Seed development (WP2199)

Oryza sativa

Authors

Mamatha Hanumappa , Pankaj Jaiswal , Lauren J. Dupuis , Eric Weitz , Lars Willighagen , and Egon Willighagen

Activity

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Cited In

• WikiPathways for plants: a community pathway curation portal and a case study in rice and arabidopsis seed development networks (2013).

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Organisms

Oryza sativa

Communities

Annotations

Pathway Ontology

signaling pathway

Cell Type Ontology

obsolete plant cell

References

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22. Molecular characterization of four rice genes encoding ethylene-responsive transcriptional factors and their expressions in response to biotic and abiotic stress. Cao Y, Song F, Goodman RM, Zheng Z. J Plant Physiol. 2006 Nov;163(11):1167–78. PubMed Europe PMC Scholia
23. Interactions of two abscisic-acid induced WRKY genes in repressing gibberellin signaling in aleurone cells. Xie Z, Zhang ZL, Zou X, Yang G, Komatsu S, Shen QJ. Plant J. 2006 Apr;46(2):231–42. PubMed Europe PMC Scholia
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26. Synergism between RPBF Dof and RISBZ1 bZIP activators in the regulation of rice seed expression genes. Yamamoto MP, Onodera Y, Touno SM, Takaiwa F. Plant Physiol. 2006 Aug;141(4):1694–707. PubMed Europe PMC Scholia
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29. Knockout of a starch synthase gene OsSSIIIa/Flo5 causes white-core floury endosperm in rice (Oryza sativa L.). Ryoo N, Yu C, Park CS, Baik MY, Park IM, Cho MH, et al. Plant Cell Rep. 2007 Jul;26(7):1083–95. PubMed Europe PMC Scholia
30. OsMTN encodes a 5’-methylthioadenosine nucleosidase that is up-regulated during submergence-induced ethylene synthesis in rice (Oryza sativa L.). Rzewuski G, Cornell KA, Rooney L, Bürstenbinder K, Wirtz M, Hell R, et al. J Exp Bot. 2007;58(6):1505–14. PubMed Europe PMC Scholia
31. Characterization of a lipoate-protein ligase A gene of rice (Oryza sativa L.). Kang SG, Jeong HK, Lee E, Natarajan S. Gene. 2007 May 15;393(1–2):53–61. PubMed Europe PMC Scholia
32. Comprehensive expression profiling of rice grain filling-related genes under high temperature using DNA microarray. Yamakawa H, Hirose T, Kuroda M, Yamaguchi T. Plant Physiol. 2007 May;144(1):258–77. PubMed Europe PMC Scholia
33. Identification of the ADP-glucose pyrophosphorylase isoforms essential for starch synthesis in the leaf and seed endosperm of rice (Oryza sativa L.). Lee SK, Hwang SK, Han M, Eom JS, Kang HG, Han Y, et al. Plant Mol Biol. 2007 Nov;65(4):531–46. PubMed Europe PMC Scholia
34. Over-expression of a LEA gene in rice improves drought resistance under the field conditions. Xiao B, Huang Y, Tang N, Xiong L. Theor Appl Genet. 2007 Jun;115(1):35–46. PubMed Europe PMC Scholia
35. The rice bHLH protein OsIRO2 is an essential regulator of the genes involved in Fe uptake under Fe-deficient conditions. Ogo Y, Itai RN, Nakanishi H, Kobayashi T, Takahashi M, Mori S, et al. Plant J. 2007 Aug;51(3):366–77. PubMed Europe PMC Scholia
36. Du1, encoding a novel Prp1 protein, regulates starch biosynthesis through affecting the splicing of Wxb pre-mRNAs in rice (Oryza sativa L.). Zeng D, Yan M, Wang Y, Liu X, Qian Q, Li J. Plant Mol Biol. 2007 Nov;65(4):501–9. PubMed Europe PMC Scholia
37. Functional analysis of a NAC-type transcription factor OsNAC6 involved in abiotic and biotic stress-responsive gene expression in rice. Nakashima K, Tran LSP, Van Nguyen D, Fujita M, Maruyama K, Todaka D, et al. Plant J. 2007 Aug;51(4):617–30. PubMed Europe PMC Scholia
38. Characterization of alternative splicing products of bZIP transcription factors OsABI5. Zou M, Guan Y, Ren H, Zhang F, Chen F. Biochem Biophys Res Commun. 2007 Aug 24;360(2):307–13. PubMed Europe PMC Scholia
39. MADS-box gene family in rice: genome-wide identification, organization and expression profiling during reproductive development and stress. Arora R, Agarwal P, Ray S, Singh AK, Singh VP, Tyagi AK, et al. BMC Genomics. 2007 Jul 18;8:242. PubMed Europe PMC Scholia
40. The transcription factor IDEF1 regulates the response to and tolerance of iron deficiency in plants. Kobayashi T, Ogo Y, Itai RN, Nakanishi H, Takahashi M, Mori S, et al. Proc Natl Acad Sci U S A. 2007 Nov 27;104(48):19150–5. PubMed Europe PMC Scholia
41. RAR1 and HSP90 form a complex with Rac/Rop GTPase and function in innate-immune responses in rice. Thao NP, Chen L, Nakashima A, Hara S ichiro, Umemura K, Takahashi A, et al. Plant Cell. 2007 Dec;19(12):4035–45. PubMed Europe PMC Scholia
42. OsRAR1 and OsSGT1 physically interact and function in rice basal disease resistance. Wang Y, Gao M, Li Q, Wang L, Wang J, Jeon JS, et al. Mol Plant Microbe Interact. 2008 Mar;21(3):294–303. PubMed Europe PMC Scholia
43. A novel NAC transcription factor, IDEF2, that recognizes the iron deficiency-responsive element 2 regulates the genes involved in iron homeostasis in plants. Ogo Y, Kobayashi T, Nakanishi Itai R, Nakanishi H, Kakei Y, Takahashi M, et al. J Biol Chem. 2008 May 9;283(19):13407–17. PubMed Europe PMC Scholia
44. Abscisic acid regulates gene expression in cortical fiber cells and silica cells of rice shoots. Shobbar ZS, Oane R, Gamuyao R, De Palma J, Malboobi MA, Karimzadeh G, et al. New Phytol. 2008;178(1):68–79. PubMed Europe PMC Scholia
45. Natural variation in Ghd7 is an important regulator of heading date and yield potential in rice. Xue W, Xing Y, Weng X, Zhao Y, Tang W, Wang L, et al. Nat Genet. 2008 Jun;40(6):761–7. PubMed Europe PMC Scholia
46. Badh2, encoding betaine aldehyde dehydrogenase, inhibits the biosynthesis of 2-acetyl-1-pyrroline, a major component in rice fragrance. Chen S, Yang Y, Shi W, Ji Q, He F, Zhang Z, et al. Plant Cell. 2008 Jul;20(7):1850–61. PubMed Europe PMC Scholia
47. Cell-wall invertases from rice are differentially expressed in Caryopsis during the grain filling stage. Wang YQ, Wei XL, Xu HL, Chai CL, Meng K, Zhai HL, et al. J Integr Plant Biol. 2008 Apr;50(4):466–74. PubMed Europe PMC Scholia
48. RACK1 functions in rice innate immunity by interacting with the Rac1 immune complex. Nakashima A, Chen L, Thao NP, Fujiwara M, Wong HL, Kuwano M, et al. Plant Cell. 2008 Aug;20(8):2265–79. PubMed Europe PMC Scholia
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51. Contribution of salicylic acid glucosyltransferase, OsSGT1, to chemically induced disease resistance in rice plants. Umemura K, Satou J, Iwata M, Uozumi N, Koga J, Kawano T, et al. Plant J. 2009 Feb;57(3):463–72. PubMed Europe PMC Scholia
52. RNAi-directed downregulation of OsBADH2 results in aroma (2-acetyl-1-pyrroline) production in rice (Oryza sativa L.). Niu X, Tang W, Huang W, Ren G, Wang Q, Luo D, et al. BMC Plant Biol. 2008 Oct 8;8:100. PubMed Europe PMC Scholia
53. Isolation and initial characterization of GW5, a major QTL associated with rice grain width and weight. Weng J, Gu S, Wan X, Gao H, Guo T, Su N, et al. Cell Res. 2008 Dec;18(12):1199–209. PubMed Europe PMC Scholia
54. Rice aldehyde dehydrogenase7 is needed for seed maturation and viability. Shin JH, Kim SR, An G. Plant Physiol. 2009 Feb;149(2):905–15. PubMed Europe PMC Scholia
55. Characterization of OsIAA1 gene, a member of rice Aux/IAA family involved in auxin and brassinosteroid hormone responses and plant morphogenesis. Song Y, You J, Xiong L. Plant Mol Biol. 2009 Jun;70(3):297–309. PubMed Europe PMC Scholia
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57. Overexpression of the transcription factor AP37 in rice improves grain yield under drought conditions. Oh SJ, Kim YS, Kwon CW, Park HK, Jeong JS, Kim JK. Plant Physiol. 2009 Jul;150(3):1368–79. PubMed Europe PMC Scholia
58. Compensation and interaction between RISBZ1 and RPBF during grain filling in rice. Kawakatsu T, Yamamoto MP, Touno SM, Yasuda H, Takaiwa F. Plant J. 2009 Sep;59(6):908–20. PubMed Europe PMC Scholia
59. Transcript profiling reveals diverse roles of auxin-responsive genes during reproductive development and abiotic stress in rice. Jain M, Khurana JP. FEBS J. 2009 Jun;276(11):3148–62. PubMed Europe PMC Scholia
60. Evolutionary history of GS3, a gene conferring grain length in rice. Takano-Kai N, Jiang H, Kubo T, Sweeney M, Matsumoto T, Kanamori H, et al. Genetics. 2009 Aug;182(4):1323–34. PubMed Europe PMC Scholia
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62. Increased nitrogen-use efficiency in transgenic rice plants over-expressing a nitrogen-responsive early nodulin gene identified from rice expression profiling. Bi YM, Kant S, Clarke J, Gidda S, Ming F, Xu J, et al. Plant Cell Environ. 2009 Dec;32(12):1749–60. PubMed Europe PMC Scholia
63. The rice transcription factor IDEF1 is essential for the early response to iron deficiency, and induces vegetative expression of late embryogenesis abundant genes. Kobayashi T, Itai RN, Ogo Y, Kakei Y, Nakanishi H, Takahashi M, et al. Plant J. 2009 Dec;60(6):948–61. PubMed Europe PMC Scholia
64. Inactivation of the CTD phosphatase-like gene OsCPL1 enhances the development of the abscission layer and seed shattering in rice. Ji H, Kim SR, Kim YH, Kim H, Eun MY, Jin ID, et al. Plant J. 2010 Jan;61(1):96–106. PubMed Europe PMC Scholia
65. The expression of Orysa;CycB1;1 is essential for endosperm formation and causes embryo enlargement in rice. Guo J, Wang F, Song J, Sun W, Zhang XS. Planta. 2010 Jan;231(2):293–303. PubMed Europe PMC Scholia
66. The syncytium-specific expression of the Orysa;KRP3 CDK inhibitor: implication of its involvement in the cell cycle control in the rice (Oryza sativa L.) syncytial endosperm. Mizutani M, Naganuma T, Tsutsumi K ichi, Saitoh Y. J Exp Bot. 2010 Mar;61(3):791–8. PubMed Europe PMC Scholia
67. Molecular cloning of Sdr4, a regulator involved in seed dormancy and domestication of rice. Sugimoto K, Takeuchi Y, Ebana K, Miyao A, Hirochika H, Hara N, et al. Proc Natl Acad Sci U S A. 2010 Mar 30;107(13):5792–7. PubMed Europe PMC Scholia
68. Characterization of the reactions of starch branching enzymes from rice endosperm. Nakamura Y, Utsumi Y, Sawada T, Aihara S, Utsumi C, Yoshida M, et al. Plant Cell Physiol. 2010 May;51(5):776–94. PubMed Europe PMC Scholia
69. Root-specific expression of OsNAC10 improves drought tolerance and grain yield in rice under field drought conditions. Jeong JS, Kim YS, Baek KH, Jung H, Ha SH, Do Choi Y, et al. Plant Physiol. 2010 May;153(1):185–97. PubMed Europe PMC Scholia
70. Duplication and independent selection of cell-wall invertase genes GIF1 and OsCIN1 during rice evolution and domestication. Wang E, Xu X, Zhang L, Zhang H, Lin L, Wang Q, et al. BMC Evol Biol. 2010 Apr 23;10:108. PubMed Europe PMC Scholia
71. Functional analysis of a novel Cys2/His2-type zinc finger protein involved in salt tolerance in rice. Sun SJ, Guo SQ, Yang X, Bao YM, Tang HJ, Sun H, et al. J Exp Bot. 2010 Jun;61(10):2807–18. PubMed Europe PMC Scholia
72. Activation of a Rac GTPase by the NLR family disease resistance protein Pit plays a critical role in rice innate immunity. Kawano Y, Akamatsu A, Hayashi K, Housen Y, Okuda J, Yao A, et al. Cell Host Microbe. 2010 May 20;7(5):362–75. PubMed Europe PMC Scholia
73. Analysis of the Wsi18, a stress-inducible promoter that is active in the whole grain of transgenic rice. Yi N, Oh SJ, Kim YS, Jang HJ, Park SH, Jeong JS, et al. Transgenic Res. 2011 Feb;20(1):153–63. PubMed Europe PMC Scholia
74. Functional analysis of six drought-inducible promoters in transgenic rice plants throughout all stages of plant growth. Yi N, Kim YS, Jeong MH, Oh SJ, Jeong JS, Park SH, et al. Planta. 2010 Aug;232(3):743–54. PubMed Europe PMC Scholia
75. The abiotic stress-responsive NAC-type transcription factor OsNAC5 regulates stress-inducible genes and stress tolerance in rice. Takasaki H, Maruyama K, Kidokoro S, Ito Y, Fujita Y, Shinozaki K, et al. Mol Genet Genomics. 2010 Sep;284(3):173–83. PubMed Europe PMC Scholia
76. Coexpression analysis identifies Rice Starch Regulator1, a rice AP2/EREBP family transcription factor, as a novel rice starch biosynthesis regulator. Fu FF, Xue HW. Plant Physiol. 2010 Oct;154(2):927–38. PubMed Europe PMC Scholia
77. Molecular evolution of the endosperm starch synthesis pathway genes in rice (Oryza sativa L.) and its wild ancestor, O. rufipogon L. Yu G, Olsen KM, Schaal BA. Mol Biol Evol. 2011 Jan;28(1):659–71. PubMed Europe PMC Scholia
78. A novel factor FLOURY ENDOSPERM2 is involved in regulation of rice grain size and starch quality. She KC, Kusano H, Koizumi K, Yamakawa H, Hakata M, Imamura T, et al. Plant Cell. 2010 Oct;22(10):3280–94. PubMed Europe PMC Scholia
79. Linking differential domain functions of the GS3 protein to natural variation of grain size in rice. Mao H, Sun S, Yao J, Wang C, Yu S, Xu C, et al. Proc Natl Acad Sci U S A. 2010 Nov 9;107(45):19579–84. PubMed Europe PMC Scholia
80. Differences in transcriptional regulatory mechanisms functioning for free lysine content and seed storage protein accumulation in rice grain. Kawakatsu T, Takaiwa F. Plant Cell Physiol. 2010 Dec;51(12):1964–74. PubMed Europe PMC Scholia
81. WikiPathways for plants: a community pathway curation portal and a case study in rice and arabidopsis seed development networks. Hanumappa M, Preece J, Elser J, Nemeth D, Bono G, Wu K, et al. Rice (N Y). 2013 May 29;6(1):14. PubMed Europe PMC Scholia