Identification of eQTLs associated with lipid metabolism in Longissimus dorsi muscle of pigs with different genetic backgrounds
Criado Mesas, Lourdes (Centre de Recerca en Agrigenòmica)
Ballester Devis, Maria (Institut de Biologie Structurale. Laboratoire de Cristallographie Macromoléculaire)
Crespo-Piazuelo, Daniel (Centre de Recerca en Agrigenòmica)
Castelló Farré, Anna (Centre de Recerca en Agrigenòmica)
Fernández Ávila, Ana Isabel (Instituto Nacional de Investigación y Tecnología Agraria y Alimentaria (Espanya). Departamento de Mejora Genética Animal)
Folch, Josep M. (Centre de Recerca en Agrigenòmica)
Universitat Autònoma de Barcelona. Departament de Ciència Animal i dels Aliments

Date:	2020
Abstract:	Intramuscular fat content and its fatty acid composition affect porcine meat quality and its nutritional value. The present work aimed to identify genomic variants regulating the expression in the porcine muscle (Longissimus dorsi) of 45 candidate genes for lipid metabolism and fatty acid composition in three experimental backcrosses based on the Iberian breed. Expression genome-wide association studies (eGWAS) were performed between the muscle gene expression values, measured by real-time quantitative PCR, and the genotypes of 38,426 SNPs distributed along all chromosomes. The eGWAS identified 186 eSNPs located in ten Sus scrofa regions and associated with the expression of ACSM5, ACSS2, ATF3, DGAT2, FOS and IGF2 (FDR < 0. 05) genes. Two expression quantitative trait loci (eQTLs) for IGF2 and ACSM5 were classified as cis-acting eQTLs, suggesting a mutation in the same gene affecting its expression. Conversely, ten eQTLs showed trans-regulatory effects on gene expression. When the eGWAS was performed for each backcross independently, only three common trans-eQTL regions were observed, indicating different regulatory mechanisms or allelic frequencies among the breeds. In addition, hotspot regions regulating the expression of several genes were detected. Our results provide new data to better understand the functional regulatory mechanisms of lipid metabolism genes in muscle.
Grants:	Ministerio de Economía y Competitividad AGL2014-56369-C2 Ministerio de Economía y Competitividad AGL2017-82641-R Ministerio de Economía y Competitividad RYC-2013-12573 Ministerio de Economía y Competitividad SEV-2015-0533
Note:	Altres ajuts: Ph.D grant from the Generalitat de Catalunya (ECO/1788/2014) i CERCA Programme/Generalitat de Catalunya
Rights:	Aquest document està subjecte a una llicència d'ús Creative Commons. Es permet la reproducció total o parcial, la distribució, la comunicació pública de l'obra i la creació d'obres derivades, fins i tot amb finalitats comercials, sempre i quan es reconegui l'autoria de l'obra original.
Language:	Anglès
Document:	Article ; recerca ; Versió publicada
Subject:	Animals ; Female ; Genetic background ; Genome-wide association study ; Lipid metabolism ; Male ; Muscle, Skeletal ; Quantitative trait loci ; Sex characteristics ; Swine ; Transcriptome
Published in:	Scientific reports, Vol. 10 (June 2020) , art. 9845, ISSN 2045-2322

DOI: 10.1038/s41598-020-67015-4
PMID: 32555447

13 p, 2.2 MB

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Research literature > UAB research groups literature > Research Centres and Groups (research output) > Experimental sciences > CRAG (Centre for Research in Agricultural Genomics)
Articles > Research articles
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