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Identification of transcriptome profiles and signaling pathways for the allelochemical juglone in rice roots

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Abstract

Juglone (5-hydroxy-1,4-naphthoquinone) is known allelochemical, but its molecular mode of action is not well understood. We found that juglone induced reactive oxygen species production and calcium accumulation. To gain more insight into these cellular responses, we performed large-scale analysis of the rice transcriptome during juglone stress. Exposure to juglone triggered changes in transcript levels of genes related to cell growth, cell wall formation, chemical detoxification, abiotic stress response and epigenesis. The most predominant transcription-factor families were AP2/ERF, HSF, NAC, C2H2, WRKY, MYB and GRAS. Gene expression profiling of juglone-treated rice roots revealed upregulated signaling and biosynthesis of abscisic acid and jasmonic acid and inactivation of gibberellic acid. In addition, juglone upregulated the expression of two calcium-dependent protein kinases (CDPKs), 6 mitogen-activated protein kinase (MAPK) genes and 1 MAPK gene and markedly increased the activities of a CDPK-like kinase and MAPKs. Further characterization of these juglone-responsive genes may be helpful for better understanding the mechanisms of allelochemical tolerance in plants.

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References

  • Achard P, Cheng H, De Grauwe L, Decat J, Schoutteten H, Moritz T, Van Der Straeten D, Peng J, Harberd NP (2006) Integration of plant responses to environmentally activated phytohormonal signals. Science 311:91–94

    Article  PubMed  CAS  Google Scholar 

  • Achard P, Gong F, Cheminant S, Alioua M, Hedden P, Genschik P (2008) The cold-inducible CBF1 factor-dependent signaling pathway modulates the accumulation of the growth-repressing DELLA proteins via its effect on gibberellin metabolism. Plant Cell 20:2117–2129

    Article  PubMed  CAS  Google Scholar 

  • Agarwal P, Agarwal P, Reddy M, Sopory S (2006) Role of DREB transcription factors in abiotic and biotic stress tolerance in plants. Plant Cell Rep 25:1263–1274

    Article  PubMed  CAS  Google Scholar 

  • Agarwal P, Arora R, Ray S, Singh A, Singh V, Takatsuji H, Kapoor S, Tyagi A (2007) Genome-wide identification of C2H2 zinc-finger gene family in rice and their phylogeny and expression analysis. Plant Mol Biol 65:467–485

    Article  PubMed  CAS  Google Scholar 

  • Agarwal P, Agarwal P, Joshi A, Sopory S, Reddy M (2010) Overexpression of PgDREB2A transcription factor enhances abiotic stress tolerance and activates downstream stress-responsive genes. Mol Biol Rep 37:1125–1135

    Article  PubMed  CAS  Google Scholar 

  • Asai T, Stone JM, Heard JE, Kovtun Y, Yorgey P, Sheen J, Ausubel FM (2000) Fumonisin B1-induced cell death in Arabidopsis protoplasts requires jasmonate-, ethylene-, and salicylate-dependent signaling pathways. Plant Cell 12:1823–1836

    Article  PubMed  CAS  Google Scholar 

  • Baerson SR, Sanchez-Moreiras A, Pedrol-Bonjoch N, Schulz M, Kagan IA, Agarwal AK, Reigosa MJ, Duke SO (2005) Detoxification and transcriptome response in Arabidopsis seedlings exposed to the allelochemical benzoxazolin-2(3H)-one. J Biol Chem 280:21867–21881

    Article  PubMed  CAS  Google Scholar 

  • Bais HP, Vepachedu R, Gilroy S, Callaway RM, Vivanco JM (2003) Allelopathy and exotic plant invasion: from molecules and genes to species interactions. Science 301:1377–1380

    Article  PubMed  CAS  Google Scholar 

  • Baker CJ, Mock NM (1994) An improved method for monitoring cell death in cell suspension and leaf disc assays using Evans blue. Plant Cell Tissue Organ Cult 39:7–12

    Article  Google Scholar 

  • Björnstedt M, Xue J, Huang W, Akesson B, Holmgren A (1994) The thioredoxin and glutaredoxin systems are efficient electron donors to human plasma glutathione peroxidase. J Biol Chem 269:29382–29384

    PubMed  Google Scholar 

  • Bogatek R, Gniazdowska A (2007) ROS and phytohormones in plant–plant allelopathic interaction. Plant Signal Behav 2:317–318

    Article  PubMed  Google Scholar 

  • Bohm PAF, Zanardo FML, Ferrarese MLL, Ferrarese-Filho O (2006) Peroxidase activity and lignification in soybean root growth-inhibition by juglone. Biol Plant 50:315–317

    Article  CAS  Google Scholar 

  • Bolle C, Koncz C, Chua NH (2000) PAT1, a new member of the GRAS family, is involved in phytochrome A signal transduction. Genes Dev 14:1269–1278

    PubMed  CAS  Google Scholar 

  • Chen Y, Yang X, He K, Liu M, Li J, Gao Z, Lin Z, Zhang Y, Wang X, Qiu X, Shen Y, Zhang L, Deng X, Luo J, Deng XW, Chen Z, Gu H, Qu LJ (2006) The MYB transcription factor superfamily of Arabidopsis: Expression analysis and phylogenetic comparison with the rice MYB family. Plant Mol Biol 60:107–124

    Article  CAS  Google Scholar 

  • Chinnusamy V, Zhu JK (2009) Epigenetic regulation of stress responses in plants. Curr Opin Plant Biol 12:133–139

    Article  PubMed  CAS  Google Scholar 

  • Cosgrove DJ, Li LC, Cho HT, Hoffmann-Benning S, Moore RC, Blecker D (2002) The growing world of expansions. Plant Cell Physiol 43:1436–1444

    Article  PubMed  CAS  Google Scholar 

  • Dantuma NP, Lindsten K (2010) Stressing the ubiquitin-proteasome system. Cardiovasc Res 85:263–271

    Article  PubMed  CAS  Google Scholar 

  • Dardick C, Ronald P (2006) Plant and animal pathogen recognition receptors signal through non-RD kinases. PLoS Pathog 2:e2

    Article  PubMed  CAS  Google Scholar 

  • Dardick C, Chen J, Richter T, Ouyang S, Ronald P (2007) The rice kinase database. A phylogenomic database for the rice kinome. Plant Physiol 143:579–586

    Article  PubMed  CAS  Google Scholar 

  • Das R, Pandey GK (2010) Expressional analysis and role of calcium regulated kinases in abiotic stress signaling. Curr Genomics 11:2–13

    Article  PubMed  CAS  Google Scholar 

  • Day RB, Shibuya N, Minami E (2003) Identification and characterization of two new members of the GRAS gene family in rice responsive to N-acetylchitooligosaccharide elicitor. Biochim Biophys Acta 1625:261–268

    PubMed  CAS  Google Scholar 

  • Duke SO, Baerson SR, Pan Z, Kagan IA, Sánchez-Moreiras A, Reigosa MJ, Pedrol N, Schulz M (2008) Genomic approaches to understanding allelochemical effects on plants. In: Zeng RS, Mallik AU, Luo SM (eds) Allelopathy in sustainable agriculture and forestry. Springer, New York, pp 157–167

    Chapter  Google Scholar 

  • Edgar R, Domrachev M, Lash AE (2002) Gene expression omnibus: NCBI gene expression and hybridization array data repository. Nucleic Acids Res 30:207–210

    Article  PubMed  CAS  Google Scholar 

  • Fang Y, You J, Xie K, Xie W, Xiong L (2008) Systematic sequence analysis and identification of tissue-specific or stress-responsive genes of NAC transcription factor family in rice. Mol Genet Genomics 280:547–563

    Article  PubMed  CAS  Google Scholar 

  • Fu SF, Chou WC, Huang DD, Huang HJ (2002) Transcriptional regulation of a rice mitogen-activated protein kinase gene, OsMAPK4, in response to environmental stresses. Plant Cell Physiol 43:958–963

    Article  PubMed  CAS  Google Scholar 

  • Fu W, Wu K, Duan J (2007) Sequence and expression analysis of histone deacetylases in rice. Biochem Biophys Res Commun 356:843–850

    Article  PubMed  CAS  Google Scholar 

  • Gao G, Zhong Y, Guo A, Zhu Q, Tang W, Zheng W, Gu X, Wei L, Luo J (2006) DRTF: a database of rice transcription factors. Bioinformatics 22:1286–1287

    Article  PubMed  CAS  Google Scholar 

  • Gniazdowska A, Bogatek R (2005) Allelopathic interactions between plants. Multi site action of allelochemicals. Acta Physiol Plant 27:395–407

    Article  CAS  Google Scholar 

  • Golisz A, Sugano M, Fujii Y (2008) Microarray expression profiling of Arabidopsis thaliana L. in response to allelochemicals identified in buckwheat. J Exp Bot 59:3099–3109

    Article  PubMed  CAS  Google Scholar 

  • Golisz A, Sugano M, Hiradate S, Fujii Y (2011) Microarray analysis of Arabidopsis plants in response to allelochemical l-DOPA. Planta 233:231–240

    Article  PubMed  CAS  Google Scholar 

  • Gu Z, Ma B, Jiang Y, Chen Z, Su X, Zhang H (2008) Expression analysis of the calcineurin B-like gene family in rice (Oryza sativa L.) under environmental stresses. Gene 415:1–12

    Article  PubMed  CAS  Google Scholar 

  • Harper JF, Breton G, Harmon A (2004) Decoding Ca(2+) signals through plant protein kinases. Annu Rev Plant Biol 55:263–288

    Article  PubMed  CAS  Google Scholar 

  • Hejl AM, Koster KL (2004) Juglone disrupts root plasma membrane H+-ATPase activity and impairs water uptake, root respiration, and growth in soybean (Glycine max) and corn (Zea mays). J Chem Ecol 30:453–471

    Article  PubMed  CAS  Google Scholar 

  • Hejl AAM, Einhellig FA, Rasmussen JA (1993) Effects of juglone on growth, photosynthesis, and respiration. J Chem Ecol 19:559–568

    Article  CAS  Google Scholar 

  • Huang TL, Huang HJ (2008) ROS and CDPK-like kinase-mediated activation of MAP kinase in rice roots exposed to lead. Chemosphere 71:1377–1385

    Article  PubMed  CAS  Google Scholar 

  • Hwang EW, Kim KA, Park SC, Jeong MJ, Byun MO, Kwon HB (2005) Expression profiles of hot pepper (Capsicum annum) genes under cold stress conditions. J Biosci 30:657–667

    Article  PubMed  CAS  Google Scholar 

  • Inderjit, Duke SO (2003) Ecophysiological aspects of allelopathy. Planta 217:529–539

    Article  PubMed  CAS  Google Scholar 

  • Jain M, Nijhawan A, Arora R, Agarwal P, Ray S, Sharma P, Kapoor S, Tyagi AK, Khurana JP (2007) F-box proteins in rice. Genome-wide analysis, classification, temporal and spatial gene expression during panicle and seed development, and regulation by light and abiotic stress. Plant Physiol 143:1467–1483

    Article  PubMed  CAS  Google Scholar 

  • Jain M, Ghanashyam C, Bhattacharjee A (2010) Comprehensive expression analysis suggests overlapping and specific roles of rice glutathione S-transferase genes during development and stress responses. BMC Genomics 11:73

    Article  PubMed  CAS  Google Scholar 

  • Jeong JS, Kim YS, Baek KH, Jung H, Ha SH, Do Choi Y, Kim M, Reuzeau C, Kim JK (2010) Root-specific expression of OsNAC10 improves drought tolerance and grain yield in rice under field drought conditions. Plant Physiol 153:185–197

    Article  PubMed  CAS  Google Scholar 

  • Jose S, Gillespie AR (1998) Allelopathy in black walnut (Juglans nigra L.) alley cropping. II. Effects of juglone on hydroponically grown corn (Zea mays L.) and soybean (Glycine max L. Merr.) growth and physiology. Plant Soil 203:199–206

    Article  CAS  Google Scholar 

  • Katiyar-Agarwal S, Agarwal M, Grover A (2003) Heat-tolerant basmati rice engineered by over-expression of hsp101. Plant Mol Biol 51:677–686

    Article  PubMed  CAS  Google Scholar 

  • Kato-Noguchi H, Hasegawa M, Ino T, Ota K, Kujime H (2010) Contribution of momilactone A and B to rice allelopathy. J Plant Physiol 167:787–791

    Article  PubMed  CAS  Google Scholar 

  • Kim JA, Agrawal GK, Rakwal R, Han KS, Kim KN, Yun CH, Heu S, Park SY, Lee YH, Jwa NS (2003) Molecular cloning and mRNA expression analysis of a novel rice (Oryza sativa L.) MAPK kinase kinase, OsEDR1, an ortholog of Arabidopsis AtEDR1, reveal its role in defense/stress signalling pathways and development. Biochem Biophys Res Commun 300:868–876

    Article  PubMed  CAS  Google Scholar 

  • Levtchenko E, de Graaf-Hess A, Wilmer M, van den Heuvel L, Monnens L, Blom H (2005) Altered status of glutathione and its metabolites in cystinotic cells. Nephrol Dial Transplant 20:1828–1832

    Article  PubMed  CAS  Google Scholar 

  • Mahajan S, Tuteja N (2005) Cold, salinity and drought stresses: an overview. Arch Biochem Biophys 444:139–158

    Article  PubMed  CAS  Google Scholar 

  • Marè C, Mazzucotelli E, Crosatti C, Francia E, Stanca AM, Cattivelli L (2004) Hv-WRKY38: a new transcription factor involved in cold- and drought-response in barley. Plant Mol Biol 55:399–416

    Article  PubMed  Google Scholar 

  • Martin ML, Busconi L (2001) A rice membrane-bound calcium-dependent protein kinase is activated in response to low temperature. Plant Physiol 125:1442–1449

    Article  PubMed  CAS  Google Scholar 

  • Mazzucotelli E (2006) The E3 ubiquitin ligase gene family in plants: regulation by degradation. Curr Genomics 7:509–522

    Article  PubMed  CAS  Google Scholar 

  • Meskiene I, Baudouin E, Schweighofer A, Liwosz A, Jonak C, Rodriguez PL, Jelinek H, Hirt H (2003) Stress-induced protein phosphatase 2C is a negative regulator of a mitogen-activated protein kinase. J Biol Chem 278:18945–18952

    Article  PubMed  CAS  Google Scholar 

  • Miller GAD, Mittler RON (2006) Could heat shock transcription factors function as hydrogen peroxide sensors in plants? Ann Bot 98:279–288

    Article  PubMed  CAS  Google Scholar 

  • Mylona PV, Polidoros AN, Scandalios JG (2007) Antioxidant gene responses to ROS-generating xenobiotics in developing and germinated scutella of maize. J Exp Bot 58:1301–1312

    Article  PubMed  CAS  Google Scholar 

  • Nakagami H, Pitzschke A, Hirt H (2005) Emerging MAP kinase pathways in plant stress signalling. Trends Plant Sci 10:339–346

    Article  PubMed  CAS  Google Scholar 

  • Nakashima K, Tran LS, Van Nguyen D, Fujita M, Maruyama K, Todaka D, Ito Y, Hayashi N, Shinozaki K, Yamaguchi-Shinozaki K (2007) Functional analysis of a NAC-type transcription factor OsNAC6 involved in abiotic and biotic stress-responsive gene expression in rice. Plant J 51:617–630

    Article  PubMed  CAS  Google Scholar 

  • Neill S, Desikan R, Hancock J (2002) Hydrogen peroxide signalling. Curr Opin Plant Biol 5:388–395

    Article  PubMed  CAS  Google Scholar 

  • Nover L, Bharti K, Döring P, Mishra SK, Ganguli A, Scharf KD (2001) Arabidopsis and the heat stress transcription factor world: how many heat stress transcription factors do we need? Cell Stress Chaperones 6:177–189

    Article  PubMed  CAS  Google Scholar 

  • Nuruzzaman M, Manimekalai R, Sharoni AM, Satoh K, Kondoh H, Ooka H, Kikuchi S (2010) Genome-wide analysis of NAC transcription factor family in rice. Gene 465:30–44

    Article  PubMed  CAS  Google Scholar 

  • Ouyang S, Zhu W, Hamilton J, Lin H, Campbell M, Childs K, Thibaud-Nissen F, Malek RL, Lee Y, Zheng L, Orvis J, Haas B, Wortman J, Buell CR (2007) The TIGR rice genome annotation resource: improvements and new features. Nucleic Acids Res 35:D883–D887

    Article  PubMed  CAS  Google Scholar 

  • Park CY, Lee JH, Yoo JH, Moon BC, Choi MS, Kang YH, Lee SM, Kim HS, Kang KY, Chung WS, Lim CO, Cho MJ (2005) WRKY group IId transcription factors interact with calmodulin. FEBS Lett 579:1545–1550

    Article  PubMed  CAS  Google Scholar 

  • Park MR, Yun KY, Mohanty B, Herath V, Xu F, Wijaya E, Bajic VB, Yun SJ, De Los Reyes BG (2010) Supra-optimal expression of the cold-regulated OsMyb4 transcription factor in transgenic rice changes the complexity of transcriptional network with major effects on stress tolerance and panicle development. Plant Cell Environ 33:2209–2230

    Article  PubMed  CAS  Google Scholar 

  • Passardi F, Theiler G, Zamocky M, Cosio C, Rouhier N, Teixera F, Margis-Pinheiro M, Ioannidis V, Penel C, Falquet L, Dunand C (2007) PeroxiBase: the peroxidase database. Phytochemistry 68:1605–1611

    Article  PubMed  CAS  Google Scholar 

  • Patterson C (2002) A new gun in town: the U box is a ubiquitin ligase domain. Sci STKE 2002:pe4

    Article  PubMed  Google Scholar 

  • Ramamoorthy R, Jiang SY, Kumar N, Venkatesh PN, Ramachandran S (2008) A comprehensive transcriptional profiling of the WRKY gene family in rice under various abiotic and phytohormone treatments. Plant Cell Physiol 49:865–879

    Article  PubMed  CAS  Google Scholar 

  • Ray S, Agarwal P, Arora R, Kapoor S, Tyagi AK (2007) Expression analysis of calcium-dependent protein kinase gene family during reproductive development and abiotic stress conditions in rice (Oryza sativa L. ssp. indica). Mol Genet Genomics 278:493–505

    Article  PubMed  CAS  Google Scholar 

  • Reigosa MJ, Pazos-Malvido E (2007) Phytotoxic effects of 21 plant secondary metabolites on Arabidopsis thaliana germination and root growth. J Chem Ecol 33:1456–1466

    Article  PubMed  CAS  Google Scholar 

  • Ren Q, Kang KH, Paulsen IT (2004) TransportDB: a relational database of cellular membrane transport systems. Nucleic Acids Res 32:D284–D288

    Article  PubMed  CAS  Google Scholar 

  • Richards DE, Peng J, Harberd NP (2000) Plant GRAS and metazoan STATs: one family? BioEssays 22:573–577

    Article  PubMed  CAS  Google Scholar 

  • Riou-Khamlichi C, Huntley R, Jacqmard A, Murray JA (1999) Cytokinin activation of Arabidopsis cell division through a D-type cyclin. Science 283:1541–1544

    Article  PubMed  CAS  Google Scholar 

  • Rizhsky L, Liang H, Mittler R (2002) The combined effect of drought stress and heat shock on gene expression in tobacco. Plant Physiol 130:1143–1151

    Article  PubMed  CAS  Google Scholar 

  • Rodriguez MC, Petersen M, Mundy J (2010) Mitogen-activated protein kinase signaling in plants. Annu Rev Plant Biol 61:621–649

    Article  PubMed  CAS  Google Scholar 

  • Ross CA, Liu Y, Shen QJ (2007) The WRKY gene family in rice (Oryza sativa). J Integr Plant Biol 49:827–842

    Article  CAS  Google Scholar 

  • Saijo Y, Hata S, Kyozuka J, Shimamoto K, Izui K (2000) Over-expression of a single calcium-dependent protein kinase confers both cold and salt/drought tolerance on rice plants. Plant J 23:319–327

    Article  PubMed  CAS  Google Scholar 

  • Sakuma Y, Liu Q, Dubouzet JG, Abe H, Shinozaki K, Yamaguchi-Shinozaki K (2002) DNA-binding specificity of the ERF/AP2 domain of Arabidopsis DREBs, transcription factors involved in dehydration- and cold-inducible gene expression. Biochem Biophys Res Commun 290:998–1009

    Article  PubMed  CAS  Google Scholar 

  • Schweighofer A, Kazanaviciute V, Scheikl E, Teige M, Doczi R, Hirt H, Schwanninger M, Kant M, Schuurink R, Mauch F, Buchala A, Cardinale F, Meskiene I (2007) The PP2C-type phosphatase AP2C1, which negatively regulates MPK4 and MPK6, modulates innate immunity, jasmonic acid, and ethylene levels in Arabidopsis. Plant Cell 19:2213–2224

    Article  PubMed  CAS  Google Scholar 

  • Seki M, Narusaka M, Ishida J, Nanjo T, Fujita M, Oono Y, Kamiya A, Nakajima M, Enju A, Sakurai T, Satou M, Akiyama K, Taji T, Yamaguchi-Shinozaki K, Carninci P, Kawai J, Hayashizaki Y, Shinozaki K (2002) Monitoring the expression profiles of 7000 Arabidopsis genes under drought, cold and high-salinity stresses using a full-length cDNA microarray. Plant J 31:279–292

    Article  PubMed  CAS  Google Scholar 

  • Sharoni AM, Nuruzzaman M, Satoh K, Shimizu T, Kondoh H, Sasaya T, Choi IR, Omura T, Kikuchi S (2011) Gene structures, classification and expression models of the AP2/EREBP transcription factor family in rice. Plant Cell Physiol 52:344–360

    Article  PubMed  CAS  Google Scholar 

  • Shin R, Park JM, An JM, Paek KH (2002) Ectopic expression of Tsi1 in transgenic hot pepper plants enhances host resistance to viral, bacterial, and oomycete pathogens. Mol Plant Microbe Interact 15:983–989

    Article  PubMed  CAS  Google Scholar 

  • Shiu SH, Karlowski WM, Pan R, Tzeng YH, Mayer KF, Li WH (2004) Comparative analysis of the receptor-like kinase family in Arabidopsis and rice. Plant Cell 16:1220–1234

    Article  PubMed  CAS  Google Scholar 

  • Soranzo N, Sari Gorla M, Mizzi L, Toma G, Frova C (2004) Organisation and structural evolution of the rice glutathione S-transferase gene family. Mol Genet Genomics 271:511–521

    Article  PubMed  CAS  Google Scholar 

  • Sugano S, Kaminaka H, Rybka Z, Catala R, Salinas J, Matsui K, Ohme-Takagi M, Takatsuji H (2003) Stress-responsive zinc finger gene ZPT2-3 plays a role in drought tolerance in petunia. Plant J 36:830–841

    Article  PubMed  CAS  Google Scholar 

  • Sun SJ, Guo SQ, Yang X, Bao YM, Tang HJ, Sun H, Huang J, Zhang HS (2010) Functional analysis of a novel Cys2/His2-type zinc finger protein involved in salt tolerance in rice. J Exp Bot 61:2807–2818

    Article  PubMed  CAS  Google Scholar 

  • Taylor U, Zerbe H, Seyfert HM, Rath D, Baulain U, Langner KFA, Schuberth HJ (2009) Porcine spermatozoa inhibit post-breeding cytokine induction in uterine epithelial cells in vivo. Anim Reprod Sci 115:279–289

    Article  PubMed  CAS  Google Scholar 

  • Tena G, Asai T, Chiu WL, Sheen J (2001) Plant mitogen-activated protein kinase signaling cascades. Curr Opin Plant Biol 4:392–400

    Article  PubMed  CAS  Google Scholar 

  • Tian C, Wan P, Sun S, Li J, Chen M (2004) Genome-wide analysis of the GRAS gene family in rice and Arabidopsis. Plant Mol Biol 54:519–532

    Article  PubMed  CAS  Google Scholar 

  • Usadel B, Nagel A, Thimm O, Redestig H, Blaesing OE, Palacios-Rojas N, Selbig J, Hannemann J, Piques MC, Steinhauser D, Scheible WR, Gibon Y, Morcuende R, Weicht D, Meyer S, Stitt M (2005) Extension of the visualization tool MapMan to allow statistical analysis of arrays, display of corresponding genes, and comparison with known responses. Plant Physiol 138:1195–1204

    Article  PubMed  CAS  Google Scholar 

  • van den Brûle S, Smart C (2002) The plant PDR family of ABC transporters. Planta 216:95–106

    Article  PubMed  CAS  Google Scholar 

  • Vanholme R, Demedts B, Morreel K, Ralph J, Boerjan W (2010) Lignin biosynthesis and structure. Plant Physiol 153:895–905

    Article  PubMed  CAS  Google Scholar 

  • Vij S, Tyagi AK (2007) Emerging trends in the functional genomics of the abiotic stress response in crop plants. Plant Biotechnol J 5:361–380

    Article  PubMed  CAS  Google Scholar 

  • Walia H, Wilson C, Condamine P, Liu X, Ismail AM, Zeng L, Wanamaker SI, Mandal J, Xu J, Cui X, Close TJ (2005) Comparative transcriptional profiling of two contrasting rice genotypes under salinity stress during the vegetative growth stage. Plant Physiol 139:822–835

    Article  PubMed  CAS  Google Scholar 

  • Werner T (2008) Bioinformatics applications for pathway analysis of microarray data. Curr Opin Biotechnol 19:50–54

    Article  PubMed  CAS  Google Scholar 

  • Weston LA, Duke SO (2003) Weed and crop allelopathy. CRC Crit Rev Plant Sci 22:367–389

    Article  CAS  Google Scholar 

  • Xiang Y, Huang Y, Xiong L (2007) Characterization of stress-responsive CIPK genes in rice for stress tolerance improvement. Plant Physiol 144:1416–1428

    Article  PubMed  CAS  Google Scholar 

  • Yang T, Poovaiah BW (2003) Calcium/calmodulin-mediated signal network in plants. Trends Plant Sci 8:505–512

    Article  PubMed  CAS  Google Scholar 

  • Yeh CM, Chien PS, Huang HJ (2007) Distinct signalling pathways for induction of MAP kinase activities by cadmium and copper in rice roots. J Exp Bot 58:659–671

    Article  PubMed  CAS  Google Scholar 

  • Yokotani N, Ichikawa T, Kondou Y, Matsui M, Hirochika H, Iwabuchi M, Oda K (2008) Expression of rice heat stress transcription factor OsHsfA2e enhances tolerance to environmental stresses in transgenic Arabidopsis. Planta 227:957–967

    Article  PubMed  CAS  Google Scholar 

  • Yun KY, Park M, Mohanty B, Herath V, Xu F, Mauleon R, Wijaya E, Bajic V, Bruskiewich R, de los Reyes B (2010) Transcriptional regulatory network triggered by oxidative signals configures the early response mechanisms of japonica rice to chilling stress. BMC Plant Biol 10:16

    Article  PubMed  CAS  Google Scholar 

  • Zeng LR, Park CH, Venu RC, Gough J, Wang GL (2008) Classification, expression pattern, and E3 ligase activity assay of rice U-box-containing proteins. Mol Plant 1:800–815

    Article  PubMed  CAS  Google Scholar 

  • Zhang S, Klessig DF (1997) Salicylic acid activates a 48-kD MAP kinase in tobacco. Plant Cell 9:809–824

    Article  PubMed  CAS  Google Scholar 

  • Zhang S, Klessig DF (2001) MAPK cascades in plant defense signaling. Trends Plant Sci 6:520–527

    Article  PubMed  CAS  Google Scholar 

  • Zheng X, Chen B, Lu G, Han B (2009) Overexpression of a NAC transcription factor enhances rice drought and salt tolerance. Biochem Biophys Res Commun 379:985–989

    Article  PubMed  CAS  Google Scholar 

  • Zhou X, Su Z (2007) EasyGO: gene ontology-based annotation and functional enrichment analysis tool for agronomical species. BMC Genomics 8:246

    Article  PubMed  CAS  Google Scholar 

  • Zou X, Seemann JR, Neuman D, Shen QJ (2004) A WRKY gene from creosote bush encodes an activator of the abscisic acid signaling pathway. J Biol Chem 279:55770–55779

    Article  PubMed  CAS  Google Scholar 

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Acknowledgments

This work was supported by research grants from National Science Council (NSC 98-2621-B-006-003-MY3) and a grant from the Ministry of Education, Taiwan (Landmark Project Grant for National Cheng Kung University’s Top-University Project, B024). Agilent DNA microarray assays were performed by the DNA Microarray Core Laboratory at the Institute of Plant and Microbial Biology, Academia Sinica. Expression profile and data mining involved the system provided by the Bioinformatics Core for Genomic Medicine and Biotechnology Development at National Cheng Kung University, supported by a National Science Council grant (NSC 97-3112-B-006 -011).

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Authors and Affiliations

  1. Department of Life Sciences, National Cheng Kung University, No. 1 University Road, Tainan City, 701, Taiwan

    Wen-Chang Chi, Shih-Feng Fu, Tsai-Lien Huang, Yun-An Chen, Chi-Cien Chen & Hao-Jen Huang

  2. Department of Biology, National Changhua University of Education, No. 1, Jin-De Road, Changhua City, 500, Taiwan

    Shih-Feng Fu

  3. Department of Biological Sciences, National Sun Yat-sen University, No. 70, Lienhai Road, Kaohsiung, 80424, Taiwan

    Yun-An Chen

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  1. Wen-Chang Chi
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  2. Shih-Feng Fu
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Correspondence to Hao-Jen Huang.

Electronic supplementary material

Below is the link to the electronic supplementary material.

11103_2011_9841_MOESM1_ESM.xlsx

Further gene lists of microarray can be seen in the following link (http://cam.bio.ncku.edu.tw/haojen/pub2.htm). Supplementary material 1 (XLSX 142 kb)

Supplemental Fig. 1. Verification of microarray data by qRT-PCR. Supplementary material 2 (PPTX 119 kb)

11103_2011_9841_MOESM3_ESM.pptx

Supplemental Fig. 2. Genes up/down regulated in the overview of under juglone stress on regulation. Supplementary material 3 (PPTX 46 kb)

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Chi, WC., Fu, SF., Huang, TL. et al. Identification of transcriptome profiles and signaling pathways for the allelochemical juglone in rice roots. Plant Mol Biol 77, 591–607 (2011). https://doi.org/10.1007/s11103-011-9841-6

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