Reassortments among Avian Influenza A(H5N1) Viruses Circulating in Indonesia, 2015-2016

Desniwaty Karo-Karo, Rogier Bodewes, Hendra Wibawa, Made Artika, Eko Sugeng Pribadi, D Diyantoro, Widya Pratomo, Agus Sugama, Nani Hendrayani, Iin Indasari, Michael Haryadi Wibowo, David Handojo Muljono, Jan Arend Stegeman, Guus Koch

    Research output: Contribution to journalArticleAcademicpeer-review

    Abstract

    Highly pathogenic avian influenza (HPAI) A(H5N1) viruses have been circulating since 2003 in Indonesia, with major impacts on poultry health, severe economic losses, and 168 fatal laboratory-confirmed human cases. We performed phylogenetic analysis on 39 full-genome H5N1 virus samples collected during outbreaks among poultry in 2015-2016 in West Java and compared them with recently published sequences from Indonesia. Phylogenetic analysis revealed that the hemagglutinin gene of all samples belonged to 2 genetic groups in clade 2.3.2.1c. We also observed these groups for the neuraminidase, nucleoprotein, polymerase, and polymerase basic 1 genes. Matrix, nonstructural protein, and polymerase basic 2 genes of some HPAI were most closely related to clade 2.1.3 instead of clade 2.3.2.1c, and a polymerase basic 2 gene was most closely related to Eurasian low pathogenicity avian influenza. Our results detected a total of 13 reassortment types among HPAI in Indonesia, mostly in backyard chickens in Indramayu.

    Original languageEnglish
    Pages (from-to)465-472
    Number of pages8
    JournalEmerging Infectious Diseases
    Volume25
    Issue number3
    DOIs
    Publication statusPublished - 2019

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