Ancestral multipartite units in light-responsive plant promoters have structural features correlating with specific phototransduction pathways

Plant Physiology

Volumn 112, Issue 3, 1996, Pages 1151-1166

  Argüello Astorga, Gerardo R ^a   Herrera Estrella, Luis R ^a  

^a DEPARTAMENTO DE FÍSICA   (Mexico)

Author keywords

[No Author keywords available]

Indexed keywords

GYMNOSPERMAE; MAGNOLIOPHYTA;

EID: 0030296160     PISSN: 00320889     EISSN: None     Source Type: Journal    
DOI: 10.1104/pp.112.3.1151     Document Type: Article

References (94)

1. Ahmad M, Cashmore AR (1993) HY4 gene of A. thaliana encodes a protein with characteristics of a blue-light photoreceptor. Nature 366: 162-166
2. Anderson SL, Kay SA (1995) Functional dissection of circadian clock- and phytochrome-regulated transcription of the Arabidopsis CAB2 gene. Proc Natl Acad Sci USA 92: 1500-1504
3. Anderson SL, Teakle GR, Martino-Catt SJ, Kay SA (1994) Circadian clock- and phytochrome-regulated transcription is conferred by a 78 bp cis-acting domain of the Arabidopsis CAB2 promoter. Plant J 6: 457-470
4. Argüello G, García-Hernández E, Sánchez M, Gariglio P, Herrera-Estrella LR, Simpson J (1992) Characterization of DNA sequences that mediate nuclear protein binding to the regulatory region of the Pisum sativum (pea) chlorophyll a/b binding protein gene AB80: identification of a repeated heptamer motif. Plant J 2: 301-309
5. Argüello-Astorga GR, Guevara-González RG, Herrera-Estrella LR, Rivera-Bustamante RF (1994) Geminivirus replication origins have a group-specific organization of iterative elements: a model for replication. Virology 203: 90-100
6. Argüello-Astorga GR, Herrera-Estrella LR (1995) Theoretical and experimental delimitation of minimal photoresponsive elements in Cab and rbcS genes. In M Terzi, R Cella, A Falavigna, eds, Current Issues in Plant Molecular and Cellular Biology. Kluwer Academic, Dordrecht, The Netherlands, pp 501-511
7. Avise J (1994) Molecular Markers, Natural History and Evolution. Chapman and Hall, New York
8. Batschauer A, Gilmartin PM, Nagy F, Schäfer E (1994) The molecular biology of photoregulated genes. In RE Kendrick, GHM Kronenberg, eds, Photomorphogenesis in Plants, Ed 2. Kluwer Academic, Dordrecht, The Netherlands, pp 559-599
9. Block A, Dangl JL, Hahlbrock K, Schulze-Lefert P (1990) Functional borders, genetic fine structure, and distance requirements of cis elements mediating light-responsiveness of the parsley chalcone synthase promoter. Proc Natl Acad Sci USA 87: 5387-5391
10. Bolle C, Kusnetsov VV, Herrmann RG, Oélmuller R (1996) The spinach AtpC and AtpD genes contain elements for light-regulated, plastid-dependent and organ-specific expression in the vicinity of the transcription start sites. Plant J 9: 21-30
11. Bolle C, Sopory S, Lübbersted T, Klösgen RB, Herrmann RG, Oelmüller R (1994) The role of plastids in the expression of nuclear genes for thylakoid proteins studied with chimeric β-glucuronidase gene fusions. Plant Physiol 105: 1355-1364
12. Borello U, Cecarelli E, Guiliano G (1993) Constitutive, light-responsive and circadian clock-responsive factors compete for the different I-box elements in plant light-regulated promoters. Plant J 4: 611-619
13. Bowler C, Chua N-H (1994) Emerging themes of plant signal transduction. Plant Cell 6: 1529-1541
14. Bowler C, Neuhaus G, Yamagata H, Chua N-M (1994a) Cyclic GMP and calcium mediate phytochrome phototransduction. Cell 77: 73-81
15. Bowler C, Yamagata H, Neuhaus G, Chua N-M (1994b) Phytochrome signal transduction pathways are regulated by reciprocal control mechanisms. Genes Dev 8: 2188-2202
16. Buchel AS, Molenkamp R, Bol JF, Linthorst HJM (1996) The PR-1a promoter contains a number of elements that bind GT-1 like nuclear factors with different affinity. Plant Mol Biol 30: 493-504
17. Buzby JS, Yamada T, Tobin EM (1990) A light-regulated DNA-binding activity interacts with a conserved region of a Lemna gibba rbcS promoter. Plant Cell 2: 805-814
18. Carrasco P, Manzara T, Gruissem W (1993) Developmental and organ-specific changes in DNA-protein interactions in the tomato rbcS3B and rbcSA3C promoter regions. Plant Mol Biol 21: 1-15
19. Carré I, Kay SA (1995) Multiple DNA-protein complexes at a circadian-regulated promoter element. Plant Cell 7: 2039-2051
20. Castresana C, Garcia-Luque I, Alonso E, Malick VS, Cashmore AR (1988) Both positive and negative regulatory elements mediate expression of a photoregulated CAB gene from Nicotiana plumbaginifolia. EMBO J 7: 1929-1936
21. Conley TR, Park SC, Kwon HB, Peng HP, Shih MC (1994) Characterization of cis-acting elements in light-regulation of the nuclear gene encoding the A subunit of chloroplast isozymes of glyceraldehyde 3-phosphate dehydrogenase from Arabidopsis thaliana. Mol Cell Biol 14: 2523-2533
22. Crane PR, Friis EM, Pedersen KR (1995) The origin and early diversification of angiosperm. Nature 374: 27-33
23. Dehesh K, Hung H, Tepperman JM, Quail PH (1992) GT2: a transcription factor with twin autonomous DNA-binding domains of closely related but different target sequence specificity. EMBO J 11: 4131-4144
24. deVetten NC, Ferl RJ (1994) Transcriptional regulation of environmentally inducible genes in plants by an evolutionary conserved family of G-box binding factors. Int J Biochem 16: 1055-1068
25. Donald RGK, Cashmore AR (1990) Mutation in either G box or I box sequences profoundly affects expression from the Arabidopsis thaliana rbcS-1A promoter. EMBO J 9: 1717-1726
26. Durbin ML, Learn GH, Huttley GA, Clegg MT (1995) Evolution of the chalcone synthase gene family in the genus Ipomoea. Proc Natl Acad Sci USA 92: 3338-3342
27. Furuya M (1993) Phytochromes: their molecular species, gene families and functions. Annu Rev Plant Physiol Plant Mol Biol 44: 617-645
28. Gallie DR (1993) Posttranscriptional regulation of gene expression in plants. Annu Rev Plant Physiol Plant Mol Biol 44: 77-105
29. Gidoni D, Brosio P, Bond-Nutter D, Bedbrook J, Dunsmuir P (1989) Novel cis-acting elements in petunia Cab gene promoters. Mol Gen Genet 215: 337-344
30. Gilmartin PM, Chua N-H (1990) Localization of a phytochrome-responsive element within the upstream region of pea rbcS-3A. Mol Cell Biol 10: 5565-5568
31. Gilmartin PM, Sarokin L, Memelink J, Chua N-H (1990) Molecular light-switches for plant genes. Plant Cell 2: 369-378
32. Giuliano G, Pichersky E, Malik VS, Timko MP, Scolnick PA, Cashmore AR (1988) An evolutionarily conserved protein binding sequence upstream of a plant light-regulated gene. Proc Natl Acad Sci USA 85: 7089-7093
33. Görz A, Shäffer W, Hirasawa E, Kahl G (1988) Constitutive and light-induced DNAseI hypersensitive sites in the rbcS genes of pea (Pisum sativum). Plant Mol Biol 11: 561-573
34. Gotor C, Romero LC, Inouye K, Lam E (1993) Analysis of three tissue-specific elements from the wheat Cab-1 enhancer. Plant J 3: 509-518
35. Green PJ, Kay SA, Chua N-H (1987) Sequence-specific interactions of a pea nuclear factor with light-responsive elements upstream of the rbcS-3A gene. EMBO J 6: 2543-2549
36. Green PJ, Yong M-H, Cuozzo M, Kano-Mukarami Y, Silverstein P, Chua N-H (1988) Binding site requirements for pea nuclear protein GT-1 correlate with sequences required for light-dependent transcriptional activation of the rbcS-3A gene. EMBO J 7: 4035-4044
37. Grob U, Stuber K (1987) Discrimination of phytochrome dependent light-inducible from non-light-inducible plant genes. Prediction of a common light-responsive element (LRE) in phytochrome dependent light-inducible genes. Nucleic Acids Res 15: 9957-9972
38. Gumucio DL, Heilstedt-Williamson H, Gray TA, Tarle SA, Shelton DA, Tagle DA, Slightom JL, Goodman M, Collins FS (1992) Phylogenetic footprinting reveals a nuclear protein which binds to silencer sequences in the human gamma and epsilon globin genes. Mol Cell Biol 12: 4919-4929
39. Ha S-B, An G (1988) Identification of upstream regulatory elements involved in the developmental expression of the Arabidopsis thaliana cab1 gene. Proc Natl Acad Sci USA 85: 8017-8021
40. Hahlbrock K, Scheel D (1989) Physiology and molecular biology of phenylpropanoid metabolism. Annu Rev Plant Physiol Plant Mol Biol 40: 347-369
41. Hill CS, Treisman R (1995) Transcriptional regulation by extracellular signals: mechanisms and specificity. Cell 80: 199-211
42. Kaiser T, Emmler K, Kretsch T, Weisshaar B, Schäfer E, Batschauer A (1995) Promoter elements of the mustard CHS1 gene are sufficient for light regulation in transgenic plants. Plant Mol Biol 28: 219-229
43. Kehoe DM, Degenhardt J, Winicov I, Tobin EM (1994) Two 10-bp regions are critical for phytochrome regulation of a Lemna gibba Lhcb gene promoter. Plant Cell 6: 1123-1134
44. 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
45. Kojima K, Sasaki S, Yamamoto N (1994) Light-independent and tissue-specific expression of a reporter gene mediated by the pine cab-6 promoter in transgenic tobacco. Plant J 6: 591-596
46. Kojima K, Yamamoto N, Sasaki S (1992) Structure of the pine (Pinus thunbergii) chlorophyll a/b binding protein gene expressed in the absence of light. Plant Mol Biol 19: 405-410
47. Kuhlemeier C, Cuozzo M, Green P, Goyvaerts E, Ward K, Chua N-H (1988) Localization and conditional redundancy of regulatory elements in rbcS-3A, a pea gene encoding the small subunit of ribulose-bisphosphate carboxylase. Proc Natl Acad Sci USA 85: 4662-4666
48. Kuhlemeier C, Fluhr R, Green PJ, Chua N-H (1987) Sequences in the pea rbcS-3A gene have homology to constitutive mammalian enhancers but function as negative regulatory elements. Genes Dev 1: 247-255
49. Kuhlemeier C, Strittmatter G, Ward K, Chua N-H (1989) The pea rbcS-3A promoter mediates light-responsiveness but not organ specificity. Plant Cell 1: 471-478
50. Kwon H-B, Park S-C, Peng H-P, Goodman HM, Dewdney J, Shih MC (1994) Identification of a light-responsive region of the nuclear gene encoding the B subunit of chloroplast glyceraldehyde 3-phosphate dehydrogenase from Arabidopsis thaliana. Plant Physiol 105: 357-367
51. Lam E, Chua N-H (1990) GT-1 binding site confers light-responsive expression in transgenic tobacco. Science 248: 471-474
52. Lawton MA, Dean SM, Dron M, Kooter JM, Kragh KM, Harrison MS, Yu L, Tanguay L, Dixon RA, Lamb CJ (1991) Silencer region of a chalcone synthase promoter contains multiple binding sites for a factor, SBF-1, closely related to GT-1. Plant Mol Biol 16: 235-249
53. Lipphardt S, Brettschneider R, Kreuzaler F, Schell J, Dangl JL (1988) UV-inducible transient expression in parsley protoplasts identifies regulatory cis-elements of a chimeric Antirrhinum majus chalcone synthase gene. EMBO J 7: 4027-4033
54. 7CT] and G-box (CACGTG) cis-elements is necessary for feed-forward stimulation of a chalcone synthase promoter by the phenylpropanoid-pathway intermediate p-coumaric acid. Proc Natl Acad Sci USA 89: 9230-9234
55. Logemann E, Parniske M, Hahlbrock K (1995) Modes of expression and common structural features of the complete phenylalanine ammonia-lyase gene family in parsley. Proc Natl Acad Sci USA 92: 5905-5909
56. Lois R, Dietrich A, Hahlbrock K, Schulz W (1989) A phenylalanine ammonia-lyase gene from parsley: structure, regulation and identification of elicitor and light responsive cis-acting elements. EMBO J 8: 1641-1648
57. Lubberstedt T, Bolle CEH, Sopory S, Flieger K, Herrmann RG, Oelmuller R (1994a) Promoters from genes for plastid proteins possess regions with different sensitivities toward red and blue light. Plant Physiol 104: 997-1006
58. Lubberstedt T, Oelmüller R, Wanner G, Herrmann RG (1994b) Interacting cis elements in the plastocyanin promoter from spinach ensure regulated high-level expression. Mol Gen Genet 242: 602-613
59. Manzara T, Carrasco P, Gruissem W (1991) Developmental and organ-specific changes in promoter DNA-proteins interactions in the tomato rbcS gene family. Plant Cell 3: 1305-1316
60. Manzara T, Gruissem W (1988) Organization and expression of the genes encoding ribulose-1,5-bisphosphate carboxylase in higher plants. Photosynth Res 16: 117-139
61. McNellis TW, Deng X-W (1995) Light control of seedling morphogenetic pattern. Plant Cell 7: 1749-1761
62. Meier I, Callan KL, Fleming AJ, Gruissem W (1995) Organ-specific differential regulation of a promoter subfamily for the ribulose-1,5-bisphosphate carboxylase/oxygenase small subunit genes in tomato. Plant Physiol 107: 1105-1118
63. Miner JN, Yamamoto KR (1991) Regulatory crosstalk at composite response elements. Trends Biochem Sci 16: 423-426
64. Mitra A, Choi HK, An G (1989) Structural and functional analyses of Arabidopsis thaliana chlorophyll a/b-binding protein (cab) promoters. Plant Mol Biol 12: 169-179
65. Nagy F, Fluhr R, Kuhlemeier C, Kay S, Boutry M, Green P, Poulsen G, Chua N-H (1986) Cis-acting elements for selective expression of two photosynthetic genes in transgenic plants. Philos Trans R Soc Lond-Biol Sci 314: 493-500
66. Neuhaus G, Bowler Ch, Kern R, Chua N-H (1993) Calcium/calmodulin-dependent and -independent phytochrome signal transduction pathways. Cell 73: 937-952
67. Orozco BM, Ogren WL (1993) Localization of light-inducible and tissue-specific regions of the spinach ribulose-1,5-bisphosphate carboxylase/oxygenase (rubisco) activase promoter in transgenic tobacco plants. Plant Mol Biol 23: 1129-1138
68. Piechulla B, Kellman JW, Pichersky E, Schawrtz E, Forster HH (1991) Determination of steady-state mRNA levels of individual chlorophyll a/b binding protein genes of the tomato cab gene family. Mol Gen Genet 230: 413-422
69. Poulsen C, Chua N-H (1988) Dissection of 5′ upstream sequences for selective expression of the Nicotiana plumbaginifolia rbcS-88 gene. Mol Gen Genet 214: 16-23
70. Quail PH (1994) Phytochrome genes and their expression. In RE Kendrick, GHM Kronenberg, eds, Photomorphogenesis in Plants, Ed 2. Kluwer Academic, Dordrecht, The Netherlands, pp 71-104
71. Rocholl M, Talke-Messerer C, Kaiser T, Batschauer A (1994) Unit 1 of the mustard chalcone synthase promoter is sufficient to mediate light responses from different photoreceptors. Plant Sci 97: 189-198
72. Rogers JC, Rogers SW (1992) Definition and functional implications of giberellin and abscisic acid cis-acting hormone response complexes. Plant Cell 4: 1443-1451
73. Rolfe SA, Tobin EM (1991) Deletion analysis of a phytochrome-regulated monocot rbcS promoter in a transient assay system. Proc Natl Acad Sci USA 88: 2683-2686
74. Sarokin LP, Chua N-H (1992) Binding sites for two novel phosphoproteins, 3AF5 and 3AF3, are required for rbcS-3A expression. Plant Cell 4: 473-483
75. Schäfner AR, Sheen J (1991) Maize rbcS promoter activity depends on sequence elements not found in dicot rbcS promoters. Plant Cell 3: 997-1012
76. Sheen J (1991) Molecular mechanisms underlying the differential expression of maize pyruvate, orthophosphate dikinase genes. Plant Cell 3: 225-245
77. Schulze-Lefert P, Becker-André M, Schulz W, Hahlbrock K, Dangl JL (1989) Functional architecture of the light-responsive chalcone synthase promoter from parsley. Plant Cell 1: 707-714
78. Silverthorne J, Tobin E (1984) Demonstration of transcriptional regulation of specific genes by phytochrome action. Proc Natl Acad Sci USA 81: 1112-1116
79. Simpson J, Van Montagu M, Herrera-Estrella LR (1986) Photosynthesis-associated gene families: differences in response to tissue-specific and environmental factors. Science 233: 34-38
80. Stockhaus J, Schell J, Willmitzer L (1989) Identification of enhancer elements in the upstream region of the nuclear photosynthetic gene ST-LS1. Plant Cell 1: 805-813
81. Sun L, Doxsee RA, Harel E, Tobin EM (1993) CA-1, a novel phosphoprotein, interacts with the promoter of the cab 140 gene in Arabidopsis and is undetectable in det1 mutant seedlings. Plant Cell 5: 109-121
82. Taylor WC (1989) Regulatory interactions between nuclear and plastid genomes. Annu Rev Plant Physiol Plant Mol Biol 40: 211-233
83. Teakle GR, Kay SA (1995) The GATA-binding protein CGF-1 is closely related to GT-1. Plant Mol Biol 29: 1253-1266
84. Terzaghi WB, Cashmore AR (1995) Light-regulated transcription. Annu Rev Plant Physiol Plant Mol Biol 46: 445-474
85. Thompson WF, White MJ (1991) Physiological and molecular studies of light-regulated nuclear genes in higher plants. Annu Rev Plant Physiol Plant Mol Biol 42: 423-466
86. Tobin EM, Kehoe DM (1994) Phytochrome regulated gene expression. Semin Cell Biol 5: 335-346
87. Ulmasov T, Liu Z-B, Hagen G, Guilfoyle TJ (1995) Composite structure of auxin response elements. Plant Cell 7: 1611-1623
88. Vorst O, vanDam F, Weisbeek P, Smeekens S (1993) Light-regulated expression of the Arabidopsis thaliana ferredoxin A gene involves both transcriptional and post-transcriptional processes. Plant J 3: 793-803
89. White MJ, Fristensky BW, Falconet D, Childs LC, Watson JC (1992) Expression of the chlorophyll-a/b-protein multigene family in pea (Pisum sativum L.). Planta 188: 190-198
90. White MJ, Kaufman LS, Horwitz BA, Briggs WR, Thompson WF (1995) Individual members of the Cab gene family differ widely in fluence response. Plant Physiol 107: 161-165
91. Wingender R, Rohrig H, Horicke C, Schell J (1990) cis-Regulatory elements involved in ultraviolet light regulation and plant defense. Plant Cell 2: 1019-1026
92. Wright WE, Funk WD (1993) Casting for multicomponent DNA-binding complexes. Trends Biochem Sci 18: 77-80
93. Yamada T, Tanaka Y, Sriprasertsak F, Kato H, Hashimoto T, Shimizu H, Shiraushi T (1992) Phenylalanine ammonia-lyase genes from Pisum sativum: structure, organ specific expression and regulation by fungal elicitor and suppressor. Plant Cell Physiol 33: 715-725
94. Yamamoto KR, Pearce D, Thomas J, Miner JN (1992) Combinatorial regulation at a mammalian composite response element. In SL McKnight, KR Yamamoto, eds, Transcriptional Regulation, Vol 2. Cold Spring Harbor Laboratory, Cold Spring Harbor, NY, pp 1169-1192