杂交粳稻花优14及其亲本孕穗期剑叶的基因表达谱芯片分析

doi:10.16288/j.yczz.15-094

遗传 ›› 2015, Vol. 37 ›› Issue (9): 932-938.doi: 10.16288/j.yczz.15-094

杂交粳稻花优14及其亲本孕穗期剑叶的基因表达谱芯片分析

储黄伟¹, 牛付安¹, 程灿¹, 周继华¹, 王新其¹, 罗小金², 袁勤¹, 曹黎明¹

1. 上海市农业科学院,作物育种栽培研究所,上海 201403;
2. 复旦大学生命科学学院,上海 200433

收稿日期:2015-03-03 修回日期:2015-07-29 出版日期:2015-09-20 发布日期:2015-09-20
通讯作者: 曹黎明,研究员,研究方向：水稻杂种优势利用。E-mail: clm079@163.com 袁勤,研究员,研究方向：水稻杂种优势利用。E-mail: zw3@saas.sh.cn
作者简介:储黄伟,博士,助理研究员,研究方向：植物分子生物学。E-mail：chuhuangwei@saas.sh.cn
基金资助:
上海市科技兴农重点攻关项目(编号：沪农科攻字(2014)第7-1-2号和沪农科攻字(2013)第1-3号)和上海市科委农业科技攻关项目; (编号：14395810601)资助

Gene expression profiling of flag leaves at the booting stage in the japonica hybrid rice Huayou14 and its parental lines by microarray

Huangwei Chu¹, Fuan Niu¹, Can Cheng¹, Jihua Zhou¹, Xinqi Wang¹, Xiaojin Luo², Qin Yuan¹, Liming Cao¹

1. Institute of Crop Breeding and Cultivation, Shanghai Academy of Agricultural Sciences, Shanghai 201403, China;
2. School of Life Sciences, Fudan University, Shanghai 200433, China

Received:2015-03-03 Revised:2015-07-29 Online:2015-09-20 Published:2015-09-20

摘要/Abstract

摘要： 本文以孕穗期的杂交粳稻花优14及其母本申9A和父本繁14的剑叶为材料,利用Affymetrix水稻基因组芯片检测了3个样品中的基因表达谱,并用生物信息学方法对差异表达基因进行了分析。结果表明：与其亲本相比,杂交粳稻花优14中共有2057个基因的表达水平出现了2倍(变化倍数≥2或≤0.5)以上的变化。通过对这些差异表达基因进行GO(Gene Ontology)功能分类,发现差异表达基因在光合系统Ⅰ、叶绿体膜和叶绿体被膜等与叶绿体相关的细胞组分中显著富集;同时差异表达基因还在叶绿素合成、叶绿素代谢和类胡萝卜素合成等生物学过程中富集。光合作用效率的改变可能和花优14杂种优势的形成相关。与已报道结果不同,本文在代谢途径分析结果中并没有发现花优14中差异表达基因在碳固定和光合作用等途径中显著的富集,但是发现差异表达基因在光合作用-天线蛋白以及淀粉和蔗糖的代谢途径中显著富集。该结果表明,在不同的杂交组合中,参与杂种优势形成的基因或者代谢途径可能是不同的。

关键词: 水稻, 杂交粳稻, 杂种优势, 基因芯片, 光合作用

Abstract: Gene expression profiling using microarray has contributed significantly to heterosis studies. Using the Affymetrix rice genome array, we investigated gene expression profiles in the flag leaves of the japonica hybrid rice Huayou14 and its parental cultivars Shen9A and Fan14 at the booting stage. A total of 2057 genes differentially expressed (fold change ≥2 or ≤0.5) between Huayou14 and its parents were identified. Functional classification of the differentially expressed genes by Gene Ontology (GO) analysis indicated the differentially expressed genes were significantly enriched in photosynthesis-related cellular component categories (e.g. photosystem Ⅰ, chloroplast membrane and chloroplast envelope), and biological process categories (e.g. chlorophyll catabolic, chlorophyll biosynthetic and carotenoid biosynthetic processes). These results suggest that the changes in the photosynthetic ability of the japonica hybrid rice Huayou14 may be related to heterosis. Metabolic pathway analysis indicated that differentially expressed genes were significantly enriched in photosynthesis-antenna proteins and starch and sucrose metabolic pathways, instead of photosynthesis and carbon fixation pathways as reported previously. These results suggest that different genes or metabolic pathways might contribute to the heterosis of different hybrid combinations.

Key words: rice, japonica hybrid rice, heterosis, microarray, photosynthesis

储黄伟, 牛付安, 程灿, 周继华, 王新其, 罗小金, 袁勤, 曹黎明. 杂交粳稻花优14及其亲本孕穗期剑叶的基因表达谱芯片分析[J]. 遗传, 2015, 37(9): 932-938.

Huangwei Chu, Fuan Niu, Can Cheng, Jihua Zhou, Xinqi Wang, Xiaojin Luo, Qin Yuan, Liming Cao. Gene expression profiling of flag leaves at the booting stage in the japonica hybrid rice Huayou14 and its parental lines by microarray[J]. HEREDITAS(Beijing), 2015, 37(9): 932-938.

参考文献

[1] Shull GH. The composition of a field of maize. J Hered , 1908, 4(1): 296-301.
[2] 许晨璐, 孙晓梅, 张守攻. 基因差异表达与杂种优势形成机制探讨. 遗传, 2013, 35(6): 714-726.
[3] Davenport CB. Degeneration, albinism and inbreeding. Science , 1908, 28(718): 454-455.
[4] Bruce AB. The mendelian theory of heredity and the augmentation of vigor. Science , 1910, 32(827): 627-628.
[5] East EM. Inbreeding in corn. Connecticut Agric Exp Stn Rep , 1908, 1907: 419-428.
[6] Yu SB, Li JX, Xu CG, Tan YF, Gao YJ, Li XH, Zhang QF, Saghai Maroof MA. Importance of epistasis as the genetic basis of heterosis in an elite rice hybrid. Proc Natl Acad Sci USA , 1997, 94(17): 9226-9231.
[7] Hochholdinger F, Hoecker N. Towards the molecular basis of heterosis. Trends Plant Sci , 2007, 12(9): 427-432.
[8] Schnable PS, Springer NM. Progress toward understanding heterosis in crop plants. Annu Rev Plant Biol , 2013, 64: 71-88.
[9] Bao JY, Lee S, Chen C, Zhang XQ, Zhang Y, Liu SQ, Clark T, Wang J, Cao ML, Yang HM, Wang SM, Yu J. Serial analysis of gene expression study of a hybrid rice strain ( LYP9 ) and its parental cultivars. Plant Physiol , 2005, 138(3): 1216-1231.
[10] Song SH, Qu HZ, Chen C, Hu SN, Yu J. Differential gene expression in an elite hybrid rice cultivar ( Oryza sativa L.) and its parental lines based on SAGE data. BMC Plant Biol , 2007, 7: 49.
[11] Ge XM, Chen WH, Song SH, Wang WW, Hu SN, Yu J. Transcriptomic profiling of mature embryo from an elite super-hybrid rice LYP9 and its parental lines. BMC Plant Biol , 2008, 8: 114.
[12] Wei G, Tao Y, Liu GZ, Chen C, Luo RY, Xia HA, Gan Q, Zeng HP, Lu ZK, Han YN, Li XB, Song GS, Zhai HL, Peng YG, Li DY, Xu HL, Wei XL, Cao ML, Deng HF, Xin YY, Fu XQ, Yuan LP, Yu J, Zhu Z, Zhu LH. A transcriptomic analysis of superhybrid rice LYP9 and its parents. Proc Natl Acad Sci USA , 2009, 106(19): 7695-7701.
[13] Song GS, Zhai HL, Peng YG, Zhang L, Wei G, Chen XY, Xiao YG, Wang LL, Chen YJ, Wu B, Chen B, Zhang Y, Chen H, Feng XJ, Gong WK, Liu Y, Yin ZJ, Wang F, Liu GZ, Xu HL, Wei XL, Zhao XL, Ouwerkerk PBF, Hankemeier T, Reijmers T, van der Heijden R, Lu CM, Wang M, van der Greef J, Zhu Z. Comparative transcriptional profiling and preliminary study on heterosis mechanism of super-hybrid rice. Mol Plant , 2010, 3(6): 1012-1025.
[14] Zhai RR, Feng Y, Wang HM, Zhan XD, Shen XH, Wu WM, Zhang YX, Chen DB, Dai GX, Yang ZL, Cao LY, Cheng SH. Transcriptome analysis of rice root heterosis by RNA-Seq. BMC Genomics , 2013, 14: 19.
[15] Peng YG, Wei G, Zhang L, Liu GZ, Wei XL, Zhu Z. Comparative transcriptional profiling of three super-hybrid rice combinations. Int J Mol Sci , 2014, 15(3): 3799-3815.
[16] Swanson-Wagner RA, Jia Y, De Cook R, Borsuk LA, Nettleton D, Schnable PS. All possible modes of gene action are observed in a global comparison of gene expression in a maize F 1 hybrid and its inbred parents. Proc Natl Acad Sci USA , 2006, 103(18): 6805-6810.
[17] Uzarowska A, Keller B, Piepho HP, Schwarz G, Ingvardsen C, Wenzel G, Lubberstedt T. Comparative expression profiling in meristems of inbred-hybrid triplets of maize based on morphological investigations of heterosis for plant height. Plant Mol Biol , 2007, 63(1): 21-34.
[18] Hoecker N, Keller B, Muthreich N, Chollet D, Descombes P, Piepho HP, Hochholdinger F. Comparison of maize ( Zea mays L.) F 1 -hybrid and parental inbred line primary root transcriptomes suggests organ-specific patterns of nonadditive gene expression and conserved expression trends. Genetics , 2008, 179(3): 1275-1283.
[19] Vuylsteke M, van Eeuwijk F, van Hummelen P, Kuiper M, Zabeau M. Genetic analysis of variation in gene expression in Arabidopsis thaliana . Genetics , 2005, 171(3): 1267-1275.
[20] Tsaftaris SA. Molecular aspects of heterosis in plants. Physiol Plantarum , 1995, 94(2): 362-370.
[21] Yuan LP. Development of hybrid rice to ensure food security. Rice Sci , 2014, 21(1): 1-2.
[22] Cheng SH, Zhuang JY, Fan YY, Du JH, Cao L

编辑推荐

Metrics

www.chinagene.cn
备案号：京ICP备09063187号-4
总访问:,今日访问:,当前在线:

杂交粳稻花优14及其亲本孕穗期剑叶的基因表达谱芯片分析

Gene expression profiling of flag leaves at the booting stage in the japonica hybrid rice Huayou14 and its parental lines by microarray

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

[1]	卞中, 曹东平, 庄文姝, 张舒玮, 刘巧泉, 张林. 水稻分子设计育种启示：传统与现代相结合[J]. 遗传, 2023, 45(9): 718-740.
[2]	刘向东, 吴锦文, 陆紫君, Muhammad Qasim Shahid. 同源四倍体水稻：低育性机理、改良与育种展望[J]. 遗传, 2023, 45(9): 781-792.
[3]	郝小花, 胡爽, 赵丹, 田连福, 谢子靖, 吴莎, 胡文俐, 雷晗, 李东屏. OsGA3ox通过合成不同活性GA调控水稻育性及株高[J]. 遗传, 2023, 45(9): 845-855.
[4]	郑镇武, 赵宏源, 梁晓娅, 王一珺, 王驰航, 巩高洋, 黄金燕, 张桂权, 王少奎, 刘祖培. 水稻qGL3.4调控籽粒大小与株型[J]. 遗传, 2023, 45(9): 835-844.
[5]	陈明江, 刘贵富, 肖叶青, 余泓, 李家洋. 中科发早粳1号分子设计育种[J]. 遗传, 2023, 45(9): 829-834.
[6]	刘永强, 李威威, 刘昕禹, 储成才. 水稻分蘖氮响应调控机理研究进展[J]. 遗传, 2023, 45(5): 367-378.
[7]	时子文, 何青, 赵卓凡, 刘孝伟, 张鹏, 曹墨菊. 玉米雄性不育资源的发掘与利用[J]. 遗传, 2022, 44(2): 134-152.
[8]	李姗, 黄允智, 刘学英, 傅向东. 作物氮肥利用效率遗传改良研究进展[J]. 遗传, 2021, 43(7): 629-641.
[9]	张昌泉, 冯琳皓, 顾铭洪, 刘巧泉. 江苏省水稻品质性状遗传和重要基因克隆研究进展[J]. 遗传, 2021, 43(5): 425-441.
[10]	代航, 李延, 刘树春, 林磊, 吴娟燕, 张志杰, 彭崎春, 李楠, 张向前. 类伸展蛋白OsPEX1对水稻花粉育性的影响[J]. 遗传, 2021, 43(3): 271-279.
[11]	闫凌月, 张豪健, 郑雨晴, 丛韫起, 刘次桃, 樊帆, 郑铖, 袁贵龙, 潘根, 袁定阳, 段美娟. 转录因子OsMADS25提高水稻对低温的耐受性[J]. 遗传, 2021, 43(11): 1078-1087.
[12]	胡雅丽, 戴睿, 刘永鑫, 张婧赢, 胡斌, 储成才, 袁怀波, 白洋. 水稻典型品种日本晴和IR24根系微生物组的解析[J]. 遗传, 2020, 42(5): 506-518.
[13]	张桂权. 基于SSSL文库的水稻设计育种平台[J]. 遗传, 2019, 41(8): 754-760.
[14]	陈应坚,廖苑君,林帆,孙胜南,赵小蕾,覃继恒,饶绍奇. 基于转录组数据的网络分析挖掘鼻咽癌与口腔鳞癌的共享功能模块[J]. 遗传, 2019, 41(2): 146-157.
[15]	刘次桃, 王威, 毛毕刚, 储成才. 水稻耐低温逆境研究：分子生理机制及育种展望[J]. 遗传, 2018, 40(3): 171-185.