Comprehensive analysis of runs of homozygosity and heterozygosity in Holstein cattle on the basis of medium and high density SNP panels and large population sample
Online veröffentlicht: 23. Apr. 2024
Seitenbereich: 431 - 444
Eingereicht: 01. Aug. 2023
Akzeptiert: 04. Okt. 2023
DOI: https://doi.org/10.2478/aoas-2023-0100
Schlüsselwörter
© 2024 Tomasz Szmatoła et al., published by Sciendo
This work is licensed under the Creative Commons Attribution 4.0 International License.
This study reports runs of homozygosity (ROH) and heterozygosity (ROHet) distributed in a large population of Holstein cattle on the basis of two microarrays of medium (50k; 2163 animals; 54 609 SNPs) and high single nucleotide polymorphism (SNP) density (HD; 600 animals; 777 692 SNPs). To assess the inbreeding values of Holstein cattle, the ROH-based genomic inbreeding coefficient (FROH) was calculated. The comparison of SNP panels suggested that FROH values above 4 Mb should be considered for panels of medium densities as a relatively reliable measure of inbreeding. Moreover, ROH hotspots and coldspots were identified and compared between the HD and 50k SNP panels and were carefully examined for association with production and functional traits. The obtained results pinpointed genomic regions presumably under selection pressure in Holstein cattle. The regions overlapped with a large number of genes, including