Genomic Regions Associated with Feed Efficiency Indicator Traits in an Experimental Nellore Cattle Population
Autor(a) principal: | |
---|---|
Data de Publicação: | 2016 |
Outros Autores: | , , , , , , |
Tipo de documento: | Artigo |
Idioma: | eng |
Título da fonte: | Repositório Institucional da UNESP |
Texto Completo: | http://dx.doi.org/10.1371/journal.pone.0164390 http://hdl.handle.net/11449/162086 |
Resumo: | The objective of this study was to identify genomic regions and metabolic pathways associated with dry matter intake, average daily gain, feed efficiency and residual feed intake in an experimental Nellore cattle population. The high-density SNP chip (Illumina High-Density Bovine BeadChip, 777k) was used to genotype the animals. The SNP markers effects and their variances were estimated using the single-step genome wide association method. The (co)variance components were estimated by Bayesian inference. The chromosome segments that are responsible for more than 1.0% of additive genetic variance were selected to explore and determine possible quantitative trait loci. The bovine genome Map Viewer was used to identify genes. In total, 51 genomic regions were identified for all analyzed traits. The heritability estimated for feed efficiency was low magnitude (0.13 +/- 0.06). For average daily gain, dry matter intake and residual feed intake, heritability was moderate to high (0.43 +/- 0.05; 0.47 +/- 0.05, 0.18 +/- 0.05, respectively). A total of 8, 17, 14 and 12 windows that are responsible for more than 1% of the additive genetic variance for dry matter intake, average daily gain, feed efficiency and residual feed intake, respectively, were identified. Candidate genes GOLIM4, RFX6, CACNG7, CACNG6, CAPN8, CAPN2, AKT2, GPRC6A, and GPR45 were associated with feed efficiency traits. It was expected that the response to selection would be higher for residual feed intake than for feed efficiency. Genomic regions harboring possible QTL for feed efficiency indicator traits were identified. Candidate genes identified are involved in energy use, metabolism protein, ion transport, transmembrane transport, the olfactory system, the immune system, secretion and cellular activity. The identification of these regions and their respective candidate genes should contribute to the formation of a genetic basis in Nellore cattle for feed efficiency indicator traits, and these results would support the selection for these traits. |
id |
UNSP_dd2d4bfcf5fdf74ece7695c56d03cd43 |
---|---|
oai_identifier_str |
oai:repositorio.unesp.br:11449/162086 |
network_acronym_str |
UNSP |
network_name_str |
Repositório Institucional da UNESP |
repository_id_str |
2946 |
spelling |
Genomic Regions Associated with Feed Efficiency Indicator Traits in an Experimental Nellore Cattle PopulationThe objective of this study was to identify genomic regions and metabolic pathways associated with dry matter intake, average daily gain, feed efficiency and residual feed intake in an experimental Nellore cattle population. The high-density SNP chip (Illumina High-Density Bovine BeadChip, 777k) was used to genotype the animals. The SNP markers effects and their variances were estimated using the single-step genome wide association method. The (co)variance components were estimated by Bayesian inference. The chromosome segments that are responsible for more than 1.0% of additive genetic variance were selected to explore and determine possible quantitative trait loci. The bovine genome Map Viewer was used to identify genes. In total, 51 genomic regions were identified for all analyzed traits. The heritability estimated for feed efficiency was low magnitude (0.13 +/- 0.06). For average daily gain, dry matter intake and residual feed intake, heritability was moderate to high (0.43 +/- 0.05; 0.47 +/- 0.05, 0.18 +/- 0.05, respectively). A total of 8, 17, 14 and 12 windows that are responsible for more than 1% of the additive genetic variance for dry matter intake, average daily gain, feed efficiency and residual feed intake, respectively, were identified. Candidate genes GOLIM4, RFX6, CACNG7, CACNG6, CAPN8, CAPN2, AKT2, GPRC6A, and GPR45 were associated with feed efficiency traits. It was expected that the response to selection would be higher for residual feed intake than for feed efficiency. Genomic regions harboring possible QTL for feed efficiency indicator traits were identified. Candidate genes identified are involved in energy use, metabolism protein, ion transport, transmembrane transport, the olfactory system, the immune system, secretion and cellular activity. The identification of these regions and their respective candidate genes should contribute to the formation of a genetic basis in Nellore cattle for feed efficiency indicator traits, and these results would support the selection for these traits.Fundação de Amparo à Pesquisa do Estado de São Paulo (FAPESP)Coordenação de Aperfeiçoamento de Pessoal de Nível Superior (CAPES)Univ Estadual Paulista, Fac Ciencias Agr & Vet, Dept Zootecnia, Via Acesso Prof Paulo Donato Castellane S-No, BR-14884900 Jaboticabal, SP, BrazilCtr Avancado Pesquisa Tecnol Agronegocio Bovinos, Inst Zootecnia, Rodovia Carlos Tonanni,Km 94, BR-14174000 Sertaozinho, SP, BrazilUniv Estadual Paulista, Fac Ciencias Agr & Vet, Dept Zootecnia, Via Acesso Prof Paulo Donato Castellane S-No, BR-14884900 Jaboticabal, SP, BrazilFAPESP: 2009/16118-5Public Library ScienceUniversidade Estadual Paulista (Unesp)Ctr Avancado Pesquisa Tecnol Agronegocio BovinosOlivieri, Bianca Ferreira [UNESP]Zerlotti Mercadante, Maria EugeniaSantos Goncalves Cyrillo, Joslaine Noely dosBranco, Renata HelenaMartins Bonilha, Sarah FigueiredoAlbuquerque, Lucia Galvao de [UNESP]Oliveira Silva, Rafael Medeiros de [UNESP]Baldi, Fernando [UNESP]2018-11-26T17:07:13Z2018-11-26T17:07:13Z2016-10-19info:eu-repo/semantics/publishedVersioninfo:eu-repo/semantics/article19application/pdfhttp://dx.doi.org/10.1371/journal.pone.0164390Plos One. San Francisco: Public Library Science, v. 11, n. 10, 19 p., 2016.1932-6203http://hdl.handle.net/11449/16208610.1371/journal.pone.0164390WOS:000386204000033WOS000386204000033.pdfWeb of Sciencereponame:Repositório Institucional da UNESPinstname:Universidade Estadual Paulista (UNESP)instacron:UNESPengPlos One1,164info:eu-repo/semantics/openAccess2024-06-07T18:39:54Zoai:repositorio.unesp.br:11449/162086Repositório InstitucionalPUBhttp://repositorio.unesp.br/oai/requestopendoar:29462024-08-05T14:28:46.397680Repositório Institucional da UNESP - Universidade Estadual Paulista (UNESP)false |
dc.title.none.fl_str_mv |
Genomic Regions Associated with Feed Efficiency Indicator Traits in an Experimental Nellore Cattle Population |
title |
Genomic Regions Associated with Feed Efficiency Indicator Traits in an Experimental Nellore Cattle Population |
spellingShingle |
Genomic Regions Associated with Feed Efficiency Indicator Traits in an Experimental Nellore Cattle Population Olivieri, Bianca Ferreira [UNESP] |
title_short |
Genomic Regions Associated with Feed Efficiency Indicator Traits in an Experimental Nellore Cattle Population |
title_full |
Genomic Regions Associated with Feed Efficiency Indicator Traits in an Experimental Nellore Cattle Population |
title_fullStr |
Genomic Regions Associated with Feed Efficiency Indicator Traits in an Experimental Nellore Cattle Population |
title_full_unstemmed |
Genomic Regions Associated with Feed Efficiency Indicator Traits in an Experimental Nellore Cattle Population |
title_sort |
Genomic Regions Associated with Feed Efficiency Indicator Traits in an Experimental Nellore Cattle Population |
author |
Olivieri, Bianca Ferreira [UNESP] |
author_facet |
Olivieri, Bianca Ferreira [UNESP] Zerlotti Mercadante, Maria Eugenia Santos Goncalves Cyrillo, Joslaine Noely dos Branco, Renata Helena Martins Bonilha, Sarah Figueiredo Albuquerque, Lucia Galvao de [UNESP] Oliveira Silva, Rafael Medeiros de [UNESP] Baldi, Fernando [UNESP] |
author_role |
author |
author2 |
Zerlotti Mercadante, Maria Eugenia Santos Goncalves Cyrillo, Joslaine Noely dos Branco, Renata Helena Martins Bonilha, Sarah Figueiredo Albuquerque, Lucia Galvao de [UNESP] Oliveira Silva, Rafael Medeiros de [UNESP] Baldi, Fernando [UNESP] |
author2_role |
author author author author author author author |
dc.contributor.none.fl_str_mv |
Universidade Estadual Paulista (Unesp) Ctr Avancado Pesquisa Tecnol Agronegocio Bovinos |
dc.contributor.author.fl_str_mv |
Olivieri, Bianca Ferreira [UNESP] Zerlotti Mercadante, Maria Eugenia Santos Goncalves Cyrillo, Joslaine Noely dos Branco, Renata Helena Martins Bonilha, Sarah Figueiredo Albuquerque, Lucia Galvao de [UNESP] Oliveira Silva, Rafael Medeiros de [UNESP] Baldi, Fernando [UNESP] |
description |
The objective of this study was to identify genomic regions and metabolic pathways associated with dry matter intake, average daily gain, feed efficiency and residual feed intake in an experimental Nellore cattle population. The high-density SNP chip (Illumina High-Density Bovine BeadChip, 777k) was used to genotype the animals. The SNP markers effects and their variances were estimated using the single-step genome wide association method. The (co)variance components were estimated by Bayesian inference. The chromosome segments that are responsible for more than 1.0% of additive genetic variance were selected to explore and determine possible quantitative trait loci. The bovine genome Map Viewer was used to identify genes. In total, 51 genomic regions were identified for all analyzed traits. The heritability estimated for feed efficiency was low magnitude (0.13 +/- 0.06). For average daily gain, dry matter intake and residual feed intake, heritability was moderate to high (0.43 +/- 0.05; 0.47 +/- 0.05, 0.18 +/- 0.05, respectively). A total of 8, 17, 14 and 12 windows that are responsible for more than 1% of the additive genetic variance for dry matter intake, average daily gain, feed efficiency and residual feed intake, respectively, were identified. Candidate genes GOLIM4, RFX6, CACNG7, CACNG6, CAPN8, CAPN2, AKT2, GPRC6A, and GPR45 were associated with feed efficiency traits. It was expected that the response to selection would be higher for residual feed intake than for feed efficiency. Genomic regions harboring possible QTL for feed efficiency indicator traits were identified. Candidate genes identified are involved in energy use, metabolism protein, ion transport, transmembrane transport, the olfactory system, the immune system, secretion and cellular activity. The identification of these regions and their respective candidate genes should contribute to the formation of a genetic basis in Nellore cattle for feed efficiency indicator traits, and these results would support the selection for these traits. |
publishDate |
2016 |
dc.date.none.fl_str_mv |
2016-10-19 2018-11-26T17:07:13Z 2018-11-26T17:07:13Z |
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/10.1371/journal.pone.0164390 Plos One. San Francisco: Public Library Science, v. 11, n. 10, 19 p., 2016. 1932-6203 http://hdl.handle.net/11449/162086 10.1371/journal.pone.0164390 WOS:000386204000033 WOS000386204000033.pdf |
url |
http://dx.doi.org/10.1371/journal.pone.0164390 http://hdl.handle.net/11449/162086 |
identifier_str_mv |
Plos One. San Francisco: Public Library Science, v. 11, n. 10, 19 p., 2016. 1932-6203 10.1371/journal.pone.0164390 WOS:000386204000033 WOS000386204000033.pdf |
dc.language.iso.fl_str_mv |
eng |
language |
eng |
dc.relation.none.fl_str_mv |
Plos One 1,164 |
dc.rights.driver.fl_str_mv |
info:eu-repo/semantics/openAccess |
eu_rights_str_mv |
openAccess |
dc.format.none.fl_str_mv |
19 application/pdf |
dc.publisher.none.fl_str_mv |
Public Library Science |
publisher.none.fl_str_mv |
Public Library Science |
dc.source.none.fl_str_mv |
Web of Science 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_ |
1808128364717801472 |