Comparative accuracies of genetic values predicted for economically important milk traits, genome-wide association, and linkage disequilibrium patterns of Canadian Holstein cows.

Autor:	Peters SO; Department of Animal Science, Berry College, Mount Berry, GA 30149; Department of Animal and Dairy Science, University of Georgia, Athens 30602. Electronic address: speters@berry.edu., Kızılkaya K; Department of Animal Science, Faculty of Agriculture, Aydin Adnan Menderes University, Aydin, 09100, Turkey., Ibeagha-Awemu EM; Agriculture and Agri-Food Canada, Sherbrooke Research and Development Centre, 2000 Rue College, Sherbrooke, QC, J1M 0C8 Canada., Sinecen M; Department of Computer Engineering, Faculty of Engineering, Aydin Adnan Menderes University, Aydin, 09100, Turkey., Zhao X; Department of Animal Science, McGill University, 21,111 Lakeshore Road, Ste-Anne-De-Bellevue, QC, H9S 3V9 Canada.
Jazyk:	angličtina
Zdroj:	Journal of dairy science [J Dairy Sci] 2021 Feb; Vol. 104 (2), pp. 1900-1916. Date of Electronic Publication: 2020 Dec 25.
DOI:	10.3168/jds.2020-18489
Abstrakt:	Genomic selection methodologies and genome-wide association studies use powerful statistical procedures that correlate large amounts of high-density SNP genotypes and phenotypic data. Actual 305-d milk (MY), fat (FY), and protein (PY) yield data on 695 cows and 76,355 genotyping-by-sequencing-generated SNP marker genotypes from Canadian Holstein dairy cows were used to characterize linkage disequilibrium (LD) structure of Canadian Holstein cows. Also, the comparison of pedigree-based BLUP, genomic BLUP (GBLUP), and Bayesian (BayesB) statistical methods in the genomic selection methodologies and the comparison of Bayesian ridge regression and BayesB statistical methods in the genome-wide association studies were carried out for MY, FY, and PY. Results from LD analysis revealed that as marker distance decreases, LD increases through chromosomes. However, unexpected high peaks in LD were observed between marker pairs with larger marker distances on all chromosomes. The GBLUP and BayesB models resulted in similar heritability estimates through 10-fold cross-validation for MY and PY; however, the GBLUP model resulted in higher heritability estimates than BayesB model for FY. The predictive ability of GBLUP model was significantly lower than that of BayesB for MY, FY, and PY. Association analyses indicated that 28 high-effect markers and markers on Bos taurus autosome 14 located within 6 genes (DOP1B, TONSL, CPSF1, ADCK5, PARP10, and GRINA) associated significantly with FY. (Copyright © 2021 American Dairy Science Association. Published by Elsevier Inc. All rights reserved.)
Databáze:	MEDLINE
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