Phylogenetic analysis of HPAI H5N1 virus from duck swab specimens in Indonesia

Authors

  • Dewi Mutisari Master of Biomedical Sciences, Graduate School Hasanuddin University, Makassar, Indonesia.
  • Muflihanah Muflihanah Disease Investigation Center Maros, Directorate General of Livestock and Animal Health Services, Ministry of Agriculture, Maros, Indonesia.
  • Hendra Wibawa Disease Investigation Center Wates, Directorate General of Livestock and Animal Health Services, Ministry of Agriculture, Yogyakarta, Indonesia.
  • Ferra Hendrawati Disease Investigation Center Maros, Directorate General of Livestock and Animal Health Services, Ministry of Agriculture, Maros, Indonesia.
  • Hamdu Hamjaya Putra Disease Investigation Center Maros, Directorate General of Livestock and Animal Health Services, Ministry of Agriculture, Maros, Indonesia.
  • Kartika Priscillia Sulistyo Disease Investigation Center Maros, Directorate General of Livestock and Animal Health Services, Ministry of Agriculture, Maros, Indonesia.
  • Ahyar Ahmad Departement of Chemistry, Mathematics and Natural Science Faculty, Hasanuddin University, Makassar, Indonesia.
  • Rizalinda Sjahril Department of Microbiology, Faculty of Medicine, Hasanuddin University, Makassar, Indonesia.
  • Risna Halim Mubin Departement of Internal Medicine, Faculty of Medicine, Hasanuddin University, Makassar, Indonesia.
  • Dwi Kesuma Sari Veterinary Medicine Study Program, Faculty of Medicine, Hasanuddin University, Makassar, Indonesia.
  • Muhammad Nasrum Massi Department of Microbiology, Faculty of Medicine, Hasanuddin University, Makassar, Indonesia.

Keywords:

Phylogenetic; HPAI; H5N1; duck; swab

Abstract

Objective: A phylogenetic study was carried out on the avian influenza virus (AIV) isolated from a disease outbreak in Sidenreng Rappang Regency, South Sulawesi, Indonesia, in 2018.  Material and Methods: Oropharyngeal swabs and organ samples were obtained from ducks that showed clinical symptoms: torticollis, fascial edema, neurological disorders, the corneas appear cloudy, and death occurs less than 1 day after symptoms appear. In this study, isolate A/duck/ Sidenreng Rappang/07180110-11/2018 from duck was sequenced and characterized.  Results: It was found that each gene segment of the virus has the highest nucleotide homology to the Indonesian highly pathogenic avian influenza (HPAI) H5N1 clade 2.3.2.1c. Multiple alignments of the sample Hemagglutinin (HA) gene with the avian influenza references virus showed that the pattern of amino acid arrangement in the cleavage site PQRERRRK-RGLF is the characteristic of the HPAI virus. In addition, the HA gene contained Q222 (glutamine) and G224 (glycine), signify­ing a high affinity to avian receptor binding specificity (SA α2,3 Gal). Furthermore, there was no genetic reassortment of this virus based on the phylogenetic analysis of HA, NA, PB1, PB2, PA, NP, M, and NS genes.  Conclusion: The HPAI H5N1 clade 2.3.2.1c virus was identified in duck farms in South Sulawesi, Indonesia.

J. Adv. Vet. Anim. Res., 8(2): 346-354, June 2021

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Published

2021-06-28

How to Cite

Mutisari, D., Muflihanah, M., Wibawa, H., Hendrawati, F., Putra, H. H., Sulistyo, K. P., Ahmad, A., Sjahril, R., Mubin, R. H., Sari, D. K., & Massi, M. N. (2021). Phylogenetic analysis of HPAI H5N1 virus from duck swab specimens in Indonesia. Journal of Advanced Veterinary and Animal Research, 8(2), 346–354. Retrieved from https://banglajol.info/index.php/JAVAR/article/view/76321

Issue

Vol. 8 No. 2 (2021)

Section

Original Articles

License

Copyright (c) 2021 Dewi Mutisari, Muflihanah Muflihanah, Hendra Wibawa, Ferra Hendrawati, Hamdu Hamjaya Putra, Kartika Priscillia Sulistyo, Ahyar Ahmad, Rizalinda Sjahril, Risna Halim Mubin, Dwi Kesuma Sari, Muhammad Nasrum Massi

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