Full length sequencing of all nine subtypes of the neuraminidase gene of influenza A viruses using subtype specific primer sets

Yogesh Chander, Naresh Jindal, David E. Stallknecht, Srinand Sreevatsan, Sagar M. Goyal

Research output: Contribution to journalArticlepeer-review

24 Scopus citations

Abstract

An RT-PCR based method was developed using subtype specific overlapping primers to obtain full length amplification of neuraminidase (NA) gene from all subtypes (N1-N9) of influenza A viruses. This method was validated using reference strains of avian influenza viruses (AIV) (N1-N9), human influenza viruses (N1 and N2), and swine influenza viruses (N1-N3). Amplification of the NA gene was obtained with all viruses tested. Additionally, 200 field isolates of AIV from wild birds were tested by this method and the NA gene was amplified in all isolates. The NA subtype of all 200 isolates was determined by further sequencing of the amplified NA genes and all sequences were submitted to GenBank. The method described in this paper can be used to determine subtype of influenza isolates as well as their evolution and mutations if any, in the NA gene.

Original languageEnglish (US)
Pages (from-to)116-120
Number of pages5
JournalJournal of Virological Methods
Volume165
Issue number1
DOIs
StatePublished - Apr 2010

Bibliographical note

Funding Information:
This work was funded in whole or in part with federal funds from the National Institute of Allergy and Infectious Diseases , National Institutes of Health, Department of Health and Human Services , under Contract No. HHSN266200700007C. Its contents are solely the responsibility of the authors and do not necessarily represent the official views of the NIH. We thank Brundaban Panigrahy and Chinta Lamichhane for providing influenza viruses.

Keywords

  • Antiviral resistance
  • Avian influenza virus
  • Gene amplification
  • Influenza A virus
  • Neuraminidase gene
  • Reverse transcription-polymerase chain reaction (RT-PCR)
  • Subtyping

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