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Systems Genetics Analysis of Obesity using RNA-Seq Data in an F2 Pig Resource Population

Monday, August 18, 2014: 4:15 PM
Bayshore Grand Ballroom A (The Westin Bayshore)
Lisette JA Kogelman , Department of Clinical Veterinary and Animal Sciences, Faculty of Health and Medical Sciences, University of Copenhagen, Copenhagen, Denmark
Daria V Zhernakova , Department of Genetics, University Medical Center Groningen, Groningen, Netherlands
Harm-Jan Westra , Department of Genetics, University Medical Center Groningen, Groningen, Netherlands
Susanna Cirera , Department of Clinical Veterinary and Animal Sciences, Faculty of Health and Medical Sciences, University of Copenhagen, Copenhagen, Denmark
Merete Fredholm , Department of Clinical Veterinary and Animal Sciences, Faculty of Health and Medical Sciences, University of Copenhagen, Copenhagen, Denmark
Lude Franke , Department of Genetics, University Medical Center Groningen, Groningen, Netherlands
Haja N Kadarmideen , Department of Clinical Veterinary and Animal Sciences, Faculty of Health and Medical Sciences, University of Copenhagen, Copenhagen, Denmark
Abstract Text: Obesity is a complex problem, associated with many diseases. Microarray gene expression data have been extensively used to detect differentially expressed (DE) genes and expression quantitative trait loci (eQTL), however, RNA-Sequencing data have the potential to reveal novel genes involved in complex traits. The objective was to elucidate biological pathways and potential biomarkers for obesity in a porcine model, by systems genetics approaches using RNA-Sequencing data. Previously, we created an F2 pig population which was deeply phenotyped and genotyped. Based on their degree of obesity, 36 animals were selected for RNA-Sequencing.  Analysis included DE, pathway detection and eQTL mapping. We identified 198 DE genes, which could be divided in immune and developmental related processes. Furthermore, we revealed 761 cis-eQTLs of which several could be linked to obesity. Concluding, systems genetics analysis of RNA-Seq data elucidated biologically relevant pathways and potential genetic biomarkers affecting obesity.

Keywords: Animal model, RNA-Sequencing

See more of: Genetics of Trait Complexes: Growth and Development
See more of: Genetics of Trait Complexes: Growth and development
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