干旱胁迫棉花转录组DNA损伤修复相关基因的分析

doi:10.6048/j.issn.1001-4330.2017.11.005

新疆农业科学 ›› 2017, Vol. 54 ›› Issue (11): 1999-2005.DOI: 10.6048/j.issn.1001-4330.2017.11.005

干旱胁迫棉花转录组DNA损伤修复相关基因的分析

包秋娟, 张丽丽, 海那尔·乌拉孜巴依, 张富春

新疆大学生命科学与技术学院/新疆生物资源基因工程重点实验室,乌鲁木齐 830046

收稿日期:2017-09-28 出版日期:2017-11-20 发布日期:2017-12-06
通信作者: 张富春(1962-),男,新疆乌鲁木齐人,教授,博士,研究方向为分子生物学,(E-mail)zfcxju@xju.edu.cn
作者简介:包秋娟(1993-),女,新疆麦盖提人,硕士研究生,研究方向为植物分子生物学,(E-mail)1515643021@qq.com
基金资助:
国家自然科学基金-新疆联合基金重点项目“棉花水分高效利用的关键基因的挖掘及抗旱种质材料的创制”(U1303282)

Analysis of DNA Damage Repair Related Genes in Drought Stress Cotton Transcriptome

BAO Qiu-juan, ZHANG Li-li, Hainar Wulazibai, ZHANG Fu-chun

College of Life Science and Technology, Xinjiang Key Laboratory of Biological Resources and Genetic Engineering, Urumqi 830046, China

Received:2017-09-28 Online:2017-11-20 Published:2017-12-06
Correspondence author: ZHANG Fu-chun (1962-), male, native place: Urumqi, Xinjiang. Professor,research field: Molecular biology. (E-mail)zfcxju@xju.edu.cn
Supported by:
Joint Key Fund of National Natural Science Foundation of China and Xinjiang "Exploration of key genes related to high-efficiency water utilization in cotton and creation of drought resistant germplasm"(U1303282)

摘要/Abstract

摘要： 【目的】研究干旱胁迫下,棉花 DNA 损伤修复基因的表达情况,从整体水平探讨棉花DNA损伤修复相关基因表达与抗旱的相关性。【方法】用2.5%PEG6000处理棉花幼苗,利用RNA-Seq技术对干旱胁迫下棉花幼苗的转录组进行测序。【结果】从棉花干旱胁迫响应的转录组中,筛选获得差异表达的 DNA损伤修复相关基因共51个,其中差异表达的上调基因23个,差异表达的下调基因28个,干旱胁迫能够影响棉花DNA损伤修复相关基因的表达。选取4个差异基因进行生物信息学分析及qRT-PCR验证,HMGB1、recA1、UDGs和GMP synthase基因的表达变幅有一定的差异,但基因的表达趋势一致,棉花转录组测序结果通过qRT-PCR验证是可靠的。【结论】DNA损伤修复相关基因可能与干旱胁迫有一定的相关性,干旱胁迫能够影响棉花DNA损伤修复相关基因的表达。

关键词: 棉花; 干旱胁迫; 转录组测序; DNA损伤修复相关基因; 差异表达

Abstract: 【Objective】 The study aims to investigate the expression of DNA damage repair related genes in cotton under drought stress, and to explore the correlation between the expression of DNA damage repair related genes and drought resistance at the whole level.【Method】2.5% PEG 6000 was used to treat cotton, and transcriptome was sequenced using RNA-Seq technology of cotton seedlings under drought stress.【Result】A total of 51 genes with differentially expressed DNA damage were filtered from the transcripts of cotton drought stress response, among which there were 23 differentially up-regulated expressed genes and 28 differentially down-regulated expressed genes, which showed that drought stress could affect the expression of DNA repair related genes in cotton. 4 genes were selected by bioinformatics analysis and verification results showed that the expression of qRT-PCR, HMGB1, recA1, UDGs amplitude and GMP synthase gene displayed some differences, but the gene expression trends were consistent, showing that cotton transcriptome sequencing results verified by qRT-PCR were reliable.【Conclusion】The DNA damage repair related genes may be related to drought stress, so drought stress could affect the expression of DNA damage related genes.

Key words: cotton; drought stress; transcriptome sequencing; DNA damage repair related gene; differential expression

中图分类号:

S562
Q756

包秋娟, 张丽丽, 海那尔·乌拉孜巴依, 张富春. 干旱胁迫棉花转录组DNA损伤修复相关基因的分析[J]. 新疆农业科学, 2017, 54(11): 1999-2005.

BAO Qiu-juan, ZHANG Li-li, Hainar Wulazibai, ZHANG Fu-chun. Analysis of DNA Damage Repair Related Genes in Drought Stress Cotton Transcriptome[J]. Xinjiang Agricultural Sciences, 2017, 54(11): 1999-2005.

参考文献 36

[1]	Bian, X. Y., Rasheed, M. S., Seemanpillai, M. J., & Ali, R. M. (2006). Analysis of silencing escape of tomato leaf curl virus: an evaluation of the role of dna methylation. Molecular plant-microbe interactions: MPMI, 19(6): 614.
[2]	张冀, 杜驰, 张富春. 盐胁迫下盐穗木DNA聚合酶λ基因的克隆和表达分析[J]. 新疆农业科学, 2017, 54(2):361-370.ZHANG Ji, DU Chi, ZHANG Fu-chun. (2017). .Cloning and Expression Analysis of HcDNA pol λ Gene from Halostachys caspica under Salt Stress [J]. Xinjiang Agricultural Sciences, 54(2):361-370. (in Chinese)
[3]	Kozak, J., West, C. E., White, C., Da, C. N. J., & Angelis, K. J. (2009). Rapid repair of dna double strand breaks in arabidopsis thaliana is dependent on proteins involved in chromosome structure maintenance. Dna Repair, 8(3): 413-419.
[4]	Sujit, R. (2014). Maintenance of genome stability in plants: repairing DNA double strand breaks and chromatin structure stability. Frontiers in Plant Science, (5): 487.
[5]	West, C. E., Waterworth, W. M., Sunderland, P. A., & Bray, C. M. (2004). Arabidopsis dna double-strand break repair pathways. Biochemical Society Transactions, 32(6): 946-964.
[6]	Roy, S., Choudhury, S. R., Singh, S. K., & Das, K. P. (2011). Atpolλ, a homolog of mammalian dna polymerase λ in arabidopsis thaliana, is involved in the repair of uv-b induced dna damage through the dark repair pathway. Plant & Cell Physiology, 52(2): 448-467.
[7]	Furukawa, T., Angelis, K. J., & Britt, A. B. (2015). Arabidopsis dna polymerase lambda mutant is mildly sensitive to dna double strand breaks but defective in integration of a transgene. Frontiers in Plant Science, (6): 357.
[8]	Amiard, S., Gallego, M. E., & White, C. I. (2013). Signaling of double strand breaks and deprotected telomeres in arabidopsis. Frontiers in Plant Science, 4(1): 405.
[9]	Peng, Y., Allen, S., Millwood, R. J., & Jr, S. C. (2014). 'fukusensor:' a genetically engineered plant for reporting dna damage in response to gamma radiation. Plant Biotechnology Journal, 12(9): 1,329-1,332.
[10]	Robertson, A. B., Klungland, A., Rognes, T., & Leiros, I. (2009). DNA repair in mammalian cells: base excision repair: the long and short of it. Cellular & Molecular Life Sciences Cmls, 66(6): 981.
[11]	Ho, T. V., & Schrer, O. D. (2010). Translesion DNA synthesis polymerases in dna interstrand crosslink repair. Environmental & Molecular Mutagenesis, 51(6): 552.
[12]	Dantzer, F., Rubia, G. D. L., Murcia, J. M., Zdenek Hostomsky, ≠., And, G. D. M., & Schreiber, V. (2000). Base excision repair is impaired in mammalian cells lacking poly (ADP-ribose) polymerase-1. Biochemistry, 39(25):7,559-7,569.
[13]	李蔚蔚,孔金昕,漆永梅,等. 非同源末端连接修复相关因子对DNA损伤修复调控及肿瘤治疗作用的研究进展[J]. 中国药理学与毒理学杂志,2015,29(4):607-613.LI Wei-wei, KONG Jin-Xin, QI Yong-Mei, et al.(2015). Regulation of nonhomologous end-joining-related factors in DNA damage repair and tumor treatment [J]. Chinese Journal of Pharmacology and Toxicology,29(4):607-613. (in Chinese)
[14]	Yamtich, J., & Sweasy, J. B. (2010). DNA polymerase family x: function, structure, and cellular roles. Biochimica Et Biophysica Acta Proteins & Proteomics, 1804(5): 1,136-1,150.
[15]	Breimer, L. H. (1990). Molecular mechanisms of oxygen radical carcinogenesis and mutagenesis: the role of dna base damage. Molecular Carcinogenesis, 3(4): 188-197.
[16]	李雨民. DNA损伤修复与细胞凋亡[J]. 国外医学(放射医学核医学分册),1999,23(3):17-20. LI Yu-ming. (1999). DNA damage repair and apoptosis [J]. Foreign Medical Sciences (Section of Radiation Medicine and Nuclear Medicine) , 23(3): 17-20. (in Chinese)
[17]	Martin, M. J., Garcia-Ortiz, M. V., Gomez-Bedoya, A., Esteban, V., Guerra, S., & Blanco, L. (2013). A specific n-terminal extension of the 8 kda domain is required for dna end-bridging by human polμ and polλ. Nucleic Acids Research, 41(19): 9,105-9,116.
[18]	陈欢. 耐辐射球菌极端条件下和重要基因突变后转录组的研究[D]. 杭州:浙江大学博士学位论文, 2008. CHEN Huan.(2008). Analysis of Deinococcus radiodurans's transcriptional response to ionizing radiation,hydrogen peroxide,and some important transcript regulators disruption [D]. PhD Thesis. Zhejiang University, Hangzhou. (in Chinese)
[19]	Mishra, M., Sharma, A., Shukla, A. K., Pragya, P., Murthy, R. C., & Pomerai, D. D., et al. (2013). Transcriptomic analysis provides insights on hexavalent chromium induced dna double strand breaks and their possible repair in midgut cells of drosophila melanogaster, larvae. Mutation Research, (1): 28-39.
[20]	DeRose-Wilson L J. (2010). Genome Evolution and the Genetics of Abiotic Stress Tolerance in Arabidopsis thaliana and Arabidopsis lyrata .Dissertaytion of University of California, Irvine.
[21]	Hirakawa, T., Hasegawa, J., White, C. I., & Matsunaga, S. (2017). Rad54 forms DNA repair foci in response to DNA damage in living plant cells. Plant Journal.
[22]	Vu, G. T. H., Cao, H. X., Reiss, B., & Schubert, I. (2017). Deletion‐bias in dna double‐strand break repair differentially contributes to plant genome shrinkage. New Phytologist, 214(4): 1,712.
[23]	冀芦沙, 于守超, 赵燕,等. 拟南芥高迁移率族蛋白B族基因表达模式分析[J]. 西北植物学报, 2012, 32(3):447-453.JI Lu-sha, YU Shou-chao, ZHAO Yan.(2012)Expression Analysis of the Arabidopsis High Mobility Group Protein B Family Genes (AtHMGB) [J]. Acta Botanica Boreali-Occidentalia Sinica , 32(3): 447-453. (in Chinese)
[24]	Thomas JO, & Travers AA. (2001). HMG1 and 2, and related 'architectural' dna-binding proteins. Trends in Biochemical Sciences, 26(3): 167.
[25]	And, J. L., & Grasser, K. D. (2001). Differential chromatin association and nucleosome binding of the maize hmga, hmgb, and ssrp1 proteins. Biochemistry, 40(26):7,860-7,867.
[26]	Christian Stemmer., Silvia Fernández, §., Gema Lopez, §., And, J. C. A. §., & , K. D. G. (2002). Plant chromosomal hmgb proteins efficiently promote the bacterial site-specific β-mediated recombination in vitro and in vivo?. Biochemistry, 41(24): 7,763-7,770.
[27]	Grasser, K. D., Launholt, D., & Grasser, M. (2007). High mobility group proteins of the plant hmgb family: dynamic chromatin modulators. BBA - Gene Structure and Expression, 1769(5): 346-357.
[28]	Ito, H., Fujita, K., Tagawa, K., Chen, X., Homma, H., & Sasabe, T., et al. (2015). HMGB1 facilitates repair of mitochondrial dna damage and extends the lifespan of mutant ataxin-1 knock-in mice. Embo Molecular Medicine, 7(1):78.
[29]	Mukherjee, R. M., Shravanti, G. V., Jakkampudi, A., Kota, R., Jangala, A. L., & Reddy, P. B., et al. (2013). Reduced expression of dna damage repair genes high mobility group box1 and poly(adp-ribose) polymerase1 in inactive carriers of hepatitis b virus infection-a possible stage of viral integration. Journal of Clinical & Experimental Hepatology, 3(2): 89-95.
[30]	Lange, S. S., & Vasquez, K. M. (2009). HMGB1: the jack-of-all-trades protein is a master dna repair mechanic. Molecular Carcinogenesis,48(7): 571-580.
[31]	邱洁芳, 潘学峰. 功能型DNA重组修复蛋白质RecR的体内分布示踪 [J]. 自然科学进展, 2009, 19(7):704-710.QIU Jie-fan, PAN Xue-feng. (2009). In vivo biodistribution of recombinant DNA repair protein RecR [J]. Progress in Natural Science, 19(7): 704-710. (in Chinese)
[32]	Odahara, M., Inouye, T., Fujita, T., Hasebe, M., & Sekine, Y. (2007). Involvement of mitochondrial-targeted reca in the repair of mitochondrial dna in the moss, physcomitrella patens. Genes & Genetic Systems,82(1):43-51.
[33]	Lindahl, T. (1974). An n-glycosidase from escherichia coli that releases free uracil from dna containing deaminated cytosine residues. Proceedings of the National Academy of Sciences of the United States of America, 71(9): 3,649-3,653.
[34]	Sobol, R. W., Norton, J. K., Kühn, R., Gu, H., Singhal, R. K., & Prasad, R., et al. (1996). Requirement of mammalian dna polymerase-β in base-excision repair. Nature, 379(6561): 183.
[35]	刘博雅, 杨鑫, 任梦梦,等. DNA损伤修复机制-解读2015年诺贝尔化学奖[J]. 中国生物化学与分子生物学报, 2015, 31(12):1 322-1 329.LIU Bo-ya, YANG Xin, RENG Meng-meng,et al.(2015). The Repair Mechanism for DNA Damage Understanding the 2015 Nobel Prize in Chemistry [J]. Chinese Journal of Biochemistry and Molecular Biology, 31(12): 1,322-1,329. (in Chinese)
[36]	Hosman, L. (2013). Abstract ia09: nucleotide biosynthetic enzyme gmp synthase is a relay of p53 stabilization in response to genomic stress. Cancer Research, 73(13 Supplement), IA09-IA09.

干旱胁迫棉花转录组DNA损伤修复相关基因的分析

Analysis of DNA Damage Repair Related Genes in Drought Stress Cotton Transcriptome

PDF下载

可视化

摘要/Abstract

引用本文

使用本文

参考文献 36

相关文章 15

编辑推荐

Metrics

[1]	陈茂光, 林涛, 张昊, 刘海军, 王一帆, 汤秋香. 地膜类型对棉花生长的影响及自身降解和回收特性分析[J]. 新疆农业科学, 2023, 60(9): 2101-2108.
[2]	杨川, 张凯, 陈冰, 张慧, 柳萍, 常松, 盛建东. 棉花植株形态特征对不同水分状况的响应[J]. 新疆农业科学, 2023, 60(9): 2120-2127.
[3]	杨国江, 陈云, 林祥群, 何江勇, 刘盛林, 曲永清. 氮肥减施下有机肥替代对滴灌棉花产量、氮素吸收利用及土壤硝态氮的影响[J]. 新疆农业科学, 2023, 60(9): 2138-2145.
[4]	王晓雨, 王小平, 史文宇, 刘美艳, 马健, 郭云鹏, 宋瑞欣, 王清涛. 拔节期冬小麦光合特性、干物质积累和产量对干旱胁迫的响应[J]. 新疆农业科学, 2023, 60(9): 2163-2172.
[5]	向莉, 王仙, 董裕生, 郭小玲, 方伏荣, 陈智军, 马艳明, 苗雨. 外源丁酸对干旱胁迫下大麦产量及品质的影响[J]. 新疆农业科学, 2023, 60(9): 2173-2181.
[6]	李雪玲, 郭俊先, 陈莉, 宋鹤岭, 张众. 不同覆膜宽度对棉花农田环境的影响[J]. 新疆农业科学, 2023, 60(8): 1840-1847.
[7]	阳妮, 玛依拉·玉素音, 杨延龙, 李春平, 张大伟, 徐海江, 赖成霞. 黄萎病枯斑型与黄化型病症棉花叶片的植物挥发物对比[J]. 新疆农业科学, 2023, 60(8): 1975-1986.
[8]	米尔扎提·木塔力甫, 石秀楠, 柏军兵, 祖拜代·阿布都克日木, 吾勒加勒哈斯·阿扎提, 石书兵. 不同脱绒方式及PEG胁迫下对棉花种子活力及幼苗性状的影响[J]. 新疆农业科学, 2023, 60(7): 1561-1568.
[9]	曲可佳, 时晓磊, 张恒, 王兴州, 耿洪伟, 丁孙磊, 张金波, 严勇亮. PEG处理下引进春小麦品种苗期抗旱性评价[J]. 新疆农业科学, 2023, 60(6): 1363-1371.
[10]	邵盘霞, 赵准, 邵武奎, 郝晓燕, 高升旗, 李建平, 胡文冉, 黄全生. 玉米ZmCDPK22基因在干旱胁迫下的表达分析[J]. 新疆农业科学, 2023, 60(6): 1372-1378.
[11]	江柱, 张江辉, 白云岗, 杨鹏年, 刘洪波, 肖军, 刘旭辉. 膜下咸水滴灌水肥盐调控对棉花生长及产量的影响[J]. 新疆农业科学, 2023, 60(6): 1389-1397.
[12]	王文涛, 吴博, 邰红忠, 练文明, 戴翠荣, 李双江, 蒲艳梅. 新疆阿拉尔垦区不同播期对棉花生长的影响[J]. 新疆农业科学, 2023, 60(6): 1413-1422.
[13]	韦伟, 单守明, 徐文娣, 李光宗. 山葡萄‘双优’组织培养生根期愈伤组织的转录组分析[J]. 新疆农业科学, 2023, 60(6): 1451-1459.
[14]	汤东, 安玉光, 程平, 李宏, 杨建军, 王凯. 天山北坡前山带典型灌木光合特性对干旱胁迫的响应[J]. 新疆农业科学, 2023, 60(6): 1531-1539.
[15]	桑志伟, 梁亚军, 龚照龙, 郑巨云, 王俊铎, 李雪源, 陈全家. 不同陆地棉种质资源机采性状分析[J]. 新疆农业科学, 2023, 60(5): 1088-1098.