ArticleBMC genomics2021
Trait correlated expression combined with eQTL and ASE analyses identified novel candidate genes affecting intramuscular fat.
Article in BMC genomics, 2021. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 17 papers.
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17 citing papers in PubMed, 34 citations in OpenAlex.
- Mapping the landscape of allele-specific expression in porcine genomes.Genome biology · 2026Article
- Gene expression profiling by RNA-sequencing reveals regulators of intramuscular fat in Black Slavonian pigs.Scientific reports · 2026Article
- Integrated analysis of GWAS and molQTLs reveals cell-specific genetic variants in the porcine immune system.Communications biology · 2026Article
- Identification of candidate genes for reproductive traits in Chinese Holstein cattle using single-step genome-wide association study.Journal of animal science · 2026Article
- Characterization of genomic diversity and population structure of worldwide Duroc subpopulations and other pig breeds.Genetics, selection, evolution : GSE · 2025Article
- Gut microbiota and metabolites in lipid metabolism and intramuscular fat deposition: mechanisms and implications for meat quality.Journal of animal science and biotechnology · 2025Review
- Integrative analysis of genome and transcriptome reveals a novel regulator for pork intramuscular fat content.Genetics, selection, evolution : GSE · 2025Article
- Identification of the putative regulatory regions and candidate genes associated with backfat thickness and intramuscular fat content traits in Xiang pigs.BMC genomics · 2025Article
- Identification of Key Genes Related to Intramuscular Fat Content of Psoas Major Muscle in Saba Pigs by Integrating Bioinformatics and Machine Learning Based on Transcriptome Data.Animals : an open access journal from MDPI · 2025Article
- An Integrated Database for Exploring Alternative Promoters in Animals.Scientific data · 2025Article
- Unraveling the genetic and epigenetic landscape governing intramuscular fat deposition in rabbits: Insights and implications.Food chemistry. Molecular sciences · 2024Review
- Article
- Additive and Dominance Genome-Wide Association Studies Reveal the Genetic Basis of Heterosis Related to Growth Traits of Duhua Hybrid Pigs.Animals : an open access journal from MDPI · 2024Article
- Identification of candidate regulatory genes for intramuscular fatty acid composition in pigs by transcriptome analysis.Genetics, selection, evolution : GSE · 2024Article
- Identification of eQTLs using different sets of single nucleotide polymorphisms associated with carcass and body composition traits in pigs.BMC genomics · 2024Article
- Comprehensive Analysis of Sideroflexin 4 in Hepatocellular Carcinoma by Bioinformatics and Experiments.International journal of medical sciences · 2023Article
- Identification of Candidate Genes and Regulatory Competitive Endogenous RNA (ceRNA) Networks Underlying Intramuscular Fat Content in Yorkshire Pigs with Extreme Fat Deposition Phenotypes.International journal of molecular sciences · 2022Article
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Authors and funding
12 authors at 2 institutions in 2 countries.
Funding
No grant is acknowledged in the PubMed record.
Abstract
backgroundIntramuscular fat (IMF) content is a determining factor for meat taste. The Luchuan pig is a fat-type local breed in southern China that is famous for its desirable meat quality due to high IMF, however, the crossbred offspring of Luchuan sows and Duroc boars displayed within-population variation on meat quality, and the reason remains unknown.
resultsIn the present study, we identified 212 IMF-correlated genes (FDR ≤ 0.01) using correlation analysis between gene expression level and the value of IMF content. The IMF-correlated genes were significantly enriched in the processes of lipid metabolism and mitochondrial energy metabolism, as well as the AMPK/PPAR signaling pathway. From the IMF-correlated genes, we identified 99 genes associated with expression quantitative trait locus (eQTL) or allele-specific expression (ASE) signals, including 21 genes identified by both cis-eQTL and ASE analyses and 12 genes identified by trans-eQTL analysis. Genome-wide association study (GWAS) of IMF identified a significant QTL on SSC14 (p-value = 2.51E
conclusionsThe AMPK/PPAR signaling pathway together with the processes of lipid and mitochondrial energy metabolism plays a vital role in regulating porcine IMF content. Trait correlated expression combined with eQTL and ASE analysis highlighted a priority list of genes, which compensated for the shortcoming of GWAS, thereby accelerating the mining of causal genes of IMF.
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