Revelation of genomic breed composition in a crossbred cattle of India with the help of Bovine50K BeadChip.

The aim of the present study was to assess the population structure and admixture levels in the Vrindavani composite population in India by using Bovine50KSNP BeadChip data. Genotypic data were generated for randomly selected animals (n = 72) of Vrindavani population and the data for parental breeds i.e., Hariana (n = 10), Holstein-Friesian (n = 63), Jersey (n = 28) and Brown Swiss (n = 22) were retrieved from a public repository. The indices of population structure were calculated using PLINK software and R-program. The merged dataset was analysed for assessing admixture levels and population stratification using three different approaches i.e., principal component analysis (PCA), multi-dimensional scaling (MDS) approach and the model-based approach in STRUCTURE software. The average minor allele frequency (MAF) value for Vrindavani population was estimated to be 0.235. Vrindavani population was found to possess an average ancestry of 39.5, 22.9, 26.9, and 10.7% inheritance levels from Holstein Friesian, Jersey, Hariana and Brown Swiss cattle breeds, respectively. • We have got evidence of optimum applicability of Bovine 50 K SNP BeadChip data on crossbred population for admixture study • Admixture levels in Vrindavani crossbred population were calculated for the first time in the Indian context • The basic information generated in our study will help for characterization of other similar crossbreds of the country [ABSTRACT FROM AUTHOR]