A genetic dissection of breed composition in well-known taurine Indicine and crossbred cattle by using SNP genotyping

Abstract

In this study, the genotype data (50K SNP bead chip data) was used for a total of 156 representative animals belonging to seven indicine and four taurine breeds of cattle. A total of 43,041 SNPs common for all the breeds were taken into account for the present study, Using the Bayesian approach, STRUCTURE software was run on the data set. Under each value of K (2-12), the indicine and taurine breeds were distinctly separated, with poor differentiation of breeds within the two lineages, The results from principal component analysis were in accordance with separate identitics of the two lineages. The study was extended under similar conditions to hybrid Santa Gertrudis individuals, with 10 individuals included from hybrid and purebred constituent populations and the tools used in the study efficiently differentiated the individuals from pure breed and crossbred populations. It may be concluded that these Bioinformatics and statistical softwares are efficient in determination of clustering, introgression and admixture levels in different purebred and crossbred populations of India.