02705naa a2200421 a 450000100080000000500110000800800410001902400480006010000210010824501690012926000090029852014320030765000090173965000200174865000140176865000350178265000140181765300310183165300080186265300190187065300330188965300230192265300410194570000190198670000230200570000200202870000150204870000150206370000210207870000220209970000160212170000210213770000230215870000190218170000200220070000260222077300370224621511492023-01-23       2022    bl uuuu     u00u1 u    #d7 ahttps://doi.org/10.3390/ genes131223362DOI1 aBRUSCADIN, J. J.  aDifferential allele-specific expression revealed functional variants and candidate genes related to meat quality traits in B. indicus muscle.h[electronic resource]  c2022  aAbstract: Traditional transcriptomics approaches have been used to identify candidate genes affecting economically important livestock traits. Regulatory variants affecting these traits, however, remain under covered. Genomic regions showing allele-specific expression (ASE) are under the effect of cis-regulatory variants, being useful for improving the accuracy of genomic selection models. Taking advantage of the better of these two methods, we investigated single nucleotide polymorphisms (SNPs) in regions showing differential ASE (DASE SNPs) between contrasting groups for beef quality traits. For these analyses, we used RNA sequencing data, imputed genotypes and genomic estimated breeding values of muscle-related traits from 190 Nelore (Bos indicus) steers. We selected 40 contrasting unrelated samples for the analysis (N = 20 animals per contrasting group) and used a beta-binomial model to identify ASE SNPs in only one group (i.e., DASE SNPs). We found 1479 DASE SNPs (FDR  0.05) associated with 55 beef-quality traits. Most DASE genes were involved with tenderness and muscle homeostasis, presenting a co-expression module enriched for the protein ubiquitination process. The results overlapped with epigenetics and phenotype-associated data, suggesting that DASE SNPs are potentially linked to cis-regulatory variants affecting simultaneously the transcription and phenotype through chromatin state modulation.  aBeef  aGene expression  aPhenotype  aSingle nucleotide polymorphism  aFenótipo  aAllele-specific expression  aASE  aCis-regulation  aExpressão alelo específica  aExpressão gênica  aPolimorfismos de nucleotídeo único1 aCARDOSO, T. F.1 aDINIZ, W. J. da S.1 aSOUZA, M. M. de1 aAFONSO, J.1 aVIEIRA, D.1 aMALHEIROS, J. M.1 aANDRADE, B. G. N.1 aPETRINI, J.1 aFERRAZ, J. B. S.1 aZERLOTINI NETO, A.1 aMOURÃO, G. B.1 aCOUTINHO, L. L.1 aREGITANO, L. C. de A.  tGenesgv. 13, n. 12, 2336, 2022.