Genetic Characteristics and Relationship in Different Goat Populations of Indonesia Based on Cytochrome B Gene Sequences

Abstract

Phylogenetic relationships and genetic variation among 9 Indonesian goat breeds were analyzed using cytochrome b gene sequences. The genomic DNA was isolated by gSYNC DNA Mini Kit (Geneaid) and amplified cytochrome b gene using PCR method with a pair of primer. Complete sequences of Cyt b genes of Indonesian goats is 1140 bp contained 19 variable sites and 8 haplotypes between Indonesian goats and C. hircus (D84201), when compared to C. aegagrus and C. falconeri, there are 59 variable sites. Phylogenetic analysis of haplotype in the combination with the goats from GenBank showed that Indonesian goats are grouped with C. aegagrus. Indonesian goat breeds have 4 amino acid units, which are different with C. hircus, at site 17, 191, 215 and 341th amino acids. The genetic distance score between Indonesian goat populations ranged from 0 to 0.007, while if compared to C. aegagrus ranged from 0.002 to 0.006 and to the C. falconeri ranged from 0.039 to 0.045. The relationship between subpopulation of Indonesian goats are very close. Indonesian goats have a closer genetic relationship with wild goat C. aegagrus than to C. falconeri.