A Genomic Analysis of the Shade Avoidance Response in Arabidopsis

Plant Physiology

Volumn 133, Issue 4, 2003, Pages 1617-1629

  Devlin, Paul Francis ^a,b   Yanovsky, Marcelo Javier ^a,c   Kay, Steve A ^a  

^a SCRIPPS RESEARCH INSTITUTE   (United States)

^b KING'S COLLEGE LONDON   (United Kingdom)

^c UNIVERSIDAD DE BUENOS AIRES   (Argentina)

Author keywords

[No Author keywords available]

Indexed keywords

COMPUTER SIMULATION; GENES; GENETIC ENGINEERING; LIGHT REFLECTION; PHYSIOLOGY; SEED; SIGNALING; STRESSES; VEGETATION;

SIGNAL TRANSDUCTION;

PLANTS (BOTANY);

ARABIDOPSIS; EMBRYOPHYTA; EUKARYOTA;

EID: 0347052756     PISSN: 00320889     EISSN: None     Source Type: Journal    
DOI: 10.1104/pp.103.034397     Document Type: Article

References (47)

1. Ades SE, Sauer RT (1994) Differential DNA-binding specificity of the engrailed homeodomain: the role of residue 50. Biochemistry 33: 9187-9194
2. Alabadi D, Oyama T, Yanovsky MJ, Harmon FG, Mas P, Kay SA (2001) Reciprocal regulation between TOC1 and LHY/CCA1 within the Arabidopsis circadian clock. Science 293: 880-883
3. Ballaré CL, Scopel AL, Sánchez RA (1997) Foraging for light: photosensory ecology and agricultural implications. Plant Cell Environ 20: 820-825
4. Berberich S, Hyde-DeRuyscher N, Espenshade P, Cole M (1992) max encodes a sequence-specific DNA-binding protein and is not regulated by serum growth factors. Oncogene 7: 775-779
5. Bognar LK, Hall A, Adam E, Thain SC, Nagy F, Millar AJ (1999) The circadian clock controls the expression pattern of the circadian input photoreceptor, phytochrome B. Proc Natl Acad Sci USA 96: 14652-14657
6. Carabelli M, Sessa G, Baima S, Morelli G, Ruberti I (1993) The Arabidopsis Athb-2 and -4 genes are strongly induced by far-red-rich light. Plant J 4: 469-479
7. Chattopadhyay S, Ang LH, Puente P, Deng XW, Wei N (1998) Arabidopsis bZIP protein HY5 directly interacts with light-responsive promoters in mediating light control of gene expression. Plant Cell 10: 673-683
8. Choi G, Yi H, Lee J, Kwon YK, Soh MS, Shin B, Luka Z, Hahn TR, Song PS (1999) Phytochrome signalling is mediated through nucleoside diphosphate kinase 2. Nature 401: 610-613
9. Coles JP, Phillips AL, Croker SJ, Garcia-Lepe R, Lewis MJ, Hedden P (1999) Modification of gibberellin production and plant development in Arabidopsis by sense and antisense expression of gibberellin 20-oxidase genes. Plant J 17: 547-556
10. Colon-Carmona A, Chen DL, Yeh KC, Abel S (2000) Aux/IAA proteins are phosphorylated by phytochrome in vitro. Plant Physiol 124: 1728-1738
11. Devlin PF, Patel SR, Whitelam GC (1998) Phytochrome E influences internode elongation and flowering time in Arabidopsis. Plant Cell 10: 1479-1487
12. Devlin PF, Robson PR, Patel SR, Goosey L, Sharrock RA, Whitelam GC (1999) Phytochrome D acts in the shade-avoidance syndrome in Arabidopsis by controlling elongation growth and flowering time. Plant Physiol 119: 909-915
13. Fankhauser C, Yeh KC, Lagarias JC, Zhang H, Elich TD, Chory J (1999) PKS1, a substrate phosphorylated by phytochrome that modulates light signaling in Arabidopsis. Science 284: 1539-1541
14. Franklin KA, Praekelt U, Stoddart WM, Billingham OE, Halliday KJ, Whitelam GC (2003) Phytochromes B, D, and E act redundantly to control multiple physiological responses in Arabidopsis. Plant Physiol 131: 1340-1346
15. Friml J, Wisniewska J, Benkova E, Mendgen K, Palme K (2002) Lateral relocation of auxin efflux regulator PIN3 mediates tropism in Arabidopsis. Nature 415: 806-809
16. Hall A, Kozma-Bognar L, Bastow RM, Nagy F, Millar AJ (2002) Distinct regulation of CAB and PHYB gene expression by similar circadian clocks. Plant J 32: 529-537
17. Huq E, Tepperman JM, Quail PH (2000) GIGANTEA is a nuclear protein involved in phytochrome signaling in Arabidopsis. Proc Natl Acad Sci USA 97: 9789-9794
18. Johnson E, Bradley M, Harberd NP, Whitelam GC (1994) Photoresponses of light-grown phyA mutants of Arabidopsis: phytochrome A is required for the perception of daylength extensions. Plant Physiol 105: 141-149
19. Kim BC, Soh MS, Kang BJ, Furuya M, Nam HG (1996) Two dominant photomorphogenic mutations of Arabidopsis thaliana identified as suppressor mutations of hy2. Plant J 9: 441-456
20. Liscum E, Reed JW (2002) Genetics of Aux/IAA and ARF action in plant growth and development. Plant Mol Biol 49: 387-400
21. Liu Y, Nifuji A, Tamura M, Wozney JM, Olson EN, Noda M (1997) Scleraxis messenger ribonucleic acid is expressed in C2C12 myoblasts and its level is down-regulated by bone morphogenetic protein-2 (BMP2). J Cell Biochem 67: 66-74
22. Makino S, Matsushika A, Kojima M, Yamashino T, Mizuno T (2002) The APRR1/TOC1 quintet implicated in circadian rhythms of Arabidopsis thaliana: I. Characterization with APRR1-overexpressing plants. Plant Cell Physiol 43: 58-69
23. Martinez-Garcia JF, Huq E, Quail PH (2000) Direct targeting of light signals to a promoter element-bound transcription factor. Science 288: 859-863
24. Mas P, Alabadi D, Yanovsky MJ, Oyama T, Kay SA (2003) Dual role of TOC1 in the control of circadian and photomorphogenic responses in Arabidopsis. Plant Cell 15: 223-236
25. Mizoguchi T, Wheatley K, Hanzawa Y, Wright L, Mizoguchi M, Song HR, Carre IA, Coupland G (2002) LHY and CCA1 are partially redundant genes required to maintain circadian rhythms in Arabidopsis. Dev Cell 2: 629-641
26. Motchoulski A, Liscum E (1999) Arabidopsis NPH3: a NPH1 photoreceptor-interacting protein essential for phototropism. Science 286: 961-964
27. Nam KH, Li J (2002) BRI1/BAK1, a receptor kinase pair mediating brassinosteroid signaling. Cell 110: 203-212
28. Ni M, Tepperman JM, Quail PH (1998) PIF3, a phytochrome-interacting factor necessary for normal photoinduced signal transduction, is a novel basic helix-loop-helix protein. Cell 95: 657-667
29. Oyama T, Shimura Y, Okada K (1997) The Arabidopsis HY5 gene encodes a bZIP protein that regulates stimulus-induced development of root and hypocotyl. Genes Dev 11: 2983-2995
30. Pavlidis P, Noble WS (2001) Analysis of strain and regional variation in gene expression in mouse brain. Genome Biol 2: Research0042.1-0042.15
31. Peng JR, Carol P, Richards DE, King KE, Cowling RJ, Murphy GP, Harberd NP (1997) The Arabidopsis GAI gene defines a signaling pathway that negatively regulates gibberellin responses. Genes Dev 11: 3194-3205
32. Quail PH (1998) The phytochrome family: dissection of functional roles and signalling pathways among family members. Philos Trans R Soc Lond Biol 353: 1399-1403
33. Reed JW, Nagpal P, Poole DS, Furuya M, Chory J (1993) Mutations in the gene for the red/far-red light receptor phytochrome B alter cell elongation and physiological responses throughout Arabidopsis development. Plant Cell 5: 147-157
34. Robson PRH, McCormac AC, Irvine AS, Smith H (1996) Genetic engineering of harvest index in tobacco through overexpression of a phytochrome gene. Nat Biotechnol 14: 995-998
35. Schaffer R, Ramsay N, Samach A, Corden S, Putterill J, Carré IA, Coupland G (1998) The late elongated hypocotyl mutation of Arabidopsis disrupts circadian rhythms and the photoperiodic control of flowering. Cell 93: 1219-1229
36. Schena M, Lloyd AM, Davis RW (1993) The HAT4 gene of Arabidopsis encodes a developmental regulator. Genes Dev 7: 367-379
37. Schwechheimer C, Deng XW (2001) COP9 signalosome revisited: a novel mediator of protein degradation. Trends Cell Biol 11: 420-426
38. Smith H (1994) Sensing the light environment: the functions of the phytochrome family. In RE Kendrick, GHM Kronenberg, eds, Photomorphogenesis in Plants, Ed 2, Vol 2. Kluwer, Dordrecht, The Netherlands, pp 377-416
39. Smith H, Holmes MG (1977) The function of phytochrome in the natural environment: III. Measurement and calculation of phytochrome photoequilibrium. Photochem Photobiol 25: 547-550
40. Smith H, Whitelam GC (1997) The shade avoidance syndrome: multiple responses mediated by multiple phytochromes. Plant Cell Environ 20: 840-844
41. Somers DE, Quail PH (1995) Phytochrome-mediated light regulation of PHYA-and PHYB-GUS transgenes in Arabidopsis thaliana seedlings. Plant Physiol 107: 523-534
42. Steindler C, Matteucci A, Sessa G, Weimar T, Ohgishi M, Aoyama T, Morelli G, Ruberti I (1999) Shade avoidance responses are mediated by the ATHB-2 HD-zip protein, a negative regulator of gene expression. Development 126: 4235-4245
43. Tian Q, Reed JW (1999) Control of auxin-regulated root development by the Arabidopsis thaliana SHY2/IAA3 gene. Development 126: 711-721
44. Whitelam GC, Devlin PF (1997) Roles of different phytochromes in Arabidopsis photomorphogenesis. Plant Cell Environ 20: 752-758
45. Whitelam GC, Johnson E, Peng J, Carol P, Anderson ML, Cowl JS, Harberd NP (1993) Phytochrome A null mutants of Arabidopsis display a wild-type phenotype in white light. Plant Cell 5: 757-768
46. Wodicka L, Dong H, Mittmann M, Ho MH, Lockhart DJ (1997) Genome-wide expression monitoring in Saccharomyces cerevisiae. Nat Biotechnol 15: 1359-1367
47. Yasumoto K, Yokoyama K, Shibata K, Tomita Y, Shibahara S (1994) Microphthalmia-associated transcription factor as a regulator for melanocyte-specific transcription of the human tyrosinase gene. Mol Cell Biol 14: 8058-8070