Abstract
Kazakh semi-coarse-wooled fat-tailed sheep breed belongs to the meat-greasy-wool production line and consists of 3 zonal types: kargaly, aktobe, baiys. In this work, a genomic analysis of all subpopulations ("Khasiev", "Kara-Adyr", "Altyn Asel") was performed using SNP genotyping and the main component method – PCA. The constructed PCA diagram revealed intra-breed structuring: sheep subpopulation of Western region forms a separate cluster, which indicates its genetic differentiation, while the gene pool of Southeastern zone shows significant overlap, reflecting the proximity of their genetic profile and practice exchanging breeding materials. The results obtained indicate existence of both isolated and closely related genotypes, which underlines the importance of taking into account intra-breed heterogeneity when conducting breeding work and developing genetic monitoring programs.