tract. An E. faecium isolate was also identified with two integrative conjugative elements (ICEs) belonging to the Tn 916 family of ICE, Tn 916 and Tn 5801 , both conferring tetracycline resistance. Conclusions This study confirms the presence of enterococci in the bovine GI tract possessing ARGs on MGEs, but the predominant species in cattle, E. hirae is not commonly associated with infections in humans. Analysis using additional complete genomes of E. faecium from the NCBI database demonstrated differential clustering of commensal and clinical isolates, suggesting that these strains may be specifically adapted to their respective environments.
Bibliografie:	ObjectType-Article-1 SourceType-Scholarly Journals-1 ObjectType-Feature-2 content type line 14 content type line 23
ISSN:	1471-2180 1471-2180
DOI:	10.1186/s12866-017-0962-1