OPEN Survival analysis of infected mice reveals SUBJECT AREAS: pathogenic variations in the genome of COMPUTATIONAL BIOLOGY AND avian H1N1 viruses BIOINFORMATICS ECOLOGY Zeynep A. Koçer1, Yiping Fan2, Robert Huether2*, John Obenauer2{, Richard J. Webby1, Jinghui Zhang2, Robert G. Webster1 & Gang Wu2 Received 3 October 2014 1Department of Infectious Diseases, Division of Virology, St. Jude Children’s Research Hospital, Memphis, Tennessee, 38105, United States, 2Department of Computational Biology, St. Jude Children’s Research Hospital, Memphis, Tennessee, 38105, United Accepted States. 24 November 2014 Published Most influenza pandemics have been caused by H1N1 viruses of purely or partially avian origin. Here, using 12 December 2014 Cox proportional hazard model, we attempt to identify the genetic variations in the whole genome of wild-type North American avian H1N1 influenza A viruses that are associated with their virulence in mice by residue variations, host origins of virus (Anseriformes-ducks or Charadriiformes-shorebirds), and Correspondence and host-residue interactions. In addition, through structural modeling, we predicted that several polymorphic requests for materials sites associated with pathogenicity were located in structurally important sites, especially in the polymerase complex and NS genes. Our study introduces a new approach to identify pathogenic variations in wild-type should be addressed to viruses circulating in the natural reservoirs and ultimately to understand their infectious risks to humans as R.G.W. (robert. part of risk assessment efforts towards the emergence of future pandemic strains.
[email protected]) or G.W. (gang.wu@ stjude.org) nfluenza A viruses (IAVs), which belong to the Orthomyxoviridae family, typically replicate in the intestinal tract of wild aquatic birds causing no overt disease and are transmitted through open-water sources via the I fecal-oral route1.