ArticleFrontiers in genetics2018
Functional Partitioning of Genomic Variance and Genome-Wide Association Study for Carcass Traits in Korean Hanwoo Cattle Using Imputed Sequence Level SNP Data.
Article in Frontiers in genetics, 2018. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 38 papers.
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38 citing papers in PubMed.
- Recent progress in genomic prediction for Hanwoo cattle and its implications for beef quality: review.Animal bioscience · 2026Article
- A Multi-Breed GWAS for Carcass Weight in Jeju Black Cattle and Hanwoo × Jeju Black Crossbreds.Biology · 2025Article
- Evaluation of genomic breeding values and accuracy for carcass traits in Korean Hanwoo cows using whole-genome SNP chip panels.Mammalian genome : official journal of the International Mammalian Genome Society · 2025Article
- Evaluation of imputation performance based on the single nucleotide polymorphism panel density and the reference population size in Korean native chicken.Animal bioscience · 2025Article
- Genome-wide association studies and genetic architecture of carcass traits in Angus beef cattle using imputed whole-genome sequences data.Genetics, selection, evolution : GSE · 2025Article
- Population genomics of sika deer reveals recent speciation and genetic selective signatures during evolution and domestication.BMC genomics · 2025Article
- Genomic variance partitioning of carcass and meat quality traits in Angus beef cattle.Frontiers in veterinary science · 2025Article
- Genome-wide association study comparison analysis based on Hanwoo full-sib family.Animal bioscience · 2024Article
- Genome-Wide Association Study (GWAS) for Left Displaced Abomasum in Highly Productive Russian Holstein Cattle.Animals : an open access journal from MDPI · 2024Article
- Unveiling Genetic Potential for Equine Meat Production: A Bioinformatics Approach.Animals : an open access journal from MDPI · 2024Article
- Evaluation of heritability partitioning approaches in livestock populations.BMC genomics · 2024Article
- Genome-wide association study identifies genomic regions associated with key reproductive traits in Korean Hanwoo cows.BMC genomics · 2024Article
- Genomic prediction based on preselected single-nucleotide polymorphisms from genome-wide association study and imputed whole-genome sequence data annotation for growth traits in Duroc pigs.Evolutionary applications · 2024Article
- Genome-wide association studies for economically important traits in mink using copy number variation.Scientific reports · 2024Article
- Genomic prediction and genome-wide association studies of morphological traits and distraction index in Korean Sapsaree dogs.PloS one · 2024Article
- Genome-wide analysis of the Siboney de Cuba cattle breed: genetic characterization and framing with cattle breeds worldwide.Frontiers in genetics · 2024Article
- Comprehensive selection signature analyses in dairy cattle exploiting purebred and crossbred genomic data.Mammalian genome : official journal of the International Mammalian Genome Society · 2023Article
- Identification of Missense Variants Affecting Carcass Traits for Hanwoo Precision Breeding.Genes · 2023Article
- Genome-Wide Association Study to Identify QTL for Carcass Traits in Korean Hanwoo Cattle.Animals : an open access journal from MDPI · 2023Article
- Genome-wide association study revealed the genomic regions associated with skin pigmentation in an Ogye x White Leghorn F2 chicken population.Poultry science · 2023Article
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Abstract
Quantitative traits are usually controlled by numerous genomic variants with small individual effects, and variances associated with those traits are explained in a continuous manner. However, the relative contributions of genomic regions to observed genetic variations have not been well explored using sequence level single nucleotide polymorphism (SNP) information. Here, imputed sequence level SNP data (11,278,153 SNPs) of 2109 Hanwoo steers (Korean native cattle) were partitioned according to functional annotation, chromosome, and minor allele frequency (MAF). Genomic relationship matrices (GRMs) were constructed for each classified region and fitted in the model both separately and together for carcass weight (CWT), eye muscle area (EMA), backfat thickness (BFT), and marbling score (MS) traits. A genome-wide association study (GWAS) was performed to identify significantly associated variants in genic and exon regions using a linear mixed model, and the genetic contribution of each exonic SNP was determined using a Bayesian mixture model. Considering all SNPs together, the heritability estimates for CWT, EMA, BFT, and MS were 0.57 ± 0.05, 0.46 ± 0.05, 0.45 ± 0.05, and 0.49 ± 0.05, respectively, which reflected substantial genomic contributions. Joint analysis revealed that the variance explained by each chromosome was proportional to its physical length with weak linear relationships for all traits. Moreover, genomic variances explained by functional category and MAF class differed greatly among the traits studied in joint analysis. For example, exon regions had larger contributions for BFT (0.13 ± 0.08) and MS (0.22 ± 0.08), whereas intron and intergenic regions explained most of the total genomic variances for CWT and EMA (0.22 ± 0.09-0.32 ± 0.11). Considering different functional classes of exon regions and the per SNP contribution revealed the largest proportion of genetic variance was attributable to synonymous variants. GWAS detected 206 and 27 SNPs in genic and exon regions, respectively, on BTA4, BTA6, and BTA14 that were significantly associated with CWT and EMA. These SNPs were harbored by 31 candidate genes, among which
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