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dc.contributor.authorHall, Matthew Den
dc.contributor.authorHolden, Matthew Tgen
dc.contributor.authorSrisomang, Pramoten
dc.contributor.authorMahavanakul, Weeraen
dc.contributor.authorWuthiekanun, Vanapornen
dc.contributor.authorLimmathurotsakul, Direken
dc.contributor.authorFountain, Kayen
dc.contributor.authorParkhill, Julianen
dc.contributor.authorNickerson, Emma Ken
dc.contributor.authorPeacock, Sharonen
dc.contributor.authorFraser, Christopheen
dc.date.accessioned2019-11-05T00:30:53Z
dc.date.available2019-11-05T00:30:53Z
dc.date.issued2019-10-08en
dc.identifier.issn2050-084X
dc.identifier.urihttps://www.repository.cam.ac.uk/handle/1810/298700
dc.description.abstractMethicillin-resistant Staphylococcus aureus (MRSA) transmission in the hospital setting has been a frequent subject of investigation using bacterial genomes, but previous approaches have not yet fully utilised the extra deductive power provided when multiple pathogen samples are acquired from each host. Here, we use a large dataset of MRSA sequences from multiply-sampled patients to reconstruct colonisation of individuals in a high-transmission setting in a hospital in Thailand. We reconstructed transmission trees for MRSA. We also investigated transmission between anatomical sites on the same individual, finding that this either occurs repeatedly or involves a wide transmission bottleneck. We examined the between-subject bottleneck, finding a wide range in the amount of diversity transmitted. Finally, we compared our approach to the simpler method of identifying transmission pairs using single nucleotide polymorphism (SNP) counts. This suggested that the optimum threshold for identifying a pair is 39 SNPs, if sensitivities and specificities are equally weighted.
dc.description.sponsorshipWellcome (098051) Chief Scientist Office (SIRN10) Wellcome (106698/Z/14/Z) Medical Research Council (G1000803) European Research Council (PBDR-339251)
dc.format.mediumElectronicen
dc.languageengen
dc.publishereLife Sciences Publications Ltd
dc.rightsAttribution 4.0 International (CC BY)
dc.rights.urihttp://creativecommons.org/licenses/by/4.0/
dc.subjectHumansen
dc.subjectStaphylococcal Infectionsen
dc.subjectCross Infectionen
dc.subjectDNA, Bacterialen
dc.subjectComputational Biologyen
dc.subjectDisease Outbreaksen
dc.subjectPhylogenyen
dc.subjectPolymorphism, Single Nucleotideen
dc.subjectGenome, Bacterialen
dc.subjectAdulten
dc.subjectChilden
dc.subjectThailanden
dc.subjectGenetic Variationen
dc.subjectMethicillin-Resistant Staphylococcus aureusen
dc.subjectWhole Genome Sequencingen
dc.titleImproved characterisation of MRSA transmission using within-host bacterial sequence diversity.en
dc.typeArticle
prism.publicationDate2019en
prism.publicationNameeLifeen
prism.volume8en
dc.identifier.doi10.17863/CAM.45757
dcterms.dateAccepted2019-10-01en
rioxxterms.versionofrecord10.7554/elife.46402en
rioxxterms.versionVoR
rioxxterms.licenseref.urihttp://www.rioxx.net/licenses/all-rights-reserveden
rioxxterms.licenseref.startdate2019-10-08en
dc.contributor.orcidHall, Matthew D [0000-0002-2671-3864]
dc.contributor.orcidHolden, Matthew Tg [0000-0002-4958-2166]
dc.contributor.orcidLimmathurotsakul, Direk [0000-0001-7240-5320]
dc.contributor.orcidFountain, Kay [0000-0002-9984-5702]
dc.contributor.orcidParkhill, Julian [0000-0002-7069-5958]
dc.contributor.orcidPeacock, Sharon [0000-0002-1718-2782]
dc.contributor.orcidFraser, Christophe [0000-0003-2399-9657]
dc.identifier.eissn2050-084X
rioxxterms.typeJournal Article/Reviewen
pubs.funder-project-idMRC (G1000803)
cam.orpheus.successTue Mar 31 10:38:55 BST 2020 - The item has an open VoR version.*
rioxxterms.freetoread.startdate2100-01-01


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