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dc.contributor.authorChaguza, Chrispin
dc.contributor.authorSenghore, Madikay
dc.contributor.authorBojang, Ebrima
dc.contributor.authorGladstone, Rebecca A.
dc.contributor.authorLo, Stephanie W.
dc.contributor.authorTientcheu, Peggy-Estelle
dc.contributor.authorBancroft, Rowan E.
dc.contributor.authorWorwui, Archibald
dc.contributor.authorFoster-Nyarko, Ebenezer
dc.contributor.authorCeesay, Fatima
dc.contributor.authorOkoi, Catherine
dc.contributor.authorMcGee, Lesley
dc.contributor.authorKlugman, Keith P.
dc.contributor.authorBreiman, Robert F.
dc.contributor.authorBarer, Michael R.
dc.contributor.authorAdegbola, Richard A.
dc.contributor.authorAntonio, Martin
dc.contributor.authorBentley, Stephen D.
dc.contributor.authorKwambana-Adams, Brenda A.
dc.date.accessioned2020-07-10T15:07:23Z
dc.date.available2020-07-10T15:07:23Z
dc.date.issued2020-07-10
dc.date.submitted2019-11-07
dc.identifier.others41467-020-17327-w
dc.identifier.other17327
dc.identifier.urihttps://www.repository.cam.ac.uk/handle/1810/307844
dc.descriptionFunder: Bill and Melinda Gates Foundation (Bill & Melinda Gates Foundation)
dc.description.abstractAbstract: Genomic evolution, transmission and pathogenesis of Streptococcus pneumoniae, an opportunistic human-adapted pathogen, is driven principally by nasopharyngeal carriage. However, little is known about genomic changes during natural colonisation. Here, we use whole-genome sequencing to investigate within-host microevolution of naturally carried pneumococci in ninety-eight infants intensively sampled sequentially from birth until twelve months in a high-carriage African setting. We show that neutral evolution and nucleotide substitution rates up to forty-fold faster than observed over longer timescales in S. pneumoniae and other bacteria drives high within-host pneumococcal genetic diversity. Highly divergent co-existing strain variants emerge during colonisation episodes through real-time intra-host homologous recombination while the rest are co-transmitted or acquired independently during multiple colonisation episodes. Genic and intergenic parallel evolution occur particularly in antibiotic resistance, immune evasion and epithelial adhesion genes. Our findings suggest that within-host microevolution is rapid and adaptive during natural colonisation.
dc.languageen
dc.publisherNature Publishing Group UK
dc.subjectArticle
dc.subject/631/208/212/2304
dc.subject/631/208/325/2482
dc.subject/631/326/107
dc.subject/692/308/3187
dc.subject/45
dc.subject/45/23
dc.subject/13
dc.subject/129
dc.subject/141
dc.subject/119
dc.subjectarticle
dc.titleWithin-host microevolution of Streptococcus pneumoniae is rapid and adaptive during natural colonisation
dc.typeArticle
dc.date.updated2020-07-10T15:07:22Z
prism.issueIdentifier1
prism.publicationNameNature Communications
prism.volume11
dc.identifier.doi10.17863/CAM.54939
dcterms.dateAccepted2020-06-25
rioxxterms.versionofrecord10.1038/s41467-020-17327-w
rioxxterms.versionVoR
rioxxterms.licenseref.urihttps://creativecommons.org/licenses/by/4.0/
dc.contributor.orcidChaguza, Chrispin [0000-0002-2108-1757]
dc.contributor.orcidTientcheu, Peggy-Estelle [0000-0002-4658-5628]
dc.contributor.orcidBentley, Stephen D. [0000-0001-8094-3751]
dc.contributor.orcidKwambana-Adams, Brenda A. [0000-0002-1202-8540]
dc.identifier.eissn2041-1723
pubs.funder-project-idBill and Melinda Gates Foundation (Bill & Melinda Gates Foundation) (OPP1034556, OPP1034556, OPP1034556)


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