Dataset Information

Identification of the SNP (Single Nucleotide Polymorphism) for Fatty Acid Composition Associated with Beef Flavor-related FABP4 (Fatty Acid Binding Protein 4) in Korean Cattle.

ABSTRACT: In this study, we investigated the relationship between unsaturated fatty acids influencing beef flavor and four types of SNPs (c.280A>G, c.388G>A, c.408G>C and c.456A>G) located at exon 2, 3 and 4 of the FABP4 gene, which is a fatty acid binding protein 4 in Korean cattle (n = 513). When analyzing the relationship between single genotype, fatty acids and carcass trait, individuals of GG, GG, CC and GG genotypes that are homozygotes, had a higher content of unsaturated fatty acids and marbling scores than other genotypes (p<0.05). Then, haplotype block showed strong significant relationships not only with unsaturated fatty acids (54.73%), but also with marbling scores (5.82) in ht1×ht1 group (p<0.05). This ht1×ht1 group showed significant differences with unsaturated fatty acids and marbling scores that affected beef flavor in Korean cattle. Therefore, it can be inferred that the ht1×ht1 types might be valuable new markers for use in the improvement of Korean cattle.

SUBMITTER: Oh DY

PROVIDER: S-EPMC4092985 | biostudies-literature | 2012 Jul

REPOSITORIES: biostudies-literature

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Publications

Identification of the SNP (Single Nucleotide Polymorphism) for Fatty Acid Composition Associated with Beef Flavor-related FABP4 (Fatty Acid Binding Protein 4) in Korean Cattle.

Oh Dong-Yep DY Lee Yoon-Seok YS La Boo-Mi BM Yeo Jung-Sou JS

Asian-Australasian journal of animal sciences. 20120701 7

In this study, we investigated the relationship between unsaturated fatty acids influencing beef flavor and four types of SNPs (c.280A>G, c.388G>A, c.408G>C and c.456A>G) located at exon 2, 3 and 4 of the FABP4 gene, which is a fatty acid binding protein 4 in Korean cattle (n = 513). When analyzing the relationship between single genotype, fatty acids and carcass trait, individuals of GG, GG, CC and GG genotypes that are homozygotes, had a higher content of unsaturated fatty acids and marbling s ...[more]

PMID: 25049644

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Project description:Genomic selection using high-density single-nucleotide polymorphism (SNP) markers is used in dairy and beef cattle breeds to accurately estimate genomic breeding values and accelerate genetic improvement by enabling selection of animals with high genetic merit. This genome-wide association study (GWAS) aimed to identify genetic variants associated with beef fatty-acid composition (FAC) traits and to evaluate the accuracy of genomic predictions (GPs) for those traits using genomic best linear unbiased prediction (GBLUP), pedigree BLUP (PBLUP), and BayesR models. Samples of the longissimus dorsi muscle of 965 thirty-month-old Hanwoo steers (progeny of 73 proven bulls) were used to investigate 14 FAC traits. Animals were genotyped or imputed using two bovine SNP platforms (50K and 777K), and after quality control, 38,715 (50K) and 633,448 (777K) SNPs were subjected to GWAS and GP study using a cross-validation scheme. SNP-based heritability estimates were moderate to high (0.25 to 0.47) for all studied traits, with some exceptions for polyunsaturated fatty acids. Association analysis revealed that 19 SNPs in BTA19 (98.7 kb) were significantly associated (P < 7.89 × 10-8) with C14:0 and C18:1n-9; these SNPs were in the fatty-acid synthase (FASN) and coiled-coil domain-containing 57 (CCDC57) genes. BayesR analysis revealed that 0.41 to 0.78% of the total SNPs (n = 2,571 to 4,904) explained almost all of the genetic variance; the majority of the SNPs (>99%) had negligible effects, suggesting that the FAC traits were polygenic. Genome partitioning analysis indicated mostly nonlinear and weak correlations between the variance explained by each chromosome and its length, which also reflected the considerable contributions of relatively few genes. The prediction accuracy of breeding values for FAC traits varied from low to high (0.25 to 0.57); the estimates using the GBLUP and BayesR methods were superior to those obtained by the PBLUP method. The BayesR method performed similarly to GBLUP for most of the studied traits but substantially better for those traits that were controlled by SNPs with large effects; this was supported by the GWAS results. In addition, the predictive abilities of the 50K and 777K SNP arrays were almost similar; thus, both are suitable for GP in Hanwoo cattle. In conclusion, this study provides important insight into the genetic architecture and predictive ability of FAC traits in Hanwoo cattle. Our findings could be used in selection and breeding programs to promote production of meat with enhanced nutritional value.

Dataset Information

Identification of the SNP (Single Nucleotide Polymorphism) for Fatty Acid Composition Associated with Beef Flavor-related FABP4 (Fatty Acid Binding Protein 4) in Korean Cattle.

Publications

Identification of the SNP (Single Nucleotide Polymorphism) for Fatty Acid Composition Associated with Beef Flavor-related FABP4 (Fatty Acid Binding Protein 4) in Korean Cattle.

Similar Datasets

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