Genome-wide association study identified genomic regions and putative candidate genes affecting meat color traits in Nellore cattle
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.meatsci.2020.108288 http://hdl.handle.net/11449/207969 |
Resumo: | Single and multiple-trait GWAS were conducted to detect genomic regions and candidate genes associated with meat color traits (L*, lightness; a*, redness; b*, yellowness) in Nellore cattle. Phenotypic records of 5000 animals, and 3794 genotypes for 614,274 SNPs were used. The BLUPF90 family programs were used through single step GWAS approach. The top 10 genomic regions from single-trait GWAS explained 13.64%, 15.12% and 13% of genetic variance of L*, a* and b*, which harbored 129, 70, and 84 candidate genes, respectively. Regarding multiple-trait GWAS, the top 10 SNP windows explained 17.46%, 18.98% and 13.74% of genetic variance of L*, a* and b*, and harbored 124, 86, and 82 candidate genes, respectively. Pleiotropic effects were evidenced by the overlapping regions detected on BTA 15 and 26 associated with L* and a* (genetic correlation of −0.53), and on BTA 18 associated with a* and b* (genetic correlation of 0.60). Similar genomic regions located on BTA 2, 5, 6, and 18 were detected through single and multi-trait GWAS. Overlapped regions harbored a total of 30 functional candidate genes involved in mitochondrial activity, structural integrity of muscles, lipid oxidation, anaerobic metabolism, and muscular pH. |
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Genome-wide association study identified genomic regions and putative candidate genes affecting meat color traits in Nellore cattleBeefGWASMuscle coloringVariationZebuSingle and multiple-trait GWAS were conducted to detect genomic regions and candidate genes associated with meat color traits (L*, lightness; a*, redness; b*, yellowness) in Nellore cattle. Phenotypic records of 5000 animals, and 3794 genotypes for 614,274 SNPs were used. The BLUPF90 family programs were used through single step GWAS approach. The top 10 genomic regions from single-trait GWAS explained 13.64%, 15.12% and 13% of genetic variance of L*, a* and b*, which harbored 129, 70, and 84 candidate genes, respectively. Regarding multiple-trait GWAS, the top 10 SNP windows explained 17.46%, 18.98% and 13.74% of genetic variance of L*, a* and b*, and harbored 124, 86, and 82 candidate genes, respectively. Pleiotropic effects were evidenced by the overlapping regions detected on BTA 15 and 26 associated with L* and a* (genetic correlation of −0.53), and on BTA 18 associated with a* and b* (genetic correlation of 0.60). Similar genomic regions located on BTA 2, 5, 6, and 18 were detected through single and multi-trait GWAS. Overlapped regions harbored a total of 30 functional candidate genes involved in mitochondrial activity, structural integrity of muscles, lipid oxidation, anaerobic metabolism, and muscular pH.Coordenação de Aperfeiçoamento de Pessoal de Nível Superior (CAPES)Conselho Nacional de Desenvolvimento Científico e Tecnológico (CNPq)São Paulo State University (Unesp) College of Agricultural and Veterinarian Sciences, Via de Acesso Professor Paulo Donato Castelane Castellane S/N - Vila IndustrialAPTA Beef Cattle Center Animal Science Institute, SertãozinhoSão Paulo State University (Unesp) College of Veterinary and Animal ScienceNational Council for Science and Technological Development (CNPq)São Paulo State University (Unesp) College of Agricultural and Veterinarian Sciences, Via de Acesso Professor Paulo Donato Castelane Castellane S/N - Vila IndustrialSão Paulo State University (Unesp) College of Veterinary and Animal ScienceUniversidade Estadual Paulista (Unesp)Animal Science InstituteNational Council for Science and Technological Development (CNPq)Marín-Garzón, N. A. [UNESP]Magalhães, A. F.B.Mota, L. F.M. [UNESP]Fonseca, L. F.S. [UNESP]Chardulo, L. A.L. [UNESP]Albuquerque, L. G. [UNESP]2021-06-25T11:04:12Z2021-06-25T11:04:12Z2021-01-01info:eu-repo/semantics/publishedVersioninfo:eu-repo/semantics/articlehttp://dx.doi.org/10.1016/j.meatsci.2020.108288Meat Science, v. 171.0309-1740http://hdl.handle.net/11449/20796910.1016/j.meatsci.2020.1082882-s2.0-85090908083Scopusreponame:Repositório Institucional da UNESPinstname:Universidade Estadual Paulista (UNESP)instacron:UNESPengMeat Scienceinfo:eu-repo/semantics/openAccess2021-10-23T17:52:09Zoai:repositorio.unesp.br:11449/207969Repositório InstitucionalPUBhttp://repositorio.unesp.br/oai/requestopendoar:29462021-10-23T17:52:09Repositório Institucional da UNESP - Universidade Estadual Paulista (UNESP)false |
dc.title.none.fl_str_mv |
Genome-wide association study identified genomic regions and putative candidate genes affecting meat color traits in Nellore cattle |
title |
Genome-wide association study identified genomic regions and putative candidate genes affecting meat color traits in Nellore cattle |
spellingShingle |
Genome-wide association study identified genomic regions and putative candidate genes affecting meat color traits in Nellore cattle Marín-Garzón, N. A. [UNESP] Beef GWAS Muscle coloring Variation Zebu |
title_short |
Genome-wide association study identified genomic regions and putative candidate genes affecting meat color traits in Nellore cattle |
title_full |
Genome-wide association study identified genomic regions and putative candidate genes affecting meat color traits in Nellore cattle |
title_fullStr |
Genome-wide association study identified genomic regions and putative candidate genes affecting meat color traits in Nellore cattle |
title_full_unstemmed |
Genome-wide association study identified genomic regions and putative candidate genes affecting meat color traits in Nellore cattle |
title_sort |
Genome-wide association study identified genomic regions and putative candidate genes affecting meat color traits in Nellore cattle |
author |
Marín-Garzón, N. A. [UNESP] |
author_facet |
Marín-Garzón, N. A. [UNESP] Magalhães, A. F.B. Mota, L. F.M. [UNESP] Fonseca, L. F.S. [UNESP] Chardulo, L. A.L. [UNESP] Albuquerque, L. G. [UNESP] |
author_role |
author |
author2 |
Magalhães, A. F.B. Mota, L. F.M. [UNESP] Fonseca, L. F.S. [UNESP] Chardulo, L. A.L. [UNESP] Albuquerque, L. G. [UNESP] |
author2_role |
author author author author author |
dc.contributor.none.fl_str_mv |
Universidade Estadual Paulista (Unesp) Animal Science Institute National Council for Science and Technological Development (CNPq) |
dc.contributor.author.fl_str_mv |
Marín-Garzón, N. A. [UNESP] Magalhães, A. F.B. Mota, L. F.M. [UNESP] Fonseca, L. F.S. [UNESP] Chardulo, L. A.L. [UNESP] Albuquerque, L. G. [UNESP] |
dc.subject.por.fl_str_mv |
Beef GWAS Muscle coloring Variation Zebu |
topic |
Beef GWAS Muscle coloring Variation Zebu |
description |
Single and multiple-trait GWAS were conducted to detect genomic regions and candidate genes associated with meat color traits (L*, lightness; a*, redness; b*, yellowness) in Nellore cattle. Phenotypic records of 5000 animals, and 3794 genotypes for 614,274 SNPs were used. The BLUPF90 family programs were used through single step GWAS approach. The top 10 genomic regions from single-trait GWAS explained 13.64%, 15.12% and 13% of genetic variance of L*, a* and b*, which harbored 129, 70, and 84 candidate genes, respectively. Regarding multiple-trait GWAS, the top 10 SNP windows explained 17.46%, 18.98% and 13.74% of genetic variance of L*, a* and b*, and harbored 124, 86, and 82 candidate genes, respectively. Pleiotropic effects were evidenced by the overlapping regions detected on BTA 15 and 26 associated with L* and a* (genetic correlation of −0.53), and on BTA 18 associated with a* and b* (genetic correlation of 0.60). Similar genomic regions located on BTA 2, 5, 6, and 18 were detected through single and multi-trait GWAS. Overlapped regions harbored a total of 30 functional candidate genes involved in mitochondrial activity, structural integrity of muscles, lipid oxidation, anaerobic metabolism, and muscular pH. |
publishDate |
2021 |
dc.date.none.fl_str_mv |
2021-06-25T11:04:12Z 2021-06-25T11:04:12Z 2021-01-01 |
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.meatsci.2020.108288 Meat Science, v. 171. 0309-1740 http://hdl.handle.net/11449/207969 10.1016/j.meatsci.2020.108288 2-s2.0-85090908083 |
url |
http://dx.doi.org/10.1016/j.meatsci.2020.108288 http://hdl.handle.net/11449/207969 |
identifier_str_mv |
Meat Science, v. 171. 0309-1740 10.1016/j.meatsci.2020.108288 2-s2.0-85090908083 |
dc.language.iso.fl_str_mv |
eng |
language |
eng |
dc.relation.none.fl_str_mv |
Meat Science |
dc.rights.driver.fl_str_mv |
info:eu-repo/semantics/openAccess |
eu_rights_str_mv |
openAccess |
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_ |
1799964749827407872 |