利用传递不平衡分析在多群体中鉴别猪脐疝易感基因

doi:10.3724/SP.J.1005.2014.0995

[an error occurred while processing this directive]

HEREDITAS(Beijing) ›› 2014, Vol. 36 ›› Issue (10): 995-1005.doi: 10.3724/SP.J.1005.2014.0995

• Research Articles • Previous Articles Next Articles

Identification of susceptibility gene for pig umbilical hernia in different populations using transmission disequilibrium test

Ying Su¹, Yi Long¹, Guorong Ruan^{1, 2}, Lihua Wu¹, Zhiyan Zhang¹, Shijun Xiao¹, Weiyun Deng¹, Xianshan Lv¹, Dou Hu¹, Guozao Wu¹, Huqun Shen¹, Xinjun Liao^{1, 3}, Nengshui Ding¹, Lusheng Huang¹

1. Candidate of National Key Laboratory for Animal Biotechnology, Jiangxi Agricultural University, Nanchang, 330045, China;
2. Fujian Vocational College of Agriculture, Fuzhou 350119, China;
3. College of Life Science of Jinggangshan University, Ji’an 343009, China

Received:2014-03-16 Online:2014-10-20 Published:2014-10-20

Abstract

Abstract: A genome-wide scan for pig umbilical hernia (UH) was performed in a White Duroc × Erhualian resource population reported by our previously study, which detected two susceptibility microsatellite markers (SWR1928 on SSC7 and SW830 on SSC10) significantly affecting pig UH. Herein, fine mapping studies and identification of susceptibility genes for UH were performed in two different populations. A total of 40 SNPs in 12 positional candidate genes located on the two significant segments were genotyped in the F₂/F₃ resource population. Quality control of the genotype data and transmission disequilibrium test (TDT) were conducted using Plink v1.07 software. The results showed that g.708G>A in IL16 (interleukin 16) gene and g.10664G>A in CDC73 (cell division cycle 73) gene were significantly associated with pig UH. These two prominent SNPs and another two weakly associated SNPs g.10546A>G and g.10811A>G in CDC73 were also undergone the replication TDT test in the outbred commercial populations. All SNPs in the CDC73 gene were confirmed to be significantly associated with pig UH (P<0.05), including g. 10546A>G and g.10811A>G with extreme significant level (P<0.01). Based on these results, CDC73 should be a susceptibility gene for pig UH according to its biological functions and the molecular pathogenesis of UH.

Key words: pig, umbilical hernia, positional and functional candidate gene, transmission disequilibrium test

Ying Su, Yi Long, Guorong Ruan, Lihua Wu, Zhiyan Zhang, Shijun Xiao, Weiyun Deng, Xianshan Lv, Dou Hu, Guozao Wu, Huqun Shen, Xinjun Liao, Nengshui Ding, Lusheng Huang. Identification of susceptibility gene for pig umbilical hernia in different populations using transmission disequilibrium test[J]. HEREDITAS(Beijing), 2014, 36(10): 995-1005.

References

[1] 李菊芬, 蒋武明, 谢新民. 猪遗传性疾患发生率的调查. 遗传, 1988, 10(4): 25-27.
[2] 徐海洪, 姜国伟, 段莹莹. 仔猪脐疝的防治. 黑龙江畜牧兽医, 2005, (4): 43-43.
[3] B, Bates R, May G. Anatomical abnormalities in a group of finishing pigs: prevalence and pig performance. J Swine Health Prod , 2009, 17(1): 28-31.
[4] HH, Nielsen EO, Hassing AG, Ersbøll AK, Niel-sen JP. Prevalence of clinical signs of disease in Danish finisher pigs. Vet Rec , 2008, 162(12): 377-382.
[5] R, Gardner IA, Hird DW. Effects of and factors associated with umbilical hernias in a swine herd. J Am Vet Med Assoc , 1994, 204(10): 1660-1664.
[6] S, Williams T. Finally, a sense of closure? Animal models of human ventral body wall defects. Bioessays , 2004, 26(12): 1307-1321.
[7] S, Williams T. Loss of AP-2α impacts multiple aspects of ventral body wall development and closure. Dev Biol , 2004, 267(2): 399-417.
[8] 夏焙, 林洲, 于红奎, 王娟. 儿童先天性肠旋转不良的超声诊断价值. 中华临床医师杂志(电子版), 2013, 7(6): 2429-2432.
[9] H, Adams MS, Fishwick K, Bronner-Fraser M, Nieto MA. Epithelial-mesenchymal transitions: the importance of changing cell state in development and disease. J Clin Invest , 2009, 119(6): 1438.
[10] N, Krieglstein K. Tgfß2 -/- Tgfß3 -/- double knockout mice display severe midline fusion defects and early em-bryonic lethality. Anat Embryol , 2002, 206(1-2): 73-83.
[11] B, Settleman J, Quinlan MP. Transitions between epithelial and mesenchymal states in development and disease. Semin Cell Dev Biol , 2008, 19(3): 294-308.
[12] R. The unified theory of hernia formation. Hernia , 2004, 8(3): 171-176.
[13] U, Zheng H, Si Z, Schumpelick V, Bhardwaj RS, Muys L, Klosterhalfen B. Expression of the extracellular matrix proteins collagen I, collagen III and fibronectin and matrix metalloproteinase-1 and -13 in the skin of patients with inguinal hernia. Eur Surg Res , 1999, 31(6): 480-490.
[14] PL, Mertens PR, Klinge U, Schumpelick V. The biology of hernia formation. Surgery , 2004, 136(1): 1-4.
[15] NS, Mao HR, Guo YM, Ren J, Xiao SJ, Wu GZ, Shen HQ, Wu LH, Ruan GF, Brenig B et al . A genome- wide scan reveals candidate susceptibility loci for pig hernias in an intercross between White Duroc and Erhualian. J Anim Sci , 2009, 87(8): 2469-2474.
[16] M, Tager-Cohen I, Feldmesser E, Ezra E, Kalay D, Roe B, Seroussi E, Weller JI. Bovine umbilical hernia maps to the centromeric end of Bos taurus autosome 8. Anim Genet , 2004, 35(6): 431-437.
[17] N, Nakamura K, Zvaritch E, Dickie P, Dziak E, Krause K-H, Opas M, MacLennan DH, Michalak M. Calreticulin is essential for cardiac development. J Cell Biol , 1999, 144(5): 857-868.
[18] H, Meier P, Buchert M, Jaenisch R, Mitchell PJ. Transcription factor AP-2 essential for cranial closure and craniofacial development. Nature , 1996, 381(6579): 235-238.
[19] J, Hagopian-Donaldson S, Serbedzija G, Elsemore J, Plehn-Dujowich D, McMahon AP, Flavell RA, Williams T. Neural tube, skeletal and body wall defects in mice lacking transcription factor AP-2. Nature , 1996, 381(6579): 238-241.
[20] L, Durst R, Shpitzen S, Leitersdorf E, Meiner V. Aplipoprotein E genotyping: accurate, simple, high through-put method using ABI Prism® SNaPshot™ Multiplex System. J Alzheimers Dis , 2004, 6(5): 497-501.
[21] N, Schowinsky V, Kokanovic O, Magnuson V, Ghosh S. A comparison between SNaPshot, pyrosequencing, and bip-lex invader SNP genotyping methods: accuracy, cost, and throughput. J Biochem Biophys Methods , 2004, 60(1): 1-12.
[22] S, Neale B, Todd-Brown K, Thomas L, Ferreira MAR, Bender D, Maller J, Sklar P, De Bakker PIW, Daly MJ, Sham PC. PLINK: a tool set for whole-genome association and population-based linkage analyses. Am J Hum Genet , 2007, 81(3): 559-575.
[23] AS, Halpern J. A class of tests for linkage using affected pedigree members. Biometrics , 1994, 50(1): 118-127.
[24] N, Merikangas K. The future of genetic studies of complex human diseases. Sc

Metrics

Comments

www.chinagene.cn
备案号：京ICP备09063187号

Identification of susceptibility gene for pig umbilical hernia in different populations using transmission disequilibrium test

PDF (PC)

Knowledge

Abstract

Cite this article

share this article

References

Related Articles 15

Recommended Articles

Metrics

Comments

[1]	Wenrui Shi, Hongzhu Qu, Xiangdong Fang. Overview of multi-omics research in gout [J]. Hereditas(Beijing), 2023, 45(8): 643-657.
[2]	Yanan Li, Xianjun Zhang, Ning Zhang, Yalin Liang, Yuxing Zhang, Huaxing Zhao, Zicong Li, Sixiu Huang. Effects of overexpression of histone H3K9me3 demethylase on development of porcine cloned embryos [J]. Hereditas(Beijing), 2023, 45(1): 67-77.
[3]	Fei Gao, Yu Wang, Jiaxiang Du, Xuguang Du, Jianguo Zhao, Dengke Pan, Sen Wu, Yaofeng Zhao. Advances and applications of genetically modified pig models in biomedical and agricultural field [J]. Hereditas(Beijing), 2023, 45(1): 6-28.
[4]	Mengxuan Xu, Ming Zhou. Advances of RNA polymerase IV in controlling DNA methylation and development in plants [J]. Hereditas(Beijing), 2022, 44(7): 567-580.
[5]	Yan Zhao, Chenxin Wang, Tianming Yang, Chunshuang Li, Lihong Zhang, Dongni Du, Ruoxi Wang, Jing Wang, Min Wei, Xueqing Ba. Linking oxidative DNA lesion 8-OxoG to tumor development and progression [J]. Hereditas(Beijing), 2022, 44(6): 466-477.
[6]	Hui Qu, Yi Liu, Yawen Chen, Hui Wang. Alteration of imprinted genes and offspring organ development caused by environmental factors [J]. Hereditas(Beijing), 2022, 44(2): 107-116.
[7]	Yangjinghui Zhang, Peiyao Chang, Zishu Yang, Yuhang Xue, Xueqi Li, Yang Zhang. Advances in epigenetic modification affecting anthocyanin synthesis [J]. Hereditas(Beijing), 2022, 44(12): 1117-1127.
[8]	Qingwen Zhao, Dongning Pan. Progress on the epigenetic regulation of adipose tissue thermogenesis [J]. Hereditas(Beijing), 2022, 44(10): 867-880.
[9]	Jiayu Yu, Ting Chen, Zhihua Wang, Juan Zheng, Tianshu Zeng. Diagnosis, treatment and genetic analysis of a case of skin hyperpigmentation as the only manifestation with X-linked adrenoleukodystrophy [J]. Hereditas(Beijing), 2022, 44(10): 983-989.
[10]	Jiangping He, Jiekai Chen. Epigenetic control of transposable elements and cell fate decision [J]. Hereditas(Beijing), 2021, 43(9): 822-834.
[11]	Wang Ya'nan, Tao Xu, Wanpeng Wang, Qingzhu Zhang, Xie Li'nan. Role of epigenetic modifications in the development of crops essential traits [J]. Hereditas(Beijing), 2021, 43(9): 858-879.
[12]	Jie Yuan, Shiqing Cai. The regulatory mechanisms of behavioral and cognitive aging [J]. Hereditas(Beijing), 2021, 43(6): 545-570.
[13]	Tianyi Wang, Yingxiang Wang, Chenjiang You. Structural and functional characteristics of plant PHD domain-containing proteins [J]. Hereditas(Beijing), 2021, 43(4): 323-339.
[14]	Dingwei Peng, Ruiqiang Li, Wu Zeng, Min Wang, Xuan Shi, Jianhua Zeng, Xiaohong Liu, Yaoshen Chen, Zuyong He. Editing the cystine knot motif of MSTN enhances muscle development of Liang Guang Small Spotted pigs [J]. Hereditas(Beijing), 2021, 43(3): 261-270.
[15]	Qiang Wei, Yan Ao, Manman Yang, Tao Chen, Hu Han, Xingju Zhang, Ran Wang, Qiuju Xia, Fangfang Jiang, Yong Li. Identification of genomic insertion of dominant-negative GHR mutation transgenes in Wuzhishan pig using whole genome sequencing method [J]. Hereditas(Beijing), 2021, 43(12): 1149-1158.