Patterns of expression and normalized levels of the five Arabidopsis phytochromes

Plant Physiology

Volumn 130, Issue 1, 2002, Pages 442-456

  Sharrock, Robert A ^a   Clack, Ted ^a  

^a MONTANA STATE UNIVERSITY   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

CELLS; DNA; MONOCLONAL ANTIBODIES; PROTEINS; RNA; SEED; TISSUE;

LIGHT CONDITIONS;

PLANTS (BOTANY);

ARABIDOPSIS; EMBRYOPHYTA; EUKARYOTA;

EID: 0036741795     PISSN: 00320889     EISSN: None     Source Type: Journal    
DOI: 10.1104/pp.005389     Document Type: Article

References (72)

1. Abe H, Yamamoto KT, Nagatani A, Furuya M (1985) Characterization of green tissue-specific phytochrome isolated immunochemically from pea seedlings. Plant Cell Physiol 26: 1387-1399
2. Adam E, Kozma-Bognar L, Kolar C, Schafer E, Nagy F (1996) The tissue-specific expression of a tobacco phytochrome B gene. Plant Physiol 110: 1081-1088
3. Adam E, Szell M, Szekeres M, Schaefer E, Nagy F (1994) The developmental and tissue-specific expression of tobacco phytochrome A genes. Plant J 6: 283-293
4. Alba R, Kelmenson PM, Cordonnier-Pratt MM, Pratt LH (2000) The phytochrome gene family in tomato and the rapid differential evolution of this family in angiosperms. Mol Biol Evol 17: 362-373
5. Anderson SL, Somers DE, Millar AJ, Hanson K, Chory J, Kay SA (1997) Attenuation of phytochrome A and B signaling pathways by the Arabidopsis circadian clock. Plant Cell 9: 1727-1743
6. Aukerman MJ, Hirschfeld M, Wester L, Weaver M, Clack T, Amasino RM, Sharrock RA (1997) A deletion in the PHYD gene of the Arabidopsis Wassilewskija ecotype defines a role for phytochrome D in red/far-red light sensing. Plant Cell 9: 1317-1326
7. Boylan MT, Quail PH (1991) Phytochrome A overexpression inhibits hypocotyl elongation in transgenic Arabidopsis. Proc Natl Acad Sci USA 88: 10806-10810
8. Bradford MM (1976) A rapid and sensitive method for the quantitation of microgram quantities of protein utilizing the principle of protein-dye binding. Anal Biochem 72: 248-254
9. Cherry JR, Hondred D, Walker JM, Vierstra RD (1992) Phytochrome requires the 6-kDa N-terminal domain for full biological activity. Proc Natl Acad Sci USA 89: 5039-5043
10. Childs KL, Miller FR, Cordonnier-Pratt MM, Pratt LH, Morgan PW, Mullet JE (1997) The sorghum photoperiod sensitivity gene, Ma3, encodes a phytochrome B. Plant Physiol 113: 611-619
11. Clack T, Mathews S, Sharrock RA (1994) The phytochrome apoprotein family in Arabidopsis is encoded by five genes: the sequences and expression of PHYD and PHYE. Plant Mol Biol 25: 413-427
12. Devlin PF, Kay SA (2000) Cryptochromes are required for phytochrome signaling to the circadian clock but not for rhythmicity. Plant Cell 12: 2499-2510
13. Devlin PF, Patel SR, Whitelam GC (1998) Phytochrome E influences internode elongation and flowering time in Arabidopsis. Plant Cell 10: 1479-1487
14. 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
15. Devlin PF, Somers DE, Quail PH, Whitelam GC (1997) The Brassica rapa elongated internode (EIN) gene encodes phytochrome B. Plant Mol Biol 34: 537-547
16. Draper CK, Hays JB (2000) Replication of chloroplast, mitochondrial and nuclear DNA during growth of unirradiated and UVB-irradiated Arabidopsis leaves. Plant J 23: 255-265
17. Eichenberg K, Baurle I, Paulo N, Sharrock RA, Rudiger W, Schafer E (2000) Arabidopsis phytochromes C and E have different spectral characteristics from those of phytochromes A and B. FEBS Lett 470: 107-112
18. Furuya M (1993) Phytochromes: their molecular species, gene families, and functions. Annu Rev Plant Physiol 44: 617-645
19. Gendreau E, Hofte H, Grandjean O, Brown S, Traas J (1998) Phytochrome controls the number of endoreduplication cycles in the Arabidopsis thaliana hypocotyl. Plant J 13: 221-230
20. Gendreau E, Traas J, Desnos T, Grandjean O, Caboche M, Hofte H (1997) Cellular basis of hypocotyl growth in Arabidopsis thaliana. Plant Physiol 114: 295-305
21. Goosey L, Palecanda L, Sharrock RA (1997) Differential patterns of expression of the Arabidopsis PHYB, PHYD, and PHYE phytochrome genes. Plant Physiol 115: 959-969
22. Hamazato F, Shinomura T, Hanzawa H, Chory J, Furuya M (1997) Fluence and wavelength requirements for Arabidopsis CAB gene induction by different phytochromes. Plant Physiol 115: 1533-1540
23. Hauser BA, Cordonnier-Pratt MM, Pratt LH (1998) Temporal and photoregulated expression of five tomato phytochrome genes. Plant J 14: 431-439
24. Hauser BA, Pratt LH, Cordonnier-Pratt MM (1997) Absolute quantification of five phytochrome transcripts in seedlings and mature plants of tomato (Solanum lycopersicum L.). Planta 201: 379-387
25. Hennig L, Stoddart WM, Dieterle M, Whitelam GC, Schafer E (2002) Phytochrome E controls light-induced germination of Arabidopsis. Plant Physiol 128: 194-200
26. Hillman WS (1967) The physiology of phytochrome. Annu Rev Plant Physiol 18: 301-324
27. Hirschfeld M, Tepperman JM, Clack T, Quail PH, Sharrock RA (1998) Coordination of phytochrome levels in phyB mutants of Arabidopsis as revealed by apoprotein-specific monoclonal antibodies. Genetics 149: 523-535
28. 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
29. Joubes J, Chevalier C (2000) Endoreduplication in higher plants. Plant Mol Biol 43: 735-745
30. Kircher S, Kozma-Bognar L, Kim L, Adam E, Harter K, Schafer E, Nagy F (1999) Light quality-dependent nuclear import of the plant photoreceptors phytochrome A and B. Plant Cell 11: 1445-1456
31. Konomi K, Abe H, Furuya M (1987) Changes in the content of phytochrome I and II apoproteins in embryonic axes of pea seeds during imbibition. Plant Cell Physiol 28: 1443-1451
32. Koornneef M, Rolff E, Spruit CJP (1980) Genetic control of light-inhibited hypocotyl elongation in Arabidopsis thaliana (L.) Heynh. Z Pflanzenphysiol 100: 147-160
33. Kozma 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
34. Laemmli UK (1970) Cleavage of structure proteins during the assembly of the head of bacteriophage T4. Nature 227: 680-685
35. Lazarova GI, Kerckhoffs LH, Brandstadter J, Matsui M, Kendrick RE, Cordonnier-Pratt MM, Pratt LH (1998a) Molecular analysis of PHYA in wild-type and phytochrome A-deficient mutants of tomato. Plant J 14: 653-662
36. Lazarova GI, Kubota T, Frances S, Peters JL, Hughes MJ, Brandstadter J, Szell M, Matsui M, Kendrick RE, Cordonnier-Pratt MM et al. (1998b) Characterization of tomato PHYB1 and identification of molecular defects in four mutant alleles. Plant Mol Biol 38: 1137-1146
37. Lopez-Juez E, Nagatani A, Tomizawa K, Deak M, Kern R, Kendrick RE, Furuya M (1992) The cucumber long hypocotyl mutant lacks a light-stable PHYB-like phytochrome. Plant Cell 4: 241-251
38. Martinez-Garcia JF, Monte E, Quail PH (1999) A simple, rapid and quantitative method for preparing Arabidopsis protein extracts for immunoblot analysis. Plant J 20: 251-257
39. Mathews S, Lavin M, Sharrock RA (1995) Evolution of the phytochrome gene family and its utility for phylogenetic analyses of angiosperms. Ann Mo Bot Gard 82: 296-321
40. Mathews S, Sharrock RA (1996) The phytochrome gene family in grasses (Poaceae): a phylogeny and evidence that grasses have a subset of the loci found in dicot angiosperms. Mol Biol Evol 13: 1141-1150
41. Mathews S, Sharrock RA (1997) Phytochrome gene diversity. Plant Cell Environ 20: 666-671
42. Nelson DC, Lasswell J, Rogg LE, Cohen MA, Barrel B (2000) FKF1, a clock-controlled gene that regulates the transition to flowering in Arabidopsis. Cell 101: 331-340
43. Parks BM, Quail PH (1993) hy8, a new class of Arabidopsis long hypocotyl mutants deficient in functional phytochrome A. Plant Cell 5: 39-48
44. Pratt LH (1994) Distribution and localization of phytochrome within the plant. In RE Kendrick, GHM Kronenberg, eds, Photomorphogenesis in Plants. Kluwer Academic Publishers, Dordrecht, The Netherlands, pp 163-185
45. Pratt LH (1995) Phytochromes: differential properties, expression patterns, and molecular evolution. Photochem Photobiol 61: 10-21
46. Pyke KA, Marrison JL, Leech RM (1991) Temporal and spatial development of the cells of the expanding first leaf of Arabidopsis thaliana (L.) Heynh. J Exp Bot 42: 1407-1416
47. 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
48. Schmidt EE, Schibler U (1995) Cell size regulation, a mechanism that controls cellular RNA accumulation: consequences on regulation of the ubiquitous transcription factors Oct1 and NF-Y and the liver-enriched transcription factor DBP. J Cell Biol 128: 467-483
49. Sharrock RA, Quail PH (1989) Novel phytochrome sequences in Arabidopsis thaliana: structure, evolution, and differential expression of a plant regulatory photoreceptor family. Genes Dev 3: 1745-1757
50. Shimazaki Y, Pratt LH (1985) Immunochemical detection with rabbit polyclonal and mouse monoclonal antibodies of different pools of phytochrome from etiolated and green Avena shoots. Planta 164: 333-344
51. Shinomura T, Nagatani A, Chory J, Furuya M (1994) The induction of seed germination in Arabidopsis thaliana is regulated principally by phytochrome B and secondarily by phytochrome A. Plant Physiol 104: 363-371
52. Shinomura T, Nagatani A, Hanzawa H, Kubota M, Watanabe M, Furuya M (1996) Action spectra for phytochrome A- and B-specific photoinduction of seed germination in Arabidopsis thaliana. Proc Natl Acad Sci USA 93: 8129-8133
53. Somers DE, Devlin PF, Kay SA (1998) Phytochromes and cryptochromes in the entrainment of the Arabidopsis circadian clock. Science 282: 1488-1490
54. Somers DE, Quail PH (1995a) Phytochrome-mediated light regulation of PHYA- and PHYB-GUS transgenes in Arabidopsis thaliana seedlings. Plant Physiol 107: 523-534
55. Somers DE, Quail PH (1995b) Temporal and spatial expression patterns of PHYA and PHYB genes in Arabidopsis. Plant J 7: 413-427
56. Somers DE, Schultz TF, Milnamow M, Kay SA (2000) ZEITLUPE encodes a novel clock-associated PAS protein from Arabidopsis. Cell 101: 319-329
57. Somers DE, Sharrock RA, Tepperman JM, Quail PH (1991) The hy3 long hypocotyl mutant of Arabidopsis is deficient in phytochrome B. Plant Cell 3: 1263-1274
58. Takano M, Kanegae H, Shinomura T, Miyao A, Hirochika H, Furuya M (2001) Isolation and characterization of rice phytochrome A mutants. Plant Cell 13: 521-534
59. Tokuhisa JG, Daniels SM, Quail PH (1985) Phytochrome in green tissue: spectral and immunochemical evidence for two distinct molecular species of phytochrome in light-grown Avena sativa L. Planta 164: 321-332
60. Tokuhisa JG, Quail PH (1987) The levels of two distinct species of phytochrome are regulated differently during germination in Avena sativa L. Planta 172: 371-377
61. Toth R, Kevei EE, Hall A, Millar AJ, Nagy F, Kozma-Bognar L (2001) Circadian clock-regulated expression of phytochrome and cryptochrome genes in Arabidopsis. Plant Physiol 127: 1607-1616
62. Vogelmann TC (1994) Light within the plant. In RE Kendrick, GHM Kronenberg, eds, Photomorphogenesis in Plants, Ed 2. Kluwer Academic Publishers, Dordrecht, The Netherlands, pp 491-535
63. Wagner D, Tepperman JM, Quail PH (1991) Overexpression of phytochrome B induces a short hypocotyl phenotype in transgenic Arabidopsis. Plant Cell 3: 1275-1288
64. Wang Y-C, Cordonnier-Pratt MM, Pratt LH (1992) Detection and quantitation of three phytochromes in umimbibed seeds of Avena sativa L. Photochem Photobiol 56: 709-716
65. Wang Y-C, Cordonnier-Pratt MM, Pratt LH (1993a) Spatial distribution of three phytochromes in dark- and light-grown Avena sativa L. Planta 189: 391-396
66. Wang Y-C, Cordonnier-Pratt MM, Pratt LH (1993b) Temporal and light regulation of the expression of three phytochromes in germinating seeds and young seedlings of Avena sativa L. Planta 189: 384-390
67. Weller JL, Murfet IC, Reid JB (1997) Pea mutants with reduced sensitivity to far-red light define an important role for phytochrome A in day-length detection. Plant Physiol 114: 1225-1236
68. Weller JL, Nagatani A, Kendrick RE, Murfet IC, Reid JB (1995) New lv mutants of pea are deficient in phytochrome B. Plant Physiol 108: 525-532
69. Wester L, Somers DE, Clack T, Sharrock RA (1994) Transgenic complementation of the hy3 phytochrome B mutation and response to PHYB gene copy number in Arabidopsis. Plant J 5: 261-272
70. Whitelam GC, Devlin PF (1997) Roles of different phytochromes in Arabidopsis photomorphogenesis. Plant Cell Environ 20: 752-758
71. 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
72. Yamaguchi R, Nakamura M, Mochizuki N, Kay SA, Nagatani A (1999) Light-dependent translocation of a phytochrome B-GFP fusion protein to the nucleus in transgenic Arabidopsis. J Cell Biol 145: 437-445