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Complete Genome Sequencing of Influenza A Viruses Using Next-Generation Sequencing

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Animal Influenza Virus

Part of the book series: Methods in Molecular Biology ((MIMB,volume 2123))

Abstract

Recently, chain termination sequencing methods have been replaced by more efficient next-generation sequencing (NGS) methods. For influenza A, NGS allows for deep sequencing to characterize virus populations, efficient complete genome sequencing, and a non-sequence-dependent method to identify viral variants. There are numerous approaches to preparing samples for NGS and subsequent data processing methods that can be applied to influenza A sequencing. This chapter provides a brief overview of the process of NGS for influenza A and some useful bioinformatics tools for developing an NGS workflow for influenza A viruses.

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Author information

Authors and Affiliations

  1. Department of Pathobiology and Veterinary Science, College of Agriculture, Health and Natural Resources, The University of Connecticut, Storrs, CT, USA

    Dong-Hun Lee

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  1. Dong-Hun Lee
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Correspondence to Dong-Hun Lee .

Editor information

Editors and Affiliations

  1. Exotic and Emerging Avian Viral Diseases Unit, US National Poultry Research Center, US Department of Agriculture, Agricultural Research Service, Athens, GA, USA

    Erica Spackman

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© 2020 This is a U.S. government work and not under copyright protection in the U.S.; foreign copyright protection may apply.

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Lee, DH. (2020). Complete Genome Sequencing of Influenza A Viruses Using Next-Generation Sequencing. In: Spackman, E. (eds) Animal Influenza Virus. Methods in Molecular Biology, vol 2123. Humana, New York, NY. https://doi.org/10.1007/978-1-0716-0346-8_6

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  • DOI: https://doi.org/10.1007/978-1-0716-0346-8_6

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  • Publisher Name: Humana, New York, NY

  • Print ISBN: 978-1-0716-0345-1

  • Online ISBN: 978-1-0716-0346-8

  • eBook Packages: Springer Protocols

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