Integration of liver gene co-expression networks and eGWAs analyses highlighted candidate regulators implicated in lipid metabolism in pigs
Ballester Devis, Maria (Centre de Recerca en Agrigenòmica)
Ramayo-Caldas, Yuliaxis (Centre de Recerca en Agrigenòmica)
Revilla Sánchez, Manuel (Centre de Recerca en Agrigenòmica)
Corominas Galbany, Jordi (Centre de Recerca en Agrigenòmica)
Castelló Farré, Anna (Centre de Recerca en Agrigenòmica)
Estellé, Jordi (Institut national de la recherche agronomique (França). Génétique Animale et Biologie Intégrative)
Fernández Ávila, Ana Isabel (Instituto Nacional de Investigación y Tecnología Agraria y Alimentaria (Espanya))
Folch, Josep M. (Centre de Recerca en Agrigenòmica)

Date:	2017
Abstract:	In the present study, liver co-expression networks and expression Genome Wide Association Study (eGWAS) were performed to identify DNA variants and molecular pathways implicated in the functional regulatory mechanisms of meat quality traits in pigs. With this purpose, the liver mRNA expression of 44 candidates genes related with lipid metabolism was analysed in 111 Iberian x Landrace backcross animals. The eGWAS identified 92 eSNPs located in seven chromosomal regions and associated with eight genes: CROT, CYP2U1, DGAT1, EGF, FABP1, FABP5, PLA2G12A, and PPARA. Remarkably, cis-eSNPs associated with FABP1 gene expression which may be determining the C18:2(n-6)/C18:3(n-3) ratio in backfat through the multiple interaction of DNA variants and genes were identified. Furthermore, a hotspot on SSC8 associated with the gene expression of eight genes was identified and the TBCK gene was pointed out as candidate gene regulating it. Our results also suggested that the PI3K-Akt-mTOR pathway plays an important role in the control of the analysed genes highlighting nuclear receptors as the NR3C1 or PPARA. Finally, sex-dimorphism associated with hepatic lipid metabolism was identified with over-representation of female-biased genes. These results increase our knowledge of the genetic architecture underlying fat composition traits.
Grants:	Ministerio de Economía y Competitividad AGL2014-56369-C2 Ministerio de Economía y Competitividad RYC-2013-12573 Ministerio de Economía y Competitividad AGL2011-29821-C02 Ministerio de Educación y Ciencia BES-2009-081223
Note:	Altres ajuts: M. Revilla was funded by a Formació i Contractació de Personal Investigador Novell (FI-DGR) PhD grant from Generalitat de Catalunya(ECO/1639/2013).
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:	Gene expression ; Gene expression profiling
Published in:	Scientific reports, Vol. 7 (April 2017) , art. 46539, ISSN 2045-2322

DOI: 10.1038/srep46539
PMID: 28422154

11 p, 1.2 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
Articles > Published articles