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dc.contributor.authorVIGNATO, B. S.
dc.contributor.authorCESAR, A. S. M.
dc.contributor.authorAFONSO, J.
dc.contributor.authorMOREIRA, G. C. M.
dc.contributor.authorPOLETI, M. D.
dc.contributor.authorPETRINI, J.
dc.contributor.authorGARCIA, I. S.
dc.contributor.authorCLEMENTE, L. G.
dc.contributor.authorMOURÃO, G. B.
dc.contributor.authorREGITANO, L. C. de A.
dc.contributor.authorCOUTINHO, L. L.
dc.date.accessioned2022-08-31T17:19:21Z-
dc.date.available2022-08-31T17:19:21Z-
dc.date.created2022-08-31
dc.date.issued2022
dc.identifier.citationFrontiers in Genetics, v. 13, 935238, aug. 2022.
dc.identifier.urihttp://www.alice.cnptia.embrapa.br/alice/handle/doc/1145918-
dc.descriptionUnderstanding the architecture of gene expression is fundamental to unravel the molecular mechanisms regulating complex traits in bovine, such as intramuscular fat content (IMF) and backfat thickness (BFT). These traits are economically important for the beef industry since they affect carcass and meat quality. Our main goal was to identify gene expression regulatory polymorphisms within genomic regions (QTL) associated with IMF and BFT in Nellore cattle. For that, we used RNA-Seq data from 193 Nellore steers to perform SNP calling analysis. Then, we combined the RNA-Seq SNP and a high-density SNP panel to obtain a new dataset for further genome-wide association analysis (GWAS), totaling 534,928 SNPs. GWAS was performed using the Bayes B model. Twenty-one relevant QTL were associated with our target traits. The expression quantitative trait loci (eQTL) analysis was performed using Matrix eQTL with the complete SNP dataset and 12,991 genes, revealing a total of 71,033 cis and 36,497 trans-eQTL (FDR < 0.05). Intersecting with QTL for IMF, we found 231 eQTL regulating the expression levels of 117 genes. Within those eQTL, three predicted deleterious SNPs were identified. We also identified 109 eQTL associated with BFT and affecting the expression of 54 genes. This study revealed genomic regions and regulatory SNPs associated with fat deposition in Nellore cattle. We highlight the transcription factors FOXP4, FOXO3, ZSCAN2, and EBF4, involved in lipid metabolism-related pathways. These results helped us to improve our knowledge about the genetic architecture behind important traits in cattle.
dc.language.isoeng
dc.rightsopenAccess
dc.subjectBackfat thickness
dc.subjectCarcass and meat quality
dc.subjectExpression quantitative trait loci
dc.subjectIntramuscular fat content
dc.subjectRNA Seq
dc.subjectSNP
dc.subjectNellore cattle
dc.titleIntegrative analysis between genome-wide association study and expression quantitative trait Loci reveals bovine muscle gene expression regulatory polymorphisms associated with intramuscular fat and backfat thickness.
dc.typeArtigo de periódico
dc.subject.nalthesaurusNellore
dc.format.extent215 p.
riaa.ainfo.id1145918
riaa.ainfo.lastupdate2022-08-31
dc.identifier.doi10.3389/fgene.2022.935238
dc.contributor.institutionBÁRBARA SILVA VIGNATO, UNIVERSIDADE DE SÃO PAULO
dc.contributor.institutionALINE SILVA MELLO CESAR, UNIVERSIDADE DE SÃO PAULOeng
dc.contributor.institutionJULIANA AFONSO, UNIVERSIDADE FEDERAL DE SÃO CARLOSeng
dc.contributor.institutionGABRIEL COSTA MONTEIRO MOREIRA, UNIVERSIDADE DE SÃO PAULOeng
dc.contributor.institutionMIRELE DAIANA POLETI, UNIVERSIDADE DE SÃO PAULOeng
dc.contributor.institutionJULIANA PETRINI, UNIVERSIDADE DE SÃO PAULOeng
dc.contributor.institutionINGRID SOARES GARCIA, UNIVERSIDADE DE SÃO PAULOeng
dc.contributor.institutionLUAN GASPAR CLEMENTE, UNIVERSIDADE DE SÃO PAULOeng
dc.contributor.institutionGERSON BARRETO MOURÃO, UNIVERSIDADE DE SÃO PAULOeng
dc.contributor.institutionLUCIANA CORREIA DE ALMEIDA REGITANO, CPPSEeng
dc.contributor.institutionLUIZ LEHMANN COUTINHO, UNIVERSIDADE DE SÃO PAULO.eng
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