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 we...
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| Format: | Article |
| Language: | English |
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Asian-Australasian Association of Animal Production Societies
2013-09-01
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| Series: | Asian-Australasian Journal of Animal Sciences |
| Subjects: | |
| Online Access: | http://www.ajas.info/upload/pdf/ajas-26-9-1218-2.pdf |
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| author | Dong-yep Oh Me-hyun Jin Yoon-seok Lee Jae-jung Ha Byung-ki Kim Jung-sou Yeo Jea-young Lee |
| author_facet | Dong-yep Oh Me-hyun Jin Yoon-seok Lee Jae-jung Ha Byung-ki Kim Jung-sou Yeo Jea-young Lee |
| author_sort | Dong-yep Oh |
| collection | DOAJ |
| description | 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. |
| first_indexed | 2024-12-22T17:28:33Z |
| format | Article |
| id | doaj.art-d80712a389874f2ebd45ddd05c68d2cf |
| institution | Directory Open Access Journal |
| issn | 1011-2367 1976-5517 |
| language | English |
| last_indexed | 2024-12-22T17:28:33Z |
| publishDate | 2013-09-01 |
| publisher | Asian-Australasian Association of Animal Production Societies |
| record_format | Article |
| series | Asian-Australasian Journal of Animal Sciences |
| spelling | doaj.art-d80712a389874f2ebd45ddd05c68d2cf2022-12-21T18:18:40ZengAsian-Australasian Association of Animal Production SocietiesAsian-Australasian Journal of Animal Sciences1011-23671976-55172013-09-012691218122810.5713/ajas.2013.130584764Identification of Stearoyl-CoA Desaturase (SCD) Gene Interactions in Korean Native Cattle Based on the Multifactor-dimensionality Reduction MethodDong-yep OhMe-hyun JinYoon-seok LeeJae-jung HaByung-ki KimJung-sou YeoJea-young LeeFat 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.http://www.ajas.info/upload/pdf/ajas-26-9-1218-2.pdfKorean Native CattleMultifactor-Dimensionality Reduction (MDR)Single Nucleotide Polymorphism (SNP)Stearoyl-CoA Desaturase1 (SCD1) Gene |
| spellingShingle | Dong-yep Oh Me-hyun Jin Yoon-seok Lee Jae-jung Ha Byung-ki Kim Jung-sou Yeo Jea-young Lee Identification of Stearoyl-CoA Desaturase (SCD) Gene Interactions in Korean Native Cattle Based on the Multifactor-dimensionality Reduction Method Asian-Australasian Journal of Animal Sciences Korean Native Cattle Multifactor-Dimensionality Reduction (MDR) Single Nucleotide Polymorphism (SNP) Stearoyl-CoA Desaturase1 (SCD1) Gene |
| title | Identification of Stearoyl-CoA Desaturase (SCD) Gene Interactions in Korean Native Cattle Based on the Multifactor-dimensionality Reduction Method |
| title_full | Identification of Stearoyl-CoA Desaturase (SCD) Gene Interactions in Korean Native Cattle Based on the Multifactor-dimensionality Reduction Method |
| title_fullStr | Identification of Stearoyl-CoA Desaturase (SCD) Gene Interactions in Korean Native Cattle Based on the Multifactor-dimensionality Reduction Method |
| title_full_unstemmed | Identification of Stearoyl-CoA Desaturase (SCD) Gene Interactions in Korean Native Cattle Based on the Multifactor-dimensionality Reduction Method |
| title_short | Identification of Stearoyl-CoA Desaturase (SCD) Gene Interactions in Korean Native Cattle Based on the Multifactor-dimensionality Reduction Method |
| title_sort | identification of stearoyl coa desaturase scd gene interactions in korean native cattle based on the multifactor dimensionality reduction method |
| topic | Korean Native Cattle Multifactor-Dimensionality Reduction (MDR) Single Nucleotide Polymorphism (SNP) Stearoyl-CoA Desaturase1 (SCD1) Gene |
| url | http://www.ajas.info/upload/pdf/ajas-26-9-1218-2.pdf |
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