Adams, P. D., Afonine, P. V., Bunkoczi, G., Chen, V. B., Davis, I. W., Echols, N., Headd, J. J., Hung, L. W., Kapral, G. J. & Grosse-Kunstleve, R. W. (2010). PHENIX: a comprehensive Python-based system for macromolecular structure solution. Acta Crystallogr. Sect. D Biol. Crystallogr. 66, 213–221.
Adams, P. D., Grosse-Kunstleve, R. W., Hung, L. W., Ioerger, T. R., McCoy, A. J., Moriarty, N. W., Read, R. J., Sacchettini, J. C., Sauter, N. K. & Terwilliger, T. C. (2002). PHENIX: building new software for automated crystallographic structure determination.
Acta Crystallogr. Sect. D Biol. Crystallogr. 58, 1948–1954.
Asami, T, Nakano, T, Nakashita, H, Sekimata, K, Shimada, Y & Yoshida S. (2003). The influence of chemical genetics on plant science: Shedding light on functions and mechanism of action of brassinosteroids using biosynthesis inhibitors.
Ashraf, M., Akram, N. A., Arteca, R. N. & Foolad, M. R. (2010). The physiological, biochemical and molecular roles of brassinosteroids and salicylic acid in plant processes and salt tolerance. CRC. Crit. Rev. Plant Sci. 29, 162–190.
Bai, M. Y., Shang, J. X., Oh, E., Fan, M., Bai, Y., Zentella, R., Sun, T. P. & Wang, Z. Y. (2012).
Brassinosteroid, gibberellin and phytochrome impinge on a common transcription module in Arabidopsis. Nat. Cell Biol. 8, 810–817.
Bai, M. Y., Zhang, L. Y., Gampala, S. S., Zhu, S. W., Song, W. Y., Chong, K & Wang, Z. Y. (2007). Functions of OsBZR1 and 14-3-3 proteins in brassinosteroid signaling in rice. Proc. Natl. Acad. Sci. U. S. A. 104, 13839–13844.
Blanchet, C., Pasi, M., Zakrzewska, K. & Lavery, R. (2011). CURVES+ web server for analyzing and visualizing the helical, backbone and groove parameters of nucleic acid structures. Nucleic Acids Res. 39, W68–W73.
Buck, M. J. & Atchley, W. R. (2003). Phylogenetic analysis of plant basic helix-loop-helix proteins. J. Mol. Evol. 56, 742–775.
Bukowska, M. A. & Grutter, M. G. (2013). New concepts and aids to facilitate crystallization. Curr. Opin. Struct. Biol. 23, 409–416.
Carretero-Paulet, L., Galstyan, A., Roig-Villanova, I., Martínez-García, J. F., BilbaoCastro, J. F. & Robertson, D. L. (2010). Genome-wide classification and evolutionary analysis of the bHLH family of transcription factors in Arabidopsis, poplar, rice, moss, and algae. Plant Physiol. 153, 1398–1412.
Castillon, A., Shen, H. & Huq, E. (2007). Phytochrome interacting factors: central players in phytochrome-mediated light signaling networks. Trends Plant Sci. 12, 514–521.
Causier, B., Ashworth, M., Guo, W. & Davies, B. (2007). The TOPLESS interactome: a framework for gene repression in Arabidopsis. Plant Physiol. 158, 423–438.
Cedervall, T., Lynch, I., Lindman, S., Berggard, T., Thulin, E., Nilsson, H., Dawson, K. A. & Linse, S. (2007). Proc. Natl. Acad. Sci. U. S. A. 104, 2050–2055.
Cowtan, K. (2006). The Buccaneer software for automated model building. 1. Tracing protein chains. Acta Crystallogr. Sect. D. Biol. Crystallogr. 62, 1002–1011. de Lucas, M., Davière, J. M., Rodríguez-Falcón, M., Pontin, M., Iglesias-Pedraz, J. M., Lorrain, S., Fankhauser, C., Blázquez, M. A., Titarenko, E. & Prat, S. (2008). A molecular framework for light and gibberellin control of cell elongation. Nature 451, 480–484.
Depuydt, S. & Hardtke, C. S. (2011). Hormone signalling crosstalk in plant growth regulation. Curr. Biol. 21, R365–R373.
Derewenda, Z. S. (2010). Application of protein engineering to enhance crystallizability and improve crystal properties. Acta crystallogr. Sect. D Biolo. crystallogr. 66, 604–615.
Derewenda, Z. S. (2011). It’s all in the crystals. Acta crystallogr. Sect. D Biolo. crystallogr. 67, 243–248.
Dombrecht, B., Xue, G. P., Sprague, S. J., Kirkegaard, J. A., Ross, J. J., Reid,.J. B., Fitt, G. P., Sewelam, N., Schenk, P. M., Manners, J. M. & Kazan, K. (2017). MYC2 differentially modulates diverse jasmonate-dependent functions in Arabidopsis. Plant Cell 19, 2225–2245.
Emsley, P. & Cowtan, K. (2004). Coot: Model-building tools for molecular graphics. Acta Crystallogr. Sect. D Biol. Crystallogr. 60, 2126–2132.
Evans, P. R. & Murshudov, G. N. (2013). How good are my data and what is the resolution? Acta Crystallogr. Sect. D Biol. Crystallogr. 69, 1204–1214.
Ezer, D., Shepherd, S. J. K., Brestovitsky, A., Dickinson, P., Cortijo, S., Charoensawan, V., Box, M. S., Biswas, S., Jaeger, K. E. & Wigge, P.A. (2017) The G-box transcriptional regulatory code in Arabidopsis. Plant Physiol. 5, 628–640.
Falvo, J. V., Thanos, D. & Maniatis, T. (1995). Reversal of intrinsic DNA bends in the IFNβ gene enhancer by transcription factors and the architectural protein HMG I(Y). Cell 83, 1101–1111.
Feller, A., MacHemer, K., Braun, E. L. & Grotewold, E. (2011). Evolutionary and comparative analysis of MYB and bHLH plant transcription factors. Plant J. 66, 94–116.
Feng, S., Martinez, C., Gusmaroli, G., Wang, Y., Zhou, J., Wang, F., Chen, L., Yu, L., Iglesias-Pedraz, J. M., Kircher, S., Schäfer, E., Fu, X., Fan, L. M. & Deng, X. W. (2008). Coordinated regulation of Arabidopsis thaliana development by light and gibberellins. Nature 451, 475–479.
Ferré-D’Amaré, A. R., Pognonec, P., Roeder, R. G. & Burley, S. K. (1994). Structure and function of the b/HLH/Z domain of USF. EMBO J. 13, 180–189.
Ferré-D’Amaré, A. R., Prendergast, G. C., Ziff, E. B. & Burley, S. K. (1993). Recognition by Max of its cognate DNA through a dimeric b/HLH/Z domain. Nature 363, 38–45.
Friedrichsen, D. M., Nemhauser, J., Muramitsu, T., Maloof, J. N., Alonso, J., Ecker, J. R., Furuya, M. & Chory, J. (2002). Three redundant brassinosteroid early response genes encode putative bHLH transcription factors required for normal growth. Genetics 162, 1445–1456.
Gallego-Bartolomé, J., Minguet, E. G., Grau-Enguix, F., Abbas, M., Locascio, A., Thomas, S. G., Alabadí, D. & Blázquez, M. A. (2012). Molecular mechanism for the interaction between gibberellin and brassinosteroid signaling pathways in Arabidopsis. Proc. Natl. Acad. Sci. U. S. A. 14, 13446–13451.
Gampala, S. S., Kim, T. W., He, J. X., Tang, W. Q., Deng, Z. P., Bai, M. Y., Guan, S. H., Lalonde, S., Sun, Y., Gendron, J. M., Chen, H. J., Shibagaki, N., Ferl, R. J., Ehrhardt, D.; Chong, K., Burlingame, A. L. & Wang, Z. Y. (2007). An essential role for 14-3-3 proteins in brassinosteroid signal transduction in Arabidopsis. Dev. Cell 13, 177–189.
Goldschmidt, L., Cooper, D. R., Derewenda, Z. S. & Eisenberg, D. (2007). Toward rational protein crystallization: A Web server for the design of crystallizable protein variants. Protein Sci. 16, 1569–1576.
Gordân. R., Shen, N., Dror, I., Zhou, T., Horton, J., Rohs, R. & Bulyk, M. L. (2013). Genomic regions flanking E-box binding sites influence DNA binding specificity of bHLH transcription factors through DNA shape. Cell Rep. 3, 1093–1104.
Gouet, P., Courcelle, E., Stuart, D. I. & Metoz, F. (1999). ESPript: analysis of multiple sequence alignments in PostScript. Bioinformatics 15, 305–308.
Gudesblat, G. E. & Russinova, E. (2011). Plants grow on brassinosteroids. Curr. Opin. Plant Biol. 14, 530–537.
Guo, A. Y., Chen, X., Gao, G., Zhang, H., Zhu, Q. H., Liu, X. C., Zhong, Y. F., Gu, X., He, K. & Luo, J. (2008). PlantTFDB: A comprehensive plant transcription factor database. Nucleic Acids Res. 36, D966-D996.
Grove, M. D., Spenger, G. F., Rohwedder, W. K., Mandava, N., Worley, J. F., Warthen, J. D., Steffens, G. L., Flippen-Aderson, J. L. & Cook, J. C. (1979). Brassinolide, a plant growth-promoting steroid isolated from Brassica napus pollen. Nature 281, 216–217.
Harteis, S. & Schneider, S. (2014). Making the bend: DNA tertiary structure and protein-DNA interactions. Int. J. Biochem. 15, 12335–12363.
He, J. X., Gendron, J. M., Sun, Y., Gampala, S. S., Gendron, N., Sun, C. Q. & Wang, Z.Y. (2005). BZR1 is a transcriptional repressor with dual roles in brassinosteroid homeostasis and growth responses. Science 307, 1634–1638.
He, J. X., Gendron, J. M., Yang, Y., Li, J. & Wang, Z. Y. (2002). The GSK3-like kinase BIN2 phosphorylates and destabilizes BZR1, a positive regulator of the brassinosteroid signaling pathway in Arabidopsis. Proc. Natl. Acad. Sci. U. S. A. 99, 10185–10190.
Heim, M. A., Jakoby, M., Werber, M., Martin, C., Weisshaar, B. & Bailey, P. C. (2003). The basic helix-loop-helix transcription factor family in plants: a genome-wide study of protein structure and functional diversity. Mol. Biol. Evol. 20, 735–747.
Hellman, L. M. & Fried, M. G., (2007). Electrophoretic mobility shift assay (EMSA) for detecting protein-nucleic acid interactions. Nat. Protocols 2, 1849–1861.
Hothorn, M., Belkhadir, Y., Dreux, M., Dabi, T., Noel, J. P., Wilson, I. A. & Chory, J. (2011). Structural basis of steroid hormone perception by the receptor kinase BRI1. Nature 474, 467–471.
Huq, E. & Quail, P. H. (2002). PIF4, a phytochrome-interacting bHLH factor, functions as a negative regulator of phytochrome B signaling in Arabidopsis. EMBO J. 21, 2441–2450.
Jakoby, M., Weisshaar, B., Droge-Laser, W., Vicente-Carbajosa, J., Tiedemann, J., Kroj, T. & Parcy, F. (2002). bZIP transcription factors in Arabidopsis. Trends Plant Sci. 7, 106–111.
Jin, T., Chuenchor, W., Jiang, J., Cheng, J., Li, Y., Fang, K., Huang, M., Smith, P. & Xiao, T. S. (2017). Design of an expression system to enhance MBP-mediated crystallization. Sci. Rep. 7, 40991.
Jolma, A., Yin, Y., Nitta, K. R., Dave, K., Popov, A., Taipale, M., Enge, M., Kivioja, T., Morgunova, E. & Taipale, J. (2015). DNA-dependent formation of transcription factor pairs alters their binding specificity. Nature 527, 384–388.
Jones, S. (2004). An overview of the basic helix-loop-helix proteins. Genome Biol. 5, 226.
Joshi, R., Passner, J. M., Rohs, R., Jain, R., Sosinsky, A., Crickmore, M. A., Jacob, V., Aggarwal, A. K., Honig, B. & Mann, R.S. (2007) Functional specificity of a Hox protein mediated by the recognition of minor groove structure. Cell 131, 530–543.
Kabsch, W. (2010). XDS. Acta Crystallogr. Sect. D Biol. Crystallogr. 66, 125–132.
Kim, T. W., Guan, S., Burlingame, A. L. & Wang, Z. Y. (2011). The CDG1 kinase mediates brassinosteroid signal transduction from BRI1 receptor kinase to BSU1 phosphatase and GSK3-like kinase BIN2. Mol. Cell 43, 561–571.
Kim, T. W., Guan, S., Sun, Y., Deng, Z., Tang, W., Shang, J. X., Sun, Y., Burlingame, A. L., & Wang, Z. Y. (2009). Brassinosteroid signal transduction from cell-surface receptor
kinases to nuclear transcription factors. Nat. Cell Biol. 11, 1254–1260.
Kinoshita, T., Cano-Delgado, A. C., Seto, H., Hiranuma, S., Fujioka, S., Yoshida, S, & Chory, J. (2005). Binding of brassinosteroids to the extracellular domain of plant receptor
kinase BRI1. Nature 433, 167–171.
Koini, M. A., Alvey, L., Allen, T., Tilley, C. A., Harberd, N. P., Whitelam, G.C. & Franklin
KA. (2009). High temperature-mediated adaptations in plant architecture require the bHLH transcription factor PIF4. Curr. Biol. 19, 408–413.
Krishna, P. (2003). Brassinosteroid-mediated stress responses. J. Plant Growth Regul. 22, 289–297.
Kumar, S. V., Lucyshyn, D., Jaeger, K. E., Alos, E.; Alvey, E.; Harberd, N. P & Wigge, P. A., (2012). Transcription factor PIF4 controls the thermosensory activation of flowering. Natrue 484, 242–245.
Leivar, P.; Monte, E.; Oka, Y., Liu, T., Carle, C., Castillon, A., Huq, E. & Quail, P. H. (2008). Multiple phytochrome-interacting bHLH transcription factors repress premature seedling photomorphogenesis in darkness. Curr. Biol. 18, 1815–1823.
Li, J. & Chory, J. (1997). A putative leucine-rich repeat receptor kinase involved in brassinosteroid signal transduction. Cell 90, 929–938.
Li, J. & Chory, J. (1999). Brassinosteroid actions in plants. J. Exp. Bot., 50, 275–282.
Li, J. & Nam, K. H. (2002). Regula tion of brassinosteroid signaling by a GSK3 / SHAGGY-like kinase. Science 295, 1299–1301.
Li, J., Wen, J. Q., Lease, K. A., Doke, J. T., Tax, F.E. & Walker, J.C. (2002). BAK1, an Arabidopsis LRR receptor-like protein kinase, interacts with BRI1 and modulates brassinosteroid signaling. Cell 110 213–222.
Li, Q. F., Wang, C., Jiang, L., Li, S., Sun, S. S. & He, J. X. (2012). An interaction between BZR1 and DELLAs mediates direct signalling crosstalk between brassinosteroids and gibberellins in Arabidopsis. Sci. Signal 5, ra72.
Lian, T. F., Xu, Y. P., Li, L.F., Su, X. D. (2017). Crystal structure of tetrameric Arabidopsis MYC2 reveals the mechanism of enhanced interaction with DNA. Cell Rep. 19, 1334–1342.
Lorenzo, O., Chico, J. M., Sánchez-Serrano, J. J. & Solano, R. (2004). JASMONATEINSENSITIVE1 encodes a MYC transcription factor essential to discriminate betweendifferent jasmonate-regulated defense responses in Arabidopsis. Plant Cell 16, 1938–1950.
Lorrain, S., Allen, T., Duek, P. D., Whitelam, G. C. & Fankhauser, C. (2008). Phytochromemediated inhibition of shade avoidance involves degradation of growth-promoting bHLH transcription factors. Plant J. 53, 312–323.
Lovell, S. C., Davis, I. W., Arendall, W. B., de Bakker, P. I., Word, J. M., Prisant, M. G., Richardson, J. S. & Richardson, D. C. (2003). Structure validation by Calpha geometry: phi, psi and Cbeta deviation. Proteins 50, 437–450.
Matthews, B. W. (1968). Solvent content of protein crystals. J. Mol. Biol. 33, 491–497.
McCoy, A. J. et al. (2007). Phaser crystallographic software. J. Appl. Crystallogr. 40, 658–674.
Miyaji, T., Yamagami, A., Kume, N., Sakuta, M., Osada, H., Asami, T., Arimoto, Y. &
Nakano, T. (2014). Brassinosteroid-related transcription factor BIL1/BZR1 increases plant resistance to insect feeding. Biosci. Biotechnol. Biochem. 78, 960–968.
Nair, S. K. & Burley, S. K. X-ray structures of Myc-Max and Mad-Max recognizing DNA: Molecular bases of regulation by proto-oncogenic transcription factors. (2003). Cell 112,193–205.
Nakabayashi, K., Okamoto, M., Koshiba, T., Kamiya, Y. & Nambara, E. (2005). Genomewide profiling of stored mRNA in Arabidopsis thaliana seed germination: epigenetic and genetic regulation of transcription in seed. Plant. J. 41, 697–709.
Nam, K. H. & Li, J. (2002). BRI1/BAK1, a receptor kinase pair mediating brassinosteroid signaling. Cell 110, 203–212.
Nemhauser, J. L., Hong, F. & Chory, J. (2006). Different plant hormones regulate similar processes through largely nonoverlapping transcriptional responses. Cell 126, 467–475.
Nozue, K., Covington, M. F., Duek, P. D., Lorrain, S., Fankhauser, C., Harmer, S. L. & Maloof, J. N. (2007). Rhythmic growth explained by coincidence between internal and external cues. Nature 448, 358–361. Matthews, K. S. (1992). DNA looping. Microbiol. Rev. 56, 123–136. Moon, A. F., Mueller, G. A., Zhong, X. & Pedersen, L. C. (2010). A synergistic approach to protein crystallization: combination of a fixed-arm carrier with surface entropy reduction. Protein Sci. 19, 901–913.
Oh, E., Zhu, J. Y., Bai, M. Y., Arenhart, R. A., Sun, Y. & Wang, Z. Y. (2014). Cell elongation is regulated through a central circuit of interacting transcription factors in the Arabidopsis hypocotyl. Elife 3, e03031.
Oh, E., Zhu, J. Y., Ryu, H., Hwang, I. & Wang, Z. Y. (2014). TOPLESS mediates brassinosteroid-induced transcriptional repression through interaction with BZR1. Nat. Commun. 5, 4140.
Oh, E., Zhu, J. Y., Ryu, H. & Wang, Z. Y. (2012). Interaction between BZR1 and PIF4 integrates brassinosteroid and environmental responses. Nat. Cell Biol. 14, 802–809.
O'Malley, R. C., Huang, S. C., Song, L., Lewsey, M. G., Bartlett, A., Nery, J. R., Galli, M., Gallavotti, A. & Ecker, J. R. (2016). Cistrome and epicistrome features shape the regulatory DNA landscape. Cell 165, 1280–1292.
Park P. J. (2009). ChIP-seq: advantages and challenges of a maturing technology. Nat. Rev. Genet. 10, 669–680.
Pires, N. & Dolan, L. (2010). Early evolution of bHLH proteins in plants. Plant Signal. Behav. 5, 911–912.
Pogenberg, V., Ogmundsdóttir, M. H., Bergsteinsdóttir, K., Schepsky, A., Phung, B., Deineko, V., Milewski, M., Steingrímsson, E. & Wilmanns, M. (2012). Restricted leucine zipper dimerization and specificity of DNA recognition of the melanocyte master regulator MITF. Genes Dev. 26, 2647–2658.
Qiu , Y. L., Li, B., Wang, Z. D., Chen, Z., Knoop, V., Groth-Malonek, M., Dombrovska, O., Lee, J., Kent, L., Rest, J, Estabrook, G. F., Hendry, T. A., Taylor, D. W., Testa, C. M., Ambros, M., Crandall-Stotler, B., Duff R. J., Stech, M., Frey, W., Quandt, D., & Davis, C. D. (2006). The deepest divergences in land plants inferred from phylogenomic evidence. Proc. Natl. Acad. Sci. U. S. A 103, 15511–15516.
Reinhold, H., Soyk, S., Simková, K., Hostettler, C., Marafino, J., Mainiero, S., Vaughan, C. K., Monroe, J. D. & Zeeman, S. C. (2011). β-amylase-like proteins function as transcription factors in Arabidopsis, controlling shoot growth and development. Plant Cell 23, 1391–1403.
Rohs, R., Jin, X., West, S. M., Joshi. R., Honig, B. & Mann, R. S. (2012). Origins of specificity in protein-DNA recognition. Annu. Rev. Biochem. 79, 233–269.
Rohs, R., West, S. M., Sosinsky, A., Liu, P., Mann, R. S. & Honig, B. (2009). The role of DNA shape in protein-DNA recognition. Nature 461, 1248–1253.
Ryu, H, Kim, K., Cho, H., Park, J., Choe, S. & Hwang, I. (2007). Nucleocytoplasmic shuttling of BZR1 mediated by phosphorylation is essential in Arabidopsis brassinosteroid signaling. Plant Cell 19, 2749–2762.
Santiago, J., Henzler, C. & Hothorn, M. (2013). Molecular mechanism for plant steroid receptor activation by somatic embryogenesis co-receptor kinases. Science 341, 889–892.
Santner, A., Calderon-Villalobos, L. I. & Estelle, M. (2009). Plant hormones are versatile chemical regulators of plant growth. Nat. Chem. Biol. 5, 301–307.
Schleif, R. (1992). DNA looping. Annu. Rev. Biochem. 61, 199–223
Schmid, M., Davison, T. S., Henz, S. R., Pape, U. J., Demar, M., Vingron, M., Schölkopf, B.,Weigel, D. & Lohmann, J.U. (2005). A gene expression map of Arabidopsis thaliana development.. Nat. Genet. 37, 501–506.
She, J., Han, Z., Kim, T. W., Wang, J., Cheng, W., Chang, J., Shi, S., Wang, J., Yang, M., Wang, Z. Y. & Chai, J. (2011). Structural insight into brassinosteroid perception by BRI1. Nature 474, 472–476.
Shimada, S., Komatsu, T., Yamagami, A., Nakazawa, M., Matsui, M., Kawaide, H., Natsume, M.; Osada, H., Asami, T. & Nakano, T. (2015). Formation and dissociation of the BSS1 protein complex regulates plant development via brassinosteroid signaling. Plant Cell 27, 375–390.
Shimizu, T., Toumoto, A., Ihara, K., Shimizu, M., Kyogoku, Y., Ogawa, N., Oshima, Y. & Hakoshima, T. (1997). Crystal structure of PHO4 bHLH domain-DNA complex: flanking base recognition. EMBO J. 16, 4689–4697.
Shinozaki, K. & Yamaguchi-Shinozaki, K. (1997). Gene expression and signal transduction in water-stress response. Plant Physiol. 115, 327–334.
Sievers, F., Wilm, A., Dineen, D., Gibson, T. J., Karplus, K., Li, W., Lopez, R., McWilliam, H., Remmert, M., Söding, J., Thompson, J. D. & Higgins, D. G. (2011). Fast, scalable generation of high quality protein multiple sequence alignments using Clustal Omega. Mol. Syst. Biol. 7, 539.
Smyth, D. R., Mrozkiewicz, M. K., McGrath, W. J., Listwan, P. & Kobe, B. (2003). Crystal structures of fusion proteins with large-affinity tags. Protein Sci. 12, 1313–1322.
Soyk, S., Simková, K., Zürcher, E., Luginbühl, L., Brand, L. H., Vaughan, C. K., Wanke, D. & Zeeman, S. C. (2014). The enzyme-like domain of Arabidopsis nuclear β-amylase is critical for DNA sequence recognition and transcriptional activation. Plant Cell 26, 1746–1763.
Spitz, F. & Furlong, E.E. (2012). Transcription factors: from enhancer binding to developmental control. Nat. Rev. Genet. 13, 613–626.
Sun, Y., Fan, X. Y., Cao, D. M., Tang, W., He, K., Zhu, J. Y., He, J. X., Bai, M. Y., Zhu, S., Oh, E., Patil, S., Kim, T. W., Ji, H., Wong, W. H., Rhee, S. Y. & Wang, Z. Y. (2010). Integration of brassinosteroid signal transduction with the transcription network for plant growth regulation in Arabidopsis. Dev. Cell 19, 765–777.
Tang, W., Kim, T. W., Oses-Prieto, J. A., Sun, Y., Deng, Z., Zhu, S., Wang, R., Burlingame, A. L. & Wang, Z. Y. (2008). BSKs mediate signal transduction from the receptor kinase BRI1 in Arabidopsis. Science 321, 557–560.
Tang, W. Q.; Yuan, M., Wang, R. J., Yang, Y. H., Wang, C.M., Oses-Prieto, J. A., Kim, T. W., Zhou, H. W., Deng, Z. P., Gampala, S. S., Gendron, J. M., Jonassen, EM., Lillo, C., DeLong, A., Burlingame, A. L., Sun, Y. & Wang, Z. Y. (2011). PP2A activates brassinosteroid-responsive gene expression and plant growth by dephosphorylating BZR1. Nat. Cell Biol. 13, 124–131.
Tian, Y., Fan, M, Qin, Z., Lv, H., Wang, M., Zhang, Z., Zhou, W., Zhao, N., Li, X., Han, C., Ding, Z., Wang, W., Wang, Z. Y. & Bai, M. Y. (2018). Hydrogen peroxide positively regulates brassinosteroid signaling through oxidation of the BRASSINAZOLERESISTANT1 transcription factor. Nat. Commun. 9, 1063.
Toledo-Ortiz, G., Huq, E. & Quail, P. H. (2003). The Arabidopsis basic/helix-loop-helix transcription factor family. Plant Cell 15, 1749–1770.
Toledo-Ortiz, G., Johansson, H., Lee, K. P., Bou-Torrent, J., Stewart, K., Steel, G., Rodríguez-Concepción, M. & Halliday, K. J. (2014). The HY5-PIF regulatory module coordinates light and temperature control of photosynthetic gene transcription. PLoS Genet. 10, e1004416.
Vert, G. & Chory, J. (2006). Downstream nuclear events in brassinosteroid signalling. Nature 441 96–100.
Wang, X. L.& Chory, J. (2006). Brassinosteroids regulate dissociation of BKI1, a negative regulator of BRI1 signaling, from the plasma membrane. Science 313, 1118–1122.
Wang, Z. Y., Bai, M. Y., Oh, E. & Zhu, J. Y. (2012). Brassinosteroid signaling network and regulation of photomorphogenesis. Annu. Rev. Genet. 46, 701–724.
Wang, Z. Y., Seto, H., Fujioka, S., Yoshida, S. & Chory, J. (2001). BRI1 is a critical component of a plasma-membrane receptor for plant steroids. Nature 410, 380–383.
Wang, Z. Y., Nakano, T., aGendron, J., He, J., Chen, M., Vafeados, D., Yang, Y., Fujioka, S., Yoshida, S., Asami, T., & Chory, J. (2002). Nuclear-localized BZR1 mediates brassinosteroid-induced growth and feedback suppression of brassinosteroid biosynthesis. Dev. Cell 2, 505–513.
Wang, Z., Wu, Y., Li, L. & Su, X. D. (2013). Intermolecular recognition revealed by the complex structure of human CLOCK-BMAL1 basic helix-loop-helix domains with E-box DNA. Cell Res. 23, 213–224.
Winn, M. D., Ballard, C. C., Cowtan, K. D., Dodson, E. J., Emsley, P., Evans, P.R., Keegan, R. M., Krissinel, E. B., Leslie, A. G., McCoy, A., McNicholas, S. J., Murshudov, G. N., Pannu, N. S., Potterton, E. A., Powell, H. R., Read, R. J., Vagin, A. & Wilson, K. S. (2011). Overview of the CCP4 suite and current developments. Acta Crystallogr. Sect. D Biol. Crystallogr. 67, 235–242.
Yakovchuk, P., Protozanova, E., Frank-Kamenetskii, M. D. (2006). Base-stacking and basepairing contributions into thermal stability of the DNA double helix. Nucleic Acids Res. 34, 564–574.
Ye, H., Liu, S., Tang, B., Chen, J., Xie, Z., Nolan, T. M., Jiang, H., Guo, H., Lin, H. Y., Li, L., Wang, Y., Tong, H., Zhang, M., Chu, C., Li, Z., Aluru, M., Aluru, S., Schnable, P. S. & Yin, Y. (2017). RD26 mediates crosstalk between drought and brassinosteroid signalling pathways. Nat. Commun. 8, 14573.
Ye, Q., Zhu, W., Li, L., Zhang, S., Yin, Y., Ma, H., & Wang., X. (2010). Brassinosteroids control male fertility by regulating the expression of key genes involved in Arabidopsis anther and pollen development. Proc. Natl. Acad. Sci. 107, 6100–6105.
Yin, Y., Vafeados, D., Tao, Y., Yoshida, S., Asami, T. & Chory, J. (2005). A new class of transcription factors mediates brassinosteroid-regulated gene expression in Arabidopsis. Cell 120, 249–259.
Yin, Y., Wang, Z. Y., Mora-Garcia, S., Li, J. M., Yoshida, S., Asami, T. & Chory, J. (2002). BES1 accumulates in the nucleus in response to brassinosteroids to regulate gene expression and promote stem elongation. Cell 109, 181–191.
Yu. X., Li, L., Zola, J., Aluru, M., Ye, H., Foudree, A., Guo, H., Anderson, S., Aluru, S., Liu, P., Rodermel, S. & Yin, Y. (2011). A brassinosteroid transcriptional network revealed by genome-wide identification of BES1 target genes in Arabidopsis thaliana. Plant J. 65, 634–646.
Zhao, B. & Li, J. (2012). Regulation of brassinosteroid biosynthesis and inactivation. J. Integr. Plant. Biol., 54, 746–759.
Zhao, J., Peng, P., Schmitz, R. J., Decker, A. D., Tax, F. E. & Li, J. (2002). Two putative BIN2 substrates are nuclear components of brassinosteroid signaling. Plant Physiol. 130, 1221–1229.
Zhou, T., Shen, N., Yang, L., Abe, N., Horton, J., Mann, R. S., Bussemaker, H. J.,. Gordân, R., & Rohs., R. (2015). Quantitative modeling of transcription factor binding specificities using DNA shape. Proc. Natl. Acad. Sci. 112, 4654–4659.
野﨑 翔平 (2016). 修士論文 ブラシノステロイド情報伝達因子の制御機構解析.
鈴木 佑真 (2017). 修士論文 ブラシノステロイド情報伝達因子 BIL1/BZR1 の DNA 認識機構の解析