Microarray Identifies Transcription Factors Potentially Involved in Gravitropic Signal Transduction in Arabidopsis

Birkenbihl RP, Diezel C, Somssich IE (2012) Arabidopsis WRKY33 is a key transcriptional regulator of hormonal and metabolic responses toward Botrytis cinerea infection. Plant Physiology 159(1): 266-285 Birkenbihl RP Diezel C Somssich IE 2012 Arabidopsis WRKY33 is a key transcriptional regulator of hormonal and metabolic responses toward Botrytis cinerea infection Plant Physiology 159 1 266 285 10.1104/pp.111.192641337596422392279 Search in Google Scholar

Bolouri H, Davidson EH (2003) Transcriptional regulatory cascades in development: initial rates, not steady state, determine network kinetics. Proceedings of the National Academy of Sciences 100(16): 9371-9376 Bolouri H Davidson EH 2003 Transcriptional regulatory cascades in development: initial rates, not steady state, determine network kinetics Proceedings of the National Academy of Sciences 100 16 9371 9376 10.1073/pnas.153329310017092512883007 Search in Google Scholar

Chen H, Lai Z, Shi J, Xiao Y, Chen Z, Xu X (2010) Roles of Arabidopsis WRKY18, WRKY40, and WRKY60 transcription factors in plant responses to abscisic acid and abiotic stress. BioMed Central (BMC) Plant Biology 10(1): 281 Chen H Lai Z Shi J Xiao Y Chen Z Xu X 2010 Roles of Arabidopsis WRKY18, WRKY40, and WRKY60 transcription factors in plant responses to abscisic acid and abiotic stress BioMed Central (BMC) Plant Biology 10 1 281 10.1186/1471-2229-10-281302379021167067 Search in Google Scholar

Czechowski T, Stitt M, Altmann T, Udvardi MK, Scheible WR (2005) Genome-wide identification and testing of superior reference genes for transcript normalization in Arabidopsis. Plant Physiology 139(1): 5-17 Czechowski T Stitt M Altmann T Udvardi MK Scheible WR 2005 Genome-wide identification and testing of superior reference genes for transcript normalization in Arabidopsis Plant Physiology 139 1 5 17 10.1104/pp.105.063743120335316166256 Search in Google Scholar

Fengler S, Spirer I, Neef M, Ecke M, Nieselt K, Hampp R (2015) A whole-genome microarray study of Arabidopsis thaliana semisolid callus cultures exposed to microgravity and nonmicrogravity related spaceflight conditions for 5 days on board of Shenzhou 8. BioMed Research International 2015(547495): 1-15 Fengler S Spirer I Neef M Ecke M Nieselt K Hampp R 2015 A whole-genome microarray study of Arabidopsis thaliana semisolid callus cultures exposed to microgravity and nonmicrogravity related spaceflight conditions for 5 days on board of Shenzhou 8 BioMed Research International 2015 547495 1 15 10.1155/2015/547495 Search in Google Scholar

Guo A, He K, Liu D, Bai S, Gu X, Wei L, Luo J (2005) DATF: a database of Arabidopsis transcription factors. Bioinformatics 21: 2568-2569 Guo A He K Liu D Bai S Gu X Wei L Luo J 2005 DATF: a database of Arabidopsis transcription factors Bioinformatics 21 2568 2569 10.1093/bioinformatics/bti33415731212 Search in Google Scholar

Hara K, Yagi M, Kusano T, Sano H (2000) Rapid systemic accumulation of transcripts encoding a tobacco WRKY transcription factor upon wounding. Molecular and General Genetics (MGG) 263(1): 30-37 Hara K Yagi M Kusano T Sano H 2000 Rapid systemic accumulation of transcripts encoding a tobacco WRKY transcription factor upon wounding Molecular and General Genetics (MGG) 263 1 30 37 10.1007/PL00008673 Search in Google Scholar

Jiang Y-Q, Deyholos MK (2009) Functional characterization of Arabidopsis NaCl-inducible WRKY25 and WRKY33 transcription factors in abiotic Stresses. Plant Molecular Biology 69(1-2): 91-105 Jiang Y-Q Deyholos MK 2009 Functional characterization of Arabidopsis NaCl-inducible WRKY25 and WRKY33 transcription factors in abiotic Stresses Plant Molecular Biology 69 1-2 91 105 10.1007/s11103-008-9408-318839316 Search in Google Scholar

Kiss JZ, Hertel R, Sack FD (1989) Amyloplasts are necessary for full gravitropic sensitivity in roots of Arabidopsis thaliana. Planta 177(2): 198-206 Kiss JZ Hertel R Sack FD 1989 Amyloplasts are necessary for full gravitropic sensitivity in roots of Arabidopsis thaliana Planta 177 2 198 206 10.1007/BF0039280824212342 Search in Google Scholar

Li H, Sun J, Xu Y, Jiang H, Wu X, Li C (2007) The bHLH-type transcription factor AtAIB positively regulates ABA response in Arabidopsis. Plant Molecular Biology 65(5): 655-665 Li H Sun J Xu Y Jiang H Wu X Li C 2007 The bHLH-type transcription factor AtAIB positively regulates ABA response in Arabidopsis Plant Molecular Biology 65 5 655 665 10.1007/s11103-007-9230-317828375 Search in Google Scholar

Li S, Fu Q, Chen L, Huang W, Yu D (2011) Arabidopsis thaliana WRKY25, WRKY26, and WRKY33 coordinate induction of plant thermotolerance. Planta 233(6): 1237-1252 Li S Fu Q Chen L Huang W Yu D 2011 Arabidopsis thaliana WRKY25, WRKY26, and WRKY33 coordinate induction of plant thermotolerance Planta 233 6 1237 1252 10.1007/s00425-011-1375-221336597 Search in Google Scholar

Liu Z-Q, Yan L, Wu Z, Mei C, Lu K, Yu Y-T, Liang S, Zhang X-F, Wang X-F, Zhang D-P (2012) Cooperation of three WRKY-domain transcription factors WRKY18, WRKY40, and WRKY60 in repressing two ABA-responsive genes ABI4 and ABI5 in Arabidopsis. Journal of Experimental Botany 63(18): 6371-6392 Liu Z-Q Yan L Wu Z Mei C Lu K Yu Y-T Liang S Zhang X-F Wang X-F Zhang D-P 2012 Cooperation of three WRKY-domain transcription factors WRKY18, WRKY40, and WRKY60 in repressing two ABA-responsive genes ABI4 and ABI5 in Arabidopsis Journal of Experimental Botany 63 18 6371 6392 10.1093/jxb/ers293350449123095997 Search in Google Scholar

Mandadi KK, Misra A, Ren S, McKnight TD (2009) BT2, a BTB protein, mediates multiple responses to nutrients, stresses, and hormones in Arabidopsis. Plant Physiology 150(4): 1930-1939 Mandadi KK Misra A Ren S McKnight TD 2009 BT2, a BTB protein, mediates multiple responses to nutrients, stresses, and hormones in Arabidopsis Plant Physiology 150 4 1930 1939 10.1104/pp.109.139220271913919525324 Search in Google Scholar

Martzivanou M, Babbick M, Cogoli-Greuter M, Hampp R (2006) Microgravity-related changes in gene expression after short-term exposure of Arabidopsis thaliana cell cultures. Protoplasma 229(2): 155-162 Martzivanou M Babbick M Cogoli-Greuter M Hampp R 2006 Microgravity-related changes in gene expression after short-term exposure of Arabidopsis thaliana cell cultures Protoplasma 229 2 155 162 10.1007/s00709-006-0203-117180497 Search in Google Scholar

Morita MT, Tasaka M (2004) Gravity sensing and signaling. Current Opinion in Plant Biology 7(6): 712-718 Morita MT Tasaka M 2004 Gravity sensing and signaling Current Opinion in Plant Biology 7 6 712 718 10.1016/j.pbi.2004.09.00115491921 Search in Google Scholar

Paul A-L, Zupanska AK, Schultz ER, Ferl RJ (2013) Organ-specific remodeling of the Arabidopsis transcriptome in response to spaceflight. BioMed Central (BMC) Plant Biology 13(1): 112 Paul A-L Zupanska AK Schultz ER Ferl RJ 2013 Organ-specific remodeling of the Arabidopsis transcriptome in response to spaceflight BioMed Central (BMC) Plant Biology 13 1 112 10.1186/1471-2229-13-112375091523919896 Search in Google Scholar

Pilet P-E, Barlow PW (1987) The role of abscisic acid in root growth and gravireaction: a critical review. Plant Growth Regulation 6(3): 217-265 Pilet P-E Barlow PW 1987 The role of abscisic acid in root growth and gravireaction: a critical review Plant Growth Regulation 6 3 217 265 10.1007/BF00024506 Search in Google Scholar

Ren S, Mandadi KK, Boedeker AL, Rathore KS, McKnight TD (2007) Regulation of telomerase in Arabidopsis by BT2, an apparent target of TELOMERASE ACTIVATOR1. The Plant Cell 19(1): 23-31 Ren S Mandadi KK Boedeker AL Rathore KS McKnight TD 2007 Regulation of telomerase in Arabidopsis by BT2, an apparent target of TELOMERASE ACTIVATOR1 The Plant Cell 19 1 23 31 10.1105/tpc.106.044321182097417220202 Search in Google Scholar

Rushton PJ, Torres JT, Parniske M, Wernert P, Hahlbrock K, Somssich IE (1996) Interaction of elicitor-induced DNA-binding proteins with elicitor response elements in the promoters of parsley PR1 genes. The European Molecular Biology Organization (EMBO) Journal 15(20): 5690-5700 Rushton PJ Torres JT Parniske M Wernert P Hahlbrock K Somssich IE 1996 Interaction of elicitor-induced DNA-binding proteins with elicitor response elements in the promoters of parsley PR1 genes The European Molecular Biology Organization (EMBO) Journal 15 20 5690 5700 10.1002/j.1460-2075.1996.tb00953.x Search in Google Scholar

Sack FD, Suyemoto MM, Leopold AC (1985) Amyloplast sedimentation kinetics in gravistimulated maize roots. Planta 165(3): 295-300 Sack FD Suyemoto MM Leopold AC 1985 Amyloplast sedimentation kinetics in gravistimulated maize roots Planta 165 3 295 300 10.1007/BF0039222524241133 Search in Google Scholar

Shang Y, Yan L, Liu Z-Q, Cao Z, Mei C, Xin Q, Wu F-Q, Wang X-F, Du S-Y, Jiang T, Zhao R, Sun H-L, Liu R, Yu Y-T, Zhang D-P (2010) The Mg-Chelatase H subunit of Arabidopsis antagonizes a group of WRKY transcription repressors to relieve ABA-responsive genes of inhibition. The Plant Cell 22(6): 1909-1935 Shang Y Yan L Liu Z-Q Cao Z Mei C Xin Q Wu F-Q Wang X-F Du S-Y Jiang T Zhao R Sun H-L Liu R Yu Y-T Zhang D-P 2010 The Mg-Chelatase H subunit of Arabidopsis antagonizes a group of WRKY transcription repressors to relieve ABA-responsive genes of inhibition The Plant Cell 22 6 1909 1935 10.1105/tpc.110.073874291098020543028 Search in Google Scholar

Shen K, Wyatt SE, Nadella V (2012) ArrayOU: A web application for microarray data analysis and visualization. Journal of Biomolecular Techniques 23(2): 37-39 Shen K Wyatt SE Nadella V 2012 ArrayOU: A web application for microarray data analysis and visualization Journal of Biomolecular Techniques 23 2 37 39 10.7171/jbt.2012-2302-001337828622754383 Search in Google Scholar

Soh H, Srikanth K, Whang SS, Lee S (2015) Morphological and gene expression pattern changes in WRKY46 mutant Arabidopsis thaliana under altered gravity conditions. Botany 93(6): 333-343 Soh H Srikanth K Whang SS Lee S 2015 Morphological and gene expression pattern changes in WRKY46 mutant Arabidopsis thaliana under altered gravity conditions Botany 93 6 333 343 10.1139/cjb-2014-0252 Search in Google Scholar

Sugimoto M, Oono Y, Gusev O, Matsumoto T, Yazawa T, Levinskikh MA, Sychev VN, Bingham GE, Wheeler R, Hummerick M (2014) Genome-wide expression analysis of reactive oxygen species gene network in Mizuna plants grown in long-term spaceflight. BioMed Central (BMC) Plant Biology 14(1): 4 Sugimoto M Oono Y Gusev O Matsumoto T Yazawa T Levinskikh MA Sychev VN Bingham GE Wheeler R Hummerick M 2014 Genome-wide expression analysis of reactive oxygen species gene network in Mizuna plants grown in long-term spaceflight BioMed Central (BMC) Plant Biology 14 1 4 10.1186/1471-2229-14-4392726024393219 Search in Google Scholar

Vandesompele J, Preter KD, Pattyn F, Poppe B, Roy NV, Paepe AD, Speleman F (2002) Accurate normalization of real-time quantitative RT-PCR data by geometric averaging of multiple internal control genes. Genome Biology 3(7):research0034.1-research 0034.11 Vandesompele J Preter KD Pattyn F Poppe B Roy NV Paepe AD Speleman F 2002 Accurate normalization of real-time quantitative RT-PCR data by geometric averaging of multiple internal control genes Genome Biology 3 7 research0034.1 research 0034.11 10.1186/gb-2002-3-7-research0034 Search in Google Scholar

Wang Y, Barbacioru C, Hyland F, Xiao W, Hunkapiller KL, Blake J, Chan F, Gonzalez C, Zhang L, Samaha RR (2006) Large scale real-time PCR validation on gene expression measurements from two commercial long-oligonucleotide microarrays. BioMed Central (BMC) Genomics 7(1): 59 Wang Y Barbacioru C Hyland F Xiao W Hunkapiller KL Blake J Chan F Gonzalez C Zhang L Samaha RR 2006 Large scale real-time PCR validation on gene expression measurements from two commercial long-oligonucleotide microarrays BioMed Central (BMC) Genomics 7 1 59 10.1186/1471-2164-7-59143588516551369 Search in Google Scholar

Wilkins H, Wain RL (1975) Abscisic acid and the response of the roots of Zea mays L. seedlings to gravity. Planta 126(1): 19-23 Wilkins H Wain RL 1975 Abscisic acid and the response of the roots of Zea mays L. seedlings to gravity Planta 126 1 19 23 10.1007/BF0038935624430084 Search in Google Scholar

Wyatt SE, Rashotte AM, Shipp MJ, Robertson D, Muday GK (2002) Mutations in the gravity persistence signal loci in Arabidopsis disrupt the perception and/or signal transduction of gravitropic stimuli. Plant Physiology 130(3): 1426-1435 Wyatt SE Rashotte AM Shipp MJ Robertson D Muday GK 2002 Mutations in the gravity persistence signal loci in Arabidopsis disrupt the perception and/or signal transduction of gravitropic stimuli Plant Physiology 130 3 1426 1435 10.1104/pp.102.01057916666112428007 Search in Google Scholar

Xu X, Chen C, Fan B, Chen Z (2006) Physical and functional interactions between pathogen-induced Arabidopsis WRKY18, WRKY40, and WRKY60 transcription factors. The Plant Cell 18(5): 1310-1326 Xu X Chen C Fan B Chen Z 2006 Physical and functional interactions between pathogen-induced Arabidopsis WRKY18, WRKY40, and WRKY60 transcription factors The Plant Cell 18 5 1310 1326 10.1105/tpc.105.037523145687716603654 Search in Google Scholar

Zheng Z, Qamar SA, Chen Z, Mengiste T (2006) Arabidopsis WRKY33 transcription factor is required for resistance to necrotrophic fungal pathogens. The Plant Journal 48(4): 592-605 Zheng Z Qamar SA Chen Z Mengiste T 2006 Arabidopsis WRKY33 transcription factor is required for resistance to necrotrophic fungal pathogens The Plant Journal 48 4 592 605 10.1111/j.1365-313X.2006.02901.x17059405 Search in Google Scholar