A novel SNP (c.1311C>T) on heat shock protein 70 (HSP70) gene of Kacang goat in Indonesia

Abstract

Heat shock proteins (HSPs) associated with stress reactions play an important role in cell survival by activating numerous regulatory proteins and inducing black apoptosis. This study aimed to identify the potential SNPs of HSP70 gene in Kacang goats in Indonesia. Forty-three Kacang goats were selected from Sidoarjo and Tulungagung districts. The DNA isolated from blood samples was successfully amplified using the polymerase chain reaction (PCR) method with a pair of primers. The PCR products were sequenced in the coding region. The sequences were successfully aligned to determine the potential SNPs. A novel SNP (c.1311C>T) was found in this study. This SNP was categorized as a synonymous mutation. The insertion-deletion (in-del) mutation was also observed at the 1151st and 1161st nucleotide positions. Based on these mutations, four haplotypes were constructed where haplotype 1 had the highest frequency in Sidoarjo. Indonesian goats had no close relation with Iraqi goats according to Neighbor-Joing with Kimura’s 2-parameter approach. Haplotypes 1 and 2 in Indonesian goats had three different bases with all haplotypes in Iraqi goats in Median Joining Network. The study concluded that a novel SNP of HSP70 gene was identified in Kacang goats.

Keywords

• DNA, Mutation, PCR, Polymorphism, Sequencing