Tag SNP selection for prediction of adaptation traits in Braford and Hereford cattle using Bayesian methods.

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dc.contributorFERNANDO A. REIMANN, UNIVERSIDADE FEDERAL DE PELOTAS; GABRIEL S. CAMPOS, UNIVERSIDADE FEDERAL DE PELOTAS; VINÍCIUS S. JUNQUEIRA, UNIVERSIDADE FEDERAL DE VIÇOSA; HELENA B. COMIN, UNIVERSIDADE FEDERAL DE PELOTAS; BRUNA PENA SOLLERO, CENARGEN; LEANDRO L. CARDOSO; RODRIGO F. DA COSTA, UNIVERSIDADE FEDERAL DE PELOTAS; ARIONE A. BOLIGON, UNIVERSIDADE FEDERAL DE PELOTAS; MARCOS JUN ITI YOKOO, CPPSE; FERNANDO FLORES CARDOSO, CPPSUL.
dc.creatorREIMANN, F. A.
dc.creatorCAMPOS, G. S.
dc.creatorJUNQUEIRA, V. S.
dc.creatorCOMIN, H. B.
dc.creatorSOLLERO, B. P.
dc.creatorCARDOSO, L. L.
dc.creatorCOSTA, R. F. da
dc.creatorBOLIGON, A. A.
dc.creatorYOKOO, M. J. I.
dc.creatorCARDOSO, F. F.
dc.date2024-12-28T17:26:05Z
dc.date2024-12-28T17:26:05Z
dc.date2024-09-26
dc.date2024
dc.date.accessioned2026-07-07T11:55:29Z
dc.descriptionThis study utilized Bayesian inference in a genome-wide association study (GWAS) to identify genetic markers associated with traits relevant to the adap- tation of Hereford and Braford cattle breeds. We focused on eye pigmentation (EP), weaning hair coat (WHC), yearling hair coat (YHC), and breeding stand- ard (BS). Our dataset comprised 126,290 animals in the pedigree. Out of these, 233 sires were genotyped using high-density (HD) chips, and 3750 animals with medium-density (50 K) single-nucleotide polymorphism (SNP) chips. Employing the Bayes B method with a prior probability of π = 0.99, we identified and tagged single nucleotide polymorphisms (Tag SNPs), ranging from 18 to 117 SNPs de- pending on the trait. These Tag SNPs facilitated the construction of reduced SNP panels. We then evaluated the predictive accuracy of these panels in compari- son to traditional medium-density SNP chips. The accuracy of genomic predic- tions using these reduced panels varied significantly depending on the clustering method, ranging from 0.13 to 0.65. Additionally, we conducted functional enrich- ment analysis that found genes associated with the most informative SNP mark- ers in the current study, thereby providing biological insights into the genomic basis of these traits.
dc.identifierJournal of Animal Breeding and Genetics, v. 142, n. 1, p. 69-78, 2024.
dc.identifierhttp://www.alice.cnptia.embrapa.br/alice/handle/doc/1167616
dc.identifier.urihttp://hdl.handle.net/123456789/517726
dc.languageeng
dc.rightsopenAccess
dc.subjectGado Braford
dc.subjectGado de Corte
dc.subjectGado Hereford
dc.subjectSeleção
dc.titleTag SNP selection for prediction of adaptation traits in Braford and Hereford cattle using Bayesian methods.
dc.typeArtigo de periódico

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