ArticleGenetics, selection, evolution : GSE2015
Genome-wide association analyses reveal significant loci and strong candidate genes for growth and fatness traits in two pig populations.
Article in Genetics, selection, evolution : GSE, 2015. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 43 papers, 3 of them syntheses that pooled it.
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43 citing papers in PubMed, 3 syntheses or guidelines pooled it, 76 citations in OpenAlex.
- Integrated analysis of genome-wide association studies and 3D epigenomic characteristics reveal the BMP2 gene regulating loin muscle depth in Yorkshire pigs.PLoS genetics · 2023Pooled it
- Meta-analysis of genome-wide association studies for loin muscle area and loin muscle depth in two Duroc pig populations.PloS one · 2019Pooled it
- A meta analysis of genome-wide association studies for limb bone lengths in four pig populations.BMC genetics · 2015Pooled it
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- Eubacterium siraeum suppresses fat deposition via decreasing the tyrosine-mediated PI3K/AKT signaling pathway in high-fat diet-induced obesity.Microbiome · 2024Article
- Utilizing Variants Identified with Multiple Genome-Wide Association Study Methods Optimizes Genomic Selection for Growth Traits in Pigs.Animals : an open access journal from MDPI · 2023Article
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- Genome-wide association study reveals genetic loci and candidate genes for meat quality traits in a four-way crossbred pig population.Frontiers in genetics · 2023Article
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- Pleomorphic adenoma gene 1 (PLAG1) promotes proliferation and inhibits apoptosis of bovine primary myoblasts through the PI3K-Akt signaling pathway.Journal of animal science · 2022Article
- Identify known and novel candidate genes associated with backfat thickness in Duroc pigs by large-scale genome-wide association analysis.Journal of animal science · 2022Article
- Identification and functional prediction of long noncoding RNAs related to intramuscular fat content in Laiwu pigs.Animal bioscience · 2022Article
- Application of Genetic, Genomic and Biological Pathways in Improvement of Swine Feed Efficiency.Frontiers in genetics · 2022Review
- Evidence for and localization of proposed causative variants in cattle and pig genomes.Genetics, selection, evolution : GSE · 2021Review
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Authors and funding
11 authors at 1 institution in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
backgroundRecently, genome-wide association studies (GWAS) have been reported on various pig traits. We performed a GWAS to analyze 22 traits related to growth and fatness on two pig populations: a White Duroc × Erhualian F2 intercross population and a Chinese Sutai half-sib population.
resultsWe identified 14 and 39 loci that displayed significant associations with growth and fatness traits at the genome-wide level and chromosome-wide level, respectively. The strongest association was between a 750 kb region on SSC7 (SSC for Sus scrofa) and backfat thickness at the first rib. This region had pleiotropic effects on both fatness and growth traits in F2 animals and contained a promising candidate gene HMGA1 (high mobility group AT-hook 1). Unexpectedly, population genetic analysis revealed that the allele at this locus that reduces fatness and increases growth is derived from Chinese indigenous pigs and segregates in multiple Chinese breeds. The second strongest association was between the region around 82.85 Mb on SSC4 and average backfat thickness. PLAG1 (pleiomorphic adenoma gene 1), a gene under strong selection in European domestic pigs, is proximal to the top SNP and stands out as a strong candidate gene. On SSC2, a locus that significantly affects fatness traits mapped to the region around the IGF2 (insulin-like growth factor 2) gene but its non-imprinting inheritance excluded IGF2 as a candidate gene. A significant locus was also detected within a recombination cold spot that spans more than 30 Mb on SSCX, which hampered the identification of plausible candidate genes. Notably, no genome-wide significant locus was shared by the two experimental populations; different loci were observed that had both constant and time-specific effects on growth traits at different stages, which illustrates the complex genetic architecture of these traits.
conclusionsWe confirm several previously reported QTL and provide a list of novel loci for porcine growth and fatness traits in two experimental populations with Chinese Taihu and Western pigs as common founders. We showed that distinct loci exist for these traits in the two populations and identified HMGA1 and PLAG1 as strong candidate genes on SSC7 and SSC4, respectively.
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