Novel putative causal mutations associated with fat traits in Nellore cattle uncovered by eQTLs located in open chromatin regions.

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dc.contributorINGRID SOARES GARCIA, UNIVERSIDADE DE SÃO PAULO; BÁRBARA SILVA-VIGNATO, UNIVERSIDADE DE SÃO PAULO; ALINE SILVA MELLO CESAR, UNIVERSIDADE DE SÃO PAULO; JULIANA PETRINI, UNIVERSIDADE DE SÃO PAULO; VINICIUS HENRIQUE DA SILVA, UNIVERSIDADE DE SÃO PAULO; NATÁLIA SILVA MOROSINI, UNIVERSIDADE DE SÃO PAULO; CAROLINA PURCELL GOES, UNIVERSIDADE DE SÃO PAULO; JULIANA AFONSO; THAÍS RIBEIRO DA SILVA, UNIVERSIDADE DE SÃO PAULO; BEATRIZ DELCARME LIMA, UNIVERSIDADE DE SÃO PAULO; LUAN GASPAR CLEMENTE, UNIVERSIDADE DE SÃO PAULO; LUCIANA CORREIA DE ALMEIDA REGITANO, CPPSE; GERSON BARRETO MOURÃO, UNIVERSIDADE DE SÃO PAULO; LUIZ LEHMANN COUTINHO, UNIVERSIDADE DE SÃO PAULO.
dc.creatorGARCIA, I. S.
dc.creatorVIGNATO, B. S.
dc.creatorCESAR, A. S. M.
dc.creatorPETRINI, J.
dc.creatorSILVA, V. H. DA
dc.creatorMOROSINI, N. S.
dc.creatorGOES, C. P.
dc.creatorAFONSO, J.
dc.creatorSILVA, T. R. DA
dc.creatorLIMA, B. D.
dc.creatorCLEMENTE, L. G.
dc.creatorREGITANO, L. C. de A.
dc.creatorMOURÃO, G. B.
dc.creatorCOUTINHO, L. L.
dc.date2025-02-21T18:47:56Z
dc.date2025-02-21T18:47:56Z
dc.date2025-02-21
dc.date2024
dc.date.accessioned2026-07-07T05:34:08Z
dc.descriptionIntramuscular fat (IMF) and backfat thickness (BFT) are critical economic traits impacting meat quality. However, the genetic variants controlling these traits need to be better understood. To advance knowledge in this area, we integrated RNA-seq and single nucleotide polymorphisms (SNPs) identified in genomic and transcriptomic data to generate a linkage disequilibrium filtered panel of 553,581 variants. Expression quantitative trait loci (eQTL) analysis revealed 36,916 cis-eQTLs and 14,408 trans-eQTLs. We next used ATAC-Seq assay to identify and overlap eQTL and open chromatin regions. Six eQTLs were in regulatory regions, four in predicted insulators and possible CCCTC-binding factor DNA binding sites, one in an active enhancer region, and the last in a low signal region. Our results provided novel insights into the transcriptional regulation of IMF and BFT, unraveling putative regulatory variants.
dc.identifierScientific Reports, v. 14, 10094, 2024.
dc.identifierhttp://www.alice.cnptia.embrapa.br/alice/handle/doc/1173217
dc.identifierhttps://doi.org/10.1038/s41598-024-60703-5
dc.identifier.urihttp://hdl.handle.net/123456789/495265
dc.languageeng
dc.rightsopenAccess
dc.subjectBackfat thickness
dc.subjectExpression quantitative trait loci
dc.subjectRegulatory variants
dc.subjectCytoskeleton remodeling
dc.subjectIron transport
dc.subjectPhospholipid metabolism
dc.subjectIntramuscular fat
dc.subjectImmune response
dc.titleNovel putative causal mutations associated with fat traits in Nellore cattle uncovered by eQTLs located in open chromatin regions.
dc.typeArtigo de periódico

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