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Genetic characterization of highly pathogenic H5N1 avian influenza virus from live migratory birds in Bangladesh

Abstract

Since the first outbreak of highly pathogenic avian influenza virus (HPAIV) subtype H5N1 in Bangladesh in 2007, the virus has been circulating among domestic poultry causing severe economic losses. To investigate the presence of HPAIV H5N1 in migratory birds and their potential role in virus spread, 205 pools of fecal samples from live migratory birds were analyzed. Here, the first virus isolation and genome characterization of two HPAIV H5N1 isolates from migratory birds (A/migratory bird/Bangladesh/P18/2010 and A/migratory bird/Bangladesh/P29/2010)are described. Full-length amplification, sequencing, and a comprehensive phylogenetic analysis were performed for HA, NA, M, NS, NP, PA, PB1, and PB2 gene segments. The selected migratory bird isolates belong to clade 2.3.2.1 along with recent Bangladeshi isolates from chickens, ducks, and crows which grouped in the same cluster with contemporary South and South-East Asian isolates. The studied isolates were genetically similar to other H5N1 isolates from different species within the respective clade although some unique amino acid substitutions were observed among them. Migratory birds remain a real threat for spreading pathogenic avian influenza viruses across the continent and introduction of new strains into Bangladesh.

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Acknowledgments

This work was supported by German Academic Exchange Service (DAAD). We would like to thank Bangladesh Livestock Research Institute (BLRI), Savar, Dhaka, Bangladesh for initial funding as the part of research done at Bangladesh.

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Correspondence to Rokshana Parvin.

Electronic supplementary material

Below is the link to the electronic supplementary material.

11262_2014_1118_MOESM1_ESM.docx

Supplementary material 1 (DOCX 18 kb). Percent nucleotide homology comparison of the migratory birds isolates with other representatives H5N1

11262_2014_1118_MOESM2_ESM.pdf

Supplementary material 2 (PDF 51 kb). Amino acid substitutions in HA gene between two migratory birds isolate and with other representatives H5N1

11262_2014_1118_MOESM3_ESM.xlsx

Supplementary material 3 (XLSX 17 kb). A list of virus strains used in this study with GenBank accession number in respective to their all gene segments

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Parvin, R., Kamal, A.H.M., Haque, M.E. et al. Genetic characterization of highly pathogenic H5N1 avian influenza virus from live migratory birds in Bangladesh. Virus Genes 49, 438–448 (2014). https://doi.org/10.1007/s11262-014-1118-0

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Keywords

  • H5N1
  • Migratory birds
  • Phylogeny
  • Sequence
  • Substitution