干旱胁迫下杂草稻和栽培稻根系基因表达差异研究

doi:10.16819/j.1001-7216.2016.5180

中国水稻科学 ›› 2016, Vol. 30 ›› Issue (5): 458-468.DOI: 10.16819/j.1001-7216.2016.5180

干旱胁迫下杂草稻和栽培稻根系基因表达差异研究

丁国华^1,², 孙健², 杨光³, 张凤鸣¹, 白良明¹, 孙世臣¹, 姜树坤¹, 王彤彤¹, 郑洪亮¹, 夏天舒¹, 沈希宏⁴, 马殿荣^2,^*(), 陈温福^2,^*()

¹ 黑龙江省农业科学院博士后科研工作站/黑龙江省农业科学院耕作栽培研究所/中国科学院北方粳稻分子育种联合研究中心, 哈尔滨 155086
²沈阳农业大学水稻研究所, 沈阳110866
³辽宁省经济作物研究所, 辽宁辽阳 111000
⁴中国水稻研究所, 杭州 310006

收稿日期:2015-12-09 修回日期:2016-01-23 出版日期:2016-09-10 发布日期:2016-09-10
通讯作者: 马殿荣,陈温福
基金资助:
黑龙江省农业科学院博士后工作站;哈尔滨市科技局项目(2014RFQYJ125);黑龙江省农业科学院创新工程项目(2014QN006);黑龙江省农业科学院博士人员科研启动金项目(201507-16);国家水稻产业技术体系项目(CARS-01-43);北方寒地粳稻资源研究与新品种选育项目(2014BAD01B03-02)

Global Genome Expression Analysis of Root Genes under Drought Stress in Weedy Rice and Up-land Rice

Guo-hua DING^1,², Jian SUN², Guang YANG³, Feng-ming ZHANG¹, Liang-ming BAI¹, Shi-chen SUN¹, Shu-kun JIANG¹, Tong-tong WANG¹, Hong-liang ZHENG¹, Tian-shu XIA¹, Xi-hong SHEN⁴, Dian-rong MA^2,^*(), Wen-fu CHEN^2,^*()

¹Postdoctoral Scientific Research Station of HAAS/Cultivation and Farming Research Institute of HASS/ Northern Japonica Rice Molecular Breeding Joint Research Center, Harbin 150086, China
²Shenyang Agricultural University, Shenyang 110866, China
³Institute of Economic Crop of Liaoning, Liaoyang 111000, China
⁴China National Rice Research Institute,Hangzhou 310006,China

Received:2015-12-09 Revised:2016-01-23 Online:2016-09-10 Published:2016-09-10
Contact: Dian-rong MA, Wen-fu CHEN

摘要/Abstract

摘要：

利用Affymetrix水稻表达谱芯片(GeneChip Rice Genome Array)研究抗旱杂草稻HEB07-2与巴西陆稻(IAPAR9)在PEG模拟干旱胁迫下根系基因表达变化。结果表明,杂草稻HEB07-2转录组对干旱信号的响应程度与方向均与巴西陆稻存在很大差异,HEB07-2以正向调控为主,而巴西陆稻以负调控为主。干旱胁迫下杂草稻HEB07-2与巴西陆稻分别有6878个和2923个基因表达,其中HEB07-2受干旱胁迫诱导上调的基因有4693个,下调的基因有2185个;而巴西陆稻则分别有983个和1940个。在差异基因表达的倍数上也是HEB07-2高于巴西陆稻。进一步的GO分析表明,在干旱胁迫下,HEB07-2和IAPAR9根系基因响应途径的差异表现为HEB07-2在钾离子转运(GO:0006813)、次生物质代谢(GO:0019748)、细胞生长(GO:0016049)、葡萄糖代谢(GO:0006006)、跨膜离子转运器活性(GO:0015075)、亚铁血红素结合体(GO:0020037)、氧化还原酶活性(GO:0016491)等方面基因显著上调,这与生理数据和表型数据一致。

关键词: 杂草稻, 根系, 表达谱芯片, 耐旱

Abstract:

The expression changes of root genes in drought-resistance weedy rice HEB07-2 (Oryza sativa f. spontanea) and up-land rice IAPAR9 (Oryza sativa) were analyzed under polyethylene glycol(PEG)-simulated with drought stress condition with Affymetrix GeneChip rice genome array. The results indicated that the extent and direction of transcriptome response of HEB07-2 and IAPAR9 to drought differed greatly. For HEB07-2, among 6878 expressed genes, 4693 were up-regulated and 2185 were down-regulated under drought condition. For IAPAR9, among 2923 expressed genes,983 were up-regulated and 1940 were down-regulated. Analysis of differentially expressed genes in HEB07-2 and IAPAR9 showed that the weedy rice HEB07-2 had a higher changing fold than the up-land rice IAPAR9. Gene ontology analysis revealed that genes of HEB07-2 in potassium ion transporting(GO: 0006813), secondary metabolite(GO: 0019748), cell growth(GO: 0016049), glucose metabolism(GO:0006006), transmembrane ion transporter activity(GO:0015075), ferroheme coalition(GO:0020037), oxidordeuctase activity(GO:0016491)were significantly up-regulated in comparing with IAPAR9. These were consistent with the physiological and phenotypic data.

Key words: weedy rice, root, gene expression profiling, drought resistance

中图分类号:

Q786
Q945.78

丁国华, 孙健, 杨光, 张凤鸣, 白良明, 孙世臣, 姜树坤, 王彤彤, 郑洪亮, 夏天舒, 沈希宏, 马殿荣, 陈温福. 干旱胁迫下杂草稻和栽培稻根系基因表达差异研究[J]. 中国水稻科学, 2016, 30(5): 458-468.

Guo-hua DING, Jian SUN, Guang YANG, Feng-ming ZHANG, Liang-ming BAI, Shi-chen SUN, Shu-kun JIANG, Tong-tong WANG, Hong-liang ZHENG, Tian-shu XIA, Xi-hong SHEN, Dian-rong MA, Wen-fu CHEN. Global Genome Expression Analysis of Root Genes under Drought Stress in Weedy Rice and Up-land Rice[J]. Chinese Journal OF Rice Science, 2016, 30(5): 458-468.

图/表 10

表1 实时荧光定量PCR分析所用的引物

Table 1 Primers used for real-time quantitative PCR.

基因 Gene	正向引物 Forward primer(5'- 3')
LOC_Os03g37840	CGAAATAAGAAGGACGGATGG	TGATGGGAGCAAGACAAAGGTA
LOC_Os04g52390	TCAAGAACCAAAGTCAGATAGGAA	GAAAGCACAATAAAGGTGACAACTAG
LOC_Os08g32840	CTCAACTACACCTACCGAAACGC	TCCAACTTGTGCAGGAACTCAT
LOC_Os02g02400	GAGGCAGAAGGCGACGATA	GAGGTAGTTGACCCAGATGGC
Actin	GGAACTGGTATGGTCAAGGC	AGTCTCATGGATACCCGCAG

图1 HEB07-2和IAPAR9响应干旱胁迫基因比较的韦恩图

Fig. 1. Ven figure of HEB07-2 and IAPAR9 regulated genes under drought.

图2 HEB07-2和IAPAR9干旱胁迫诱导和抑制的基因

Fig. 2. Gene numbers of HEB07-2 and IAPAR9 induced and repressed by drought.

表 2 HEB07-2和IAPAR9差异表达基因数及倍数变化

Table 2 Up- and down-regulated fold of genes in HEB07-2 and IAPAR9.

材料 Material	下调表达基因 Down-regulated gene				上调表达基因 Up-regulated gene			未变个数 No change
材料 Material	下调个数 No. of down- regulated gene	最大 Max	平均 Average		上调个数 No. of up- regulated genes	最大 Max	平均 Average	未变个数 No change
样品19/样品1 Sample 19/Sample 1	2185	84.6		4.3	4693	58.4	3.4	47 947
样品20/样品2 Sample 20/Sample 2	1940	20.6		2.9	983	44.2	2.9	51 902

图3 干旱胁迫下HEB07-2和IAPAR9差异表达倍数分布

Fig. 3. Change folds of HEB07-2 and IAPAR9 under drought condition.

图4 HEB07-2和IAPAR9干旱胁迫下响应基因染色体分布

Fig. 4. Distribution of regulated genes on rice chromosome under drought stress. A, HEB07-2; B, IAPAR9.

图5 HEB07-2和IAPAR9响应干旱胁迫的未知基因数

Fig. 5. Unknow genes of HEB07-2 and IAPAR9 under drought stress.

图6 干旱胁迫下HEB07-2和IAPAR9根系生理指标变化

Fig. 6. The physiological index change in HEB07-2 and IAPAR9 under drought condition.

图7 干旱胁迫下HEB07-2和IAPAR9表型变化

Fig. 7. Phenotype of HEB07-2 and IAPAR9 under drought condition.

图8 HEB07-2和IAPAR9实时荧光定量PCR结果与芯片数据的比较

Fig. 8. Comparison of microarray data with real-time PCR results in HEB07-2 and IAPAR9. A, HEB07-2; B, IAPAR9; 1, LOC_Os03g37840; 2, LOC_Os04g52390; 3, LOC_Os08g32840; 4, LOC_Os02g02400.

参考文献 32

[1]	Miura K, Ikeda M, Matsubara A, et al.OsSPL14 promotes panicle branching and higher grain productivity in rice.Nat Genet, 2010, 42(6): 545-549.
[2]	Lafitte H R, Li Z K, Vijayakumar C H M. Improvement of rice drought tolerance through backcross breeding: Evaluation of donors and selection in drought nurseries.Field Crops Res, 2006, 97: 77-86.
[3]	Lilley J M, Ludow T J, McCouch S R, et al. Locating QTL for osmotic adjustment and dehydration tolerance in rice.Exp Bot, 1996, 47(302): 1427-1436.
[4]	Courtois G M, Shinha P K, Prasad K, et al.Mapping QTLs associated with drought avoidance in up lands rice.Mol Breeding, 2000, 6: 55-66.
[5]	徐吉臣, 李晶昭, 郑先武, 等. 苗期水稻根部性状的QTL定位. 遗传学报, 2001, 28(5): 433-438.
	Xu J C, Li J Z, Zheng X W, et al.QTL mapping of the root traits in rice seeding.Acta Genet Sin, 2001, 28(5): 433-438.(in Chinese with English abstract)
[6]	Kumar R, Venuprasad R, Atlin G N.Genetic analysis of rainfed lowland rice drought tolerance under naturally-occurring stress in eastern India: Heritability and QTL effects.Field Crops Res, 2007, 103: 42-52.
[7]	赵宝存, 赵芊, 葛荣朝, 等. 利用基因芯片研究小麦耐盐突变体盐胁迫条件下基因的表达图谱. 中国农业科学, 2007, 40(10): 2355-2360.
	Zhao B C, Zhao Q, Ge R C, et al.Study on the expression profile of salt-tolerance mutant under salt-stress in wheat using gene microarray.Sci Agric Sin, 2007, 40(10): 2355-2360. (in Chinese with English abstract)
[8]	Jung C, Lyou S H, Yeu S Y, et al.Microarray-based screening of jasmonate responsive genes inArabidopsis thaliana. Plant Cell Rep, 2007, 26: 1053-1063.
[9]	Degenkolbe T, Do P T, Zuther E, et al.Expression profiling of rice cultivars differing in their tolerance to long-term drought stress.Plant Mol Biol, 2009, 69: 133-153.
[10]	李永春, 孟凡荣, 王潇, 等. 干旱胁迫条件下“洛旱2号”小麦根系的基因表达谱. 作物学报, 2008, 34(12): 2126-2133.
	Li Y C, Meng F R, Wang X, et al.Gene expression profiling in roots of wheat cultivar “Luohan 2” under water stress.Acta Agron Sin, 2008, 34(12): 2126-2133.(in Chinese with English abstract)
[11]	Zhang C, Zhang L, Zhang S, et al.Global analysis of gene expression profiles in physic nut (Jatropha curcas L.) seedlings exposed to drought stress.BMC Plant Biol, 2015, 15(1): 17.
[12]	Wang G J, Miao W, Wang J Y, et al.Effects of exogenous abscisic acid on antioxidant system in weedy and cultivated rice with different chilling sensitivity under chilling stress.J Agron Crop Sci, 2013, 199(3): 200-208.
[13]	Tang L, Ma D R, Xu Z J.Utilization of weedy rice for development of japonica hybrid rice(Oryza sativa L.).Plant Sci, 2011, 180: 733-740.
[14]	Huang D, Wu W, Abrams S R, et al.The relationship of drought-related gene expression in Arabidopsis thaliana to hormonal and environmental factors.J Exp Bot, 2008, 59: 2991-3007.
[15]	Manavalan L P, Guttikonda S K, Tran L S, et al.Physiological and molecular approaches to improve drought resistance in soybean.Plant Cell Physiol, 2009, 50: 126-127.
[16]	Gong P, Zhang J, Li H, et al.Transcriptional profiles of drought-responsive genes in modulating transcription signal transduction, and biochemical pathways into tomato.J Exp Bot, 2010, 61: 3563-3575.
[17]	Hou X, Xie K, Yao J, et al.A homolog of human ski-interacting protein in rice positively regulates cell viability and stress tolerance.PNAS, 2009, 106(15): 6410-6415.
[18]	Zhu X, Xiong L.Putative megaenzyme DWA1 plays essential roles in drought resistance by regulating stress-induced wax deposition in rice.PNAS, 2013, 110(44): 17790-17795.
[19]	Moumeni A, Satoh K, Kondoh H, et al.Comparative analysis of root transcriptome profiles of two pairs of drought-tolerance and susceptible rice near-isogenic lines under different drought stress.BMC Plant Biol, 2011, 11: 174-191.
[20]	Wang H G, Zhang H L, Li Z C.Analysis of gene expression profile induced by water stress in upland rice (Oryza sativa L.var.IRAT109) seedlings using subtractive expressed sequence tags library.J Integr Plant Biol, 2007, 49(10): 1455-1463.
[21]	Maathuis F J M, Sanders D. Energization of potassium uptake in Arabidopsis thaliana.Planta, 1993, 191: 302-307.
[22]	Walker D J, Leigh R A, Miller A J.Potassium homeostasis in vacuolate plant cells.PNAS, 1996, 93: 10510-10514.
[23]	Britto D T, Kronzucker H J.Cellular mechanisms of potassium transport in plants.Physiol Plant, 2008, 133: 637-650.
[24]	Mahouachi J, Socorro A R, Talon M.Responses of papaya seedlings (Carica papaya L.) to water stress and rehydration: growth, photosynthesis and mineral nutrient imbalance.Plant Soil, 2006, 281: 137-146.
[25]	Rizhsky L, Liang H, Shuman J, et al.When defense pathways collide: The response of Arabidopsis to a combination of drought and heat stress.Plant Physiol, 2004, 134: 1683-1696.
[26]	Degenkolbe T, Do P T, Zuther E, et al.Expression profiling of rice cultivars differing in their tolerance to long-term drought stress.Plant Mol Biol, 2009, l69: 133-153.
[27]	Wang N L, Xiao B Z, Xiong L Z.Identification of a cluster of PR4-like genes involved in stress responses in rice.J Plant Physiol, 2011, 168(18): 2212-2224.
[28]	Bartels D, Sunkar R.Drought and salt tolerance in plants.Crit Rev Plant Sci, 2005, 24: 23-58.
[29]	Liepman A H, Nairn C J, Willats W G, et al.Functional genomic analysis supports conservation of function among cellulose synthase-like a gene family members and suggests diverse roles of mannans in plants.Plant Physiol, 2007, 143: 1881-1893.
[30]	Cocuron J C, Lerouxel O, Drakakaki G, et al.A gene from the cellulose synthase like C family encodes a beta-1, 4 glucan synthase.PNAS, 2007, 104: 8550-8555.
[31]	Burton R A, Jobling S A, Shirley N J, et al.The genetics and transcriptional profiles of the cellulose synthase-like HvCsIF gene family in barley.Plant Physiol, 2008, 146: 1821-1833.
[32]	Dolan L, Davies J.Cell expansion in roots.Curr Opin Plant Biol, 2004, 7: 33-39.

干旱胁迫下杂草稻和栽培稻根系基因表达差异研究

Global Genome Expression Analysis of Root Genes under Drought Stress in Weedy Rice and Up-land Rice

RichHTML

PDF

在线辅助信息

可视化

被引次数

摘要/Abstract

引用本文

使用本文

图/表 10

参考文献 32

相关文章 15

编辑推荐

Metrics

[1]	吴玥, 梁铖玮, 赵辰妃, 孙健, 马殿荣. 直播稻田杂草稻灾害发生及生态型的演变特征[J]. 中国水稻科学, 2024, 38(4): 447-455.
[2]	陈浩田, 秦缘, 钟笑涵, 林晨语, 秦竞航, 杨建昌, 张伟杨. 水稻根系和土壤性状与稻田甲烷排放关系的研究进展[J]. 中国水稻科学, 2024, 38(3): 233-245.
[3]	景秀, 周苗, 王晶, 王岩, 王旺, 王开, 郭保卫, 胡雅杰, 邢志鹏, 许轲, 张洪程. 穗分化末期－灌浆初期干旱胁迫对优质食味粳稻根系形态和叶片光合特性的影响[J]. 中国水稻科学, 2024, 38(1): 33-47.
[4]	朱旺, 张翔, 耿孝宇, 张哲, 陈英龙, 韦还和, 戴其根, 许轲, 朱广龙, 周桂生, 孟天瑶. 盐-旱复合胁迫下水稻根系的形态和生理特征及其与产量形成的关系[J]. 中国水稻科学, 2023, 37(6): 617-627.
[5]	肖乐铨, 李雷, 戴伟民, 强胜, 宋小玲. 转cry2A/bar*基因水稻与杂草稻杂交后代的苗期生长特性[J]. 中国水稻科学, 2023, 37(4): 347-358.
[6]	董立强, 杨铁鑫, 李睿, 商文奇, 马亮, 李跃东, 隋国民. 株行距配置对超高产田水稻产量及根系形态生理特性的影响[J]. 中国水稻科学, 2023, 37(4): 392-404.
[7]	周振玲, 林兵, 周群, 杨波, 刘艳, 周天阳, 王宝祥, 顾骏飞, 徐大勇, 杨建昌. 耐盐性不同水稻品种对盐胁迫的响应及其生理机制[J]. 中国水稻科学, 2023, 37(2): 153-165.
[8]	景文疆, 顾汉柱, 张小祥, 吴昊, 张伟杨, 顾骏飞, 刘立军, 王志琴, 杨建昌, 张耗. 中籼水稻品种改良过程中米质和根系特征对灌溉方式的响应[J]. 中国水稻科学, 2022, 36(5): 505-519.
[9]	黄奇娜, 江苏, 汪利民, 张燕, 俞林飞, 李春福, 丁利群, 邵国胜. 低温胁迫后水分对水稻幼苗根系活力和水孔蛋白相关基因表达的影响[J]. 中国水稻科学, 2022, 36(4): 367-376.
[10]	肖德顺, 徐春梅, 王丹英, 章秀福, 陈松, 褚光, 刘元辉. 根际氧环境对水稻幼苗根系微形态结构的影响及其生理机制[J]. 中国水稻科学, 2022, 36(4): 399-409.
[11]	陈云, 刘昆, 李婷婷, 李思宇, 李国明, 张伟杨, 张耗, 顾骏飞, 刘立军, 杨建昌. 结实期干湿交替灌溉对水稻根系、产量和土壤的影响[J]. 中国水稻科学, 2022, 36(3): 269-277.
[12]	褚光, 徐冉, 陈松, 徐春梅, 刘元辉, 章秀福, 王丹英. 优化栽培模式对水稻根-冠生长特性、水氮利用效率和产量的影响[J]. 中国水稻科学, 2021, 35(6): 586-594.
[13]	黄锦文, 吴珈谊, 陈鸿飞, 张志兴, 方长旬, 邵彩虹, 林伟伟, 翁佩莹, 林文雄. 头季稻氮肥运筹对再生稻根际机能及产量的影响[J]. 中国水稻科学, 2021, 35(4): 383-395.
[14]	朱春权, 曹小闯, 朱练峰, 白志刚, 黄洁, 梁清铎, 金千瑜, 张均华. 硫化氢提高水稻磷吸收转运的生理和分子机制[J]. 中国水稻科学, 2019, 33(6): 532-540.
[15]	李婷婷, 冯钰枫, 朱安, 黄健, 汪浩, 李思宇, 刘昆, 彭如梦, 张宏路, 刘立军. 主要节水灌溉方式对水稻根系形态生理的影响[J]. 中国水稻科学, 2019, 33(4): 293-302.