Article info.

ABSTRACT

Received 05 Oct 2018
Revised 15 Dec 2018

Accepted 29 Mar 2019

The study is aimed to determine the genetic variation of type A H5N1 avian influenza virus in some provinces in the Mekong Delta in 2016. Oro-phar­yngeal swab samples were collected on healthy chickens, ducks that were sold in markets and at slaughterhouses; tissue samples were also collected from poultry suspected cases of type A H5N1 avian influenza. These sam­ples were tested by real time reverse transcription polymerase chain reac­tion (rRT-PCR) technique to detect type A H5N1 avian influenza virus. Hemagglutinin (HA) gene of some representative samples were sequenced to determine the genetic variation and virus clade. There were sequenced 10 HA genes of avian influenza type A H5N1 virus. The results of the ge­netic variation survey showed that the nucleotides homology rate between avian influenza type A H5N1 strains causing disease and circulating on poultry in the Mekong Delta provinces in 2016 were from 94.5% to 98.5% and amino acids were from 92.5% to 99.3%, respectively. The sequence of the amino acids at the linkage between the HA1 and HA2 fragment was RRRKR similar to highly pathogenic avian influenza virus as A/chicken/Korea/IC546/2011 and A/Hubei/1/2010 references. This indi­cates that the avian influenza type A H5N1 virus isolated in this study is highly pathogenic. Avian influenza type A H5N1 viruses circulating and causing disease on poultry in some provinces in the Mekong Delta in 2016 belong to the clade virus 2.3.2.1c.

Keywords

Avian influenza, Chicken, Duck, Type A H5N1

Cited as: Tien, T.N. and Khai, L.T.L., 2019. Comparision of genetic variation between avian influenza type A H5N1 virus causing disease and circulating on poultry in some provinces in the Mekong Delta in 2016. Can Tho University Journal of Science. 11(1): 36-41.