The frequency gene is required for temperature-dependent regulation of many clock-controlled genes in Neurospora crassa

Genetics

Volumn 164, Issue 3, 2003, Pages 923-933

  Nowrousian, Minou ^a,b   Duffield, Giles E ^a   Loros, Jennifer J ^a   Dunlap, Jay C ^a  

^a DARTMOUTH MEDICAL SCHOOL   (United States)

^b RUHR UNIVERSITY BOCHUM   (Germany)

Author keywords

[No Author keywords available]

Indexed keywords

COMPLEMENTARY DNA; DNA BINDING PROTEIN; FRQ PROTEIN, NEUROSPORA CRASSA; FUNGAL PROTEIN; GENE PRODUCT; PRIMER DNA; PROTEIN WC 1; PROTEIN WC 2; TRANSCRIPTION FACTOR; UNCLASSIFIED DRUG; WHITE COLLAR 1;

AMINO ACID SEQUENCE; ARTICLE; BIOLOGICAL RHYTHM; CIRCADIAN RHYTHM; CONTROLLED STUDY; DNA MICROARRAY; ENVIRONMENTAL FACTOR; ENVIRONMENTAL TEMPERATURE; FEEDBACK SYSTEM; GENE CONTROL; GENE EXPRESSION; GENE FREQUENCY; GENETICS; LIGHT; NEUROSPORA CRASSA; NONHUMAN; NORTHERN BLOTTING; NUCLEOTIDE SEQUENCE; OSCILLATION; PHYSIOLOGY; PRIORITY JOURNAL; TEMPERATURE; TEMPERATURE DEPENDENCE;

BIOLOGICAL CLOCKS; BLOTTING, NORTHERN; CIRCADIAN RHYTHM; DNA PRIMERS; DNA-BINDING PROTEINS; FUNGAL PROTEINS; GENE EXPRESSION; LIGHT; NEUROSPORA CRASSA; OLIGONUCLEOTIDE ARRAY SEQUENCE ANALYSIS; TEMPERATURE; TRANSCRIPTION FACTORS;

NEUROSPORA; NEUROSPORA CRASSA;

EID: 0042709612     PISSN: 00166731     EISSN: None     Source Type: Journal    
DOI: None     Document Type: Article

References (52)

1. AKHTAR, R. A., A. B. REDDY, E. S. MAYWOOD, J. D. CLAYTON, V. M. KING et al., 2002 Circadian cycling of the mouse liver transcriptome, as revealed by cDNA microarray, is driven by the suprachiasmatic nucleus. Curr. Biol. 12: 540-550.
2. ARONSON, B., K. JOHNSON, J. J. LOROS and J. C. DUNLAP, 1994a Negative feedback defining a circadian clock: autoregulation in the clock gene frequency. Science 263: 1578-1584.
3. ARONSON, B. D., K. A. JOHNSON and J. C. DUNLAP, 1994b Circadian clock locus frequency: a single ORF defines period length and temperature compensation. Proc. Natl. Acad. Sci. USA 91: 7683-7687.
4. BALLARIO, P., P. VITTORIOSO, A. MAGRELLI, C. TALORA, A. CABIBBO et al., 1996 White collar-1, a central regulator of blue-light responses in Neurospora crassa, is a zinc-finger protein. EMBO J. 15: 1650-1657.
5. BELL-PEDERSEN, D., J. C. DUNLAP and J. J. LOROS, 1996a Distinct cis-acting elements mediate clock, light, and developmental regulation of the Neurospora crassa eas (ccg-2) gene. Mol. Cell. Biol. 16: 513-521.
6. BELL-PEDERSEN, D., M. SHINOHARA, J. LOROS and J. C. DUNLAP, 1996b Circadian clock-controlled genes isolated from Neurospora crassa are late night to early morning specific. Proc. Natl. Acad. Sci. USA 93: 13096-13101.
7. BELL-PEDERSEN, D., Z. A. LEWIS, J. J. LOROS and J. C. DUNLAP, 2001 The Neurospora circadian clock regulates a transcription factor that controls rhythmic expression of the output eas(ccg-2) gene. Mol. Microbiol. 41: 897-909.
8. BLOHM, D. H., and A. GUISEPPI-ELIE, 2001 New developments in microarray technology. Curr. Opin. Biotechnol. 12: 41-47.
9. CHAMBERGO, F. S., E. D. BONACCORSI, A. J. S. FERREIRA, A. S. P. RAMOS, J. RIBAMAR FERREIRA, JR. et al., 2002 Elucidation of the metabolic fate of glucose in the filamentous fungus Trichoderma reesei using expressed sequence tag (EST) analysis and cDNA microarrays. J. Biol. Chem. 277: 13983-13988.
10. CHENG, P., Y. YANG and Y. LIU, 2001 Interlocked feedback loops contribute to the robustness of the Neurospora circadian clock. Proc. Natl. Acad. Sci. USA 98: 7408-7413.
11. CLARIDGE-CHANG, A., H. WIJNEN, F. NAEF, C. BOOTHROYD, N. RAJEWSKY et al., 2001 Circadian regulation of gene expression systems in the Drosophila head. Neuron 32: 657-671.
12. CROSTHWAITE, S. C., J. J. LOROS and J. C. DUNLAP, 1995 Light-induced resetting of a circadian clock is mediated by a rapid increase in frequency transcript. Cell 81: 1003-1012.
13. CROSTHWAITE, S. C., J. C. DUNLAP and J. J. LOROS, 1997 Neurospora wc-1 and wc-2: transcription, photoresponses, and the origins of circadian rhythmicity. Science 276: 763-769.
14. DAVIS, R. L., and D. DESERRES, 1970 Genetic and microbial research techniques for Neurospora crassa. Methods Enzymol. 27A: 79-143.
15. DENAULT, D. L., J. J. LOROS and J. C. DUNLAP, 2001 WC-2 mediates WC-1-FRQ interaction within the PAS protein-linked circadian feedback loop of Neurospora. EMBO J. 20: 109-117.
16. DERISI, J. L., V. R. IYER and P. O. BROWN, 1997 Exploring the metabolic and genetic control of gene expression on a genomic scale. Science 278: 680-686.
17. DRAGOVIC, Z., Y. TAN, M. GORL, T. ROENNEBERG and M. MERROW, 2002 Light reception and circadian behavior in "blind" and "clock-less" mutants of Neurospora. EMBO J. 21: 3643-3651.
18. DUFFIELD, G. E., J. D. BEST, B. H. MEURERS, A. BITTNER, J. J. LOROS et al., 2002 Circadian programs of transcriptional activation, signaling, and protein turnover revealed by microarray analysis of mammalian cells. Curr. Biol. 12: 551-557.
19. DUGGAN, D., M. BITTNER, Y. CHEN, P. MELTZER and J. TRENT, 1999 Expression profiling using cDNA microarrays. Nat. Genet. 21: 10-14.
20. DUNLAP, J. C., 1998 An end in the beginning. Science 280: 1548-1549.
21. DUNLAP, J. C., 1999 Molecular bases for circadian clocks. Cell 96: 271-290.
22. EISEN, M. B., P. T. SPELLMAN, P. O. BROWN and D. BOTSTEIN, 1998 Cluster analysis and display of genome-wide expression patterns. Proc. Natl. Acad. Sci. USA 95: 14863-14868.
23. FROEHLICH, A. F., Y. Liu, J. J. LOROS and J. C. DUNLAP, 2002 WHITE COLLAR-1, a circadian blue light photoreceptor, binding to the frequency promoter. Science 297: 815-819.
24. GOERL, M., M. MERROW, B. HUTTNER, J. JOHNSON, T. ROENNEBERG et al., 2001 A PEST-like element in FREQUENCY determines the length of the circadian period in Neurospora crassa. EMBO J. 20: 7074-7084.
25. GRUNDSCHOBER, C., F. DELAUNAY, A. PÜHLHOFER, G. TRIQUENEAUX, V. LAUDET et al., 2001 Circadian regulation of diverse gene products revealed by mRNA expression profiling of synchronized fibroblasts. J. Biol. Chem. 276: 46751-46758.
26. HARMER, S. L., J. B. HOGENESCH, M. STRAUME, H.-S. CHANG, B. HAN et al., 2000 Orchestrated transcription of key pathways in Arabidopsis by the circadian clock. Science 290: 2110-2113.
27. HE, Q., P. CHENG, Y. YANG, L. WANG, K. GARDNER et al., 2002 WHITE COLLAR-1, a DNA binding transcription factor and a light sensor. Science 297: 840-842.
28. HEDGE, P., R. QI, K. ABERNATHY, C. GAY, S. DHARAP et al., 2000 A concise guide to cDNA microarray analysis. Biotechniques 29: 548-562.
29. HEINTZEN, C., J. J. LOROS and J. C. DUNLAP, 2001 The PAS protein VIVID defines a clock-associated feedback loop that represses light input, modulates gating, and regulates clock resetting. Cell 104: 453-464.
30. KNIGHT, J., 2001 When the chips are down. Nature 410: 860-861.
31. LAKIN-THOMAS, P. L., and S. BRODY, 2000 Circadian rhythms in Neurospora crassa: lipid deficiencies restore robust rhythmicity to null frequency and white-collar mutants. Proc. Natl. Acad. Sci. USA 97: 256-261.
32. LES, K., J. J. LOROS and J. C. DUNLAP, 2000 Interconnected feedback loops in the Neurospora circadian system. Science 289: 107-110.
33. LEWIS, Z. A., A. CORREA, C. SCHWERDTFEGER, K. L. LINK, X. XIE et al., 2002 Overexpression of white collar-1 (wc-1) activates circadian clock-associated genes, but is not sufficient to induce most light-regulated gene expression in Neurospora crassa. Mol. Microbiol. 45: 917-931.
34. LINDEN, H., and G. MACINO, 1997 White collar-2, a partner in blue-light signal transduction, controlling expression of light-regulated genes in Neurospora crassa. EMBO J. 16: 98-109.
35. LIU, Y., M. MERROW, J.J. LOROS and J. C. DUNLAP, 1998 HOW temperature changes reset a circadian oscillator. Science 281: 825-829.
36. LOROS, J., and J. C. DUNLAP, 1991 Neurospora crassa clock-controlled genes are regulated at the level of transcription. Mol. Cell. Biol. 11: 558-563.
37. LOROS, J. J., and J. C. DUNLAP, 2001 Genetic and molecular analysis of circadian rhythms in Neurospora. Annu. Rev. Physiol. 63: 757-794.
38. LOROS, J. J., and J. F. FELDMAN, 1986 Loss of temperature compensation of circadian period length in the frq-9 mutant of Neurospora crassa. J. Biol. Rhythms 1: 187-198.
39. LOROS, J. J., S. A. DENOME and J. C. DUNLAP, 1989 Molecular cloning of genes under the control of the circadian clock in Neurospora. Science 243: 385-388.
40. MANIATIS, T., E. F. FRITSCH and J. SAMROOK, 1982 Molecular Cloning: A Laboratory Manual. Cold Spring Harbor Laboratory Press, Cold Spring Harbor, NY.
41. McDONALD, M. J., and M. ROSBASH, 2001 Microarray analysis and organization of circadian gene expression in Drosophila. Cell 107: 567-578.
42. MERROW, M., M. BRUNNER and T. ROENNEBERG, 1999 Assignment of circadian function for the Neurospora clock gene frequency. Nature 399: 584-586.
43. MERROW, M., T. ROENNEBERG, G. MACINO and L. FRANCHI, 2001a A fungus among us: the Neurospora crassa circadian system. Semin. Cell Dev. Biol. 12: 279-285.
44. MERROW, M., L. FRANCHI, Z. DRAGOVIC, M. GÖRL, J. JOHNSON et al., 2001b Circadian regulation of the light input pathway in Neurospora crassa. EMBO J. 20: 307-315.
45. PEROU, C. M., T. SORLIE, M. B. EISEN, M. VAN DE RIJN, S. S. JEFFREY et al., 2000 Molecular portraits of human breast tumors. Nature 406: 747-752.
46. RAMSDALE, M., and P. L. LAKIN-THOMAS, 2000 sn-1,2-Diacylglycerol levels in the fungus Neurospora crassa display circadian rhythmicity. J. Biol. Chem. 275: 27541-27550.
47. SCHENA, M., D. SHALON, R. W. DAVIS and P. O. BROWN, 1995 Quantitative monitoring of gene expression patterns with a complementary DNA microarray. Science 270: 467-470.
48. SCHWERDTFEGER, C., and H. LINDEN, 2003 VIVID is a flavoprotein and serves as a fungal blue light photoreceptor for photoadaptation. EMBO J. (in press).
49. TALORA, C., L. FRANCHI, H. LINDEN, P. BALLARIO and G. MACINO, 1999 Role of a white collar-1-white collar-2 complex in blue-light signal transduction. EMBO J. 18: 4961-4968.
50. WILSON, M., J. DERISI, H. H. KRISTENSEN, P. IMBODEN, S. RANE et al., 1999 Exploring drug-induced alterations in gene expression in Mycobacterium tuberculosis by microarray hybridization. Proc. Natl. Acad. Sci. USA 96: 12833-12838.
51. YARDEN, O., M. PLAMANN, D. EBBOLE and C. YANOFSKY, 1992 cot-1, a gene required for hyphal elongation in Neurospora crassa, encodes a protein kinase. EMBO J. 11: 2159-2166.
52. ZHU, H., M. NOWROUSIAN, D. KUPPER, H. V. COLOT, G. BERROCALTITO et al., 2001 Analysis of expressed sequence tags from two starvation, time of day-specific libraries of Neurospora crassa reveals novel clock-controlled genes. Genetics 157: 1057-1065.