With the aim of deciphering genetic variants affecting gene expression levels of duodenum, liver and muscle, the DNA and RNA of 300 pigs from three different breeds (Duroc, Landrace and Large White) was extracted and sequenced. After filtering and normalizing both the genomic and the transcriptomic datasets, expression genome-wide association studies (eGWAS) were conducted between 25,315,878 polymorphisms and the expression of 16,753 genes in duodenum, 15,710 genes in liver, and 13,887 genes in muscle. In total, more than 1.17×1012 combinations were performed, obtaining 19,926,590 significantly associated polymorphisms, which were grouped in 148,639 expression quantitative trait locus (eQTL) regions. Half of the polymorphisms were located in close proximity to their associated gene, but only 7,773 cis-eQTL regions were defined, the remaining being trans-eQTLs regions. Out of the cis-eQTL regions, 18 shared the same top polymorphism among the three tissues; thus, they were considered the strongest candidates for gene expression regulation.
Proceedings of 12th World Congress on Genetics Applied to Livestock Production (WCGALP)
Technical and species orientated innovations in animal breeding, and contribution of genetics to solving societal challenges
EditorsR.F. Veerkamp and Y. de Haas
Published: 2022 Pages: 3364
eISBN: 978-90-8686-940-4
Book Type: Conference Proceedings
524. Deciphering genetic variants from whole genome affecting duodenum, liver and muscle transcriptomes in pigs
D. Crespo-Piazuelo Related information
1Animal Breeding and Genetics Program, IRTA, Torre Marimon, 08140 Caldes de Montbui, Spain.
*Corresponding author: daniel. crespo@irta. cat
, O. González-Rodríguez Related information*Corresponding author: daniel.
1Animal Breeding and Genetics Program, IRTA, Torre Marimon, 08140 Caldes de Montbui, Spain.
, M. Mongellaz Related information2INRAE GABI, Domaine de Vilvert, 78350 Jouy-en-Josas, France.
, H. Acloque Related information2INRAE GABI, Domaine de Vilvert, 78350 Jouy-en-Josas, France.
, M.-J. Mercat Related information3IFIP-Institut du porc and Alliance R&D, La Motte au Vicomte, 35651 Le Rheu, France.
, M.C.A.M. Bink Related information4Hendrix Genetics, P.O. Box 114, 5830 AC Boxmeer, the Netherlands.
, A.E. Huisman Related information4Hendrix Genetics, P.O. Box 114, 5830 AC Boxmeer, the Netherlands.
, Y. Ramayo-Caldas Related information1Animal Breeding and Genetics Program, IRTA, Torre Marimon, 08140 Caldes de Montbui, Spain.
, J.P. Sánchez Related information1Animal Breeding and Genetics Program, IRTA, Torre Marimon, 08140 Caldes de Montbui, Spain.
, M. Ballester Related information1Animal Breeding and Genetics Program, IRTA, Torre Marimon, 08140 Caldes de Montbui, Spain.
Pages: 2174 - 2177
Published Online: February 09, 2023
Abstract: