Strategies for subtyping influenza viruses circulating in the Danish pig population

Solvej Østergaard Breum, Charlotte Kristiane Hjulsager, Ramona Trebbien, Lars Erik Larsen

    Research output: Chapter in Book/Report/Conference proceedingConference abstract in proceedingsResearchpeer-review

    Abstract

    Influenza viruses are endemic in the Danish pig population and the dominant circulating subtypes are H1N1, a Danish H1N2 reassortant, and H3N2. Here we present our current and future strategies for influenza virus subtyping. For diagnostic and surveillance of influenza subtypes circulating in the Danish pig population functional and rapid subtyping assays are required. The conventional RT-PCR influenza subtyping assays developed by Chiapponi et al. (2003) have been implemented and used for typing of influenza viruses found positive in a pan influenza A real time RT-PCR assay. The H1 and N1 assays were specific when applied on Danish influenza positive samples, whereas the N2 assay consistently showed several unspecific PCR products. A subset of positive influenza samples detected by the real time RT-PCR screening assay could not be subtyped using these assays. Therefore, new influenza subtyping assays based on RT-PCR and subsequent sequencing were implemented for the four subtypes H1, H3, N1, and N2. The assays were based on primer sets published by the WHO, but slightly modified for improved detection of Danish subtype variants. Sequencing of circulating influenza viruses is beneficial since it provides information about the genetic drift of influenza in the Danish pig population. Finally, we will present preliminary results of the performance of new real time RT-PCR assays for rapid subtyping of the most common subtypes circulating in Danish pigs. These real time RT-PCR assays would provide a simpler and faster tool for routine diagnostic influenza subtyping.
    Original languageEnglish
    Title of host publicationThe International Symposium on Neglected Influenza Viruses : Final Programme & Abstracts
    VolumePoster Presentations
    Publication date2010
    PagesP-033
    Publication statusPublished - 2010
    EventThe International Symposium on Neglected Influenza Viruses - Amelia Island, Florida, USA
    Duration: 1 Jan 2010 → …

    Conference

    ConferenceThe International Symposium on Neglected Influenza Viruses
    CityAmelia Island, Florida, USA
    Period01/01/2010 → …

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