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octoFLU: Automated Classification for the Evolutionary Origin of Influenza A Virus Gene Sequences Detected in U.S. Swine

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  • octoFLU: Automated Classification for the Evolutionary Origin of Influenza A Virus Gene Sequences Detected in U.S. Swine

    Microbiol Resour Announc. 2019 Aug 8;8(32). pii: e00673-19. doi: 10.1128/MRA.00673-19.
    octoFLU: Automated Classification for the Evolutionary Origin of Influenza A Virus Gene Sequences Detected in U.S. Swine.

    Chang J#1, Anderson TK#1, Zeller MA#1,2,3, Gauger PC2, Vincent AL4.
    Author information

    1 Virus and Prion Research Unit, National Animal Disease Center, USDA-ARS, Ames, Iowa, USA. 2 Department of Veterinary Diagnostic and Production Animal Medicine, College of Veterinary Medicine, Iowa State University, Ames, Iowa, USA. 3 Bioinformatics and Computational Biology Program, Iowa State University, Ames, Iowa, USA. 4 Virus and Prion Research Unit, National Animal Disease Center, USDA-ARS, Ames, Iowa, USA amy.vincent@ars.usda.gov. # Contributed equally

    Abstract

    The diversity of the 8 genes of influenza A viruses (IAV) in swine reflects introductions from nonswine hosts and subsequent antigenic drift and shift. Here, we curated a data set and present a pipeline that assigns evolutionary lineage and genetic clade to query gene segments.


    PMID: 31395641 DOI: 10.1128/MRA.00673-19
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