Phylogenetic analysis of newcastle disease virus from indonesian isolates based on DNA-sequence of fusion protein-encoding gene

6/20/2018 12:00:00 AM

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Authors:Martha Purnami Wulanjati, Nastiti Wijayanti, Aris Haryanto

Publication date: June 2018

Biotechnology

Volume:  17 (2), 69-74

Link: http://docsdrive.com/pdfs/ansinet/biotech/2018/69-74.pdf

 

 

Abstract

Background and Objective: Newcastle disease (ND) is an infectious disease caused by  ND virus  (NDV),  which  is  the  major  problem in poultry industries. Although vaccination program has been executed in Indonesia,  Newcastle  disease  is still infecting chicken. The lack  of  vaccine protection against the disease, presumably due  to  genetic  differences  between   vaccine   strain  and  virus  strain in the field. This study  was  conducted  to  analyze  phylogenetic of Indonesian NDV isolates based on fusion (F) protein-encoding gene, with aim to determine which genotype group of Indonesian NDV isolates, compared to vaccine strain that circulating in Indonesia. Materials and Methods:  Samples were RNA genome of NDV, which were isolated from chicken in Kartosuro, Karanganyar; Galur, Kulon Progo and Sukomoro, Magetan areas. The F gene was amplified by one step RT-PCR method and then was sequenced. The genetic variation among samples, other Indonesian isolates, LaSota and B1 vaccine strain were analyzed by pairwise distance method. Phylogenetic tree based on F gene sequence was generated by Neighbor-Joining method (1000 bootstrap repetition) and Kimura-2 parameter model. Result: The genetic variation of F gene nucleotide and F protein amino acid between samples and vaccine strains were higher compared to the variation between samples and other Indonesian isolates. Phylogenetic analysis showed that the samples were included in genotype VII class II, while LaSota and B1 vaccine strain included in genotype II class II. Conclusion: There were differences of fusion protein antigen and genotype group between Indonesian strains and vaccine strains. This finding encouraged to develop ND vaccine based on Indonesian isolates.

 

Key words: Newcastle disease virus, fusion protein-encoding gene, phylogenetic analysis, RT-PCR, Indonesian isolates