Genetic Effect and Detection of SNPs in Candidate Genes Related to Milk Production Traits of Xinjiang Brown Cattle

doi:10.11924/j.issn.1000-6850.casb16080102

Abstract

Abstract: This study aimed to explore the association between polymorphisms of candidate genes related to milk production traits and somatic cell score (SCS), and explore the genetic feature of polymorphism from these SNPs in Xinjiang brown cattle. Based on DNA pools with the Re-sequencing technology to gain SNPs data, totally screened 17 SNPs of FASN, FSHR, HAL, GPIHBP1, NIBPL, C9, PDE9A, PTK2, STAT1, ZNF66, ZNF567, ZNF7, ZNF623 and ZNF804A genes, at the same time, combining with Sequenom MassArray Genotype technology to detect the genetic polymorphism. The genetic effect of 17 SNPs on 305 d milk yield, milk fat percentage, milk protein percentage, milk lactin percentage, total solids content and SCS at Xinjiang Urumqi farm, Cattle farm in Tacheng area and Xinjiang Tianshan Animal Husbandry Biological Engineering Co., Ltd. were analyzed by GLM procedure of SAS8.1.Totally 262 Xinjiang Brown cattle. The results showed that the 17 SNPs were in Hardy-Weinberg equilibrium, and 9 SNPs had significant (P<0.005) or extremely significant (P<0.001) association with milk production traits, and these SNPs were located in FASN, FSHR, HAL, ZNF66, ZNF7, ZNF804A, GPIHBP1 and PDE9A genes. Association analysis results of this study provide a theoretical basis and reference for the molecular marker-assisted selection in Xinjiang brown cattle.

References

[1] Alain Vignal, Denis Milan, Magali San Cristobal. A review on SNP and other types of molecular markers and their use in animal genetics [J]. Genetics Se1etion Evolution Gse, 2002, 34(3): 275-305.
[2] 唐立群 ,肖层林, 王伟平.SNP分子标记的研究及其应用进展[J].中国农学通报,2012,28(12)：154-158.
[3] 初芹, 李东, 侯诗宇, 等.基于DNA池测序法筛选奶牛高信息量SNP标记的可行性[J].遗传,2014,36(7)：691-696.
[4] 李峥, 李馨, 邵广, 等. 奶牛泌乳性状相关基因的研究进展[J]. 黑龙江畜牧兽医,2016,07:76-78.
[5] 付雪峰, 王雅春, 郭俊青,等. 新疆褐牛产奶量校正系数的制定[J]. 畜牧兽医学报, 2010, 41(5):536-542.
[6] 白瑞景, 孙少华, 马亚宾.乳中体细胞数或体细胞评分变化规律及其与乳成分的关系研究[J].畜牧与兽医,2010,42(12)：79-81.
[7] Oeth P B M, Park C, Kosman D, et al. iPLEX? Assay: Increased Plexing Efficiency and Flexibility for MassARRAY System Through Single Base Primer Extension with Mass-Modified Terminators[J]. 2007.
[8] 王小龙. 中国荷斯坦牛体型线性评定、K-CN基因、FASN基因多态性及其与部分生产性状的相关分析[D]. 扬州: 扬州大学, 2007.
[9] 侯玉洁, 常玲玲, 冒海赟, 等. 中国荷斯坦牛 FASN 基因单核苷酸多态性对脂肪酸含量的影响[J]. 中国奶牛, 2011 (18): 1-4.
[10] 印贤琴, 周燕, 张清. FSHR基因多态性与卵巢早衰和多囊卵巢综合征的关系[J]. 广东医学,2016,01:113-117.
[11] 陶新, 邓波, 门小明, 等. 不同猪种肉质相关基因 Hal, RN 和 FTO 的多态性研究[J]. 畜牧兽医学报, 2012, 43(5): 676-683.
[12] 刘卫东, 吴常信, 陶立. 中国地方品种淮猪 FSHβ 亚基, ESR 和 HAL 基因的多态性及其产仔效应分析[J]. 中国畜牧杂志, 2006, 42(15): 4-7.
[13] Wang H, Jiang L, Wang W, et al. Associations between variants of the HAL gene and milk production traits in Chinese Holstein cows[J]. BMC Genetics, 2014, 15(1): 125-131.
[14] Jiang L, Liu J, Sun D, et al. Genome wide association studies for milk production traits in Chinese Holstein population[J]. Plos One, 2010, 5(10): e13661.
[15] 韩燕, 王彬, 焦李子, 等. znf804a 基因遗传多态性在精神分裂症患者核心家系中的传递不平衡检验[J]. 西安交通大学学报, 2012 (2):5-11.
[16] Walters J T R, Corvin A, Owen M J, et al. Psychosis susceptibility gene ZNF804A and cognitive performance in schizophrenia[J]. Archives of General Psychiatry, 2010, 67(7): 692-700.
[17] Kuswanto C N, Woon P S, Zheng X B, et al. Genome-wide supported psychosis risk variant in ZNF804A gene and impact on cortico–limbic WM integrity in schizophrenia[J]. American Journal of Medical Genetics Part B: Neuropsychiatric Genetics, 2012, 159(3): 255-262.
[18] Guipponi M, Scott H S, Kudoh J, et al. Identification and characterization of a novel cyclic nucleotide phosphodiesterase gene (PDE9A) that maps to 21q22. 3: alternative splicing of mRNA transcripts, genomic structure and sequence[J]. Human Genetics, 1998, 103(4): 386-392.
[19] Almeida C B, Traina F, Lanaro C, et al. High expression of the cGMP‐specific phosphodiesterase, PDE9A, in sickle cell disease (SCD) and the effects of its inhibition in erythroid cells and SCD neutrophils[J]. British Journal of Haematology, 2008, 142(5): 836-844.
[20] Wang P, Wu P, Egan R W, et al. Identification and characterization of a new human type 9 cGMP-specific phosphodiesterase splice variant (PDE9A5): differential tissue distribution and subcellular localization of PDE9A variants[J]. Gene, 2003, 314: 15-27.
[21] 谢岩. 奶牛产奶性状候选基因 EEF1D和PDE9A功能验证[D]. 北京: 中国农业大学, 2013.
[22] 单丽红, 徐伟珍, 毛伟敏. NIPBL调控肿瘤细胞分化的可能机制研究[J]. 医学研究杂志, 2013, 42(12): 133-135.
[23] Misulovin Z, Schwartz Y B, Li X Y, et al. Association of cohesin and Nipped-B with transcriptionally active regions of the Drosophila melanogaster genome[J]. Chromosoma, 2008, 117(1): 89-102.
[24] Kim E S, Kirkpatrick B W. Linkage disequilibrium in the North American Holstein population[J]. Animal Genetics, 2009, 40(3): 279-288.
[25] Calafell F, Grigorenko E L, Chikanian A A, et al. Haplotype evolution and linkage disequilibrium: a simulation study[J]. Human Heredity, 2000, 51(1-2): 85-96.
[26] 何峰, 孙东晓, 俞英, 等.荷斯坦奶牛STAT5A基因的SNPs检测及其与产奶性状的关联分析[J].畜牧兽医学报,2007,38(4):326-331.