The 5'UTR of CCA1 includes an autoregulatory cis element that segregates between light and circadian regulation of CCA1 and LHY

Plant Molecular Biology

Volumn 72, Issue 6, 2010, Pages 659-671

  Ovadia, Alona ^a   Tabibian Keissar, Hilla ^a,b   Cohen, Yigal ^b   Kenigsbuch, David ^a  

^a VOLCANI CENTER   (Israel)

^b BAR ILAN UNIVERSITY   (Israel)

Author keywords

5'UTR; Arabidopsis; CCA1; Circadian clock; LHY; Light regulation; TOC1

Indexed keywords

ARABIDOPSIS;

ARABIDOPSIS PROTEIN; CCA1 PROTEIN, ARABIDOPSIS; DNA BINDING PROTEIN; GREEN FLUORESCENT PROTEIN; LHY PROTEIN, ARABIDOPSIS; TOC1 PROTEIN, ARABIDOPSIS; TRANSCRIPTION FACTOR;

5' UNTRANSLATED REGION; ARABIDOPSIS; ARTICLE; CHEMISTRY; CIRCADIAN RHYTHM; GENE EXPRESSION REGULATION; GENETICS; LIGHT; METABOLISM; RADIATION EXPOSURE; REGULATORY SEQUENCE; TRANSGENIC PLANT;

5' UNTRANSLATED REGIONS; ARABIDOPSIS; ARABIDOPSIS PROTEINS; CIRCADIAN RHYTHM; DNA-BINDING PROTEINS; GENE EXPRESSION REGULATION, PLANT; GREEN FLUORESCENT PROTEINS; LIGHT; PLANTS, GENETICALLY MODIFIED; REGULATORY ELEMENTS, TRANSCRIPTIONAL; TRANSCRIPTION FACTORS;

EID: 77954480827     PISSN: 01674412     EISSN: None     Source Type: Journal    
DOI: 10.1007/s11103-010-9605-8     Document Type: Article

References (88)

1. Alabadi D, Oyama T, Yanovsky MJ, Harmon FG, Más P, Kay SA (2001) Reciprocal regulation between TOC1 and LHY/CCA1 within the Arabidopsis circadian clock. Science 293: 880-883
2. Alabadi D, Yanovsky MJ, Más P, Harmer SL, Kay SA (2002) Critical role for CCA1 and LHY in maintaining circadian rhythmicity in Arabidopsis. Curr Biol 12:757-761
3. Barak S, Tobin EM, Andronis C, Sugano S, Green RM (2000) All in good time: the Arabidopsis circadian clock. Trends Plant Sci 5:517-522
4. Bechtold N, Ellis J, Pelletier G (1993) In planta Agrobacterium mediated gene transfer by infiltration of adult Arabidopsis thaliana plants. C.R. Acad Sci Paris. Life Science 316:1194-1199
5. Bent AF (2000) Arabidopsis in planta transformation: uses, mechanisms, and prospects for transformation of other species. Plant Physiol 124:1540-1547
6. Brusslan JA, Tobin EM (1992) Light-independent developmental regulation of cab gene expression in Arabidopsis thaliana seedlings. Proc Natl Acad Sci USA 89:7791-7795
7. Covington MF, Panda S, Liu XL, Strayer CA, Wagner DR, Kay SA (2001) ELF3 modulates resetting of the circadian clock in Arabidopsis. Plant Cell 13:1305-1316
8. Covington MF, Maloof JN, Straume M, Kay SA, Harmer SL (2008) Global transcriptome analysis reveals circadian regulation of key pathways in plant growth and development. Genome Biol 9(8):R130
9. Daniel X, Sugano S, Tobin EM (2004) CK2 phosphorylation of CCA1 is necessary for its circadian oscillator function in Arabidopsis. Proc Natl Acad Sci USA 101:3292-3297
10. Davis SJ, Millar AJ (2001) Watching the hands of the Arabidopsis biological clock. Genome Biol 2(3):reviews1008.1-1008.4
11. Devlin PF (2002) Signs of the time: environmental input to the circadian clock. J Exp Bot 53:1535-1550
12. Doyle MR, Davis SJ, Bastow RM, McWatters HC, Kozma-Bognar L, Nagy F, Millar AJ, Amasino RM (2002) The ELF4 gene controls circadian rhythms and flowering time in Arabidopsis thaliana. Nature 419:74-77
13. Dunlap JJ (1999) Molecular bases for circadian clocks. Cell 96:271-290
14. El-Assal SE, Alonso-Blanco C, Peeters AJM, Raz V, Koornneef M (2001) A QTL for flowering time in Arabidopsis reveals a novel allele of CRY2. Nat Genet 29:435-440
15. Eriksson ME, Millar AJ (2003) The circadian clock. A plant's best friend in a spinning world. Plant Physiol 132:732-738
16. Eriksson ME, Hanano S, Southern MM, Hall A, Millar AJ (2003) Response regulator homologues have complementary, lightdependent functions in the Arabidopsis circadian clock. Planta 218:159-162
17. Farré EM, Harmer SL, Harmon FG, Yanovsky MJ, Kay SA (2005) Overlapping and distinct roles of PRR7 and PRR9 in the Arabidopsis circadian clock. Curr Biol 15:47-54
18. Fowler S, Lee K, Ocochi H, Samach A, Richardson K, Morris B, Coupland G, Petterill J (1999) GIGANTEA: a circadian clock-controlled gene that regulates photoperiodic flowering in Arabidopsis and encodes a protein with several possible membrane-spanning domains. EMBO J 18:4679-4688
19. Frugoli JA, Zhong HH, Nuccio ML, McCourt P, McPeek MA, Thomas TL, McClung CR (1996) Catalase is encoded by a multigene family in Arabidopsis thaliana (L.) Heynh. Plant Physiol 112(1):327-336
20. Gardner MJ, Hubbard KE, Hotta CT, Dodd AN, Webb AR (2006) How plants tell the time? Biochem J 397:15-24
21. Green RM, Tobin EM (1999) Loss of the circadian clock-associated protein 1 in Arabidopsis results in altered clock-regulated gene expression. Proc Natl Acad Sci USA 96:4176-4179
22. Green RM, Tingay S, Wang XY, Tobin EM (2002) Circadian rhythms confer a high level of fitness to Arabidopsis plants. Plant Physiol 129:576-582
23. Hall A, Bastow RM, Davis SJ, Hanano S, McWatters HG, Hibberd V, Doyle MR, Sung S, Halliday KJ, Amasino RM, Millar AJ (2003) The TIME FOR COFFEE gene maintains the amplitude and timing of Arabidopsis circadian clocks. Plant Cell 15:2719-2729
24. Han L (2006) Genetic and molecular analysis of a novel F-Box protein Zeitlupe, in the Arabidopsis circadian clock. Dissertation, Ohio State University, OH
25. Harmer S (2009) The circadian system in higher plants. Annu Rev Plant Biol 60:357-377
26. Harmer SL, Kay SA (2005) Positive and negative factors confer phase-specific circadian regulation of transcription in Arabidopsis. Plant Cell 17:1926-1940
27. Harmer SL, Hogenesch JB, Straume M, Chang HS, Han B, Zhu T, Wang X, Kreps JA, Kay SA (2000) Orchestrated transcription of key pathways in Arabidopsis by the circadian clock. Science 290:2110-2113
28. Harmer SL, Panda S, Kay SA (2001) Molecular bases of circadian rhythms. Annu Rev Cell Dev Biol 17:215-253
29. Harmon FG, Imaizumi T, Kay SA (2005) The plant circadian clock: review of a clockwork Arabidopsis. Annu Plant Rev 20:1-23
30. Hazen SP, Schultz TF, Pruneda-Paz JL, Borevitz JO, Ecker JR, Kay SA (2005) LUX ARRHYTHMO encodes a Myb domain protein essential for circadian rhythms. Proc Natl Acad Sci USA 102:10387-10392
31. Hicks KA, Millar AJ, Carré IA, Somers DE, Straume M, Meeks-Wagner DR, Kay SA (1996) Conditional circadian dysfunction of the Arabidopsis early-flowering 3 mutant. Science 274:790-792
32. Hicks KA, Albertson TA, Wagner DR (2001) EARLY FLOWERING 3 encodes a novel protein that regulates circadian clock function and flowering in Arabidopsis. Plant Cell 13:1281-1292
33. Hotta CT, Gardner MJ, Hubbard KE, Baek SJ, Dalchau N, Suhita D, Dodd AN, Webb AAR (2007) Modulation of environmental responses of plants by circadian clocks. Plant Cell Environ 30:339-349
34. Imaizumi T, Tran HG, Swartz TE, Briggs WR, Kay SA (2003) FKF1 is essential for photoperiodic-specific light signaling in Arabidopsis. Nature 426:302-306
35. Ito S, Nakamichi N, Nakamura Y, Niwa Y, Kato T, Murakami M, Kita M, Mizoguchi T, Niinuma K, Yamashino T, Mizuno T (2007) Genetic linkages between circadian clock-associated components and phytochrome-dependent red light signal transduction in Arabidopsis thaliana. Plant Cell Physiol 48(7): 971-983
36. Jarillo JA, Capel J, Tang RH, Yang HQ, Alonso JM, Ecker JR, Cashmore AR (2001) An Arabidopsis circadian clock component interacts with both CRY1 and phyB. Nature 410:487-490
37. Kenigsbuch D, Tobin EM (1995) A region of the Arabidopsis Lhcb1*3 promoter that binds to CA-1 activity is essential for high expression and phytochrome regulation. Plant Physiol 108:1023-1027
38. Kevei E, Gyula P, Hall A, Kozma-Bognar L, Kim WY, Eriksson ME, Toth R, Hanano S, Feher B, Southern MM, Bastow RM, Viczian A, Hibberd V, Davis SJ, Somers DE, Nagy F, Millar AJ (2006) Forward genetic analysis of the circadian clock separates the multiple functions of ZEITLUPE. Plant Physiol 140:933-945
39. Kikis EA, Khanna R, Quail PH (2005) ELF4 is a phytochromeregulated component of a negative-feedback loop involving the central oscillator components CCA1and LHY. Plant J 44:300-313
40. Kim JY, Song HR, Taylor BL, Carré IA (2003a) Light-regulated translation mediates gated induction of the Arabidopsis clock protein LHY. EMBO J 22:935-944
41. Kim JY, Yi H, Choi G, Shin B, Song PS (2003b) Functional characterization of Phytochrome Interacting Factor 3 in phytochromemediated light signal transduction. Plant Cell 15:2399-2407
42. Kim WY, Hicks KA, Somers DE (2005) Independent roles for EARLY FLOWERING 3 and ZEITLUPE in the control of circadian timing, hypocotyl length, and flowering time. Plant Physiol 139:1557-1569
43. Locke JCW, Southern MM, Kozma-Bognar L, Hibberd V, Brown PE, Turner MS, Millar AJ (2005) Extension of a genetic network model by iterative experimentation and mathematical analysis. Mol Syst Biol 1:2005.0013
44. Locke JCW, Kozma-Bognar L, Gould PD, Fehér B, Kevei É, Nagy F, Turner MS, Hall A, Millar AJ (2006) Experimental validation of a predicted feedback loop in the multi-oscillator clock of Arabidopsis thaliana. Mol Syst Biol 2:59
45. Lu SX, Knowles SM, Andronis C, Ong MS, Tobin EM (2009) CIRCADIAN CLOCK ASSOCIATED1 and LATE ELONGATED HYPOCOTYL function synergistically in the circadian clock of Arabidopsis. Plant Physiol 150:834-843
46. Makino S, Matsushika A, Kojima M, Yamashino T, Mazuno T (2002) The APRR1/TOC1 quintet implicated in the circadian rhythm of Arabidopsis thaliana: I. Characterization with APRR1 overexpression plants. Plant Cell Physiol 43:58-69
47. Martin-Tryon EL, Kreps JA, Harmer SL (2007) GIGANTEA acts in blue light signaling and has biochemically separable roles in circadian clock and flowering time regulation. Plant Physiol 143:473-486
48. Más P (2005) Circadian clock signaling in Arabidopsis thaliana: from gene expression to physiology and development. Int J Dev Biol 49:491-500
49. Más P, Alabadí D, Yanovsky MJ, Oyama T, Kay SA (2003a) Dual role of TOC1 in the control of circadian and photomorphogenic responses in Arabidopsis. Plant Cell 15:223-236
50. Más P, Kim WY, Somers DE, Kay SA (2003b) Targeted degradation of TOC1 by ZTL modulates circadian function in Arabidopsis thaliana. Nature 426:567-570
51. Matsushika A, Makino S, Kojima M, Mizuno T (2000) Circadian waves of expression of the APRR1/TOC1 family of pseudoresponse regulators in Arabidopsis thaliana: insight into the plant circadian clock. Plant Cell Physiol 41:1002-1012
52. Matsushika A, Makino S, Kojima M, Yamashino T, Mizuno T (2002a) Aberrant expression of the light inducible and circadian regulated APRR9 gene belonging to the circadian-associated APRR1/TOC1 quintet results in the phenotype of early flowering in Arabidopsis thaliana. Plant Cell Physiol 43:833-843
53. Matsushika A, Makino S, Kojima M, Yamashino T, Mizuno T (2002b) The APR1/TOC1 quintet implicated in circadian rhythms of Arabidopsis thaliana: II. Characterization with CCA1-over-expressing plants. Plant Cell Physiol 43:118-122
54. Maxwell BB, Anderson CR, Poole DS, Kay SA, Chory J (2003) HY5, Circadian Clock-Associated 1, and a cis-element, DET1 dark response element, mediate DET1 regulation of Chlorophyll a/b-Binding Protein 2 expression. Plant Physiol 133:1565-1577
55. McClung CR (2001) Circadian rhythms in plants. Annu Rev Plant Physiol Plant Mol Biol 52:139-162
56. McClung CR (2006) Plant circadian rhythms. Plant Cell 18(4): 792-803
57. McWatters HG, Kolmos E, Hall A, Doyle MR, Amasino RM, Gyula P, Nagy F, Millar AJ, Davis SJ (2007) ELF4 is required for oscillatory properties of the circadian clock. Plant Physiol 144: 391-401
58. Michael TP, McClung CR (2003) Enhancer trapping reveals widespread circadian clock transcriptional control in Arabidopsis thaliana. Plant Physiol 130:627-639
59. Michael TP, McClung CR (2005) What makes the Arabidopsis clock tick on time? A review on entrainment. Plant Cell Environ 28:21-38
60. Millar AJ (2004) Input signals to the plant circadian clock. J Exp Bot 55:277-283
61. Mizoguchi T, Coupland G (2000) ZEITLUPE and FKF1: novel connections between flowering time and circadian clock control. Trends Plant Sci 5:409-411
62. Mizoguchi T, Wheatley K, Hanzawa Y, Wright L, Mizoguchi M, Song HR, Carré IA, Coupland G (2002) LHY and CCA1 are partially redundant genes required to maintain circadian rhythms in Arabidopsis. Dev Cell 2:629-641
63. Mizoguchi T, Wright L, Fujiwara S, Cremer F, Lee K, Onouchi H, Mouradov A, Fowler S, Kamada H, Putterill J, Coupland G (2005) Distinct roles of GIGANTEA in promoting flowering and regulating circadian rhythms in Arabidopsis. Plant Cell 17:2255-2270
64. Mizuno T, Nakamichi N (2005) Pseudo-response regulators (PRRs) or true oscillator components (TOCs). Plant Cell Physiol 46:677-685
65. Naef F (2005) Circadian clocks go in vitro: purely post-translational oscillators in cyanobacteria. Mol Syst Biol 1:2005.0019
66. Nakamichi N, Kita M, Ito S, Sato E, Yamashino T, Mizuno T (2005a) The Arabidopsis pseudo-response regulators, PRR5 and PRR7, coordinately play essential roles for circadian clock function. Plant Cell Physiol 46:609-619
67. Nakamichi N, Kita M, Ito S, Yamashino T, Mizuno T (2005b) PSEUDO-RESPONSE REGULATORS, PRR9, PRR7 and PRR5, together play essential roles close to the circadian clock of Arabidopsis thaliana. Plant Cell Physiol 46:686-698
68. Nakamichi N, Matsushika A, Yamashino T, Mizuno T (2005c) Cell autonomous circadian waves of the APRR1/TOC1 quintet in an established cell line of Arabidopsis thaliana. Plant Cell Physiol 44:360-365
69. Nelson DC, Lasswell J, Rogg LE, Cohen MA, Bartel B (2000) FKF1, a clock-controlled gene that regulates the transition to flowering in Arabidopsis. Cell 101:331-340
70. Onai K, Ishiura M (2005) PHYTOCLOCK 1 encoding a novel GARP protein essential for the Arabidopsis circadian clock. Genes Cells 10:963-972
71. Pruneda-Paz JL, Breton G, Para A, Kay SA (2009) A functional genomics approach reveals CHE as a component of the Arabidopsis circadian clock. Science 323:1481-1485
72. Salomé PA, McClung CR (2005a) Whatmakes the Arabidopsis clock tick on time? A review on entrainment. Plant Cell Environ 28:21-38
73. Salomé PA, McClung CR (2005b) PSEUDO-RESPONSE REGULATOR 7 and 9 are partially redundant genes essential for the temperature responsiveness of the Arabidopsis circadian clock. Plant Cell 17:791-803
74. 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
75. Schaffer R, Landgraf J, Accerbi M, Vernadette S, Larson M, Wisman E (2001) Microarray analysis of diurnal and circadian-regulated genes in Arabidopsis. Plant Cell 13:113-123
76. Somers DE, Schultz TF, Milnamow M, Kay SA (2000) ZEITLUPE encodes a novel clock-associated PAS protein from Arabidopsis. Cell 101:319-329
77. Somers DE, Kim WY, Geng R (2004) The F-Box protein ZEITLUPE confers dosage-dependent control on the circadian clock, photomorphogenesis, and flowering time. Plant Cell 16:769-782
78. Song HR, Carré IA (2005) DET1 regulates the proteasomal degradation of LHY, a component of the Arabidopsis circadian clock. Plant Mol Biol 57:761-771
79. Strayer C, Oyama T, Schultz TF, Raman R, Somer DE, Más P, Panda S, Kreps JA, Kay SA (2000) Cloning of the Arabidopsis clock gene TOC1, an Autoregulatory Response Regulator homolog. Science 289:768-771
80. Sugano S, Andronis C, Green RM, Wang ZY, Tobin EM (1998) Protein kinase CK2 interacts with and phosphorylates the Arabidopsis circadian clock-associated 1 protein. Proc Natl Acad Sci USA 95: 11020-11025
81. Ueda HR (2006) Systems biology flowering in the plant clock field. Mol Syst Biol 2:60
82. Wang ZY, Tobin EM (1998) Constitutive expression of CIRCADIAN CLOCK ASSOCIATED 1 (CCA1) gene disrupts circadian rhythms and suppresses its own expression. Cell 93:1209-1217
83. Wang ZY, Kenigsbuch D, Sun L, Harel E, Ong MS, Tobin EM (1997) A myb related transcription factor is involved in the phytochrome regulation of an Arabidopsis Lhcb gene. Plant Cell 9: 491-507
84. Yakir E, Hilman D, Harir Y, Green R (2007) Regulation of output from the plant circadian clock. FEBS J 274:335-345
85. Zagotta MT, Hicks KA, Jacobs CI, Young JC, Hangarter RP, Meeks-Wagner DR (1996) The Arabidopsis ELF3 gene regulates vegetative photomorphogenesis and the photoperiodic induction of flowering. Plant J 10:691-702
86. Zeilinger MN, Farré EM, Taylor SR, Kay SA, Doyle FJ (2006) A novel computational model of the circadian clock in Arabidopsis that incorporate PRR7 and PRR9. Mol Syst Biol 2:58
87. Zhong HH, McClung CR (1996) The circadian clock gates expression of two Arabidopsis catalase genes to distinct and opposite circadian phases. Mol Genet Gen 251(2):196-203
88. Zhong HH, Resnick AS, Straume M, McClung CR (1997) Effects of synergistic signaling by phytochrome A and cryptochrome1 on circadian clock-regulated catalase expression. Plant Cell 9(6): 947-955