GENETIC VARIATION AND PHYLOGENETIC RELATIONSHIPS BASED ON TESTIS DETERMINING REGION-Y (SRY) GENE IN THE LAKOR GOAT BREED

Abstract

Lakor goat is an Indonesian indigenous goat breeds that successfully survive and is adaptive in the ecology of Lakor island in Southwest Maluku with high temperatures and curah limited rainfall. Genetic variations in Y-chromosome enable researchers to identify paternal lineages, which are informative for introgressions and migrations. This study aims to characterize genetic variation and phylogenetic relationships of Lakor goats based on male-specific region markers, i.e., sex-determining region-Y (SRY) gene. The genomes of 84 follicle samples of male goats (bucks) collected from Lakor island, were analyzed. The amplified product for SRY was 850 bp in encoding region (exon-1). Genetic variation and paternal phylogenetic relationship were established following sequencing using MEGA version X.0 software. The results of Y-chromosome alignments of the entire sequences identified two polymorphic nucleotides between individual goats within the population. Two polymorphism nucleotides, i.e. site 362 (A-G), and found in LK3, LK7, LK11, and LK13 samples, while site 410 (C-T) was found in LK3, LK7, LK11, LK13, and LK24 samples. The two mutations are categorized as substitution (transition type) and this is in the exon-1 area. This study concluded that genetic variation is very low in the Lakor goat breed and phylogenetic analysis grouping is a single clade or monophyletic group.