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dc.contributor.authorKallonen, TTen
dc.contributor.authorBrodrick, Hen
dc.contributor.authorHarris, Sen
dc.contributor.authorCorander, Jen
dc.contributor.authorBrown, Nen
dc.contributor.authorMartin, Ven
dc.contributor.authorPeacock, Sharonen
dc.contributor.authorParkhill, Julianen
dc.date.accessioned2017-07-14T15:16:11Z
dc.date.available2017-07-14T15:16:11Z
dc.date.issued2017-07-18en
dc.identifier.issn1088-9051
dc.identifier.urihttps://www.repository.cam.ac.uk/handle/1810/265380
dc.description.abstract$\textit{Escherichia coli}$ associated with urinary tract infections and bacteremia has been intensively investigated, including recent work focusing on the virulent, globally disseminated, multidrug-resistant lineage ST131. To contextualize ST131 within the broader $\textit{E. coli}$ population associated with disease, we used genomics to analyze a systematic 11-yr hospital-based survey of $\textit{E. coli}$ associated with bacteremia using isolates collected from across England by the British Society for Antimicrobial Chemotherapy and from the Cambridge University Hospitals NHS Foundation Trust. Population dynamics analysis of the most successful lineages identified the emergence of ST131 and ST69 and their establishment as two of the five most common lineages along with ST73, ST95, and ST12. The most frequently identified lineage was ST73. Compared to ST131, ST73 was susceptible to most antibiotics, indicating that multidrug resistance was not the dominant reason for prevalence of $\textit{E. coli}$ lineages in this population. Temporal phylogenetic analysis of the emergence of ST69 and ST131 identified differences in the dynamics of emergence and showed that expansion of ST131 in this population was not driven by sequential emergence of increasingly resistant subclades. We showed that over time, the $\textit{E. coli}$ population was only transiently disturbed by the introduction of new lineages before a new equilibrium was rapidly achieved. Together, these findings suggest that the frequency of $\textit{E. coli}$ lineages in invasive disease is driven by negative frequency-dependent selection occurring outside of the hospital, most probably in the commensal niche, and that drug resistance is not a primary determinant of success in this niche.
dc.description.sponsorshipThis publication presents independent research supported by the Health Innovation Challenge Fund (HICF-T5-342 and WT098600), a parallel funding partnership between the UK Department of Health and Wellcome Trust. The views expressed in this publication are those of the authors and not necessarily those of the Department of Health, Public Health England or the Wellcome Trust.
dc.language.isoenen
dc.publisherCold Spring Harbor Laboratory Press
dc.rightsAttribution 4.0 Internationalen
dc.rightsAttribution 4.0 Internationalen
dc.rightsAttribution 4.0 Internationalen
dc.rightsAttribution 4.0 Internationalen
dc.rights.urihttp://creativecommons.org/licenses/by/4.0/en
dc.rights.urihttp://creativecommons.org/licenses/by/4.0/en
dc.rights.urihttp://creativecommons.org/licenses/by/4.0/en
dc.rights.urihttp://creativecommons.org/licenses/by/4.0/en
dc.titleSystematic longitudinal survey of invasive Escherichia coli in England demonstrates a stable population structure only transiently disturbed by the emergence of ST131en
dc.typeArticle
prism.endingPage1449
prism.publicationDate2017en
prism.publicationNameGenome Researchen
prism.startingPage1437
prism.volume27en
dc.identifier.doi10.17863/CAM.11289
dcterms.dateAccepted2017-06-07en
rioxxterms.versionofrecord10.1101/gr.216606.116en
rioxxterms.versionAMen
rioxxterms.licenseref.urihttp://creativecommons.org/licenses/by/4.0/en
rioxxterms.licenseref.startdate2017-07-18en
dc.contributor.orcidPeacock, Sharon [0000-0002-1718-2782]
dc.contributor.orcidParkhill, Julian [0000-0002-7069-5958]
dc.identifier.eissn1549-5469
rioxxterms.typeJournal Article/Reviewen
pubs.funder-project-idWellcome Trust (098600/Z/12/Z)
cam.issuedOnline2017-07-18en
cam.orpheus.successThu Jan 30 12:53:38 GMT 2020 - The item has an open VoR version.*
rioxxterms.freetoread.startdate2100-01-01


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Attribution 4.0 International
Except where otherwise noted, this item's licence is described as Attribution 4.0 International