Biotic Stress-response gene-network in rice (Oryza sativa)

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101010101010101010101010101010101010101010101010101010101010101010101010101010101010101010101010101010101010LegendKinase / signaling moleculeTranscription Factor/ hub genesOsMKK4XB12OsMPK1OsWRKY71GIP-1XB21Os01g0250900OsMPK5GRNL2NRRH2SGT1OsMPK8TFXB2GRNL110GIP-23rTGA2.1TGA2.2GIP-20GIP-6GIP-18GIP-11GIP-9NH110NRRH3NRRNRRIP-3NRRH1TGA2.3rLG2NRRIP-1TGA2.1IP-2TGA2.1IP-1NH2NRRIP-2XB2IP-1XB2IP-2XB2-IP-3XB2IP-4XA2110XB3SnRK1AOs02g0817000OsWRKY28XB11XB11IP-1PBZ1IP-1XB15PBZ1XB11IP-2PBZ1IP-2XB22OsRBOHBOSRac1RAR1OSMPK12OSEREBP1XB22IP-1HSP90 10XB12IP-5OsWRKY67Biotic stress response gene network in riceRepression or inhibitionRACK1A9, 10XB24GIP139, 10KinaseOsWRKY62 19GAHormoneProteinsProtein-protein interaction measured by yeast two-hybrid assayProtein-protein interaction measured by bimolecular fluorescence complementation (BiFC)


Description

Biotic stress response gene-network in rice

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Bibliography

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  1. Lee DK, Kim HI, Jang G, Chung PJ, Jeong JS, Kim YS, Bang SW, Jung H, Choi YD, Kim JK; ''The NF-YA transcription factor OsNF-YA7 confers drought stress tolerance of rice in anabscisic acid independent manner.''; Plant Sci, 2015 PubMed Europe PMC
  2. Sano N, Masaki S, Tanabata T, Yamada T, Hirasawa T, Kanekatsu M; ''Proteomic analysis of stress-related proteins in rice seeds during the desiccation phase of grain filling''; Plant Biotechnology, 2013
  3. Hu H, Dai M, Yao J, Xiao B, Li X, Zhang Q, Xiong L; ''Overexpressing a NAM, ATAF, and CUC (NAC) transcription factor enhances drought resistance and salt tolerance in rice.''; Proc Natl Acad Sci U S A, 2006 PubMed Europe PMC
  4. Guo WJ, Ho TH; ''An abscisic acid-induced protein, HVA22, inhibits gibberellin-mediated programmed cell death in cereal aleurone cells.''; Plant Physiol, 2008 PubMed Europe PMC
  5. Takasaki H, Maruyama K, Kidokoro S, Ito Y, Fujita Y, Shinozaki K, Yamaguchi-Shinozaki K, Nakashima K; ''The abiotic stress-responsive NAC-type transcription factor OsNAC5 regulates stress-inducible genes and stress tolerance in rice.''; Mol Genet Genomics, 2010 PubMed Europe PMC
  6. Hu H, You J, Fang Y, Zhu X, Qi Z, Xiong L; ''Characterization of transcription factor gene SNAC2 conferring cold and salt tolerance in rice.''; Plant Mol Biol, 2008 PubMed Europe PMC
  7. Huang L, Zhang F, Wang W, Zhou Y, Fu B, Li Z; ''Comparative transcriptome sequencing of tolerant rice introgression line and its parents in response to drought stress.''; BMC Genomics, 2014 PubMed Europe PMC
  8. E ZG, Zhang YP, Zhou JH, Wang L; ''Mini review roles of the bZIP gene family in rice.''; Genet Mol Res, 2014 PubMed Europe PMC
  9. Hanumappa M, Preece J, Elser J, Nemeth D, Bono G, Wu K, Jaiswal P; ''WikiPathways for plants: a community pathway curation portal and a case study in rice and arabidopsis seed development networks.''; Rice (N Y), 2013 PubMed Europe PMC
  10. Seo YS, Chern M, Bartley LE, Han M, Jung KH, Lee I, Walia H, Richter T, Xu X, Cao P, Bai W, Ramanan R, Amonpant F, Arul L, Canlas PE, Ruan R, Park CJ, Chen X, Hwang S, Jeon JS, Ronald PC; ''Towards establishment of a rice stress response interactome.''; PLoS Genet, 2011 PubMed Europe PMC
  11. Mittal D, Chakrabarti S, Sarkar A, Singh A, Grover A; ''Heat shock factor gene family in rice: genomic organization and transcript expression profiling in response to high temperature, low temperature and oxidative stresses.''; Plant Physiol Biochem, 2009 PubMed Europe PMC
  12. Mohanty B, Kitazumi A, Cheung CY, Lakshmanan M, de Los Reyes BG, Jang IC, Lee DY; ''Identification of candidate network hubs involved in metabolic adjustments of rice under drought stress by integrating transcriptome data and genome-scale metabolic network.''; Plant Sci, 2016 PubMed Europe PMC
  13. Nigam D, Kumar S, Mishra DC, Rai A, Smita S, Saha A; ''Synergistic regulatory networks mediated by microRNAs and transcription factors under drought, heat and salt stresses in Oryza Sativa spp.''; Gene, 2015 PubMed Europe PMC
  14. Guo X, Hou X, Fang J, Wei P, Xu B, Chen M, Feng Y, Chu C; ''The rice GERMINATION DEFECTIVE 1, encoding a B3 domain transcriptional repressor, regulates seed germination and seedling development by integrating GA and carbohydrate metabolism.''; Plant J, 2013 PubMed Europe PMC
  15. Joo J, Lee YH, Kim YK, Nahm BH, Song SI; ''Abiotic stress responsive rice ASR1 and ASR3 exhibit different tissue-dependent sugar and hormone-sensitivities.''; Mol Cells, 2013 PubMed Europe PMC
  16. Nie DM, Ouyang YD, Wang X, Zhou W, Hu CG, Yao J; ''Genome-wide analysis of endosperm-specific genes in rice.''; Gene, 2013 PubMed Europe PMC
  17. Todaka D, Shinozaki K, Yamaguchi-Shinozaki K; ''Recent advances in the dissection of drought-stress regulatory networks and strategies for development of drought-tolerant transgenic rice plants.''; Front Plant Sci, 2015 PubMed Europe PMC
  18. Mohanty B, Herath V, Wijaya E, Yeo HC, de Los Reyes BG, Lee DY; ''Patterns of cis-element enrichment reveal potential regulatory modules involved in the transcriptional regulation of anoxia response of japonica rice.''; Gene, 2012 PubMed Europe PMC
  19. Jeong JS, Kim YS, Baek KH, Jung H, Ha SH, Do Choi Y, Kim M, Reuzeau C, Kim JK; ''Root-specific expression of OsNAC10 improves drought tolerance and grain yield in rice under field drought conditions.''; Plant Physiol, 2010 PubMed Europe PMC
  20. Cheng S, Huang Y, Zhu N, Zhao Y; ''The rice WUSCHEL-related homeobox genes are involved in reproductive organ development, hormone signaling and abiotic stress response.''; Gene, 2014 PubMed Europe PMC
  21. Yun KY, Park MR, Mohanty B, Herath V, Xu F, Mauleon R, Wijaya E, Bajic VB, Bruskiewich R, de Los Reyes BG; ''Transcriptional regulatory network triggered byoxidative signals configures the early response mechanisms of japonica rice to chilling stress.''; BMC Plant Biol, 2010 PubMed Europe PMC
  22. Lakshmanan M, Mohanty B, Lim SH, Ha SH, Lee DY; ''Metabolic and transcriptional regulatory mechanisms underlying the anoxic adaptation of rice coleoptile.''; AoB Plants, 2014 PubMed Europe PMC
  23. Amir Hossain M, Lee Y, Cho JI, Ahn CH, Lee SK, Jeon JS, Kang H, Lee CH, An G, Park PB; ''The bZIP transcription factor OsABF1 is an ABA responsive element binding factor that enhances abiotic stress signaling in rice.''; Plant Mol Biol, 2010 PubMed Europe PMC
  24. Nigam D, Kumar S, Mishra DC, Rai A, Smita S, Saha A; ''Synergistic regulatory networks mediated by microRNAs and transcription factors under drought, heat and salt stresses in Oryza Sativa spp.''; Gene, 2015 PubMed Europe PMC

History

View all...
CompareRevisionActionTimeUserComment
102190view22:51, 7 December 2018AlexanderPicoOntology Term : 'signaling pathway' added !
102189view22:51, 7 December 2018AlexanderPicoOntology Term : 'stress response pathway' added !
98934view12:28, 16 October 2018DeSlConverted unconnected lines in legend to graphical lines; outlined legend, added background colour for clarity.
98788view23:09, 8 October 2018Mkutmonremoved redundant reference
98787view23:03, 8 October 2018Mkutmonfixed literature reference problem
98786view22:17, 8 October 2018SnaithaniModified title
98785view22:09, 8 October 2018SnaithaniNew pathway

External references

DataNodes

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NameTypeDatabase referenceComment
GIP-11ProteinOs02g0782200 (Gramene Rice)
GIP-18ProteinOs09g0115500 (Gramene Rice)
GIP-1ProteinOs03g0786100 (Gramene Rice)
GIP-20ProteinOs08g0562200 (Gramene Rice)
GIP-23ProteinOs10g0537300 (Gramene Rice)
GIP-6ProteinOs04g0471400 (Gramene Rice)
GIP-9GeneProductOs03g0736000 (Gramene Rice)
GIP13ProteinOs02g0306401 (Gramene Rice) GIP13, Nicotinanamine aminotransferase Expresses in seed and is involved in XA21 mediated immunity and submergence tolerance in rice pathways
GRNL1ProteinOs1g0667900 (Gramene Rice)
GRNL2ProteinOs05g0563900|mRNA|AK062897|UTR (Gramene Rice)
HSP90 ProteinOs09g0482100|mRNA|AB111810|CDS+3'UTR (Gramene Rice)
Kinase
NH1ProteinOs01g0194300|mRNA|AK120715|CDS+3'UTR (Gramene Rice)
NH2ProteinOs01g0767900 (Gramene Rice)
NRRH1ProteinOs05g0368000|COMBINER_EST|Os05g0368000|8 (Gramene Rice)
NRRH2ProteinOs01g0508500|mRNA|AK120501|CDS+3'UTR (Gramene Rice)
NRRH3ProteinOs01g0508100|COMBINER_EST|CI557510|0 (Gramene Rice)
NRRIP-1ProteinO (Gramene Rice)
NRRIP-2ProteinOs07g0508300|mRNA|AK063908|CDS+3'UTR (Gramene Rice)
NRRIP-3ProteinOs11g0139500|mRNA|AK103113|CDS+3'UTR (Gramene Rice)
NRRProteinOs01g0130200|COMBINER|CI449644|6 (Gramene Rice)
OSEREBP1ProteinOs02g0782700|mRNA|AF193803|CDS+3'UTR (Gramene Rice)
OSMPK12ProteinOs06g0708000|mRNA|AF177392|CDS+3'UTR (Gramene Rice)
OSRac1ProteinOs01g0229400|mRNA|AB029508|CDS+3'UTR (Gramene Rice) OsRac1

Expresses in seed and a key component of rice defense and submergence tolerance signaling pathway. 3: 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; Jaiswal P; Rice (N Y); 2013; PubMed


19: Towards establishment of a rice stress response interactome.; Seo YS; Chern M; Bartley LE; Han M; Jung KH; Lee I; Walia H; Richter T; Xu X; Cao P; Bai W; Ramanan R; Amonpant F; Arul L; Canlas PE; Ruan R; Park CJ; Chen X; Hwang S; Jeon JS; Ronald PC; PLoS Genet; 2011; PubMed
Os01g0250900ProteinOs01g0250900|mRNA|AK065179|CDS+3'UTR (Gramene Rice)
Os02g0817000ProteinOs02g0817000 (Gramene Rice)
OsMKK4ProteinOs02g0787300|mRNA|AK120525|CDS+3'UTR (Gramene Rice)
OsMPK1ProteinOs06g0154500|mRNA|AB183398|CDS+3'UTR (Gramene Rice)
OsMPK5ProteinOs03g0285800|mRNA|AF216315|CDS+3'UTR (Gramene Rice)
OsMPK8ProteinOs01g0665200|mRNA|AJ512643|CDS+3'UTR (Gramene Rice)
OsRBOHBProteinOs01g0360200|mRNA|AK060770|CDS+3'UTR (Gramene Rice)
OsWRKY28ProteinOs06g0649000|mRNA|AK106282|CDS+3'UTR (Gramene Rice)
OsWRKY62 GeneProductOs09g0417800 (Gramene Rice) WRKY Family transcription factor 62 involved in biotic stress response and in NAC10 mediated abiotic stress response
OsWRKY67ProteinOs05g0183100|mRNA|AK066252|CDS+3'UTR (Gramene Rice)
OsWRKY71ProteinOs02g0181300|mRNA|AK058773|CDS+3'UTR (Gramene Rice)
PBZ1IP-1ProteinOs03g0183800|mRNA|AK100621|CDS+3'UTR (Gramene Rice)
PBZ1IP-2ProteinOs03g0655400|mRNA|AB011368|CDS+3'UTR (Gramene Rice)
PBZ1ProteinOs12g0555500|mRNA|AK071613|CDS+3'UTR (Gramene Rice)
RACK1A ProteinOs01g0686800 (Gramene Rice) Guanine nucleotide-binding protein subunit beta-like protein A (RACK1A) Expresses in seed and is involved in XA21 mediated immunity and submergence tolerance in rice pathways
RAR1ProteinOs02g0535400|mRNA|AK111881|CDS+3'UTR (Gramene Rice)
SGT1ProteinOs08g0447200|mRNA|AK067377|CDS+3'UTR (Gramene Rice)
SnRK1AGeneProductOs05g0530500|mRNA|AF062479|CDS+3'UTR (Gramene Rice)
TF GeneProduct
TGA2.1IP-1ProteinOs07g0585000|mRNA|AK071269|CDS+3'UTR (Gramene Rice)
TGA2.1IP-2ProteinOs12g0573200|mRNA|AK111522|CDS+3'UTR (Gramene Rice)
TGA2.2ProteinOs03g0318600 (Gramene Rice)
TGA2.3ProteinOs01g0279900|mRNA|AB051296|CDS+3'UTR (Gramene Rice)
XA21ProteinOs11g0569733 (Gramene Rice)
XB11IP-1ProteinOs11g0568700|mRNA|AK099671|CDS+3'UTR (Gramene Rice)
XB11IP-2ProteinOs08g0151700|mRNA|AK073149|CDS+3'UTR (Gramene Rice)
XB11ProteinOs01g0128800 (Gramene Rice)
XB12IP-5Protein
XB12ProteinOs10g0577700|mRNA|AK061718|CDS+3'UTR (Gramene Rice)
XB15ProteinOs03g0821300|mRNA|AJ575237|5'UTR+CDS (Gramene Rice)
XB2-IP-3ProteinOs09g0133800|mRNA|AK060425|CDS+3'UTR (Gramene Rice)
XB21ProteinOs12g0548200|mRNA|AK072993|CDS+3'UTR (Gramene Rice)
XB22IP-1ProteinOs11g0106900|COMBINER_EST|CI445507|0 (Gramene Rice)
XB22ProteinOs07g0171100|mRNA|AF272978|CDS+3'UTR (Gramene Rice)
XB24 ProteinOs01g0771200 (Gramene Rice) XB24, ATPase Expresses in seed and is involved in XA21 mediated immunity and subergemce tolerance in rice pathways
XB2IP-1ProteinOs06g0681400|mRNA|AK121590|CDS+3'UTR (Gramene Rice)
XB2IP-2ProteinOs04g0648500|mRNA|AK064227|CDS+3'UTR (Gramene Rice)
XB2IP-4ProteinOs02g0148300|mRNA|AK071342|CDS+3'UTR (Gramene Rice)
XB2ProteinOs06g0283200|mRNA|AK073829|CDS+3'UTR (Gramene Rice)
XB3ProteinOs05g0112000|mRNA|AF272860|CDS (Gramene Rice)
rLG2ProteinOs01g0859500|mRNA|AK101338|CDS+3'UTR (Gramene Rice)
rTGA2.1ProteinOs07g0687700 (Gramene Rice)

Annotated Interactions

No annotated interactions

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