Genetic Structuring of Nine Indian Domestic Goat Breeds Based on SNPs Identified in IGF-1 Gene

Abstract

The caprine Insulin like Growth Factor1 (IGF1) gene was analyzed for identification of single nucleotide polymorphisms (SNPs) and genetic structuring of Indian goat breeds. A panel of 80 samples belonging to nine Indian goat breeds (Capra hircus) including three large sized breeds (Jamunapari, Beetal and Jakhrana); three medium sized breeds (Sirohi, Barbari, and Osmanabadi) and three small sized breeds (Black Bengal, Changthangi, and Gaddi) were screened for SNP identification and diversity analysis. The comparative gene sequence analysis of all the nine goat breeds studied revealed a total of 18 SNPs in IGF1 gene. All the nucleotide changes were found to be synonymous. The mean observed heterozygosity was found to be maximum (0.074) in Sirohi, Beetal, Osmanabadi, and Gaddi breeds of goat, whereas it is found to be minimum (0.019) in Black Bengal breed of goat. The rest of the breeds were intermediate in terms of heterozygosity. The same has been confirmed by allele frequency distribution across the studied loci. Barbari and Gaddi were found to be more differentiated (0.0123), Changthangi and Jamunapari were least differentiated (0.00110) based on Nei's genetic distance.

Genetic characterization of Gaddi goat breed of Western Himalayas using microsatellite markers

“…Microsatellite have proved to be efficient molecular tools for diversity analysis in farm animals due to their several advantages like random distribution across the genome, high degree of ­polymorphism, co- dominance, neutrality with respect to selection and possibility of automated scoring of genotypes and have been used to analyze genetic variations in cattle, sheep, goat, pigs, buffaloes, horses and chickens [ 9 ]. But, molecular characterization studies on Gaddi goat breed using microsatellite markers are also limited [ 5 , 10 ]. Microsatellites, also known as simple sequence repeats or short tandem repeats, are tandemly repeating sequences of 2-6 bp of DNA, which have been demonstrated to be polymorphic in a number of eukaryotic genome [ 11 ].…”

Association analysis of polymorphisms in caprine KiSS1 gene with reproductive traits

“…Indian goat breeds differ pertaining to these reproductive traits. Goat genetic resource comprises of 23 recognized breeds in India (Sharma et al, 2013) which is valuable gene pool for adaptive and economic traits, providing diversified genetic material that can help to meet future challenges. Black Bengal goat is unique among all Indian goat breeds as these show significant characteristics of sexual precocity and high prolificacy.…”

Comparison of Bray Curtis and Nei’s Genetic Distance on Mantel Test for Chicken Diversity Data

“…That is Mantel test used to explore significance and scale of relationship between spatial genetic variation and geographic distances. Many researchers (Sharma et al, 2013;Sahoo et al, 2013;Costa et al, 2013) used Nei's (1972) genetic distance which measure that genetic differences arise due to mutations and genetic drift. However, some researchers used (Bennett and Gratton, 2013;Maurice et al, 2013;Blum et al, 2012) Bray Curtis distance which used to quantify the compositional dissimilarity between two different sites, based on counts at each site.…”