A single nucleotide polymorphism possibly associated with fat deposition is methylated in the bovine TFAM promoter

Tanja KUNEJ, Zeping WANG, Jennifer J. MICHAL, Peter DOVČ, Nancy S. MAGNUSON, Zhihua JIANG

Abstract


Mitochondrial transcription factor A (TFAM) is a nuclear-encoded mitochondrial protein that plays an important role in energy metabolism and is a candidate gene for fat deposition in cattle and human. In the present study, we characterized the methylation status of bovine TFAM promoter flanking the single nucleotide polymorphism (SNP) rs42159487C>T, previously reported to affect fat deposition. Our results showed that the cytosine at this SNP position is methylated and therefore results in gain/loss of the functional CpG locus (5mC>T). Promoter constructs developed based on three TFAM SNPs showed that the C/C/C haplotype associated with fat deposition in beef cattle had lower promoter function/activity than A/T/T haplotype. Our results imply that genetic variability underlying gain/loss of the CpG sites in the nuclear-encoded mitochondrial proteins might be good candidate loci for fat deposition phenotypes.

Keywords


cattle; genetics; genetic polymorphism; candidate genes; gene promoters; TFAM; DNA methylation; CpG island; fat deposition

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References


Hudson, N. J., Lehnert, S. A., & Harper, G. S. (2008). Obese humans as economically designed feed converters: symmorphosis and low oxidative capacity skeletal muscle. Med Hypotheses, 70(3), 693–7. doi:10.1016/j.mehy.2007.05.042

Jiang, Z., Kunej, T., Wibowo, T. A., Michal, J. J., Zhang, Z., Gaskins, C. T., ... Wright, R. W. jr. (2006). The basal nucleus-encoded mitochondrial transcription genes and meat quality in beef cattle. In Proceedings of the 8th World Congress on Genetics Applied to Livestock Production (pp. 22–24).

Jiang, Z., Kunej, T., Michal, J. J., Gaskins, C. T., Reeves, J. J., Busboom, J. R., ... Wright, R. W. (2005). Significant associations of the mitochondrial transcription factor A promoter polymorphisms with marbling and subcutaneous fat depth in Wagyu × Limousin F2 crosses. Biochemical and Biophysical Research Communications, 334(2), 516–523. doi:10.1016/j.bbrc.2005.06.120

Jiang, Z., Michal, J. J., Chen, J., Daniels, T. F., Kunej, T., Garcia, M. D., ... Macneil, M. D. (2009). Discovery of novel genetic networks associated with 19 economically important traits in beef cattle. International Journal of Biological Sciences, 5(6), 528–542. doi:10.7150/ijbs.5.528

Jiang, Z., Wang, Z., Kunej, T., Williams, G. A., Michal, J. J., Wu, X. L., & Magnuson, N. S. (2007). A novel type of sequence variation: multiple-nucleotide length polymorphisms discovered in the bovine genome. Genetics, 176(1), 403–407. doi:10.1534/genetics.106.069401

Kunej, T., Jevšinek Skok, D., Zorc, M., Ogrinc, A., Michal, J. J., Kovač, M., & Jiang, Z. (2013). Obesity gene atlas in mammals. Journal of Genomics, 1, 45–55. doi:10.7150/jgen.3996

Kunej, T., Wang, Z., Michal, J. J., Daniels, T. F., Magnuson, N. S., & Jiang, Z. (2007). Functional UQCRC1 polymorphisms affect promoter activity and body lipid accumulation. Obesity (Silver Spring), 15(12), 2896–2901. doi:10.1038/oby.2007.344

Li, L. C., & Dahiya, R. (2002). MethPrimer: designing primers for methylation PCRs. Bioinformatics, 18(11), 1427–1431. doi:10.1093/bioinformatics/18.11.1427

Wilson-Fritch, L., Burkart, A., Bell, G., Mendelson, K., Leszyk, J., Nicoloro, S., ... Corvera, S. (2003). Mitochondrial biogenesis and remodeling during adipogenesis and in response to the insulin sensitizer rosiglitazone. Molecular and Cellular Biology, 23(3), 1085–1094. doi:10.1128/MCB.23.3.1085-1094.2003




DOI: http://dx.doi.org/10.14720/aas.2016.108.2.1

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Copyright (c) 2016 Tanja KUNEJ, Zeping WANG, Jennifer J. MICHAL, Peter DOVČ, Nancy S. MAGNUSON, Zhihua JIANG

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Acta agriculturae Slovenica is an Open Access journal published under the terms of the Creative Commons CC BY-NC-ND 4.0 License.

                            


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