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Superior single nucleotide polymorphisms that contribute to two main routes of the fatty acid synthesis pathway in Korean cattle

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Abstract

The fatty acid composition of adipose tissue in livestock has been recognized as an important carcass trait that affects meat quality. To determine the overall positive effect on fatty acid synthesis, we investigated PPARγ, SREBPs, FABP4, SCD, and FASN genes because SNP and/or SNP combinations were strongly affecting each fatty acid synthesis pathway. We screened their SNPs, SNP combinations, and genotype. Furthermore, we studied the economic traits C18:1, monounsaturated fatty acid (MUFA), and marbling score (MS). To enhance the accuracy of the predictive genetic effect, we applied a statistical adjustment model excluding environmental factors. We also selected superior genes, gene combinations, and genotypes for each economic trait by using multifactor dimensionality reduction. Based on the results, g.3977-325 T>C (CC) was selected as the best genotype of the SNP and the combination (g.10153 A>G, g.3977-325 T>C) (AACC, AGCC, GGCC), (g.3690 G>A, g.3977-325 T>C) (GGCC, GACC), (g.3977-325 T>C, g.25670 C>T) (CCCC, CCCT, CCTT) (genotypes of the best SNP combination) was selected as the best gene combination for C18:1 and MUFA. In addition, g.3977-325 T>C (CC) was selected as the best genotype of the SNP and the combination (g.3977-325 T>C, g.6974 G>A) (TTAA, CTAA, CCAA, CCGA, CCGG) as the best SNP combination for MS. We integrated genes that were selected as excellent SNP and SNP combinations affecting two main routes of the fatty acid synthesis pathway and identified the best and final SNP, SNP combination, and superior genotype.

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Acknowledgements

Jea-Young Lee’s work was supported by the 2018 Yeungnam University Research Grant.

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Authors and Affiliations

  1. Department of Statistics, Yeungnam University, Gyeongsan-si, Gyeongbuk, 38541, Republic of Korea

    Jea-Young Lee & Jieun Jang

  2. Livestock Research Institute, Gyeongsangbuk-Do, Yeongju, Gyeongbuk, 36052, Republic of Korea

    Jaejung Ha, Junkoo Yi & Dong-yep Oh

  3. Department of Nanobiomedical Science & BK21 PLUS NBM Global Research Center for Regenerative Medicine, Dankook University, Cheonan, 31116, Republic of Korea

    Wooseok Lee & Kyudong Han

  4. Department of Biotechnology, College of Agriculture & Life Science, Hankyong National University, Anseong, Gyeonggi, 17579, Republic of Korea

    Yoonseok Lee

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  1. Jea-Young Lee
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  2. Jaejung Ha
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  3. Junkoo Yi
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  4. Jieun Jang
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  5. Wooseok Lee
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  7. Dong-yep Oh
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Correspondence to Dong-yep Oh or Kyudong Han.

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Jea-Young Lee, Jaejung Ha, Junkoo Yi, Jieun Jang, Wooseok Lee, Yoonseok Lee, Dong-yep Oh, and Kyudong Han declare that they have no conflict of interest.

Ethical approval

All research protocols and animal experiments in this study were reviewed and approved by the Institutional Animal Care and Use Committee (IACUC) in Gyeongsangbuk-do, Republic of Korea (Gyeongbuk IACUC-87).

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Lee, JY., Ha, J., Yi, J. et al. Superior single nucleotide polymorphisms that contribute to two main routes of the fatty acid synthesis pathway in Korean cattle. Genes Genom 40, 945–954 (2018). https://doi.org/10.1007/s13258-018-0704-2

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  • DOI: https://doi.org/10.1007/s13258-018-0704-2

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