A dynamic balance between gene activation and repression regulates the shade avoidance response in Arabidopsis

Genes and Development

Volumn 19, Issue 23, 2005, Pages 2811-2815

  Sessa, Giovanna ^a   Carabelli, Monica ^a   Sassi, Massimiliano ^a   Ciolfi, Andrea ^a,b   Possenti, Marco ^b   Mittempergher, Francesca ^a   Becker, Jorg ^c   Morelli, Giorgio ^b   Ruberti, Ida ^a  

^a CNR   (Italy)

^b ISTITUTO NAZIONALE DELLA NUTRIZIONE   (Italy)

^c INSTITUTO GULBENKIAN DE CIÊNCIA   (Portugal)

Author keywords

HFR1 SICS1 transcription factor; Neighbor detection; Phytochrome signaling

Indexed keywords

PHYTOCHROME;

ARABIDOPSIS; ARTICLE; AVOIDANCE BEHAVIOR; CANOPY; FAR RED LIGHT; GENE ACTIVATION; GENE CONTROL; GENE EXPRESSION; GENE INDUCTION; GENE REPRESSION; PLANT GROWTH; PLANT RESPONSE; PRIORITY JOURNAL; REGULATORY MECHANISM; SHADE;

ADAPTATION, PHYSIOLOGICAL; ARABIDOPSIS; ARABIDOPSIS PROTEINS; DNA-BINDING PROTEINS; ECOSYSTEM; GENE EXPRESSION REGULATION, PLANT; HOMEODOMAIN PROTEINS; LIGHT; NUCLEAR PROTEINS; PHYTOCHROME; SIGNAL TRANSDUCTION; TRANSCRIPTION FACTORS;

ARABIDOPSIS;

EID: 28444433437     PISSN: 08909369     EISSN: 15495477     Source Type: Journal    
DOI: 10.1101/gad.364005     Document Type: Article

References (32)

1. Bailey, P.C., Martin, C., Toledo-Ortiz, G., Quail, P.H., Huq, E., Heim, M.A., Jakoby, M., Werber, M., and Weisshaar, B. 2003. Update on the basic helix-loop-helix transcription factor gene family in Arabidopsis thaliana. Plant Cell 15: 2497-2501.
2. Ballaré, C.L. 1999. Keeping up with neighbours: Phytochrome sensing and other signaling mechanisms. Trends Plant Sci. 4: 97-102.
3. Benjamini, Y. and Hochberg, Y. 1995. Controlling the false discovery rate: A practical and powerful approach to multiple testing. J. Roy. Statist. Soc. Ser. B 57: 289-300.
4. Carabelli, M. Morelli, G., Whitelam, G., and Ruberti, I. 1996. Twilightzone and canopy shade induction of the ATHB-2 homeobox gene in green plants. Proc. Natl. Acad. Sci 93: 3530-3535.
5. Casal, J.J., Fankhauser, C., Coupland, G., and Blazquez, M.A. 2004. Signaling for developmental plasticity. Trends Plant Sci. 9: 309-314.
6. Cerdan, P.D. and Chory, J. 2003. Regulation of flowering time by light quality. Nature 423: 881-885.
7. Chen, M., Chory, J., and Fankhauser, C. 2004. Light signal transduction in higher plants. Annu. Rev. Genet. 38: 87-117.
8. Desnos, T., Puente, P., Whitelam, G.C., and Harberd, N.P. 2001. FHY1: A phytochrome A-specific signal transducer. Genes & Dev. 15: 2980-2990.
9. Devlin, P.F., Yanovsky, M.J., and Kay, S.A. 2003. A genomic analysis of the shade avoidance response in Arabidopsis. Plant Physiol. 133: 1-13.
10. Duek, P.D. and Fankhauser, C. 2003. HFR1, a putative bHLH transcription factor, mediates both phytochrome A and cryptochrome signaling. Plant J. 34: 827-836.
11. Duek, P.D., Elmer, M.V., van Oosten, V.R., and Fankhauser, C. 2004. The degradation of HFR1, a putative bHLH class transcription factor involved in light signaling, is regulated by phosphorylation and requires COP1. Curr. Biol. 14: 2296-2301.
12. 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: 2377-2391.
13. Fankhauser, C. and Chory, J. 2000. RSF1, an Arabidopsis locus implicated in phytochrome A signaling. Plant Physiol. 124: 39-45.
14. Franklin, K.A., Praekelt, U., Stoddart, W.M., Billingham, O.E., Halliday, K.J., and Whitelam, G.C. 2003. Phytochromes B, D and E act redundantly to control multiple physiological responses in Arabidopsis. Plant Physiol. 131: 1340-1346.
15. Jang, I.-C., Yang, J.-Y., Seo, H.S., and Chua, N.-H. 2005. HFR1 is targeted by COP1 E3 ligase for post-translational proteolysis during phytochrome A signaling. Genes & Dev. 19: 593-602.
16. Li, C. and Wong, W.H. 2001a. Model-based analysis of oligonucleotide arrays: Expression index computation and outlier detection. Proc. Natl. Acad. Sci. 98: 31-36.
17. -. 2001b. Model-based analysis of oligonucleotide arrays: Model validation, design issues and standard error application. Genome Biol. 2: research0032.1-research0032.11.
18. Morelli, G. and Ruberti, I. 2002. Light and shade in the photocontrol of Arabidopsis growth. Trends Plant Sci. 7: 399-404.
19. Rocke, D.M. and Durbin, B. 2001. A model for measurement errors for gene expression arrays. J. Comput. Biol. 8: 557-569.
20. Salter, M.G., Franklin, K.A., and Whitelam, G.C. 2003. Gating of the rapid shade avoidance response by the circadian clock in plants. Nature 426: 680-683.
21. Smith, H. 2000. Phytochromes and light signal perception by plants - An emerging synthesis. Nature 407: 585-591.
22. Soh, M.-S., Kim, Y.-M., Han, S.-J., and Song, P.-S. 2000. REP1, a basic helix-loop-helix protein, is required for a branch pathway of phytochrome A signaling in Arabidopsis. Plant Cell 12: 2061-2073.
23. Steindler, C., Matteucci, A., Sessa, G., Weimar, T., Ohgishi, M., Aoyama, T., Morelli, G., and Ruberti, I. 1999. Shade avoidance responses are mediated by the ATHB-2 HD-Zip protein, a negative regulator of gene expression. Development 125: 4235-4245.
24. Vandenbussche, F. and Van Der Straeten, D. 2004. Shaping the shoot: A circuitry that integrates multiple signals. Trends Plant Sci. 9: 499-506.
25. Vandenbussche, F., Pierik, R., Millenaar, F.F., Voesenek, L.A.C.J., and Van Der Straeten, D. 2005. Reaching out of the shade. Curr. Opin. Plant Biol. 8: 1-7.
26. Weigel, D. and Glazebrook, J. 2002. Arabidopsis: A laboratory manual. Cold Spring Harbor Laboratory Press, Cold Spring Harbor, New York.
27. Werner, T., Motyka, V., Laucou, V., Smets, R., Van Onckelen, H., and Schmulling, T. 2003. Cytokinin-deficient transgenic Arabidopsis plants show multiple developmental alterations indicating opposite functions of cytokinins in the regulation of shoot and root meristem activity. Plant Cell 15: 2532-2550.
28. Yang, J., Lin, R., Sullivan, J., Hoecker, U., Liu, B., Xu, L., Deng, X. W., and Wang, H. 2005a. Light regulates COP1-mediated degradation of HFR1, a transcription factor essential for light signaling in Arabidopsis. Plant Cell 17: 804-821.
29. Yang, J., Lin, R., Hoecker, U., Liu, B., and Wang, H. 2005b. Repression of light signaling by Arabidopsis SPA1 involves post-translational regulation of HFR1 protein accumulation. Plant J. 43: 131-141.
30. Yin, Y., Vafeados, D., Tao, Y., Yoshida, S., Asami, T., and Chory, J. 2005. A new class of transcription factors mediates brassinosteroid-regulated gene expression in Arabidopsis. Cell 120: 249-259.
31. Zeidler, M., Bolle, C., and Chua, N.H. 2001. The phytochrome A specific signaling component PAT3 is a positive regulator of Arabidopsis photomorphogenesis. Plant Cell Physiol. 42: 1193-1200.
32. Zeidler, M., Zhou, Q., Sarda, X., Yau, C.-P., and Chua, N.-H. 2004. The nuclear localization signal and the C-terminal region of FHY1 are required for transmission of phytochrome A signal. Plant J. 40: 355-365.