ArticlePloS one2011
Genome-wide linkage analysis of global gene expression in loin muscle tissue identifies candidate genes in pigs.
Article in PloS one, 2011. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 30 papers, 1 of them a synthesis that pooled it.
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Who cites it
30 citing papers in PubMed, 1 synthesis or guideline pooled it, 56 citations in OpenAlex.
- Meta-analysis of genome-wide association studies for loin muscle area and loin muscle depth in two Duroc pig populations.PloS one · 2019Pooled it
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- Placental Transcriptome Analysis in Connection with Low Litter Birth Weight Phenotype (LBWP) Sows.Genes · 2024Article
- Gene expression variation underlying tissue-specific responses to copper stress in Drosophila melanogaster.G3 (Bethesda, Md.) · 2024Article
- Identification of eQTLs using different sets of single nucleotide polymorphisms associated with carcass and body composition traits in pigs.BMC genomics · 2024Article
- Functional identification ofFrontiers in veterinary science · 2023Article
- Integrated Genome-Wide Analysis of MicroRNA Expression Quantitative Trait Loci in Pig Longissimus Dorsi Muscle.Frontiers in genetics · 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
- Identification of eQTLs and sQTLs associated with meat quality in beef.BMC genomics · 2020Article
- Genome-wide association study for carcass quality traits and growth in purebred and crossbred pigs1.Journal of animal science · 2020Article
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- About the existence of common determinants of gene expression in the porcine liver and skeletal muscle.BMC genomics · 2019Article
- Comparing the mRNA expression profile and the genetic determinism of intramuscular fat traits in the porcine gluteus medius and longissimus dorsi muscles.BMC genomics · 2019Article
- Genetic control of longissimus dorsi muscle gene expression variation and joint analysis with phenotypic quantitative trait loci in pigs.BMC genomics · 2019Article
- Using genome wide association studies to identify common QTL regions in three different genetic backgrounds based on Iberian pig breed.PloS one · 2018Article
- Profiling and characterization of aGenomics data · 2017Article
- Discovering Single Nucleotide Polymorphisms Regulating Human Gene Expression Using Allele Specific Expression from RNA-seq Data.Genetics · 2016Article
- Multi-omic data integration and analysis using systems genomics approaches: methods and applications in animal production, health and welfare.Genetics, selection, evolution : GSE · 2016Review
- Gene map of large yellow croaker (Larimichthys crocea) provides insights into teleost genome evolution and conserved regions associated with growth.Scientific reports · 2015Article
- Exploring causal networks underlying fat deposition and muscularity in pigs through the integration of phenotypic, genotypic and transcriptomic data.BMC systems biology · 2015Article
Corrections and comments
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Authors and funding
11 authors at 3 institutions in 2 countries.
Funding
No grant is acknowledged in the PubMed record.
Abstract
backgroundNearly 6,000 QTL have been reported for 588 different traits in pigs, more than in any other livestock species. However, this effort has translated into only a few confirmed causative variants. A powerful strategy for revealing candidate genes involves expression QTL (eQTL) mapping, where the mRNA abundance of a set of transcripts is used as the response variable for a QTL scan. METHODOLOGY/PRINCIPAL
findingsWe utilized a whole genome expression microarray and an F(2) pig resource population to conduct a global eQTL analysis in loin muscle tissue, and compared results to previously inferred phenotypic QTL (pQTL) from the same experimental cross. We found 62 unique eQTL (FDR <10%) and identified 3 gene networks enriched with genes subject to genetic control involved in lipid metabolism, DNA replication, and cell cycle regulation. We observed strong evidence of local regulation (40 out of 59 eQTL with known genomic position) and compared these eQTL to pQTL to help identify potential candidate genes. Among the interesting associations, we found aldo-keto reductase 7A2 (AKR7A2) and thioredoxin domain containing 12 (TXNDC12) eQTL that are part of a network associated with lipid metabolism and in turn overlap with pQTL regions for marbling, % intramuscular fat (% fat) and loin muscle area on Sus scrofa (SSC) chromosome 6. Additionally, we report 13 genomic regions with overlapping eQTL and pQTL involving 14 local eQTL. CONCLUSIONS/SIGNIFICANCE: Results of this analysis provide novel candidate genes for important complex pig phenotypes.
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