The function of circadian RNA-binding proteins and their cis-acting elements in microalgae

Chronobiology International

Volumn 20, Issue 4, 2003, Pages 529-541

  Mittag, Maria ^a  

^a FRIEDRICH SCHILLER UNIVERSITY JENA   (Germany)

Author keywords

Biological clock; Chlamydomonas reinhardtii; Circadian rhythm; Gonyaulax polyedra; RNA binding protein

Indexed keywords

ARGININE; BINDING PROTEIN; CARBON DIOXIDE; CIS ACTING ELEMENT; LUCIFERIN BINDING PROTEIN; MESSENGER RNA; PROTEIN CHLAMY1; RNA BINDING PROTEIN; UNCLASSIFIED DRUG;

ALGA; BINDING AFFINITY; BIOLOGICAL RHYTHM; BIOLUMINESCENCE; CHLAMYDOMONAS REINHARDTII; CIRCADIAN RHYTHM; CORRELATION ANALYSIS; DINOFLAGELLATE; GENE EXPRESSION; GONYAULAX POLYEDRA; NITROGEN METABOLISM; NONHUMAN; PHYLOGENY; PROTEIN BINDING; PROTEIN EXPRESSION; PROTEIN INTERACTION; REVIEW; RNA BINDING; RNA TRANSLATION; UNTRANSLATED REGION;

ANIMALS; BIOLOGICAL CLOCKS; CHLAMYDOMONAS REINHARDTII; CIRCADIAN RHYTHM; GENE EXPRESSION REGULATION; LUMINESCENT MEASUREMENTS; RNA-BINDING PROTEINS;

ALGAE; CHLAMYDOMONAS; CHLAMYDOMONAS REINHARDTII; CHLOROPHYTA; DINOPHYCEAE; EUKARYOTA; GONYAULAX; GONYAULAX POLYEDRA;

EID: 0042165843     PISSN: 07420528     EISSN: None     Source Type: Journal    
DOI: 10.1081/CBI-120022411     Document Type: Review

References (59)

1. Abrahams, J. P., Van den Berg, M., Van Batenburg, E., Pleij, C. (1990). Prediction of RNA secondary structure, including pseudoknotting, by computer simulation. Nucleic Acids Res. 18:3035-3044.
2. Bruce, V. G. (1970). The biological clock in Chlamydomonas reinhardtii. J. Protozool. 17:328-334.
3. Bruce, V. G. (1972). Mutants of the biological clock in Chlamydomonas reinhardtii. Genetics 70:537-548.
4. Bruce, V. G., Bruce, N. C. (1978). Diploids of clock mutants of Chlamydomonas reinhardtii. Genetics 89:225-233.
5. Byrne, T. E., Wells, M. R., Johnson, C. H. (1992). Circadian rhythms of chemotaxis to ammonium and methylammonium uptake in Chlamydomonas. Plant Physiol. 98:879-886.
6. Decker, C, J., Parker, R. (1995). Diversity of cytoplasmic functions for the 3′ untranslated region of eukaryotic transcripts. Curr. Opin. Cell Biol. 7:386-392.
7. Fagan, T., Morse, D., Hastings, J. W. (1999). Circadian synthesis of a nuclear-encoded chloroplast glyceraldehyde-3-phosphate dehydrogenase in the dinoflagellate Gonyaulax polyedra is translationally controlled. Biochem. 38:7689-7695.
8. Fogel, M., Schmitter, R. E., Hastings, J. W. (1972). On the physical identity of scintillons: bioluminescent particles in Gonyaulax polyedra. J. Cell Sci. 11:305-317.
9. Fritz, L., Morse, D., Hastings, J. W. (1990). The circadian bioluminescence rhythm of Gonyaulax is related to daily variations in the number of light-emitting organelles. J. Cell Sci. 95:321-328.
10. 2 availability. Proc. Natl. Acad. Sci. USA 98: 5347-5352.
11. Gao, F. B. (2002). Understanding fragile X syndrome: Insights from retarded flies. Neuron. 34:859-862.
12. Goodenough, U. W. (1992). Green yeast. Cell 70:533-538.
13. Goto, K., Johnson, C. H. (1995). Is the cell division cycle gated by a circadian clock? The case of Chlamydomonas reinhardtii. J. Cell Biol. 129:1061-1069.
14. Harmer, S. L., Hogenesch, J. B., Straume, M., Chang, H.-S., Han, B., Zhu, T., Wang, X., Kreps, J. A., Kay, S. A. (2000). Orchestrated transcription of key pathways in Arabidopsis by the circadian clock. Science 290:2110-2113.
15. Harris, E. H. (2001). Chlamydomonas as model organism. Annu. Rev. Plant Physiol. Plant Mol. Biol. 52:363-406.
16. Hastings, J. W., Sweeney, B. M. (1958). A persistent diurnal rhythm of luminescence in Gonyaulax polyedra. Biol. Bull. 115:440-458.
17. Hastings, J. W., Astrachan, L., Sweeney, B. M. (1961). A persistent diurnal rhythm in photosynthesis. J. Gen. Physiol. 45:69-76.
18. Heintzen, C., Nater, M., Apel, K., Staiger, D. (1997). AtGRP7, a nuclear RNA-binding protein as a component of a circadian-regulated negative feedback loop in Arabidopsis thaliana. Proc. Natl. Acad. Sci. USA 94:8515-8520.
19. Hippler, M., Klein, J., Fink, T, Allinger, T, Hoerth, P. (2001). Towards functional proteomics of membrane protein complexes: analysis of thylakoid membrane fractions in Chlamydomonas reinhardtii. Plant J. 28:595-606.
20. Jacobshagen, S., Whetsine, J. R., Boling, J. M. (2001). Many but not all genes in Chlamydomonas reinhardtii are regulated by the circadian clock. Plant Biol. 3:592-597.
21. Johnson, C. H., Roeber, J., Hastings, J. W. (1984). Circadian changes in enzyme concentration account for rhythm of enzyme activity. Science 223:1428-1430.
22. Kilz, S., Budzikiewicz, H., Waffenschmidt, S. (2002). In-gel deglycosylation of sodium-dodecyl sulfate-polyacrylamide gel electrophoresis separated glycoproteins for carbohydrate estimation by matrix-assisted laser desorption/ionization time-of-flight mass spectrometry. J. Mass Spectrom. 37:331-335.
23. Kozak, M. (1991). An analysis of vertebrate mRNA sequences: intimations of translational control. J. Cell Biol. 115:887-903.
24. Lee, D. H., Mittag, M., Sczekan, S. (1993). Molecular cloning and genomic organization of a gene for luciferin-binding protein from the dinoflagellate Gonyaulax polyedra. J. Biol. Chem. 268:8842-8850.
25. Lemaire, S. D., Stein, M., Issakidis-Bourguet, E., Keryer, E., Benoit, V., Pineau, B., Gerard-Hirne, C., Miginiac-Maslow, M., Jacquot, Y.-P. (1999). The complex regulation of ferredoxin/thioredoxin-related genes by light and the circadian clock. Planta 209:221-229.
26. Lorkovic, Z. J., Barta, A. (2002). Genome analysis: RNA recognition motif (RRM) and K homology (KH) domain RNA-binding proteins from the flowering plant Arabidopsis thaliana. Nucleic Acid Res. 30:623-635.
27. Marcovic, P., Roenneberg, T., Morse, D. (1996). Phased protein synthesis at several circadian times does not change protein levels in Gonyaulax. J. Biol. Rhythms 11: 57-67.
28. McNeil, G. P., Zhang, X., Genova, G., Jackson, F. R. (1998). A molecular rhythm mediating circadian clock output in Drosophila. Neuron. 20:297-303.
29. Melkonian, M., Marin, B., Surek, B. (1995). Phylogeny and evolution of the algae. In: Arai, R., Kato, M., Doi, Y., eds. Biodiversity and Evolution. Tokyo: The National Science Museum Foundation, pp. 153-176.
30. Mergenhagen, D. (1984). Circadian clock: genetic characterization of a short period mutant of Chlamydomonas reinhardtii. Eur. J. Cell Biol. 33:13-18.
31. Mergenhagen, D., Mergenhagen, E. (1987). The biological clock of Chlamydomonas reinhardtii in space. Eur. J. Cell Biol. 43:203-207.
32. Milos, P., Morse, D., Hastings, J. W. (1990). Circadian control over synthesis of many Gonyaulax proteins is at a translational level. Naturwissenschaften 77:87-89.
33. Mittag, M. (1996). Conserved circadian elements in phylogenetically diverse algae. Proc. Natl. Acad. Sci. USA 93:14401-14404.
34. Mittag, M. (2001). Circadian rhythms in microalgae. Internat. Rev. Cytol. 206:213-247.
35. Mittag, M., Hastings, J. W. (1996). Exploring the signaling pathway of circadian bioluminescence. Physiol. Plant. 96:727-732.
36. Mittag, M., Waltenberger, H. (1997). In vitro mutagenesis of binding site elements of the clock-controlled proteins CCTR and Chlamy 1. Biol. Chem. 378:1167-1170.
37. Mittag, M., Lee, D. H., Hastings, J. W. (1994). Circadian expression of the luciferin-binding protein correlates with the binding of a protein to the 3′ untranslated region of its mRNA. Proc. Natl. Acad. Sci. USA 91:5257-5261.
38. Mittag, M., Eckerskorn, C., Strupat, K., Hastings, J. W. (1997). Differential translational initiation of lbp mRNA is caused by a 5′ upstream open reading frame. FEBS Lett. 411:245-250.
39. Mittag, M., Li, L. M., Hastings, J. W. (1998). The mRNA level of the circadian regulated Gonyaulax luciferase remains constant over the cycle. Chronobiol. Internat. 15:93-98.
40. Morse, D., Mittag, M. (2000). Dinoflagellate luciferin-binding protein. Methods in Enzymol. 305:258-276.
41. Morse, D., Fritz, L., Hastings, J. W. (1990). What is the clock? Translational regulation of circadian bioluminescence. TIBS 15:262-265.
42. Morse, D., Pappenheimer, A. M., Hastings, J. W. (1989a). Role of the luciferin-binding protein in the circadian bioluminescent reaction of Gonyaulax polyedra. J. Biol. Chem. 264:11822-11826.
43. Morse, D., Milos, P. M., Roux, E., Hastings, J. W. (1989b). Circadian regulation of the synthesis of substrate binding protein in the Gonyaulax bioluminescent system involves translational control. Proc. Natl. Acad. Sci. USA 86:172-176.
44. Nicolas, M. T., Nicolas, G., Johnson, C. H., Bassot, J.-M., Hastings, J. W. (1987). Characterization of the bioluminescent organelles in Gonyaulax polyedra (dinoflagellates) after fast-freeze fixation and antiluciferase immunogold staining. J. Cell Biol. 105:723-735.
45. Nikaido, S. S., Johnson, C. H. (2000). Daily and circadian variation in survival from ultraviolet radiation in Chlamydomonas reinhardtii. Photochem. Photobiol. 71:758-765.
46. Pain, V. M. (1996). Initiation of protein synthesis in eukaryotic cells. Eur. J. Biochem. 236:747-771.
47. Pajuelo, E., Pajuelo, P., Clemente, M. T., Márquez, J. (1995). Regulation of the expression of ferredoxin-nitrite reductase in synchronous cultures of Chlamydomonas reinhardtii. Biochim. Biophys. Acta 1249:72-78.
48. Panda, S., Antoch, M. P., Miller, B. H., Si, A. I., Schook, A. B., Straume, M., Schultz, P. G., Kay, S. A., Takahashi, J. S., Hagenesch, J. B. (2002). Coordinated transcription of key pathways in the mouse by the circadian clock. Cell 109:307-320.
49. Piechulla, B. (1999). Circadian expression of the light-harvesting complex protein genes in plants. Chronobiol. Internat. 16:115-128.
50. Pohl, R. (1948). Tagesrhythmus im phototaktischen Verhalten der Euglena gracilis. Z. Naturforsch. B: Anorg. Chem., Org. Chem., Biochem., Biophys. 3B:388-392.
51. Roenneberg, T. (1996). The complex circadian system of Gonyaulax polyedra. Physiol. Plant. 96:733-737.
52. Roenneberg, T., Hastings, J. W. (1992). Cell movement and pattern formation in Gonyaulax polyedra. In: Rensing, L., ed. Oscillations and Morphogenesis. New York: Marcel Dekker, pp. 399-412.
53. Roenneberg, T., Mittag, M. (1996). The circadian program of algae. Semin. Cell Devel. Biol. 7:753-763.
54. Salvador, M. L., Klein, U., Bogorad, L. (1998). Endogenous fluctuations of DNA topology in the chloroplast of Chlamydomonas reinhardtii. Mol. Cell. Biol. 18:7235-7242.
55. Straley, S. C., Bruce, V. G. (1979). Stickiness to glass: circadian changes in the cell surface of Chlamydomonas reinhardtii. Plant Physiol. 63:1175-1181.
56. Suzuki, L., Johnson, C. H. (2001). Algae know the time of day: Circadian and photoperiodic programs. J. Phycol. 37:933-942.
57. Sweeney, B. M., Hastings, J. W. (1958). Rhythmic cell division in populations of Gonyaulax polyedra. J. Protozool. 5:217-224.
58. Waltenberger, H., Schneid, C., Grosch, J. O., Bareiss, A., Mittag, M. (2001). Identification of target mRNAs from C. reinhardtii for the clock-controlled RNA-binding protein Chlamy 1. Mol. Genet. Genom. 265:180-188.
59. Werner, R. (2002). Chlamydomonas reinhardtii as a unicellular model for circadian rhythm analysis. Chronobiol. Internat. 19:1-19.