ArticleBMC genomics2010
Identification of expression QTL (eQTL) of genes expressed in porcine M. longissimus dorsi and associated with meat quality traits.
Article in BMC genomics, 2010. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 20 papers.
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Who cites it
20 citing papers in PubMed, 36 citations in OpenAlex.
- RNA-Seq-based discovery of genetic variants and allele-specific expression of two layer lines and broiler chicken.Evolutionary applications · 2023Article
- Genome-Wide Identification of Cis-acting Expression QTLs in Large Yellow Croaker.Marine biotechnology (New York, N.Y.) · 2021Article
- Genome-wide analysis of expression QTL (eQTL) and allele-specific expression (ASE) in pig muscle identifies candidate genes for meat quality traits.Genetics, selection, evolution : GSE · 2020Article
- Effects of nicotinamide and sodium butyrate on meat quality and muscle ubiquitination degradation genes in broilers reared at a high stocking density.Poultry science · 2020Article
- About the existence of common determinants of gene expression in the porcine liver and skeletal muscle.BMC genomics · 2019Article
- Deciphering the genetic regulation of peripheral blood transcriptome in pigs through expression genome-wide association study and allele-specific expression analysis.BMC genomics · 2017Article
- Multi-omic data integration and analysis using systems genomics approaches: methods and applications in animal production, health and welfare.Genetics, selection, evolution : GSE · 2016Review
- Identification of common regulators of genes in co-expression networks affecting muscle and meat properties.PloS one · 2015Article
- A splice mutation in the PHKG1 gene causes high glycogen content and low meat quality in pig skeletal muscle.PLoS genetics · 2014Article
- UBXN1 polymorphism and its expression in porcine M. longissimus dorsi are associated with water holding capacity.Molecular biology reports · 2014Article
- Discovery of candidate genes for muscle traits based on GWAS supported by eQTL-analysis.International journal of biological sciences · 2014Article
- A genetical genomics approach reveals new candidates and confirms known candidate genes for drip loss in a porcine resource population.Mammalian genome : official journal of the International Mammalian Genome Society · 2013Article
- Elucidating molecular networks that either affect or respond to plasma cortisol concentration in target tissues of liver and muscle.Genetics · 2012Article
- Statistical properties of interval mapping methods on quantitative trait loci location: impact on QTL/eQTL analyses.BMC genetics · 2012Article
- The genetic pleiotropy of musculoskeletal aging.Frontiers in physiology · 2012Article
- Construction of a pig physical interactome using sequence homology and a comprehensive reference human interactome.Evolutionary bioinformatics online · 2012Article
- Genetic architecture of gene expression in ovine skeletal muscle.BMC genomics · 2011Article
- Article
- Integrating expression profiling and whole-genome association for dissection of fat traits in a porcine model.Journal of lipid research · 2011Article
- Genome-wide linkage analysis of global gene expression in loin muscle tissue identifies candidate genes in pigs.PloS one · 2011Article
Corrections and comments
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Authors and funding
5 authors at 2 institutions in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
backgroundGenetic analysis of transcriptional profiles is a promising approach for identifying and dissecting the genetics of complex traits like meat performance. Accordingly, expression levels obtained by microarray analysis were taken as phenotypes in a linkage analysis to map eQTL. Moreover, expression levels were correlated with traits related to meat quality and principle components with high loadings of these traits. By using an up-to-date annotation and localization of the respective probe-sets, the integration of eQTL mapping data and information of trait correlated expression finally served to point to candidate genes for meat quality traits.
resultsGenome-wide transcriptional profiles of M. longissimus dorsi RNAs samples of 74 F2 animals of a pig resource population revealed 11,457 probe-sets representing genes expressed in the muscle. Linkage analysis of expression levels of these probe-sets provided 9,180 eQTL at the suggestive significance threshold of LOD > 2. We mapped 653 eQTL on the same chromosome as the corresponding gene and these were designated as 'putative cis-eQTL'. In order to link eQTL to the traits of interest, probe-sets were addressed with relative transcript abundances that showed correlation with meat quality traits at p ≤ 0.05. Out of the 653 'putative cis-eQTL', 262 transcripts were correlated with at least one meat quality trait. Furthermore, association of expression levels with composite traits with high loadings for meat quality traits generated by principle component analysis were taken into account leading to a list of 85 genes exhibiting cis-eQTL and trait dependent expression.
conclusionHolistic expression profiling was integrated with QTL analysis for meat quality traits. Correlations between transcript abundance and meat quality traits, combined with genetic positional information of eQTL allowed us to prioritise candidate genes for further study.
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