Progress on Cloning and Functional Analysis of Dwarfism Related Genes in Rice

Abstract

Abstract: Dwarfism is one of the most important agronomic traits of rice. The genes underlying participate a series of important physiological and biochemical process. Cloning and functional analysis of the dwarfism related genes reveal the mechanisms for high yielding rice production. In the review, the concept of dwarfism and class of dwarf gene of rice were introduced, and the structure, function and relation with classical genetics and breeding values of the cloned genes were summarized.

Key words: dwarfism, dwarf gene, gene cloning, rice, breeding, gene function

摘要： 矮生性是水稻最重要的农艺性状之一。矮秆基因参与水稻一系列的生理、生化过程，水稻矮生性基因的克隆和功能研究，对了解水稻矮秆性状与产量的关系十分重要。通过介绍水稻矮秆基因的类型和概念，对已克隆的水稻矮秆基因按功能分类详细列举了它们的结构、功能与经典遗传学的关系以及在育种上的利用价值。

关键词: 矮生性, 矮秆基因, 基因克隆, 水稻, 育种, 基因功能

MA Liang yong ,BAO Jin song ,LI Xi ming ,ZHU Xu dong ,JI Zhi juan ,XIA Ying wu ,YANG Chang deng . Progress on Cloning and Functional Analysis of Dwarfism Related Genes in Rice[J]. Chinese Journal of Rice Science.

马良勇包劲松 ,李西明, 朱旭东,季芝娟, 夏英武 ,杨长登, . 水稻矮生基因的克隆和功能研究进展[J]. 中国水稻科学.

References

[1]谷福林, 翟虎渠, 万建民, 张红生. 水稻矮秆性状研究及矮源育种利用.江苏农业学报, 2003, 19(1): 48-54.
[2\于永红, 斯华敏. 水稻矮化相关基因的研究进展. 植物遗传资源学报, 2005, 6(3): 344-347.
[3]嵇怡, 缪曼珉, 陈学好. 植物矮生性状的分子遗传研究进展. 分子植物育种, 2006, 4(6): 753-771.
[4]Olszewski N, Sun T P, Gubler F. Gibberellin signaling: Biosynthesis, catabolism, and response pathways. Plant Cell, 2002, 14(Suppl): S61S80.
[5]Gomi K, Matsuoka M. Gibberellin signalling pathway. Curr Opin Plant Biol, 2003, 6: 489-493.
[6]Hartweck L M, Olszewski N E. Rice GIBBERELLIN INSENSITIVE DWARF1 is a gibberellin receptor that illuminates and raises questions about GA signaling. Plant Cell, 2006,18: 278-282.
[7]Choe S.Brassinosteroid biosynthesis and inactivation. Physiol Plant, 2006, 126: 539-548.
[8]Fan L M, Feng X Y, Wang Y, et al. Gibberellin signal transduction in rice. J Integ Plant Biol, 2007, 49(6): 731-741.
[9]卢永根, 曾世雄, 李镇帮. 我国早籼矮生性基因源的表现和遗传传递的研究. 遗传学报, 1979, 6(3): 311-321.
[10]Kamijima O, Tanisaka T, Kinoshita T. Gene symbols for dwarfness. Rice Genet Newsl, 1995, 13: 19-24.
[11]Mitsunaga S, Tashiro T, Yamaguchi J. Identification and characterization of gibberellininsensitive mutants selected from among dwarf mutants of rice. Theor Appl Genet, 1994, 87: 705-712.
[12]Kumar I. A rapid method for identifying different dwarf genes in rice. Rice Genet Newsl, 1984, 1: 134135.
[13]Takeda K. Internode elongation and dwarfism in some gramineous plants. Gamma Field Sym， 1977, 16: 1-18.
[14]Monna L, Kitazawa N, Yoshino R, et al. Positional cloning of rice semidwarfing gene, sd1: rice “green revolution gene” encodes a mutant enzyme involved in gibberellin synthesis. DNA Res, 2002, 9: 11-17.
[15]Sasaki A, Ashikari M, UeguchiTanaka M, et al. A mutant gibberellinsynthesis gene in rice. Nature, 2002, 416(6882): 701-702.
[16]Spielmeyer W, Ellis M H, Chandler P M. Semidwarf(sd1), “green revolution” rice, contains a defective gibberellin 20oxidase gene. Proc Natl Acad Sci USA, 2002, 99(13): 9043-9048.
[17]Itoh H, UeguchiTanaka M, Sentoku N, et al. Cloning and functional analysis of two gibberellin 3βhydroxylase genes that are differently expressed during the growth of rice. Proc Natl Acad Sci USA, 2001, 98(15): 8909-8914.
[18]Sakamoto T, Morinaka Y, Ishiyama K, et al. Genetic manipulation of gibberellin metabolism in transgenic rice. Nat Biotech, 2003, 1(8): 909-913.
[19]Itoh H, Tatsumi T, Sakamoto T, et al. A rice semidwarf gene, TanGinbozu(D35), encodes the gibberellin biosynthesis enzyme, entkaurene oxidase. Plant Mol Biol, 2004, 54(4): 533-547.
[20]Oikawa T, Koshioka M, Kojima K, et al. A role of OsGA20ox1, encoding an isoform of gibberellin 20oxidase, for regulation of plant stature in rice. Plant Mol Biol, 2004, 55(5): 687-700.
[21]Ashikari M, Wu J, Yano M. Rice gibberellininsensitive dwarf mutant gene Dwarf 1 encodes the subunit of GTPbinding protein. Proc Natl Acad Sci USA, 1999, 96(18): 10284-10289.
[22]Fujisawa Y, Kato T, Ohki S, et al. Suppression of the heterotrimeric G protein causes abnormal morphology, including dwarfism, in rice. Proc Natl Acad Sci USA, 1999, 96： 7575-7580.
[23]UeguchiTanaka M, Fujisawa Y, Kobayashi M, et al. Rice dwarf mutant d1, which is defective in the α subunit of the heterotrimeric G protein, affects gibberellin signal transduction. Proc Natl Acad Sci USA, 2000, 97(21): 11638-11643.
[24]Wang L, Xu Y Y, Ma Q B, et al. Heterotrimeric G proteinsubunit is involved in rice brassinosteroid response. Cell Res, 2006, 16: 916-922.
[25]Ikeda A, UeguchiTanaka M, Sonoda Y, et al. slender rice, a constitutive gibberellin response mutant, is caused by a null mutation of the SLR1 gene, an ortholog of the heightregulating gene GAI/RGA/RHT/D8. Plant Cell, 2001,13: 999-1010.
[26]Ikeda A, Sonoda Y, Vernieri P,et al. The slender rice mutant, with constitutively activated gibberellin signal transduction, has enhanced capacity for abscisic acid level. Plant Cell Physiol, 2002, 43(9): 974-979.
[27]Itoh H, UeguchiTanaka M, Sato Y. The gibberellin signaling pathway is regulated by the appearance and disappearance of SLENDER RICE1 in nuclei. Plant Cell, 2002, 14(1): 57-70.
[28]Gomi K, Sasaki A, Itoh H, et al. GID2, an Fbox subunit of the SCF E3 complex, specifically interacts with phosphorylated SLR1 protein and regulates the gibberellindependent degradation of SLR1 in rice. Plant J, 2004, 37(4): 626-634.
[29]Sasaki A, Itoh H, Gomi K, et al. Accumulation of phosphorylated repressor for gibberellin signaling in an Fbox mutant. Science, 2003, 299: 1896-1898.
[30]UeguchiTanaka M, Ashikari M, Nakajima M, et al. Gibberellin insensitive dwarf1 encodes a soluble receptor for gibberellin. Nature, 2005, 437: 693-698.
[31] Shimada A, UeguchiTanaka M, Sakamoto T, et al.The rice SPINDLY gene functions as a negative regulator of gibberellin signaling by controlling the suppressive function of the DELLA protein, SLR1, and modulating brassinosteroid synthesis. Plant J, 2006, 48: 390-402.
[32]Han Y, Jiang J F, Liu H L, et al. Overexpression of OsSIN, encoding a novel small protein, causes short internodes in Oryza sativa. Plant Sci, 2005, 169: 487-495.
[33]Mori M, Nomura T, Ooka H, et al. Isolation and characterization of a rice dwarf mutant with a defect in brassinosteroid biosynthesis. Plant Physiol, 2002, 130(3): 1152-1161.
[34]Hong Z, UeguchiTanaka M, ShimizuSato S,et al. Lossoffunction of a rice brassinosteroid biosynthetic enzyme, C6 oxidase, prevents the organized arrangement and polar elongation of cells in the leaves and stem. Plant J, 2002, 32(4): 495-508.
[35]Hong Z, UeguchiTanaka M, Fujioka S, et al. The rice brassinosteroiddeficient dwarf2 mutant, defective in the rice homolog of Arabidopsis DIMINUTO/DWARF1, is rescued by the endogenously accumulated alternative bioactive brassinosteroid, dolichosterone. Plant Cell, 2005, 17: 2243-2254.
[36]Hong Z, UeguchiTanaka M, Umemura K, et al. A rice brassinosteroiddeficient mutant, ebisu dwarf(d2), is caused by a loss of function of a new member of cytochrome P450. Plant Cell, 2003, 15: 2900-2910.
[37]Tanabe S, Ashikari M, Fujioka S, et al. A novel cytochrome P450 is implicated in brassinosteroid biosynthesis via the characterization of a rice dwarf mutant, dwarf11, with reduced seed length. Plant Cell, 2005, 17: 776-790.
[38]Sakamoto T, Morinaka Y, Ohnishi T, et al. Erect leaves caused by brassinosteroid deficiency increase biomass production and grain yield in rice. Nat Biotech, 2005, 24: 105-109.
[39]Bai M Y, Zhang L Y, Gampala S S, et al. Functions of OsBZR1 and 1433 proteins in brassinosteroid signaling in rice. Proc Natl Acad Sci USA, 2007, 104(34): 13839-13844.
[40]Yamamuro C, Ihara Y, Wu X, et al. Loss of function of a rice brassinosteroid insensitive 1 homolog prevents internode elongation and bending of the lamina joint. Plant Cell, 2000, 12: 1591-1605.
[41]Wang L, Xu Y Y, Li J, et al. Transgenic rice plants ectopically expressing AtBAK1 are semidwarfed and hypersensitive to 24epibrassinolide. Plant Physiol, 2007, 164: 655-664.
[42]Clouse S D, Langford M, McMorris T C. A brassinosteroid insensitive mutant in Arabidopsis thaliana exhibits multiple defects in growth and development. Plant Physiol, 1996, 111: 671-678.
[43]Ishikawa S, Maekawa M, Arite T, et al. Suppression of tiller bud activity in tillering dwarf mutants of rice. Plant Cell Physiol, 2005, 46: 79-86.
[44]Zou J H, Chen Z X, Zhang S Y, et al. Characterizations and fine mapping of a mutant gene for high tillering and dwarf in rice(Oryza sativa L.). Planta, 2005, 222(4): 604-612.
[45]Arite T, Iwata H, Ohshima K, Maekawa M, et al. DWARF10, an RMS1/MAX4/DAD1 ortholog, controls lateral bud outgrowth in rice. Plant J, 2007, 51: 1019-1029.
[46]Sato Y, Sentoku N, Miura Y, et al. Lossoffunction mutations in the rice homeobox gene OSH15 affect the architecture of internodes resulting in dwarf plants. EMBO J, 1999, 18: 992-1002.
[47]Zhou H L, He S J, Cao Y R, et al. OsGLU1, a putative membranebound endo1,4βDglucanase from rice, affects plant internode elongation. Plant Mol Biol, 2006, 60(1): 137-151.
[48]Luo A D, Qian Q, Yin H F, et al. EUI1, encoding a putative cytochrome P450 monooxygenase, regulates internode elongation by modulating gibberellin responses in rice. Plant Cell Physiol, 2006, 47(2): 181-191.
[49]Sazuka T, Aichi I, Kawai T, et al. The rice mutant dwarf bamboo shoot 1: A leaky mutant of the NACKtype kinesinlike gene can initiate organ primordia but not organ development. Plant Cell Physiol, 2005, 46(12): 1934-1943.
[50]Oryzabase. [2008-01-05]. http://www.shigen.nig.ac.jp/rice/oryzabase/genes/symbolListPageAction.do?page=1.
[51]朱速松, 蒋志谦, 刘建昌. 水稻不同矮源苗期对赤霉素的反应研究.贵州农业科学, 1998, 26（4）: 5-8.
[52] 李西明, 马良勇, 朱旭东, 杨长登. 不同矮源基因水稻对赤霉素和多效唑的敏感性研究. 福建农林大学学报, 2005, 34（1）: 5-9.
[53]Morinaka Y, Sakamoto T, Inukai Y, et al. Morphological alteration caused by brassinosteroid insensitivity increases the biomass and grain production of rice. Plant Physiol, 2006, 141: 924-931.

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