DNA Sequence variability analysis of the gD and the UL36 genes of Bovine herpesvirus-1 isolated from field cases in Indonesia

Abstract

To investigate the genotype of Bovine herpesvirus-1 (BHV-1) isolated in Indonesia (n = 10), the DNA sequences of fragments of two genes, including the middle third of the gD gene and the downstream end of UL36, were determined using nested PCR. All the samples were classified as BHV-1.2 according to the deduced amino acid sequence of gD. On the other hand, analysis of the nucleotide sequence of UL36 indicated the presence of insertions or deletions (indels) compared to reference sequences and each other, which indels made more diverse than in gD sequence, and the classification of BHV-1 subtype based on the deduced amino acid sequence of UL36 differed from that obtained using the gD protein sequence. These results suggested that while the gD sequence analysis was suited for rough classification of BHV-1 subtype, the UL36 sequence permitted detection of BHV-1 subtype polymorphisms.

Keywords

• bhv-1
• gd
• ul36
• snps
• indel
• repeat sequence