Genome-wide association and genomic prediction for scrotal circumference in Hereford and Braford bulls
Autor(a) principal: | |
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Data de Publicação: | 2021 |
Outros Autores: | , , , , , , , , |
Tipo de documento: | Artigo |
Idioma: | eng |
Título da fonte: | Repositório Institucional da UNESP |
Texto Completo: | http://dx.doi.org/10.1016/j.theriogenology.2021.07.007 http://hdl.handle.net/11449/222001 |
Resumo: | Scrotal circumference (SC) is widely used as a selection criterion for bulls in breeding programs, since it is easily assessed and correlated with several desirable reproductive traits. The objectives of this study were: to perform a genome-wide association study (GWAS) to identify genomic regions associated with SC adjusted for age (SCa) and for both age and weight (SCaw); to select Tag SNPs from GWAS to construct low-density panel for genomic prediction; and to compare the prediction accuracy of the SC through different methods for Braford and Hereford bulls from the same genetic breeding program. Data of SC from 18,172 bulls (30.4 ± 3.7 cm) and of genotypes from 131 sires and 3,545 animals were used. From GWAS, the top 1% of 1-Mb windows were observed on chromosome (BTA) 2, 20, 7, 8, 15, 3, 16, 27, 6 and 8 for SCa and on BTA 8, 15, 16, 21, 19, 2, 6, 5 and 10 for SCaw, representing 17.4% and 18.8% of the additive genetic variance of SCa and SCaw, respectively. The MeSH analysis was able to translate genomic information providing biological meanings of more specific gene functions related to the SCa and SCaw. The genomic enhancement methods, especially single step GBLUP, that combined phenotype and pedigree data with direct genomic values generated gains in accuracy in relation to pedigree BLUP, suggesting that genomic predictions should be applied to improve genetic gain and to narrow the generation interval compared to traditional methods. The proposed Tag-SNP panels may be useful for lower-cost commercial genomic prediction applications in the future, when the number of bulls in the reference population increases for SC in Hereford and Braford breeds. |
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Genome-wide association and genomic prediction for scrotal circumference in Hereford and Braford bullsBeef cattleGWASLow-density panelPrediction accuracyReproductive performanceScrotal circumference (SC) is widely used as a selection criterion for bulls in breeding programs, since it is easily assessed and correlated with several desirable reproductive traits. The objectives of this study were: to perform a genome-wide association study (GWAS) to identify genomic regions associated with SC adjusted for age (SCa) and for both age and weight (SCaw); to select Tag SNPs from GWAS to construct low-density panel for genomic prediction; and to compare the prediction accuracy of the SC through different methods for Braford and Hereford bulls from the same genetic breeding program. Data of SC from 18,172 bulls (30.4 ± 3.7 cm) and of genotypes from 131 sires and 3,545 animals were used. From GWAS, the top 1% of 1-Mb windows were observed on chromosome (BTA) 2, 20, 7, 8, 15, 3, 16, 27, 6 and 8 for SCa and on BTA 8, 15, 16, 21, 19, 2, 6, 5 and 10 for SCaw, representing 17.4% and 18.8% of the additive genetic variance of SCa and SCaw, respectively. The MeSH analysis was able to translate genomic information providing biological meanings of more specific gene functions related to the SCa and SCaw. The genomic enhancement methods, especially single step GBLUP, that combined phenotype and pedigree data with direct genomic values generated gains in accuracy in relation to pedigree BLUP, suggesting that genomic predictions should be applied to improve genetic gain and to narrow the generation interval compared to traditional methods. The proposed Tag-SNP panels may be useful for lower-cost commercial genomic prediction applications in the future, when the number of bulls in the reference population increases for SC in Hereford and Braford breeds.Conselho Nacional de Desenvolvimento Científico e Tecnológico (CNPq)Empresa Brasileira de Pesquisa AgropecuáriaReproPel Faculdade de Veterinária Universidade Federal de PelotasDepartamento de Zootecnia Faculdade de Agronomia Eliseu Maciel Universidade Federal de PelotasFaculdade de Ciências Agrárias e Veterinárias Universidade Estadual de São PauloEmbrapa Pecuária SulFaculdade de Ciências Agrárias e Veterinárias Universidade Estadual de São PauloCNPq: 1188986/2017-2Empresa Brasileira de Pesquisa Agropecuária: 12.13.14.014.00CNPq: 305102/2018-4Universidade Federal de PelotasUniversidade Estadual Paulista (UNESP)Empresa Brasileira de Pesquisa Agropecuária (EMBRAPA)Ferreira, Carlos E.R.Campos, Gabriel S.Schmidt, Patricia I. [UNESP]Sollero, Bruna P.Goularte, Karina L.Corcini, Carine D.Gasperin, Bernardo G.Lucia, ThomazBoligon, Arione A.Cardoso, Fernando F.2022-04-28T19:41:53Z2022-04-28T19:41:53Z2021-09-15info:eu-repo/semantics/publishedVersioninfo:eu-repo/semantics/article268-280http://dx.doi.org/10.1016/j.theriogenology.2021.07.007Theriogenology, v. 172, p. 268-280.0093-691Xhttp://hdl.handle.net/11449/22200110.1016/j.theriogenology.2021.07.0072-s2.0-85110760133Scopusreponame:Repositório Institucional da UNESPinstname:Universidade Estadual Paulista (UNESP)instacron:UNESPengTheriogenologyinfo:eu-repo/semantics/openAccess2022-04-28T19:41:53Zoai:repositorio.unesp.br:11449/222001Repositório InstitucionalPUBhttp://repositorio.unesp.br/oai/requestopendoar:29462024-08-05T15:06:24.107841Repositório Institucional da UNESP - Universidade Estadual Paulista (UNESP)false |
dc.title.none.fl_str_mv |
Genome-wide association and genomic prediction for scrotal circumference in Hereford and Braford bulls |
title |
Genome-wide association and genomic prediction for scrotal circumference in Hereford and Braford bulls |
spellingShingle |
Genome-wide association and genomic prediction for scrotal circumference in Hereford and Braford bulls Ferreira, Carlos E.R. Beef cattle GWAS Low-density panel Prediction accuracy Reproductive performance |
title_short |
Genome-wide association and genomic prediction for scrotal circumference in Hereford and Braford bulls |
title_full |
Genome-wide association and genomic prediction for scrotal circumference in Hereford and Braford bulls |
title_fullStr |
Genome-wide association and genomic prediction for scrotal circumference in Hereford and Braford bulls |
title_full_unstemmed |
Genome-wide association and genomic prediction for scrotal circumference in Hereford and Braford bulls |
title_sort |
Genome-wide association and genomic prediction for scrotal circumference in Hereford and Braford bulls |
author |
Ferreira, Carlos E.R. |
author_facet |
Ferreira, Carlos E.R. Campos, Gabriel S. Schmidt, Patricia I. [UNESP] Sollero, Bruna P. Goularte, Karina L. Corcini, Carine D. Gasperin, Bernardo G. Lucia, Thomaz Boligon, Arione A. Cardoso, Fernando F. |
author_role |
author |
author2 |
Campos, Gabriel S. Schmidt, Patricia I. [UNESP] Sollero, Bruna P. Goularte, Karina L. Corcini, Carine D. Gasperin, Bernardo G. Lucia, Thomaz Boligon, Arione A. Cardoso, Fernando F. |
author2_role |
author author author author author author author author author |
dc.contributor.none.fl_str_mv |
Universidade Federal de Pelotas Universidade Estadual Paulista (UNESP) Empresa Brasileira de Pesquisa Agropecuária (EMBRAPA) |
dc.contributor.author.fl_str_mv |
Ferreira, Carlos E.R. Campos, Gabriel S. Schmidt, Patricia I. [UNESP] Sollero, Bruna P. Goularte, Karina L. Corcini, Carine D. Gasperin, Bernardo G. Lucia, Thomaz Boligon, Arione A. Cardoso, Fernando F. |
dc.subject.por.fl_str_mv |
Beef cattle GWAS Low-density panel Prediction accuracy Reproductive performance |
topic |
Beef cattle GWAS Low-density panel Prediction accuracy Reproductive performance |
description |
Scrotal circumference (SC) is widely used as a selection criterion for bulls in breeding programs, since it is easily assessed and correlated with several desirable reproductive traits. The objectives of this study were: to perform a genome-wide association study (GWAS) to identify genomic regions associated with SC adjusted for age (SCa) and for both age and weight (SCaw); to select Tag SNPs from GWAS to construct low-density panel for genomic prediction; and to compare the prediction accuracy of the SC through different methods for Braford and Hereford bulls from the same genetic breeding program. Data of SC from 18,172 bulls (30.4 ± 3.7 cm) and of genotypes from 131 sires and 3,545 animals were used. From GWAS, the top 1% of 1-Mb windows were observed on chromosome (BTA) 2, 20, 7, 8, 15, 3, 16, 27, 6 and 8 for SCa and on BTA 8, 15, 16, 21, 19, 2, 6, 5 and 10 for SCaw, representing 17.4% and 18.8% of the additive genetic variance of SCa and SCaw, respectively. The MeSH analysis was able to translate genomic information providing biological meanings of more specific gene functions related to the SCa and SCaw. The genomic enhancement methods, especially single step GBLUP, that combined phenotype and pedigree data with direct genomic values generated gains in accuracy in relation to pedigree BLUP, suggesting that genomic predictions should be applied to improve genetic gain and to narrow the generation interval compared to traditional methods. The proposed Tag-SNP panels may be useful for lower-cost commercial genomic prediction applications in the future, when the number of bulls in the reference population increases for SC in Hereford and Braford breeds. |
publishDate |
2021 |
dc.date.none.fl_str_mv |
2021-09-15 2022-04-28T19:41:53Z 2022-04-28T19:41:53Z |
dc.type.status.fl_str_mv |
info:eu-repo/semantics/publishedVersion |
dc.type.driver.fl_str_mv |
info:eu-repo/semantics/article |
format |
article |
status_str |
publishedVersion |
dc.identifier.uri.fl_str_mv |
http://dx.doi.org/10.1016/j.theriogenology.2021.07.007 Theriogenology, v. 172, p. 268-280. 0093-691X http://hdl.handle.net/11449/222001 10.1016/j.theriogenology.2021.07.007 2-s2.0-85110760133 |
url |
http://dx.doi.org/10.1016/j.theriogenology.2021.07.007 http://hdl.handle.net/11449/222001 |
identifier_str_mv |
Theriogenology, v. 172, p. 268-280. 0093-691X 10.1016/j.theriogenology.2021.07.007 2-s2.0-85110760133 |
dc.language.iso.fl_str_mv |
eng |
language |
eng |
dc.relation.none.fl_str_mv |
Theriogenology |
dc.rights.driver.fl_str_mv |
info:eu-repo/semantics/openAccess |
eu_rights_str_mv |
openAccess |
dc.format.none.fl_str_mv |
268-280 |
dc.source.none.fl_str_mv |
Scopus reponame:Repositório Institucional da UNESP instname:Universidade Estadual Paulista (UNESP) instacron:UNESP |
instname_str |
Universidade Estadual Paulista (UNESP) |
instacron_str |
UNESP |
institution |
UNESP |
reponame_str |
Repositório Institucional da UNESP |
collection |
Repositório Institucional da UNESP |
repository.name.fl_str_mv |
Repositório Institucional da UNESP - Universidade Estadual Paulista (UNESP) |
repository.mail.fl_str_mv |
|
_version_ |
1808128461634535424 |