我国地方鸡种TAP2基因SNP筛查及遗传结构分析

doi:10.12160/j.issn.1672-5190.2019.12.004

畜牧与饲料科学 ›› 2019, Vol. 40 ›› Issue (12): 15-19.doi: 10.12160/j.issn.1672-5190.2019.12.004

我国地方鸡种TAP2基因SNP筛查及遗传结构分析

王莎莎¹, 刘宗正¹, 张宝珣¹, 刘虎传¹, 郝小静¹, 李培培¹, 黄晓¹, 原小雅², 常国斌²

1.青岛市畜牧兽医研究所,山东青岛 266000;
2.扬州大学,江苏扬州 225000

收稿日期:2019-11-09 出版日期:2019-12-30 发布日期:2020-03-05
通讯作者: 常国斌(1975—),男,教授,博士,主要从事遗传资源的研究工作。
作者简介:王莎莎(1989—),女,博士,主要从事地方遗传资源保护工作。

SNP Screening and Genetic Structure Analysis of TAP2 Gene in Local Chicken Breeds in China

WANG Sha-sha¹, LIU Zong-zheng¹, ZHANG Bao-xun¹, LIU Hu-chuan¹, HAO Xiao-jing¹, LI Pei-pei¹, HUANG Xiao¹, YUAN Xiao-ya², CHANG Guo-bin²

1.Qingdao Animal Husbandry and Veterinary Medicine Research Institute, Qingdao 266000, China;
2.Yangzhou University, Yangzhou 225000, China

Received:2019-11-09 Online:2019-12-30 Published:2020-03-05

摘要/Abstract

摘要： 抗原处理相关转运体基因(TAP)位于主要组织相容性复合体区域,而由TAP1 和TAP2 组成的二聚体能够将抗原肽从细胞质转运入内质网腔,因此,其在免疫反应过程中发挥重要的呈递作用。[目的]检测26个鸡种TAP2基因全长的序列信息,分析TAP2基因单核苷酸多态性,并进一步研究TAP2不同SNPs位点对其蛋白结构的影响及其在不同鸡种中的遗传变异特点。[方法]采用目标捕获序列测序方法,检测26个鸡种的260个体的TAP2基因全长,利用DNAMAN软件对26个鸡品种的测序序列进行比对分析,筛选不同鸡种TAP2基因存在的SNP位置以及类型,并通过软件预测分析SNP对蛋白的影响,进一步构建系统进化树,探究不同鸡种同源性。[结果]TAP2基因总共有效测序长度为3 037 bp,在不同鸡种中一共发生了20个位点的突变,具有较为丰富的遗传多样性,其中9个SNP发生在外显子上,其余则存在于内含子,同时分析了对编码氨基酸产生影响的4个SNP(rs316795220、rs738706078、rs739725385、rs732937653)对蛋白结构的影响。[结论]鸡TAP2基因具有较高的多态性,这些丰富多态的基因的存在为进一步利用丰富的资源提供了原始材料。该研究为TAP2基因转运抗体功能关联研究候选SNPs的选择提供了科学依据。

关键词: 鸡, TAP2, SNP, 抗性

Abstract: Transporter associated with antigen processing (TAP) genes are located in the major histocompatibility complex (MHC) region, and the dimers composed of TAP1 and TAP2 can transport the antigen peptide from cytoplasm into the endoplasmic reticulum cavity. Therefore, they play an important presentative role in an immune response. [Objective]To further reveal the effect of varied SNPs in TAP2 genes on their proteins structure, and to characterize their genetic variation in different chicken breeds. [Method]Target capture sequencing assay was used to determine the full length of TAP2 genes in 260 chicken individuals of 26 breeds. The multiple sequence alignment analysis among the obtained sequences of 26 chicken breeds was carried out using DNAMAN software to screen the locations and to determine the types of the SNPs in TAP2 genes in 26 chicken breeds. The impact of the SNPs in TAP2 genes on their corresponding proteins structure was predicted via bioinformatics software. The phylogenetic tree was established to assess the homology of TAP2 genes among different chicken breeds. [Result]The effective sequencing length of TAP2 gene was 3 037 bp. A total of 20 SNPs were observed in the 26 different chicken breeds, indicating a rich genetic diversity. Among them, 9 were found in exons and the remaining ones were located in introns. The effect of four SNPs (rs316795220, rs738706078, rs739725385 and rs732937653) on structure of the proteins encoded by them was characterized. [Conclusion]The TAP2 gene in chicken has rich genetic diversity, providing abundant original materials for further application of these germplasm resources of chickens. Our results give new insights into the studies on selection of candidate SNPs in TAP2 gene involved in antibody transportation function.

Key words: chicken, TAP2, SNP, resistance

中图分类号:

S831.892

王莎莎, 刘宗正, 张宝珣, 刘虎传, 郝小静, 李培培, 黄晓, 原小雅, 常国斌. 我国地方鸡种TAP2基因SNP筛查及遗传结构分析[J]. 畜牧与饲料科学, 2019, 40(12): 15-19.

WANG Sha-sha, LIU Zong-zheng, ZHANG Bao-xun, LIU Hu-chuan, HAO Xiao-jing, LI Pei-pei, HUANG Xiao, YUAN Xiao-ya, CHANG Guo-bin. SNP Screening and Genetic Structure Analysis of TAP2 Gene in Local Chicken Breeds in China[J]. Animal Husbandry and Feed Science, 2019, 40(12): 15-19.

参考文献

[1] PAMER E,CRESSWELL P.Mechanisms of MHC class Ⅰ——restricted antigen processing[J].Annual Review of Immunology,1998(16):323-358.
[2] NATTER C,POLTERAUER S,RAHHAL-SCHUPP J,et al.Association of TAP gene polymorphisms and risk of cervical intraepithelial neoplasia[J].Disease Markers,2013,35(2):79-84.
[3] KELLY A,POWIS S H,KERR L A,et al.Assembly and function of the two ABC transporter proteins encoded in the human major histocompatibility complex[J].Nature,1992,355(6361):641-644.
[4] ABELE R,TAMPÉ R.The ABCs of immunology:structure and function of TAP,the transporter associated with antigen processing[J].Physiology,2004(19):216-224.
[5] CORRADI V,SINGH G,TIELEMAN D P.The human transporter associated with antigen processing:molecular models to describe peptide binding competent states[J].The Journal of Biological Chemistry,2012,287(33):28099-28111.
[6] LEONHARDT R M,ABRAHIMI P,MITCHELL S M,et al.Three tapasin docking sites in TAP cooperate to facilitate transporter stabilization and heterodimerization[J].Journal of Immunology,2014,192(5):2480-2494.
[7] THEODORATOS A,WHITTLE B,ENDERS A,et al.Mouse strains with point mutations in TAP1 and TAP2[J].Immunology and Cell Biology,2010,88(1):72-78.
[8] 张晓娜,吴少莲,文辉强,等.鸭抗原相关转运体TAP1和TAP2原核表达及多克隆抗体的制备[J].黑龙江畜牧兽医,2015(11):40-43.
[9] MARSH S G,ALBERT E D,BODMER W F,et al.Nomenclature for factors of the HLA system,2004[J].Human Immunology,2005,66(5):571-636.
[10] POWIS S J,YOUNG L L,JOLY E,et al.The rat cim effect: TAP allele-dependent changes in a class Ⅰ MHC anchor motif and evidence against C-terminal trimming of peptides in the ER[J].Immunity,1996,4(2):159-165.
[11] WALKER B A,Van HATEREN A,MILNE S,et al.Chicken TAP genes differ from their human orthologues in locus organisation,size,sequence features and polymorphism[J].Immunogenetics,2005,57(3/4):232-247.
[12] SAHA A,DHIR A,RANJAN A,et al.Functional IFNG polymorphism in intron 1 in association with an increased risk to promote sporadic breast cancer[J].Immunogenetics,2005,57(3/4):165-171.
[13] GOJANOVICH G S,ROSS P,HOLMER S G,et al.Characterization and allelic variation of the transporters associated with antigen processing (TAP) genes in the domestic dog (Canis lupus familiaris)[J].Dev Comp Immunol,2013,41(4):578-586.
[14] REN Y X,YANG J,ZHANG L J,et al.Downregulation of expression of transporters associated with antigen processing 1 and 2 and human leukocyte antigen Ⅰ and its effect on immunity in nasopharyngeal carcinoma patients[J].Molecular and Clinical Oncology,2014,2(1):51-58.
[15] 吕宝忠. 分子进化树的构建[J].动物学研究,1993(2):186-193.

我国地方鸡种TAP2基因SNP筛查及遗传结构分析

SNP Screening and Genetic Structure Analysis of TAP2 Gene in Local Chicken Breeds in China

PDF (PC)

可视化

摘要/Abstract

引用本文

使用本文

参考文献

相关文章 15

编辑推荐

Metrics

本文评价

[1]	李进春, 李莉, 何瑞, 陈霞, 张凤芳, 龚洋. 日粮中联合添加大豆异黄酮和胆汁酸对绿壳蛋鸡生产性能及血清生理生化指标的影响[J]. 畜牧与饲料科学, 2024, 45(1): 31-35.
[2]	王潇, 李慧, 苏少锋, 赵濛, 田菁, 赵鸿雁, 左兰明, 梁智杰, 王金环, 田如刚. 内蒙古呼伦贝尔地区本土牛牛肉黄脂现象的相关基因和代谢组学研究[J]. 畜牧与饲料科学, 2023, 44(6): 1-12.
[3]	李啊诗, 刘盼, 张新楠, 胡雨露, 李玉杰, 赵扬, 吴尚泽, 贺建忠, 张梦迪. 棉酚对雄性肉仔鸡生长性能、血清抗氧化能力及肾脏病理组织形态的影响[J]. 畜牧与饲料科学, 2023, 44(6): 22-30.
[4]	石建州, 于金冉, 王彦伟, 王铁军, 李娜, 刘阳坤, 姚伦广. 淅川乌骨鸡出壳前后胸肌的全转录组表达谱分析[J]. 畜牧与饲料科学, 2023, 44(5): 1-7.
[5]	郭元印, 束佳敏, 侯煜飞, 丁昱, 王健男, 宋存涛, 阿衣古丽, 戴小华. 野山杏总黄酮对三黄肉鸡屠宰性能的影响[J]. 畜牧与饲料科学, 2022, 43(6): 36-41.
[6]	熊菊萍, 肖滢宇, 张诚, 韩青松, 高小龙, 李增魁, 文英, 仝丽娜. 1株鸡源奇异变形杆菌的分离鉴定及药敏试验[J]. 畜牧与饲料科学, 2022, 43(5): 106-111.
[7]	史鑫锐, 陈滢锴, 陈中婷, 赵尉丹, 江明生, 陈海兰. 鸡血藤总黄酮对环磷酰胺所致小鼠肝损伤的保护作用[J]. 畜牧与饲料科学, 2022, 43(4): 8-13.
[8]	周国彪,艾青,尹忠文. 无量山乌骨鸡体重和体尺测定及相关性分析[J]. 畜牧与饲料科学, 2022, 43(4): 80-83.
[9]	解静菲, 陈诺蔓, 李潞, 岳珂, 何彦锋, 刘凯莉, 徐婷婷, 张朝栋, 林露茜, 曹芹芹, 张喜文, 黄淑成. 黄曲霉毒素对肉鸡毒性作用的研究进展[J]. 畜牧与饲料科学, 2022, 43(3): 53-58.
[10]	李秀富. 2种中药免疫增强剂对肉仔鸡新城疫疫苗免疫效果的影响[J]. 畜牧与饲料科学, 2022, 43(3): 108-111.
[11]	石庆珍, 宋冠中, 郇树乾. 香茅草粉替代抗生素对文昌鸡生长性能的影响[J]. 畜牧与饲料科学, 2021, 42(5): 23-27.
[12]	植石全, 张恒通, 韦武奇, 李晓阳. 规模化养殖罗曼粉商品蛋鸡产蛋率和累计产蛋数曲线拟合分析[J]. 畜牧与饲料科学, 2021, 42(4): 54-60.
[13]	曹芹芹, 岳珂, 林露茜, 徐婷婷, 张朝栋, 郑晶晶, 孔安安, 仝宗喜, 黄淑成. 福美双对肉鸡股骨生长发育的影响及巴戟天多糖保护效果的研究[J]. 畜牧与饲料科学, 2021, 42(4): 110-117.
[14]	岳珂, 徐婷婷, 曹芹芹, 林露茜, 张朝栋, 郑晶晶, 仝宗喜, 黄淑成. 赭曲霉毒素A对肉鸡毒性作用的研究进展[J]. 畜牧与饲料科学, 2021, 42(3): 47-52.
[15]	于辉, 李金磊, 方忠意, 巩丹. 河南省鸡源结肠弯曲杆菌的分离鉴定及耐药性分析[J]. 畜牧与饲料科学, 2021, 42(3): 111-114.