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    Phylodynamics of H1N1/2009 influenza reveals the transition from host adaptation to immune-driven selection

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    Author
    Su, YCF; Bahl, J; Joseph, U; Butt, KM; Peck, HA; Koay, ESC; Oon, LLE; Barr, IG; Vijaykrishna, D; Smith, GJD
    Date
    2015-08-01
    Source Title
    Nature Communications
    Publisher
    NATURE PUBLISHING GROUP
    University of Melbourne Author/s
    Barr, Ian
    Affiliation
    Microbiology and Immunology
    Metadata
    Show full item record
    Document Type
    Journal Article
    Citations
    Su, Y. C. F., Bahl, J., Joseph, U., Butt, K. M., Peck, H. A., Koay, E. S. C., Oon, L. L. E., Barr, I. G., Vijaykrishna, D. & Smith, G. J. D. (2015). Phylodynamics of H1N1/2009 influenza reveals the transition from host adaptation to immune-driven selection. NATURE COMMUNICATIONS, 6 (1), https://doi.org/10.1038/ncomms8952.
    Access Status
    Open Access
    URI
    http://hdl.handle.net/11343/256366
    DOI
    10.1038/ncomms8952
    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.

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