Whole-Genome Analysis of Human Influenza A Virus Reveals Multiple Persistent Lineages and Reassortment among Recent H3N2 Viruses

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dc.contributor.authorHolmes, Edward C.
dc.contributor.authorGhedin, Elodie
dc.contributor.authorMiller, Naomi
dc.contributor.authorTaylor, Jill
dc.contributor.authorBao, Yiming
dc.contributor.authorSt. George, Kirsten
dc.contributor.authorGrenfell, Bryan T.
dc.contributor.authorSalzberg, Steven L.
dc.contributor.authorFraser, Claire M.
dc.contributor.authorLipman, David J.
dc.contributor.authorTaubenberger, Jeffery K.
dc.date.accessioned2008-06-05T19:16:37Z
dc.date.available2008-06-05T19:16:37Z
dc.date.issued2005
dc.description.abstractUnderstanding the evolution of influenza A viruses in humans is important for surveillance and vaccine strain selection. We performed a phylogenetic analysis of 156 complete genomes of human H3N2 influenza A viruses collected between 1999 and 2004 from New York State, United States, and observed multiple co-circulating clades with different population frequencies. Strikingly, phylogenies inferred for individual gene segments revealed that multiple reassortment events had occurred among these clades, such that one clade of H3N2 viruses present at least since 2000 had provided the hemagglutinin gene for all those H3N2 viruses sampled after the 2002–2003 influenza season. This reassortment event was the likely progenitor of the antigenically variant influenza strains that caused the A/Fujian/411/2002-like epidemic of the 2003–2004 influenza season. However, despite sharing the same hemagglutinin, these phylogenetically distinct lineages of viruses continue to co-circulate in the same population. These data, derived from the first large-scale analysis of H3N2 viruses, convincingly demonstrate that multiple lineages can co-circulate, persist, and reassort in epidemiologically significant ways, and underscore the importance of genomic analyses for future influenza surveillance.en
dc.format.extent2653652 bytes
dc.format.mimetypeapplication/pdf
dc.identifier.citationWhole-Genome Analysis of Human Influenza A Virus Reveals Multiple Persistent Lineages and Reassortment among Recent H3N2 Viruses. E.C. Holmes, E. Ghedin, N. Miller, J. Taylor, Y. Bao, K. St. George, B.T. Grenfell, S.L. Salzberg, C.M. Fraser, D.J. Lipman, and J.K. Taubenberger. PLoS Biology 3:9 (2005), e300en
dc.identifier.urihttp://hdl.handle.net/1903/7988
dc.language.isoen_USen
dc.publisherPLoS Biologyen
dc.relation.isAvailableAtCollege of Computer, Mathematical & Physical Sciencesen_us
dc.relation.isAvailableAtComputer Scienceen_us
dc.relation.isAvailableAtDigital Repository at the University of Marylanden_us
dc.relation.isAvailableAtUniversity of Maryland (College Park, MD)en_us
dc.subjectH3N2 influenzaen
dc.subjectvirusesen
dc.subjectvaccine strain selectionen
dc.subjecthemagglutininen
dc.subjectgeneen
dc.titleWhole-Genome Analysis of Human Influenza A Virus Reveals Multiple Persistent Lineages and Reassortment among Recent H3N2 Virusesen
dc.typeArticleen

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