Genome-wide association study for backfat thickness in Canchim beef cattle using Random Forest approach

dc.contributor.authorMokry, Fabiana Barichello
dc.contributor.authorHiga, Roberto Hiroshi
dc.contributor.authorde Alvarenga Mudadu, Maurício
dc.contributor.authorOliveira de Lima, Andressa
dc.contributor.authorMeirelles, Sarah Laguna Conceição
dc.contributor.authorBarbosa da Silva, Marcos Vinicius Gualberto
dc.contributor.authorCardoso, Fernando Flores
dc.contributor.authorMorgado de Oliveira, Maurício
dc.contributor.authorUrbinati, Ismael [UNESP]
dc.contributor.authorMéo Niciura, Simone Cristina
dc.contributor.authorTullio, Rymer Ramiz
dc.contributor.authorMello de Alencar, Maurício
dc.contributor.authorCorreia de Almeida Regitano, Luciana
dc.contributor.institutionUniversidade Federal de São Carlos (UFSCar)
dc.contributor.institutionEmpresa Brasileira de Pesquisa Agropecuária (EMBRAPA)
dc.contributor.institutionFederal University of Lavras
dc.contributor.institutionUniversidade Estadual Paulista (Unesp)
dc.date.accessioned2014-05-27T11:29:39Z
dc.date.available2014-05-27T11:29:39Z
dc.date.issued2013-06-05
dc.description.abstractBackground: Meat quality involves many traits, such as marbling, tenderness, juiciness, and backfat thickness, all of which require attention from livestock producers. Backfat thickness improvement by means of traditional selection techniques in Canchim beef cattle has been challenging due to its low heritability, and it is measured late in an animal's life. Therefore, the implementation of new methodologies for identification of single nucleotide polymorphisms (SNPs) linked to backfat thickness are an important strategy for genetic improvement of carcass and meat quality.Results: The set of SNPs identified by the random forest approach explained as much as 50% of the deregressed estimated breeding value (dEBV) variance associated with backfat thickness, and a small set of 5 SNPs were able to explain 34% of the dEBV for backfat thickness. Several quantitative trait loci (QTL) for fat-related traits were found in the surrounding areas of the SNPs, as well as many genes with roles in lipid metabolism.Conclusions: These results provided a better understanding of the backfat deposition and regulation pathways, and can be considered a starting point for future implementation of a genomic selection program for backfat thickness in Canchim beef cattle. © 2013 Mokry et al.; licensee BioMed Central Ltd.en
dc.description.affiliationDepartment of Genetics and Evolution Federal University of São Carlos, Rodovia Washington Luiz, km 235, Po Box 676, 13565-905 São Carlos
dc.description.affiliationEmbrapa Agricultural Informatics, Avenida André Tosello, 209, Po Box 6041, 13083-886 Campinas
dc.description.affiliationEmbrapa Southeast Livestock, Rodovia Washington Luiz, km 234 PO BOX 339, 13560-970 São Carlos
dc.description.affiliationDepartment of Animal Science Federal University of Lavras, Po Box 3037, 37200-00 Lavras
dc.description.affiliationEmbrapa Dairy Cattle, Rua Eugênio do Nascimento, 610, 36038-330 Juiz de Fora
dc.description.affiliationEmbrapa Southern Region Animal Husbandry, BR 153, km 603, PO BOX 242, 96401-970 Bagé
dc.description.affiliationDepartment of Exact Science São Paulo State University, Po Box 53453, 14884-900 Jaboticabal
dc.description.affiliationUnespDepartment of Exact Science São Paulo State University, Po Box 53453, 14884-900 Jaboticabal
dc.identifierhttp://dx.doi.org/10.1186/1471-2156-14-47
dc.identifier.citationBMC Genetics, v. 14.
dc.identifier.doi10.1186/1471-2156-14-47
dc.identifier.file2-s2.0-84878424253.pdf
dc.identifier.issn1471-2156
dc.identifier.scopus2-s2.0-84878424253
dc.identifier.urihttp://hdl.handle.net/11449/75614
dc.identifier.wosWOS:000320278500001
dc.language.isoeng
dc.relation.ispartofBMC Genetics
dc.relation.ispartofjcr2.469
dc.relation.ispartofsjr1,160
dc.rights.accessRightsAcesso aberto
dc.sourceScopus
dc.subjectBovine
dc.subjectLipid metabolism
dc.subjectMachine learning
dc.subjectSingle nucleotide polymorphism (SNP)
dc.subjectSubcutaneous fat
dc.subjectTropical composite cattle
dc.subjectlipid
dc.subjectanimal experiment
dc.subjectbackfat thickness
dc.subjectbeef cattle
dc.subjectbreeding
dc.subjectcarcass
dc.subjectcontrolled study
dc.subjectderegressed estimated breeding value
dc.subjectfat mass
dc.subjectfemale
dc.subjectfood quality
dc.subjectgenetic analysis
dc.subjectgenetic association
dc.subjectlipid metabolism
dc.subjectmale
dc.subjectmeat
dc.subjectnonhuman
dc.subjectquantitative trait locus
dc.subjectrandom forest
dc.subjectsingle nucleotide polymorphism
dc.subjectsubcutaneous fat
dc.subjectAnimalia
dc.subjectBos
dc.subjectBovinae
dc.titleGenome-wide association study for backfat thickness in Canchim beef cattle using Random Forest approachen
dc.typeArtigo
dcterms.licensehttp://www.biomedcentral.com/about/license
unesp.campusUniversidade Estadual Paulista (Unesp), Faculdade de Ciências Agrárias e Veterinárias, Jaboticabalpt

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