A novel molecular recognition motif necessary for targeting photoactivated phytochrome signaling to specific basic helix-loop-helix transcription factors

Plant Cell

Volumn 16, Issue 11, 2004, Pages 3033-3044

  Khanna, Rajnish ^a,b   Huq, Enamul ^a,b,c   Kikis, Elise A ^a,b   Al Sady, Bassem ^a,b   Lanzatella, Christina ^a,b   Quail, Peter H ^a,b  

^a UNIVERSITY OF CALIFORNIA   (United States)

^b WESTERN REGIONAL RESEARCH CENTER   (United States)

^c UNIVERSITY OF TEXAS AT AUSTIN   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

CONFORMATIONS; CROPS; MUTAGENESIS; PHOTOREACTIVITY; PIGMENTS; PROTEINS;

PHYLOGENETIC SUBFAMILY; PHYTOCHROME-INTERACTING FACTORS; PHYTOCHROMES; SENSORY PHOTORECEPTORS;

GENES;

FARM CROPS; GENES; MOLECULAR STRUCTURE; MUTATION; PHOTORECEPTORS; PHYTOCHEMISTRY; PIGMENT; PROTEINS;

ARABIDOPSIS; ARABIDOPSIS THALIANA;

ARABIDOPSIS PROTEIN; BASIC HELIX LOOP HELIX TRANSCRIPTION FACTOR; COMPLEMENTARY DNA; DNA BINDING PROTEIN; HELIX LOOP HELIX PROTEIN; PHYB PROTEIN, ARABIDOPSIS; PHYTOCHROME; PHYTOCHROME B; PIF4 PROTEIN, ARABIDOPSIS; PIF5 PROTEIN, ARABIDOPSIS; PIF6 PROTEIN, ARABIDOPSIS; TRANSCRIPTION FACTOR;

ARABIDOPSIS; ARTICLE; BINDING SITE; GENETICS; ISOLATION AND PURIFICATION; LIGHT; METABOLISM; MOLECULAR GENETICS; MUTATION; PHOTORECEPTOR; PHOTOSTIMULATION; PHYSIOLOGY; PROTEIN BINDING; PROTEIN MOTIF; SEQUENCE HOMOLOGY; SIGNAL TRANSDUCTION;

AMINO ACID MOTIFS; ARABIDOPSIS; ARABIDOPSIS PROTEINS; BASIC HELIX-LOOP-HELIX TRANSCRIPTION FACTORS; BINDING SITES; DNA, COMPLEMENTARY; DNA-BINDING PROTEINS; HELIX-LOOP-HELIX MOTIFS; LIGHT; MOLECULAR SEQUENCE DATA; MUTATION; PHOTIC STIMULATION; PHOTORECEPTORS; PHYTOCHROME; PHYTOCHROME B; PROTEIN BINDING; SEQUENCE HOMOLOGY, AMINO ACID; SEQUENCE HOMOLOGY, NUCLEIC ACID; SIGNAL TRANSDUCTION; TRANSCRIPTION FACTORS;

EID: 13744261351     PISSN: 10404651     EISSN: None     Source Type: Journal    
DOI: 10.1105/tpc.104.025643     Document Type: Article

References (35)

1. Bailey, P.C., Martin, C., Toledo-Ortiz, G., Quail, P.M., Huq, E., Heim, M.A., Jakoby, J., Werber, M., and Weisshaar, B. (2003). Update on the basic helix-loop-helix transcription factor gene family in Arabidopsis thaliana. Plant Cell 15, 2497-2502.
2. Bauer, D., Viczián, A., Kircher, S., Nobis, T., Nitschke, R., Kunkel, T., Panigrahi, K., Ádám, E., Fejes, E., Schäfer, E., and Nagy, F. (2004). COP1 and multiple photoreceptors control degradation of PIF3, a transcription factor, required for light signalling in Arabidopsis. Plant Cell 16, 1433-1445.
3. Clough, S.J., and Bent, A.F. (1998). Floral dip: A simplified method for Agrobacterium-mediated transformation of Arabidopsis thaliana. Plant J. 16, 735-743.
4. Corpet, F. (1988). Multiple sequence alignment with hierarchical clustering. Nucleic Acids Res. 16, 10881-10890.
5. Fairchild, C.D., Schumaker, M.A., and Quail, P.H. (2000). HFR1 encodes an atypical bHLH protein that acts in phytochrome A signal transduction. Genes Dev. 14, 2371-2399.
6. Hajdukiewicz, P., Svab, Z., and Maliga, P. (1994). The small, versatile pPZP family of Agrobacterium binary vectors for plant transformation. Plant Mol. Biol. 25, 989-994.
7. Heim, M.A., Jakoby, M., Werber, M., Martin, C., Weisshaar, B., and 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.
8. Heisler, M.G.B., Atkinson, A., Bylstra, Y.H., Walsh, R., and Smyth, D.R. (2001). SPATULA, a gene that controls development of carpel margin tissues in Arabidopsis, encodes a bHLH protein. Development 128, 1089-1098.
9. Hoecker, U., Tepperman, J.M., and Quail, P.H. (1999). SPA1: A WD-repeat protein specific to phytochrome A signal transduction. Science 284, 495-499.
10. Hudson, M.E., Lisch, D.R., and Quail, P.H. (2003). The FHY3 and FAR1 genes encode transposase related proteins involved in regulation of gene expression by the phytochrome A-signaling pathway. Plant J. 34, 453-471.
11. Huq, E., Al-Sady, B., Hudson, M.E., Kim, C., Apel, K., and Quail, P.H. (2004). PHYTOCHROME-INTERACTING FACTOR 1 is a critical bHLH regulator of chlorophyll biosynthesis. Science 305, 1937-1941.
12. Huq, E., Al-Sady, B., and Quail, P.H. (2003). Nuclear translocation of the photoreceptor phytochrome B is necessary for its biological function in seedling photomorphogenesis. Plant J. 35, 660-664.
13. Huq, E., and Quail, P.H. (2002). PIF4, a phytochrome-interacting bHLH factor, functions as a negative regulator of phytochrome B signaling pathway. EMBO J. 21, 2441-2450.
14. Khanna, R., Kikis, E.A., and Quail, P.H. (2003). EARLY FLOWERING 4 functions in phytochrome B-regulated seedling de-etiolation. Plant Physiol. 133, 1530-1538.
15. Kim, J., Yi, H., Choi, G., Shin, B., Song, P.-S., and Choi, G. (2003). Functional characterization of PIF3 in phytochrome-mediated light signal transduction. Plant Cell 15, 2399-2407.
16. Kircher, S., Gil, P., Kozma-Bognár, L., Fejes, E., Speth, V., Husselstein-Muller, T., Bauer, D., Adam, E., Schäfer, E., and Nagy, N. (2002). Nucleocytoplasmic partitioning of the plant photoreceptors phytochrome A, B, C, D, and E is regulated differentially by light and exhibits a diurnal rhythm. Plant Cell 14, 1541-1555.
17. Martinéz-García, J.F., Huq, E., and Quail, P.H. (2000). Direct targeting of light signals to a promoter element-bound transcription factor. Science 288, 859-863.
18. Matsushita, T., Mochizuki, N., and Nagatani, A. (2003). Dinners of the N-terminal domain of phytochrome B are functional in the nucleus. Nature 424, 571-574.
19. Ni, M., Tepperman, J.M., and Quail, P.H. (1998). PIF3, a phytochrome-interacting factor necessary for normal photoinduced signal transduction, is a novel basic helix-loop-helix protein. Cell 95, 657-667.
20. Ni, M., Tepperman, J.M., and Quail, P.H. (1999). Binding of phytochrome B to its nuclear signaling partner PIF3 is reversibly induced by light. Nature 400, 781-784.
21. Quail, P.H. (1998). The phytochrome family: Dissection of functional roles and signalling pathways among family members. Philos. Trans. R. Soc. Lond. B Biol. Sci. 353, 1399-1403.
22. Quail, P.H. (2002a). Phytochrome photosensory signaling networks. Nat. Rev. Mol. Cell Biol. 3, 85-93.
23. Quail, P.H. (2002b). Photosensory perception and signaling in plant cells: New paradigms? Curr. Opin. Cell Biol. 14, 180-188.
24. Quail, P.H., Boylan, M.T., Parks, B.M., Short, T.W., Xu, Y., and Wagner, D. (1995). Phytochromes: Photosensory perception and signal transduction. Science 268, 675-680.
25. Rajani, S., and Sundaresan, V. (2001). The Arabidopsis myc/bHLH gene ALCATRAZ enables cell separation in fruit dehescence. Curr. Biol. 11, 1914-1922.
26. Sakamoto, K., and Nagatani, A. (1996). Nuclear localization activity of phytochrome B. Plant J. 10, 859-868.
27. Shimizu-Sato, S., Huq, E., Tepperman, J.M., and Quail, P.H. (2002). A light-switchable gene promoter system. Nat. Biotechnol. 10, 1041-1044.
28. Smith, H. (2000). Phytochromes and light signal perception by plants: An emerging synthesis. Nature 407, 585-591.
29. Tepperman, J.M., Hudson, M.E., Khanna, R., Zhu, T., Chang, S.H., Wang, X., and Quail, P.H. (2004). Expression profiling of phyB mutant demonstrates substantial contribution of other phytochromes to red-light-regulated gene expression during seedling de-etiolation. Plant J. 38, 725-739.
30. Tepperman, J.M., Zhu, T., Chang, H.-S., Wand, X., and Quail, P.H. (2001). Multiple transcription-factor genes are early targets of phytochrome A signaling. Proc. Natl. Acad. Sci. USA 98, 9437-9442.
31. Toledo-Ortiz, G., Huq, E., and Quail, P.H. (2003). The Arabidopsis basic/helix-loop-helix transcription factor family. Plant Cell 15, 1749-1770.
32. Wagner, D.R., Tepperman, J.M., and Quail, P.H. (1991). Overexpression of phytochrome B induces a short hypocotyl phenotype in transgenic Arabidopsis. Plant Cell 3, 1275-1288.
33. Whitelam, G.C., and Devlin, P.P. (1997). Roles of different phytochromes in Arabidopsis photomorphogenesis. Plant Cell Environ. 20, 752-758.
34. Yamashino, T., Matsushika, A., Fujimori, T., Sato, S., Kato, T., Tabata, S., and Mizuno, T. (2003). A link between circadian-controlled bHLH factors and the APRR1/TOC1 quintet in Arabidopsis thaliana. Plant Cell Physiol. 44, 619-629.
35. Zhu, Y., Tepperman, J.M., Fairchild, C.D., and Quail, P.H. (2000). Phytochrome B binds with greater apparent affinity than phytochrome A to the basic helix-loop-helix factor PIF3 in a reaction requiring the PAS domain of PIF3. Proc. Natl. Acad. Sci. USA 97, 13419-13424.