Genome-wide analysis of porcine backfat and intramuscular fat fatty acid composition using high-density genotyping and expression data
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Author
Muñoz, María
Rodríguez, M Carmen
Alves, Estefânia
Folch, Josep María
Silió, Luis
Fernández, Ana Isabel
Publication date
2013-12-02ISSN
1471-2164
Abstract
Background: Porcine fatty acid composition is a key factor for quality and nutritive value of pork. Several QTLs for
fatty acid composition have been reported in diverse fat tissues. The results obtained so far seem to point out
different genetic control of fatty acid composition conditional on the fat deposits. Those studies have been
conducted using simple approaches and most of them focused on one single tissue. The first objective of the
present study was to identify tissue-specific and tissue-consistent QTLs for fatty acid composition in backfat and
intramuscular fat, combining linkage mapping and GWAS approaches and conducted under single and multitrait
models. A second aim was to identify powerful candidate genes for these tissue-consistent QTLs, using microarray
gene expression data and following a targeted genetical genomics approach.
Results: The single model analyses, linkage and GWAS, revealed over 30 and 20 chromosomal regions, 24 of them
identified here for the first time, specifically associated to the content of diverse fatty acids in BF and IMF,
respectively. The analyses with multitrait models allowed identifying for the first time with a formal statistical
approach seven different regions with pleiotropic effects on particular fatty acids in both fat deposits. The most
relevant were found on SSC8 for C16:0 and C16:1(n-7) fatty acids, detected by both linkage and GWAS approaches.
Other detected pleiotropic regions included one on SSC1 for C16:0, two on SSC4 for C16:0 and C18:2, one on
SSC11 for C20:3 and the last one on SSC17 for C16:0. Finally, a targeted eQTL scan focused on regions showing
tissue-consistent effects was conducted with Longissimus and fat gene expression data. Some powerful candidate
genes and regions were identified such as the PBX1, RGS4, TRIB3 and a transcription regulatory element close to
ELOVL6 gene to be further studied.
Conclusions: Complementary genome scans have confirmed several chromosome regions previously associated
to fatty acid composition in backfat and intramuscular fat, but even more, to identify new ones. Although most
of the detected regions were tissue-specific, supporting the hypothesis that the major part of genes affecting
fatty acid composition differs among tissues, seven chromosomal regions showed tissue-consistent effects.
Additional gene expression analyses have revealed powerful target regions to carry the mutation responsible for
the pleiotropic effects.
Document Type
Article
Document version
Published version
Language
English
Subject (CDU)
636 - Animal husbandry and breeding in general. Livestock rearing. Breeding of domestic animals
Pages
15
Publisher
BMC
Is part of
BMC Genomics
Citation
Muñoz, María, M Carmen Rodríguez, Estefânia Alves, Josep María Folch, Noelia Ibañez-Escriche, Luis Silió, and Ana Isabel Fernández. 2013. "Genome-Wide Analysis Of Porcine Backfat And Intramuscular Fat Fatty Acid Composition Using High-Density Genotyping And Expression Data". BMC Genomics 14 (1): 845. doi:10.1186/1471-2164-14-845.
Grant agreement number
MICINN/Programa Nacional de Proyectos de Investigación Fundamental/AGL2011-29821-C02/ES/APLICACION DE METODOS DE SECUENCIACION PARALELA MASIVA Y GENOMICA AL ESTUDIO DE VARIANTES GENICAS QUE REGULAN: CRECIMIENTO, CONFORMACION Y CALIDAD DE CARNE EN CERDO.SUBPROYECTO2/
Program
Genètica i Millora Animal
This item appears in the following Collection(s)
- ARTICLES CIENTÍFICS [2575]
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