Jung-Sou Yeo

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

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.

Association of bovine fatty acid composition with missense nucleotide polymorphism in exon7 of peroxisome proliferator-activated receptor gamma gene.

Source/description: Beef quality depends on fatty acid composition as well as degree of marbling. The desirable flavour of beef comes from carcass fat with small portions of saturated fatty acids (SFA) and large portions of monounsaturated fatty acids (MUFA). Thus, efforts have been made to discover genetic factors that regulate the fatty acid composition of beef. In particular, peroxisome proliferator-activated receptor gamma (PPARG), which is abundantly expressed in adipose tissue, has been recognized as an important gene controlling adipocyte differentiation and lipid storage. Nevertheless, no genetic association between the PPARG gene (GenBank accession no. NM_181024.2) and beef fatty acid composition has been reported to date. In this study, we evaluated associations of fatty acid composition with exonic nucleotide sequence variants within the PPARG gene using Korean cattle.

Identification of Stearoyl-CoA Desaturase (SCD) Gene Interactions in Korean Native Cattle Based on the Multifactor-dimensionality Reduction Method.

Fat quality is determined by the composition of fatty acids. Genetic relationships between this composition and single nucleotide polymorphisms (SNPs) in the stearoyl-CoA desaturase1 (SCD1) gene were examined using 513 Korean native cattle. Single and epistatic effects of 7 SNP genetic variations were investigated, and the multifactor dimensionality reduction (MDR) method was used to investigate gene interactions in terms of oleic acid (C18:1), mono-unsaturated fatty acids (MUFAs) and marbling score (MS). The g.6850+77 A>G and g.14047 C>T SNP interactions were identified as the statistically optimal combination (C18:1, MUFAs and MS permutation p-values were 0.000, 0.000 and 0.001 respectively) of two-way gene interactions. The interaction effects of g.6850+77 A>G, g.10213 T>C and g.14047 C>T reflected the highest training-balanced accuracy (63.76%, 64.70% and 61.85% respectively) and was better than the individual effects for C18:1, MUFAs and MS. In addition, the superior genotype groups were AATTCC, AGTTCC, GGTCCC, AGTCCT, GGCCCT and AGCCTT. These results suggest that the selected SNP combination of the SCD1 gene and superior genotype groups can provide useful inferences for the improvement of the fatty acid composition in Korean native cattle.

Identification of Exonic Nucleotide Variants of the Thyroid Hormone Responsive Protein Gene Associated with Carcass Traits and Fatty Acid Composition in Korean Cattle

The thyroid hormone responsive protein (THRSP) gene is a functional gene that can be used to indicate the fatty acid compositions. This study investigates the relationships of exonic single nucleotide polymorphisms (SNPs) in the THRSP gene and fatty acid composition of muscle fat and marbling score in the 612 Korean cattle. The relationships between fatty acid composition and eight SNPs in the THRSP gene (g.78 G>A, g.173 C>T, g.184 C>T, g.190 C>A, g.194 C>T, g.277 C>G, g.283 T>G and g.290 T>G) were investigated, and according to the results, two SNPs (g.78 G>A and g.184 C>T) in exon 1 were associated with fatty acid composition. The GG and CC genotypes of g.78 G>A and g.184 C>T had higher unsaturated fatty acid (UFA) and monounsaturated fatty acid (MUFA) content (p<0.05). In addition, the ht1*ht1 group (Val/Ala haplotype) in a linkage disequilibrium increased MUFAs and marbling scores for carcass traits (p<0.05). As a result, g.78 G>A and g.184 C>T had significantly relationships with UFAs and MUFAs. Two SNPs in the THRSP gene affected fatty acid composition, suggesting that GG and CC genotypes and the ht1*ht1 group (Val/Ala haplotype) can be markers to genetically improve the quality and flavor of beef.

Identification of SNP(Single Nucleotide Polymorphism) from MC1R, MITF and TYRP1 associated with Feather Color in Chicken

School of Biotechnology, Yeungnam University, Gyeonsan 712-749, KoreaABSTRAT The Feather Color of chicken is considered as most obvious, and the purpose of this study is to identify the genotype following the SNP of MC1R, MITF and TYRP1, which are genes related to Feather Color, and develop a SNP marker that can be classified per breed. When a haplotype is observed through the combination of markers, a Korean Native Chicken can especially be distinguished when it is a CGG type in the SNP combination of the MC1R gene. In case of the TAG, TGG and TAA types, only Araucana was identified, and for the CAA type, Leghorn could specifically be distinguished. In the SNP combination of TYRP1 gene, only Leghorn was differentiated in case of the TTTCA and CCTCA types, and only Silky Fowl was identified in case of the CTTTA type. The SNP combination of MC1R gene enabled for Korean Native Chicken, Leghorn, and Araucana to be distinguished and each of the SNP and combination of TYRP1 gene allowed for all 4 breeds to be classified. If many researches are conducted about genetic polymorphism between breeds, then it is considered that the differences between breeds will be understood from a molecular biological aspect instead of simply distinguishing the breeds through Feather Color.(Key words : MC1R, MITF, TYRP1, SNP, haplotype)

Detection of exonic variants within the melanocortin 1 receptor (MC1R) gene in Black Silky, White Leghorn and Golden duckwing Araucana chicken

ABSTRACTThe melanocortin 1 receptor (MC1R) gene can be considered a candidate functional gene for the pigmentation of plumage color. The aim of this study was to investigate the association between the genotype frequencies of g.69 T>C, g.376 G>A and g.427 A>G SNPs within the MC1R gene in Black silky (O), Golden duckwing Araucana (GA) and White Leghorn (W). The CC and AA genotype frequencies of g.69 T>C and g.427 A>G SNPs in White Leghorn (W) were both 1.000, and the TT genotype frequency of the g.69 T>C SNP in Golden duckwing Araucana (GA) was also 1.000. The GG and AA genotype frequencies of g.376 G>A and g.427 A>G SNPs in Black silky (O) were both 0.100. When a haplotype is observed using a combination of markers, a Golden duckwing Araucana (GA) can especially be distinguished when it is a TAG, TGG and TAA type in the SNP combination of the MC1R gene. In case of the CAA types, only White Leghorn (W) could specifically be distinguished. Therefore, three SNPs in MC1R may provide identification in chicken breeds.

Hanwoo(Korean Cattle) Traceability Using DNA Markers

To apply and evaluate the effectiveness of genetic markers on Hanwoo traceability systems, samples of 33 Hanwoo individuals from Korean elite sire families were used, and five microsatellite markers were selected finally, which were located on chromosomes different chromosomes with the end sequencing of 100 HW-YUBAC that were recorded in the NCBI by Yeungnam University. Ten major microsatellite markers were selected from alleles amplified, their frequencies, H(Heterozygosity) and PIC(Polymorphism information content) with Hardy-Weinberg equilibrium. Next, in order to evaluate the power of the markers selected on the individual animal identification, the match probability(MP) and the relatedness coefficient(R) were computed.

Discovery of Candidate SNP Related to Meat Quality Using the BcSNPdb and Cattle QTLdb in Hanwoo

ABSTRACT This study was aimed to find SNPs related with marbling score in Hanwoo (Korean cattle) using BcSNPdb. This study was searched QTL region related with marbling score and extracted 3,605 SNPs by applying BcSNPdb. Among these SNPs, 347 nonsynonymous SNP were selected and 160 SNPs were verified by PCR and finally proven with application to experimental data of the national progeny test. BTS_003888, BTS_012665 and BTS_009454 candidate SNPs were revealed significantly associated with marbling score (P<0.05), and BTS_025951 candidate SNPs was significantly associated with backfat thickness (P<0.05). From the result, SNPs from BTS_003888, BTS_009454, BTS_052584 and BTS_025951 were considered to be useful for the advancement in selective improved model in marbling score and backfat thickness of Hanwoo.( Key words : Hanwoo, BcSNPdb, Marbling score, Backfat thickness, SNP) . 서 론 인간 게놈 연구가 종결된 이후 많은 학자들은 SNP (single nucleotide polymorphism)에 의해 개체간의 외적 모습이나 형질이 다르게 나타나는 유전적 변이에 대한 관심이 높아지고 있다. 이 중에서도 nonsynonymous SNP는 일반적인 synonymous SNP와는 달리 유전자 발현과정에서 아미노산의 변이를 나타내고 있다. 이러한 nonsynonymous SNP에 관한 연구들을 살펴보면 축우에서 diacylglycerol O-acyltransferase 1 (DAGT1) 유전자는 유우의 14번 염색체에 위치하고 있으며 missense mutation을 통해 우유의 구성분과 유량에 관련이 된다고 보고되어졌다(Grisart 등, 2002). 하지만 그 후 Moore 등(2003)과 Thaller 등(2003)에 의하면 우유뿐만 아니라 근육 내 지방 축적에도 확실한 효과가 나타나는 것으로 보고하였는데 근육 중