Acta Univ. Agric. Silvic. Mendelianae Brun. 2020, 68(1), 57-61 | DOI: 10.11118/actaun202068010057

The Genetic Structure of Slovak Spotted Cattle Based on Genome-wide Analysis

Kristína Lehocká, Barbora Olšanská, Radovan Kasarda, Ondrej Kadlečík, Anna Trakovická, Nina Moravčíková
Department of Animal Genetics and Breeding Biology, Faculty of Agrobiology and Food Resources, Slovak University of Agriculture in Nitra, Tr. Andreja Hlinku 609/2, 949 76 Nitra, Slovakia

The objective of the study was to determine the membership probability and level of admixture among Slovak Spotted cattle and historically related breeds (Ayshire, Holstein, Swiss Simmental and Slovak Pinzgau). The analysis was based on the panel of 35 934 SNPs that were used for genotyping of 423 individuals. The optimal number of clusters was estimated in two ways; by analysis of Bayesian information criterion and Bayesian clustering algorithm. The optimal number of clusters ranged from 3 to 5, depending on the applied approach. Subsequently, the population structure was tested by discriminant analysis of principal components (DAPC) and unsupervised Bayesian analysis based on the correlated allele frequencies model. The first discriminant function revealed three genetic clusters in population resulting from the production type and origin of analysed breeds. The unsupervised Bayesian analysis showed similar results, where the highest level of admixture was found between Slovak Pinzgau and Slovak Spotted cattle (0.6%). Despite that, the results of this study clearly showed that the Slovak Spotted cattle is genetically separated from other breeds that were involved in its grading-up process.

Keywords: dual-purpose breed, DAPC analysis, membership probability, population structure
Grants and funding:

The Slovak Research and Development Agency (APVV-14-0054 and APVV-17-0060) and VEGA (1/0742/17) this study was supported.

Received: November 25, 2019; Accepted: January 24, 2020; Published: February 27, 2020  Show citation

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Lehocká, K., Olšanská, B., Kasarda, R., Kadlečík, O., Trakovická, A., & Moravčíková, N. (2020). The Genetic Structure of Slovak Spotted Cattle Based on Genome-wide Analysis. Acta Universitatis Agriculturae et Silviculturae Mendelianae Brunensis, 68(1), 57-61. doi: 10.11118/actaun202068010057
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