Distribution of QTL associated SNP by common and breed-specific sections of the genome of the Kazakh white-headed and Auliekol breeds

Alena Valentinovna Belaya, Индира Бейшова, Marina Ivanovna Selionova, R. S. Shulinski, Tatyana Vladimirovna Ulyanova

2022

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DOI 10.31043/2410-2733-2022-3-12-17
Data confidence 70 medium
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Abstract

Purpose: to analyze and establish distribution patterns of QTL associated SNP across common and breedspecific sections of the genome of the Kazakh white-headed and Auliekol breeds. Materials and methods: Kazakh white-headed and Auliekol breeds were studied. The material for the study is samples of the hair follicles of 712 Kazakh white-headed bulls and 452 Auliekol breeds. Data on animal genotypes were obtained using the DNA chip GeneSeek GGP Bovine 150K. Genome-wide association study (GWAS): calculating linear regression dependence and determination coefficient was performed using Plink. GWAS analysis of four growth indicators was carried out: birth live weight, weaning weight, live weight at 12 months, and average daily weight gain. Results. The distribution of QTL associated SNP across common and breed-specific sections of the genome of the Kazakh white-headed and Auliekol breeds are uneven. QTL associated SNP were found only on 6 genome sites out of 25 identified by ROH analysis (6 chromosomes common to the two breeds: 3, 5, 6, 14, 20, and 24; 7 breed-specific sites for the Kazakh white-headed – chromosomes: 2, 4, 5, 6, 14 and 26; 12 breed-specific for the Auliekol breed – chromosomes: 1, 5, 6 and 14). Out of 120 QTL associated SNP of the Kazakh white-headed and 49 Auliekol breeds, 37 polymorphic sites get the ROH region. Of these, 36 are QTL associated for the Kazakh white-headed breed and get the areas common to the two breeds. It was found that different polymorphic variants of the same gene (from 2 to 12 SNP) are characterized by unidirectional β values (either positive or negative).