Eff ective Population Size and Genomic Inbreeding in Slovak Pinzgau Cattle

Nina Moravčikovà, Radovan Kasarda, Veronika Kukučkovà, Ondrej Kadlečik
2017 Agriculturae Conspectus Scientifi cus   unpublished
Th e aim of this study was to evaluate the level of genomic inbreeding and eff ective population size in the Slovak Pinzgau population based on molecular-genetic analysis. Th e genotyping data was obtained from in total 152 animals (37 sires, and 115 cows) representing the active Pinzgau population in Slovakia. All of animals have been genotyped using Illumina BovineSNP50 BeadChip V2 and aft er quality control the fi nal dataset was composed of 41,738 autosomal loci. Th e inbreeding coeffi
more » ... (F ROH) was expressed as the length of the genome covered by runs of homozygosity (ROH) divided by length of the autosomal genome covered by all SNPs (2.5 Gb). Across both groups of sires and cows ROH segments greater than 4 Mb (F ROH > 4 Mb) cover in average 2.22 % of the genome, whereas inbreeding estimates > 16 Mb (F ROH > 16 Mb) achieved 0.81 % that signalized recent inbreeding in analysed population. Th e historical and recent eff ective population sizes were estimated based on the relationship between the extent of linkage disequilibrium and eff ective population size. Th e estimates of historical eff ective population size showed linear decrease within each of analysed group. A decrease of 7.81 individuals per generation has been observed. Th e predicted current N e across all of animals (30.29) clearly confi rmed the endangered status of Slovak Pinzgau population and indicated the need for constant monitoring to increase population size without reduction of genetic diversity due to inbreeding.