The evolutionary dynamics of influenza A virus adaptation to mammalian hosts

Bhatt, S., Lam, T. T., Lycett, S. J., Brown, A. J. Leigh, Bowden, T. A., Holmes, E. C., Guan, Y., Wood, J. L. N., Brown, I. H., Kellam, P., Combating Swine Influenza Consortium, Pybus, O. G. and Baillie, Greg (2013) The evolutionary dynamics of influenza A virus adaptation to mammalian hosts. Philosophical Transactions of the Royal Society B. Biological Sciences, 368 1614: . doi:10.1098/rstb.2012.0382

Author Bhatt, S.
Lam, T. T.
Lycett, S. J.
Brown, A. J. Leigh
Bowden, T. A.
Holmes, E. C.
Guan, Y.
Wood, J. L. N.
Brown, I. H.
Kellam, P.
Combating Swine Influenza Consortium
Pybus, O. G.
Baillie, Greg
Title The evolutionary dynamics of influenza A virus adaptation to mammalian hosts
Journal name Philosophical Transactions of the Royal Society B. Biological Sciences   Check publisher's open access policy
ISSN 0962-8436
Publication date 2013-03-01
Year available 2013
Sub-type Article (original research)
DOI 10.1098/rstb.2012.0382
Open Access Status Not yet assessed
Volume 368
Issue 1614
Total pages 8
Place of publication London, United Kingdom
Publisher The Royal Society Publishing
Language eng
Abstract Few questions on infectious disease are more important than understanding how and why avian influenza A viruses successfully emerge in mammalian populations, yet little is known about the rate and nature of the virus’ genetic adaptation in new hosts. Here, we measure, for the first time, the genomic rate of adaptive evolution of swine influenza viruses (SwIV) that originated in birds. By using a curated dataset of more than 24 000 human and swine influenza gene sequences, including 41 newly characterized genomes, we reconstructed the adaptive dynamics of three major SwIV lineages (Eurasian, EA; classical swine, CS; triple reassortant, TR). We found that, following the transfer of the EA lineage from birds to swine in the late 1970s, EA virus genes have undergone substantially faster adaptive evolution than those of the CS lineage, which had circulated among swine for decades. Further, the adaptation rates of the EA lineage antigenic haemagglutinin and neuraminidase genes were unexpectedly high and similar to those observed in human influenza A. We show that the successful establishment of avian influenza viruses in swine is associated with raised adaptive evolution across the entire genome for many years after zoonosis, reflecting the contribution of multiple mutations to the coordinated optimization of viral fitness in a new environment. This dynamics is replicated independently in the polymerase genes of the TR lineage, which established in swine following separate transmission from non-swine hosts.
Keyword Influenza
Q-Index Code C1
Q-Index Status Confirmed Code
Institutional Status Non-UQ
Additional Notes Article number 20120382.

Document type: Journal Article
Sub-type: Article (original research)
Collections: Non HERDC
Institute for Molecular Bioscience - Publications
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Created: Fri, 14 Jun 2013, 21:10:50 EST by Gregory Baillie on behalf of Scholarly Communication and Digitisation Service