ArticleGenetics, selection, evolution : GSE2025
Single-variant genome-wide association study and regional heritability mapping of protein efficiency and performance traits in Large White pigs.
Article in Genetics, selection, evolution : GSE, 2025. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 3 papers.
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Who cites it
3 citing papers in PubMed.
- Whole-Genome Resequencing of 299 Large White Pigs Identifies RASAL2 as a Candidate Gene for Feed Efficiency Traits.Animal genetics · 2026Article
- Integrated analyses of host genetics and gut microbiota provide mechanistic insights into feed efficiency in ducks.Journal of animal science and biotechnology · 2026Article
- Integrating genome-wide association analysis and selection signatures to identify the key genes affecting the primary economic traits of pigs.BMC genomics · 2026Article
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Authors and funding
5 authors.
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No grant is acknowledged in the PubMed record.
Abstract
backgroundImprovement of protein efficiency (PE) is a key factor for a sustainable pig production, as nitrogen excretion contributes substantially to environmental pollution. Protein efficiency has been shown to be heritable and genetically correlated with performance traits such as feed conversion ratio (FCR) and average daily feed intake (ADFI). This study aimed to identify genomic regions associated with these traits through single-variant genome-wide association studies (GWAS) and regional heritability mapping (RHM) using whole-genome sequence variants from low-pass sequencing of more than 1000 Swiss Large White pigs.
resultsGenomic heritability estimates using ~ 15 million variants were moderate to high, ranging from 0.33 to 0.47. GWAS did not identify significant variants for PE and FCR, but identified 45 variants at suggestive significance levels for ADFI on chromosome 1 and one for ADG on chromosome 14. Similarly, RHM detected no significant regions for PE and FCR, but five suggestive regions for ADFI (chromosome 1) and one for ADG (chromosome 14). However, by combining leading signals from GWAS and RHM, i.e. overlapping leading variants and significant regions, we highlighted putative candidate genes for PE, including PHYKPL, COL23A1, PPFIBP2, GVIN1, SYT9, RBMXL2, ZNF215, and olfactory receptor genes.
conclusionsCombining GWAS and RHM allowed us to identify genomic regions that may influence PE and production traits. Our apparent difficulty in detecting significant regions for these traits probably reflects the relatively small sample size, differences in genetic architecture across study designs and experimental conditions, and that polymorphisms explaining large proportions of the trait variation may not segregate in this population. Nevertheless, we identified plausible functional candidate genes in the highlighted regions, including those involved in nutrient sensing, the urea cycle, and metabolic pathways, in particular IGF1-insulin, and that have previously been reported to be associated with nitrogen metabolism in cattle and with muscle and adipose tissue metabolism and feed intake in pigs. We also highlighted a range of noncoding RNAs. Their targets and roles in gene regulation should be further investigated in this context.
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