Phylogenetic analyzing of Khalkhali goats using cytochrome b gene

Abstract

Khalkhali goat is an Iranian indigenous goat that the number of population has been decreasing nowadays. Study about the practical genetic structure is necessary for biodiversity conservation of native breeds. The aim of this study was the sequencing of Cytochrome b gene of 100 Khalkhali goat and comparison with other goat species using bioinformatics data (26 samples). we used the sequences of NCBI data to compare between goat species. The results of sequencing led to the identification of 5 mutations with 6 Haplotypes in Iranian Khalkhali goat samples. The haplotype diversity, nucleotide diversity and the average of a different nucleotide were 0.644, 0.002 and 1.822 respectively. Tajima D was obtaining 0.124 that was not significant. The result of comparison analysis between goat species indicates that nucleotide diversity in Capra hircus, Capra ibex, and Capra aegagrus were 0.047, 0.022 and 0.001 respectively. The highest genetic distance observed between Ibex and aegagrus, while the lowest was between Khalkhli goat and Capra hircus. In compare with aegagrus goat, the ibex goat was closer to Capra hircus.

Keywords

• bioinformatics analysis
• khalkhali goat
• genetic diversity
• sequencing
• cytochrome b gene