Phylodynamics of H1N1/2009 influenza reveals the transition from host adaptation to immune-driven selection
Identifieur interne : 000532 ( Main/Exploration ); précédent : 000531; suivant : 000533Phylodynamics of H1N1/2009 influenza reveals the transition from host adaptation to immune-driven selection
Auteurs : Yvonne C. F. Su [Singapour] ; Justin Bahl [Singapour, États-Unis] ; Udayan Joseph [Singapour] ; Ka Man Butt [Singapour] ; Heidi A. Peck [Australie] ; Evelyn S. C. Koay [Singapour] ; Lynette L. E. Oon [Singapour] ; Ian G. Barr [Australie] ; Dhanasekaran Vijaykrishna [Singapour, Australie] ; Gavin J. D. Smith [Singapour, Australie, États-Unis]Source :
- Nature Communications [ 2041-1723 ] ; 2015.
Abstract
Influenza A H1N1/2009 virus that emerged from swine rapidly replaced the previous seasonal H1N1 virus. Although the early emergence and diversification of H1N1/2009 is well characterized, the ongoing evolutionary and global transmission dynamics of the virus remain poorly investigated. To address this we analyse >3,000 H1N1/2009 genomes, including 214 full genomes generated from our surveillance in Singapore, in conjunction with antigenic data. Here we show that natural selection acting on H1N1/2009 directly after introduction into humans was driven by adaptation to the new host. Since then, selection has been driven by immunological escape, with these changes corresponding to restricted antigenic diversity in the virus population. We also show that H1N1/2009 viruses have been subject to regular seasonal bottlenecks and a global reduction in antigenic and genetic diversity in 2014.
Url:
DOI: 10.1038/ncomms8952
PubMed: 26245473
PubMed Central: 4918339
Affiliations:
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Peck</name><affiliation wicri:level="1"><nlm:aff id="a3"><institution>World Health Organisation Collaborating Centre for Reference and Research on Influenza</institution>, Melbourne, Victoria 3000,<country>Australia</country></nlm:aff><country xml:lang="fr">Australie</country><wicri:regionArea># see nlm:aff country strict</wicri:regionArea></affiliation></author><author><name sortKey="Koay, Evelyn S C" sort="Koay, Evelyn S C" uniqKey="Koay E" first="Evelyn S. C." last="Koay">Evelyn S. C. Koay</name><affiliation wicri:level="1"><nlm:aff id="a4"><institution>Molecular Diagnosis Centre, Department of Laboratory Medicine, National University Hospital</institution>, Singapore 119074,<country>Singapore</country></nlm:aff><country xml:lang="fr">Singapour</country><wicri:regionArea># see nlm:aff country strict</wicri:regionArea></affiliation></author><author><name sortKey="Oon, Lynette L E" sort="Oon, Lynette L E" uniqKey="Oon L" first="Lynette L. E." last="Oon">Lynette L. E. Oon</name><affiliation wicri:level="1"><nlm:aff id="a5"><institution>Department of Pathology, Singapore General Hospital</institution>, Singapore 169608,<country>Singapore</country></nlm:aff><country xml:lang="fr">Singapour</country><wicri:regionArea># see nlm:aff country strict</wicri:regionArea></affiliation></author><author><name sortKey="Barr, Ian G" sort="Barr, Ian G" uniqKey="Barr I" first="Ian G." last="Barr">Ian G. Barr</name><affiliation wicri:level="1"><nlm:aff id="a3"><institution>World Health Organisation Collaborating Centre for Reference and Research on Influenza</institution>, Melbourne, Victoria 3000,<country>Australia</country></nlm:aff><country xml:lang="fr">Australie</country><wicri:regionArea># see nlm:aff country strict</wicri:regionArea></affiliation></author><author><name sortKey="Vijaykrishna, Dhanasekaran" sort="Vijaykrishna, Dhanasekaran" uniqKey="Vijaykrishna D" first="Dhanasekaran" last="Vijaykrishna">Dhanasekaran Vijaykrishna</name><affiliation wicri:level="1"><nlm:aff id="a1"><institution>Program in Emerging Infectious Diseases, Duke-NUS Graduate Medical School</institution>, 8 College Road, Singapore 169857,<country>Singapore</country></nlm:aff><country xml:lang="fr">Singapour</country><wicri:regionArea># see nlm:aff country strict</wicri:regionArea></affiliation><affiliation wicri:level="1"><nlm:aff id="a3"><institution>World Health Organisation Collaborating Centre for Reference and Research on Influenza</institution>, Melbourne, Victoria 3000,<country>Australia</country></nlm:aff><country xml:lang="fr">Australie</country><wicri:regionArea># see nlm:aff country strict</wicri:regionArea></affiliation><affiliation wicri:level="1"><nlm:aff id="a6"><institution>Department of Microbiology, Yong Loo Lin School of Medicine, National University of Singapore</institution>, Singapore 117597,<country>Singapore</country></nlm:aff><country xml:lang="fr">Singapour</country><wicri:regionArea># see nlm:aff country strict</wicri:regionArea></affiliation></author><author><name sortKey="Smith, Gavin J D" sort="Smith, Gavin J D" uniqKey="Smith G" first="Gavin J. D." last="Smith">Gavin J. D. Smith</name><affiliation wicri:level="1"><nlm:aff id="a1"><institution>Program in Emerging Infectious Diseases, Duke-NUS Graduate Medical School</institution>, 8 College Road, Singapore 169857,<country>Singapore</country></nlm:aff><country xml:lang="fr">Singapour</country><wicri:regionArea># see nlm:aff country strict</wicri:regionArea></affiliation><affiliation wicri:level="1"><nlm:aff id="a3"><institution>World Health Organisation Collaborating Centre for Reference and Research on Influenza</institution>, Melbourne, Victoria 3000,<country>Australia</country></nlm:aff><country xml:lang="fr">Australie</country><wicri:regionArea># see nlm:aff country strict</wicri:regionArea></affiliation><affiliation wicri:level="1"><nlm:aff id="a7"><institution>Duke Global Health Institute, Duke University</institution>, Durham, North Carolina 27708,<country>USA</country></nlm:aff><country xml:lang="fr">États-Unis</country><wicri:regionArea># see nlm:aff country strict</wicri:regionArea></affiliation></author></analytic><series><title level="j">Nature Communications</title><idno type="eISSN">2041-1723</idno><imprint><date when="2015">2015</date></imprint></series></biblStruct></sourceDesc></fileDesc><profileDesc><textClass></textClass></profileDesc></teiHeader><front><div type="abstract" xml:lang="en"><p>Influenza A H1N1/2009 virus that emerged from swine rapidly replaced the previous seasonal H1N1 virus. Although the early emergence and diversification of H1N1/2009 is well characterized, the ongoing evolutionary and global transmission dynamics of the virus remain poorly investigated. To address this we analyse >3,000 H1N1/2009 genomes, including 214 full genomes generated from our surveillance in Singapore, in conjunction with antigenic data. Here we show that natural selection acting on H1N1/2009 directly after introduction into humans was driven by adaptation to the new host. Since then, selection has been driven by immunological escape, with these changes corresponding to restricted antigenic diversity in the virus population. We also show that H1N1/2009 viruses have been subject to regular seasonal bottlenecks and a global reduction in antigenic and genetic diversity in 2014.</p></div></front><back><div1 type="bibliography"><listBibl><biblStruct><analytic><author><name sortKey="Fraser, C" uniqKey="Fraser C">C. 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Koay</name><name sortKey="Oon, Lynette L E" sort="Oon, Lynette L E" uniqKey="Oon L" first="Lynette L. E." last="Oon">Lynette L. E. Oon</name><name sortKey="Smith, Gavin J D" sort="Smith, Gavin J D" uniqKey="Smith G" first="Gavin J. D." last="Smith">Gavin J. D. Smith</name><name sortKey="Vijaykrishna, Dhanasekaran" sort="Vijaykrishna, Dhanasekaran" uniqKey="Vijaykrishna D" first="Dhanasekaran" last="Vijaykrishna">Dhanasekaran Vijaykrishna</name><name sortKey="Vijaykrishna, Dhanasekaran" sort="Vijaykrishna, Dhanasekaran" uniqKey="Vijaykrishna D" first="Dhanasekaran" last="Vijaykrishna">Dhanasekaran Vijaykrishna</name></country><country name="États-Unis"><noRegion><name sortKey="Bahl, Justin" sort="Bahl, Justin" uniqKey="Bahl J" first="Justin" last="Bahl">Justin Bahl</name></noRegion><name sortKey="Smith, Gavin J D" sort="Smith, Gavin J D" uniqKey="Smith G" first="Gavin J. D." last="Smith">Gavin J. D. Smith</name></country><country name="Australie"><noRegion><name sortKey="Peck, Heidi A" sort="Peck, Heidi A" uniqKey="Peck H" first="Heidi A." last="Peck">Heidi A. Peck</name></noRegion><name sortKey="Barr, Ian G" sort="Barr, Ian G" uniqKey="Barr I" first="Ian G." last="Barr">Ian G. Barr</name><name sortKey="Smith, Gavin J D" sort="Smith, Gavin J D" uniqKey="Smith G" first="Gavin J. D." last="Smith">Gavin J. D. Smith</name><name sortKey="Vijaykrishna, Dhanasekaran" sort="Vijaykrishna, Dhanasekaran" uniqKey="Vijaykrishna D" first="Dhanasekaran" last="Vijaykrishna">Dhanasekaran Vijaykrishna</name></country></tree></affiliations></record>Pour manipuler ce document sous Unix (Dilib)
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