Hospital and community ampicillin-resistant Enterococcus faecium are evolutionarily closely linked but have diversified through niche adaptation

Marieke J A de Regt; Willem van Schaik; Miranda van Luit-Asbroek; Huberta A T Dekker; Engeline van Duijkeren; Catherina J M Koning; Marc J M Bonten; Rob J L Willems

doi:10.1371/journal.pone.0030319

Hospital and community ampicillin-resistant Enterococcus faecium are evolutionarily closely linked but have diversified through niche adaptation

Marieke J A de Regt, Willem van Schaik, Miranda van Luit-Asbroek, Huberta A T Dekker, Engeline van Duijkeren, Catherina J M Koning, Marc J M Bonten, Rob J L Willems

Microbiology and Infection

Research output: Contribution to journal › Article › peer-review

36 Citations (Scopus)

Abstract

BACKGROUND: Ampicillin-resistant Enterococcus faecium (ARE) has emerged as a nosocomial pathogen. Here, we quantified ARE carriage in different community sources and determined genetic relatedness with hospital ARE.

METHODS AND RESULTS: ARE was recovered from rectal swabs of 24 of 79 (30%) dogs, 11 of 85 (13%) cats and 0 of 42 horses and from 3 of 40 (8%) faecal samples of non-hospitalized humans receiving amoxicillin. Multi-locus Sequence Typing revealed 21 sequence types (STs), including 5 STs frequently associated with hospital-acquired infections. Genes previously found to be enriched in hospital ARE, such as IS16, orf903, orf905, orf907, were highly prevalent in community ARE (≥79%), while genes with a proposed role in pathogenesis, such as esp, hyl and ecbA, were found rarely (≤5%) in community isolates. Comparative genome analysis of 2 representative dog isolates revealed that the dog strain of ST192 was evolutionarily closely linked to two previously sequenced hospital ARE, but had, based on gene content, more genes in common with the other, evolutionarily more distantly related, dog strain (ST266).

CONCLUSION: ARE were detected in dogs, cats and sporadically in healthy humans, with evolutionary linkage to hospital ARE. Yet, their accessory genome has diversified, probably as a result of niche adaptation.

Original language	English
Pages (from-to)	e30319
Journal	PLoS ONE
Volume	7
Issue number	2
DOIs	https://doi.org/10.1371/journal.pone.0030319
Publication status	Published - 2012

Keywords

Adaptation, Physiological
Ampicillin
Animals
Anti-Infective Agents
Biological Evolution
Cats
Dogs
Drug Resistance, Bacterial
Enterococcus faecium
Genes, Bacterial
Genetic Variation
Horses
Hospitals
Humans
Microbial Sensitivity Tests
Multilocus Sequence Typing
Open Reading Frames
Phylogeny
Residence Characteristics
Virulence
Journal Article
Research Support, Non-U.S. Gov't

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de Regt, M. J. A., van Schaik, W., van Luit-Asbroek, M., Dekker, H. A. T., van Duijkeren, E., Koning, C. J. M., Bonten, M. J. M., & Willems, R. J. L. (2012). Hospital and community ampicillin-resistant Enterococcus faecium are evolutionarily closely linked but have diversified through niche adaptation. PLoS ONE, 7(2), e30319. https://doi.org/10.1371/journal.pone.0030319

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title = "Hospital and community ampicillin-resistant Enterococcus faecium are evolutionarily closely linked but have diversified through niche adaptation",

abstract = "BACKGROUND: Ampicillin-resistant Enterococcus faecium (ARE) has emerged as a nosocomial pathogen. Here, we quantified ARE carriage in different community sources and determined genetic relatedness with hospital ARE.METHODS AND RESULTS: ARE was recovered from rectal swabs of 24 of 79 (30%) dogs, 11 of 85 (13%) cats and 0 of 42 horses and from 3 of 40 (8%) faecal samples of non-hospitalized humans receiving amoxicillin. Multi-locus Sequence Typing revealed 21 sequence types (STs), including 5 STs frequently associated with hospital-acquired infections. Genes previously found to be enriched in hospital ARE, such as IS16, orf903, orf905, orf907, were highly prevalent in community ARE (≥79%), while genes with a proposed role in pathogenesis, such as esp, hyl and ecbA, were found rarely (≤5%) in community isolates. Comparative genome analysis of 2 representative dog isolates revealed that the dog strain of ST192 was evolutionarily closely linked to two previously sequenced hospital ARE, but had, based on gene content, more genes in common with the other, evolutionarily more distantly related, dog strain (ST266).CONCLUSION: ARE were detected in dogs, cats and sporadically in healthy humans, with evolutionary linkage to hospital ARE. Yet, their accessory genome has diversified, probably as a result of niche adaptation.",

keywords = "Adaptation, Physiological, Ampicillin, Animals, Anti-Infective Agents, Biological Evolution, Cats, Dogs, Drug Resistance, Bacterial, Enterococcus faecium, Genes, Bacterial, Genetic Variation, Horses, Hospitals, Humans, Microbial Sensitivity Tests, Multilocus Sequence Typing, Open Reading Frames, Phylogeny, Residence Characteristics, Virulence, Journal Article, Research Support, Non-U.S. Gov't",

author = "{de Regt}, {Marieke J A} and {van Schaik}, Willem and {van Luit-Asbroek}, Miranda and Dekker, {Huberta A T} and {van Duijkeren}, Engeline and Koning, {Catherina J M} and Bonten, {Marc J M} and Willems, {Rob J L}",

year = "2012",

doi = "10.1371/journal.pone.0030319",

language = "English",

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pages = "e30319",

journal = "PLoS ONE",

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T1 - Hospital and community ampicillin-resistant Enterococcus faecium are evolutionarily closely linked but have diversified through niche adaptation

AU - de Regt, Marieke J A

AU - van Schaik, Willem

AU - van Luit-Asbroek, Miranda

AU - Dekker, Huberta A T

AU - van Duijkeren, Engeline

AU - Koning, Catherina J M

AU - Bonten, Marc J M

AU - Willems, Rob J L

PY - 2012

Y1 - 2012

N2 - BACKGROUND: Ampicillin-resistant Enterococcus faecium (ARE) has emerged as a nosocomial pathogen. Here, we quantified ARE carriage in different community sources and determined genetic relatedness with hospital ARE.METHODS AND RESULTS: ARE was recovered from rectal swabs of 24 of 79 (30%) dogs, 11 of 85 (13%) cats and 0 of 42 horses and from 3 of 40 (8%) faecal samples of non-hospitalized humans receiving amoxicillin. Multi-locus Sequence Typing revealed 21 sequence types (STs), including 5 STs frequently associated with hospital-acquired infections. Genes previously found to be enriched in hospital ARE, such as IS16, orf903, orf905, orf907, were highly prevalent in community ARE (≥79%), while genes with a proposed role in pathogenesis, such as esp, hyl and ecbA, were found rarely (≤5%) in community isolates. Comparative genome analysis of 2 representative dog isolates revealed that the dog strain of ST192 was evolutionarily closely linked to two previously sequenced hospital ARE, but had, based on gene content, more genes in common with the other, evolutionarily more distantly related, dog strain (ST266).CONCLUSION: ARE were detected in dogs, cats and sporadically in healthy humans, with evolutionary linkage to hospital ARE. Yet, their accessory genome has diversified, probably as a result of niche adaptation.

AB - BACKGROUND: Ampicillin-resistant Enterococcus faecium (ARE) has emerged as a nosocomial pathogen. Here, we quantified ARE carriage in different community sources and determined genetic relatedness with hospital ARE.METHODS AND RESULTS: ARE was recovered from rectal swabs of 24 of 79 (30%) dogs, 11 of 85 (13%) cats and 0 of 42 horses and from 3 of 40 (8%) faecal samples of non-hospitalized humans receiving amoxicillin. Multi-locus Sequence Typing revealed 21 sequence types (STs), including 5 STs frequently associated with hospital-acquired infections. Genes previously found to be enriched in hospital ARE, such as IS16, orf903, orf905, orf907, were highly prevalent in community ARE (≥79%), while genes with a proposed role in pathogenesis, such as esp, hyl and ecbA, were found rarely (≤5%) in community isolates. Comparative genome analysis of 2 representative dog isolates revealed that the dog strain of ST192 was evolutionarily closely linked to two previously sequenced hospital ARE, but had, based on gene content, more genes in common with the other, evolutionarily more distantly related, dog strain (ST266).CONCLUSION: ARE were detected in dogs, cats and sporadically in healthy humans, with evolutionary linkage to hospital ARE. Yet, their accessory genome has diversified, probably as a result of niche adaptation.

KW - Adaptation, Physiological

KW - Ampicillin

KW - Animals

KW - Anti-Infective Agents

KW - Biological Evolution

KW - Cats

KW - Dogs

KW - Drug Resistance, Bacterial

KW - Enterococcus faecium

KW - Genes, Bacterial

KW - Genetic Variation

KW - Horses

KW - Hospitals

KW - Humans

KW - Microbial Sensitivity Tests

KW - Multilocus Sequence Typing

KW - Open Reading Frames

KW - Phylogeny

KW - Residence Characteristics

KW - Virulence

KW - Journal Article

KW - Research Support, Non-U.S. Gov't

U2 - 10.1371/journal.pone.0030319

DO - 10.1371/journal.pone.0030319

M3 - Article

C2 - 22363425

SN - 1932-6203

VL - 7

SP - e30319

JO - PLoS ONE

JF - PLoS ONE

IS - 2

ER -

Hospital and community ampicillin-resistant Enterococcus faecium are evolutionarily closely linked but have diversified through niche adaptation

Abstract

Keywords

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