|
|
|
|
|
| Expression analysis, single nucleotide polymorphisms within SIRT4 and SIRT7 genes and their association with body size and meat quality traits in Qinchuan cattle |
| GUI Lin-sheng1*, XIN Xiao-ling2*, WANG Jia-li1*, HONG Jie-yun1*, ZAN Lin-sen1 |
1 College of Animal Science and Technology, Northwest A&F University, Yangling 712100, P.R.China
2 Institute of Animal Husbandry and Veterinary Medicine, Henan Academy of Agricultural Scinece, Zhengzhou 450008, P.R.China |
|
|
|
|
Abstract Silent information regulator 2 (Sir2) proteins, or sirtuins, are nicotine adenine dinucleotide (NAD)-dependent deacetylases that connect metabolism with longevity in lower organisms. In mammals, there are seven Sir2 homologs, namely, silent information regulators (SIRT1–7). SIRT4 and SIRT7 genes play a crucial role in regulating lipid metabolism, cellular growth and metabolism. This suggests that they are potential candidate genes for affecting body size and meat quality traits in animals. Hence, this study aimed to detect genetic variations of both SIRT4 and SIRT7 bovine genes in Qinchuan cattle, and to evaluate the effect of these variations on economically important body size and meat quality traits. Expression analysis using quantitative real-time PCR (qPCR) indicated that SIRT4 and SIRT7 were broadly expressed in all thirteen studied tissues. The expression of SIRT4 was higher in liver, muscle, and in subcutaneous fat tissue. In the case of SIRT7, the expression was higher in lung, abomasum, and subcutaneous fat. Using DNA sequencing, a total of three single nucleotide polymorphisms (SNPs) were identified within SIRT4 and SIRT7 genes in 468 Qinchuan cattle. These included one novel SNP within 3´ untranslated regions (UTR) of SIRT4 (SNP1: g.13915A>G) and two novel synonymous substitutions in SIRT7 (SNP2: g.3587C>T and SNP3: g.3793T>C). Statistical analyses indicated that all three SNPs could significantly influence some body size and meat quality traits in Qinchuan cattle. These novel findings will provide a background for application of bovine SIRT4 and SIRT7 genes in the selection program of Chinese cattle.
|
|
Received: 15 January 2016
Accepted:
|
| Fund: The research was supported by the National 863 Program of China (2013 AA102505), the National Natural Science Foundation of China (31272411 and 31402044), the National Beef and Yak Industrial Technology System, China (CARS-38), the China Postdoctoral Science Foundation (2016M590976), and the Key Technologies R&D Program of Henan Province, China (122102110062). |
|
Corresponding Authors:
ZAN Lin-sen, Tel: +86-29-87091923, Fax: +86-29-87092164, E-mail: zanlinsen@163.com
|
| About author: GUI Lin-sheng, E-mail: guilinsheng1234@163.com; |
Cite this article:
GUI Lin-sheng, XIN Xiao-ling, WANG Jia-li, HONG Jie-yun, ZAN Lin-sen.
2016.
Expression analysis, single nucleotide polymorphisms within SIRT4 and SIRT7 genes and their association with body size and meat quality traits in Qinchuan cattle. Journal of Integrative Agriculture, 15(12): 2819-2826.
|
| Ahuja N, Schwer B, Carobbio S, Waltregny D, North B J, Castronovo V, Maechler P, Verdin E. 2007. Regulation of insulin secretion by SIRT4, a mitochondrial ADP-ribosyltransferase. The Journal of Biological Chemistry, 282, 33583–23592.Bruford M W, Bradley D G, Luikart G. 2003. DNA markers reveal the complexity of livestock domestication. Nature Reviews Genetics, 4, 900–910.Chang M T, Cheng Y S, Huang M C. 2012. A novel non-synonymous SNP of the COLX gene and its association with duck reproductive traits. Molecular and Cellular Probes, 26, 204–207.Chen N B, Ma Y, Yang T, Lin F, Fu W W, Xu Y J, Li F, Li J Y, Gao S X. 2015. Tissue expression and predicted protein structures of the bovine ANGPTL3 and association of novel SNPs with growth and meat quality traits. Animal, 9, 1285–1297.D’Andrea M, Pilla F, Giuffra E, Waddington D, Archibald A L. 2008. Structural analysis and haplotype diversity in swine LEP and MC4R genes. Journal of Animal Breeding and Genetics, 125, 130–136. Duan J, Wainwright M S, Comeron J M, Saitou N, Sanders A R, Gelernter J, Gejman P V. 2003. Synonymous mutations in the human dopamine receptor D2 (DRD2) affect mRNA stability and synthesis of the receptor. Human Molecular Genetics, 12, 205–216.Ford E, Voit R, Liszt G, Magin C, Grummt I, Guarente L. 2006. Mammalian Sir2 homolog SIRT7 is an activator of RNA polymerase I transcription. Genes & Development, 20, 1075–1080.Frye R A. 2000. Phylogenetic classification of prokaryotic and eukaryotic Sir2-like proteins. Biochemical and Biophysical Research Communications, 273, 793–798.Ghinis-Hozumi Y, Gonzalez-Gallardo A, Gonzalez-Davalos L, Antaramian A, Villarroya F, Shimada A, Varela-Echavarria A, Mora O. 2011. Bovine sirtuins: Initial characterization and expression of Sirt1 and Sirt3 in liver, muscle, and adipose tissue. Journal of Animal Science, 89, 2529–2536.Gilbert R P, Bailey D R, Shannon N H. 1993. Linear body measurements of cattle before and after 20 years of selection for post weaning gain when fed two different diets. Journal of Animal Science, 71, 1712–1720.Guarente L. 2007. Sirtuins in aging and disease. Cold Spring Harbor Symposia on Quantitative Biology, 72, 483–488.Gui L, Hao R, Zhang Y, Zhao X, Zan L. 2015. Haplotype distribution in the class I sirtuin genes and their associations with ultrasound carcass traits in Qinchuan cattle (Bos taurus). Molecular and Cellular Probes, 29, 167–171.Haigis M C, Mostoslavsky R, Haigis K M, Fahie K, Christodoulou D C, Murphy A J, Valenzuela D M, Yancopoulos G D, Karow M, Blander G, Wolberger C, Prolla T A, Weindruch R, Alt F W, Guarente L. 2006. SIRT4 inhibits glutamate dehydrogenase and opposes the effects of calorie restriction in pancreatic beta cells. Cell, 126, 941–954.Huang Y Z, He H, Sun J J, Wang J, Li Z J, Lan X Y, Lei C Z, Zhang C L, Zhang E P, Wang J Q, Chen H. 2011. Haplotype combination of SREBP-1c gene sequence variants is associated with growth traits in cattle. Genome, 54, 507–516.Jeong S M, Xiao C, Finley L W, Lahusen T, Souza A L, Pierce K, Li Y H, Wang X, Laurent G, German N J, Xu X, Li C, Wang R H, Lee J, Csibi A, Cerione R, Blenis J, Clish C B, Kimmelman A, Deng C X, et al. 2013. SIRT4 has tumor-suppressive activity and regulates the cellular metabolic response to DNA damage by inhibiting mitochondrial glutamine metabolism. Cancer Cell, 23, 450–463.Kimchi-Sarfaty C, Oh J M, Kim I W, Sauna Z E, Calcagno A M, Ambudkar S V, Gottesman M M. 2007. A “silent” polymorphism in the MDR1 gene changes substrate specificity. Science, 315, 525–528.Kim E A, Yang S J, Choi S Y, Lee W J, Cho S W. 2012. Inhibition of glutamate dehydrogenase and insulin secretion by KHG26377 does not involve ADP-ribosylation by SIRT4 or deacetylation by SIRT3. BMB Reports, 45, 458–463.Laurent G, German N J, Saha A K, de Boer V C, Davies M, Koves T R, Dephoure N, Fischer F, Boanca G, Vaitheesvaran B, Lovitch S B, Sharpe A H, Kurland I J, Steegborn C, Gygi S P, Muoio D M, Ruderman N B, Haigis M C. 2013. SIRT4 coordinates the balance between lipid synthesis and catabolism by repressing malonyl CoA decarboxylase. Molecular Cell, 50, 686–698.Lee S, Kasif S, Weng Z, Cantor C R. 2008. Quantitative analysis of single nucleotide polymorphisms within copy number variation. PLoS ONE, 3, e3906.Lin S J, Defossez P A, Guarente L. 2000. Requirement of NAD and SIR2 for life-span extension by calorie restriction in Saccharomyces cerevisiae. Science, 289, 2126–2128.Michishita E, Park J Y, Burneskis J M, Barrett J C, Horikawa I. 2005. Evolutionarily conserved and nonconserved cellular localizations and functions of human SIRT proteins. Molecular Biology of the Cell, 16, 4623–4635.Mullenbach R, Lagoda P J, Welter C. 1989. An efficient salt-chloroform extraction of DNA from blood and tissues. Trends in Genetics, 5, 391.Nasrin N, Wu X, Fortier E, Feng Y, Bare O C, Chen S, Ren X, Wu Z, Streeper R S, Bordone L. 2010. SIRT4 regulates fatty acid oxidation and mitochondrial gene expression in liver and muscle cells. The Journal of Biological Chemistry, 285, 31995–32002.Pagani F, Raponi M, Baralle F E. 2005. Synonymous mutations in CFTR exon 12 affect splicing and are not neutral in evolution. Proceedings of the National Academy of Sciences of the United States of America, 102, 6368–6372.Ren G, Chen H, Zhang L Z, Lan X Y, Wei T B, Li M J, Jing Y J, Lei C Z, Wang J Q. 2010. A coding SNP of LHX4 gene is associated with body weight and body length in bovine. Molecular Biology Reports, 37, 417–422.Rigo F, Martinson H G. 2008. Functional coupling of last-intron splicing and 3´-end processing to transcription in vitro: the poly (A) signal couples to splicing before committing to cleavage. Molecular and Cellular Biology, 28, 849–862.Rincon G, Farber E A, Farber C R, Nkrumah J D, Medrano J F. 2009. Polymorphisms in the STAT6 gene and their association with carcass traits in feedlot cattle. Animal Genetics, 40, 878–882.Shin J, He M, Liu Y, Paredes S, Villanova L, Brown K, Qiu X, Nabavi N, Mohrin M, Wojnoonski K, Li P, Cheng H L, Murphy A J, Valenzuela D M, Luo H, Kapahi P, Krauss R, Mostoslavsky R, Yancopoulos, G D, Alt F W, et al. 2013. SIRT7 represses Myc activity to suppress ER stress and prevent fatty liver disease. Cell Reports, 5, 654–665.Vassilopoulos A, Fritz K S, Petersen D R, Gius D. 2011. The human sirtuin family evolutionary divergences and functions. Human Genomics, 5, 485–496. |
| No Suggested Reading articles found! |
|
|
Viewed |
|
|
|
Full text
|
|
|
|
|
Abstract
|
|
|
|
|
Cited |
|
|
|
|
| |
Shared |
|
|
|
|
| |
Discussed |
|
|
|
|
