A novel yeast silencer: The 2μ origin of Saccharomyces cerevisiae has HST3-, MIG1- and SIR-dependent silencing activity

Genetics

Volumn 162, Issue 1, 2002, Pages 59-71

  Grünweller, Arnold ^a   Ehrenhofer Murray, Ann E ^a  

^a MAX PLANCK INSTITUTE FOR MOLECULAR GENETICS   (Germany)

Author keywords

[No Author keywords available]

Indexed keywords

FUNGAL PROTEIN; HISTONE DEACETYLASE; PROTEIN HST3; PROTEIN MIG1; RIBOSOME DNA; SILENT INFORMATION REGULATOR PROTEIN; TRANSCRIPTION FACTOR AP 1; UNCLASSIFIED DRUG;

ARTICLE; BINDING SITE; CONTROLLED STUDY; GENE ACTIVITY; GENE CONSTRUCT; GENE EXPRESSION; GENE LOCUS; GENE REPRESSION; GENE SILENCING; GENETIC SCREENING; GENOME; NONHUMAN; PLASMID; PRIORITY JOURNAL; SACCHAROMYCES CEREVISIAE;

FUNGAL PROTEINS; GENE SILENCING; PLASMIDS; PRECIPITIN TESTS; REPLICATION ORIGIN; RNA, MESSENGER; SACCHAROMYCES CEREVISIAE; TRANSCRIPTION, GENETIC;

SACCHAROMYCES; SACCHAROMYCES CEREVISIAE;

EID: 0036741532     PISSN: 00166731     EISSN: None     Source Type: Journal    
DOI: None     Document Type: Article

References (61)

1. Andrulis, E. D., A. M. Neiman, D. C. Zappulla and R. Sternglanz, 1998 Perinuclear localization of chromatin facilitates transcriptional silencing. Nature 394: 592-595.
2. Aparicio, O. M., and D. E. Gottschling, 1994 Overcoming telomeric silencing: a trans-activator competes to establish gene expression in a cell cycle-dependent way. Genes Dev. 8: 1133-1146.
3. Aparicio, O. M., B. L. Billington and D. E. Gottschung, 1991 Modifiers of position effect are shared between telomeric and silent mating-type loci in S. cerevisiae. Cell 66: 1279-1287.
4. Boeke, J. D., F. LaCroute and G. R. Fink, 1984 A positive selection for mutants lacking orotidine-5′-phosphate decarboxylase activity in yeast: 5-fluoro-orotic acid resistance. Mol. Gen. Genet. 197: 345-346.
5. Bone, J. R., and S. Y. Roth, 2001 Recruitment of the yeast Tup1p-Ssn6p repressor is associated with localized decreases in histone acetylation. J. Biol. Chem. 276: 1808-1813.
6. Brachmann, C. B., J. M. Sherman, S. E. Devine, E. E. Cameron, L. Pillus et al., 1995 The SIR2 gene family, conserved from bacteria to humans, functions in silencing, cell cycle progression, and chromosome stability. Genes Dev. 9: 2888-2902.
7. Braunstein, M., A. B. Rose, S. G. Holmes, C. D. Allis and J. R. Broach, 1993 Transcriptional silencing in yeast is associated with reduced nucleosome acetylation. Genes Dev. 7: 592-604.
8. Broach, J. R., and F. C. Volkert, 1991 Circular DNA plasmids in yeast, pp. 297-329 in The Molecular and Cellular Biology of the Yeast Saccharomyces cerevisiae: Genome Dynamics, Protein Synthesis, and Energetics. Cold Spring Harbor Laboratory Press, Cold Spring Harbor, NY.
9. Dubey, D. D., L. R. Davis, S. A. Greenfeder, L. Y. Ong, J. G. Zhu et al., 1991 Evidence suggesting that the ARS elements associated with silencers of the yeast mating-type locus HML do not function as chromosomal DNA replication origins. Mol. Cell. Biol. 11: 5346-5355.
10. Ehrenhofer-Murray, A., M. Gossen, D. Pak, M. R. Botchan and J. Rine, 1995 Separation of origin recognition complex functions by cross-species complementation. Science 270: 1671-1674.
11. Fangman, W. L., and B. J. Brewer, 1991 Activation of replication origins within yeast chromosomes. Annu. Rev. Cell Biol. 7: 375-402.
12. Fourel, G., E. Revardel, C. E. Koering and E. Gilson, 1999 Cohabitation of insulators and silencing elements in yeast subtelomeric regions. EMBO J. 18: 2522-2537.
13. Fox, C. A., S. Loo, A. Dillin and J. Rine, 1995 The origin recognition complex has essential functions in transcriptional silencing and chromosomal replication. Genes Dev. 9: 911-924.
14. Fox, C. A., A. E. Ehrenhofer-Murray, S. Loo and J. Rine, 1997 The origin recognition complex, SIR1, and the S phase requirement for silencing. Science 276: 1547-1551.
15. Friedman, K. L., M. K. Raghuraman, W. L. Fangman and B. J. Brewer, 1995 Analysis of the temporal program of replication initiation in yeast chromosomes. J. Cell Sci. Suppl. 19: 51-58.
16. Friedman, K. L., J. D. Diller, B. M. Ferguson, S. V. Nyland, B. J. Brewer et al., 1996 Multiple determinants controlling activation of yeast replication origins late in S phase. Genes Dev. 10: 1595-1607.
17. Gardner, K. A., J. Rine and C. A. Fox, 1999 A region of the Sir1 protein dedicated to recognition of a silencer and required for interaction with the Orc1 protein in Saccharomyces cerevisiae. Genetics 151: 31-44.
18. Gottschling, D. E., O. M. Aparicio, B. L. Billington and V. A. Zakian, 1990 Position effect at S. cerevisiae telomeres: reversible repression of Pol II transcription. Cell 63: 751-762.
19. Hecht, A., B. S. Strahl and M. Grunstein, 1996 Spreading of transcriptional repressor Sir3 from telomerc heterochromatin. Nature 383: 92-96.
20. Huberman, J. A., L. D. Spotila, K. A. Nawotka, S. M. El-Assouli and L. R. Davis, 1987 The in vivo replication origin of the yeast 2 microns plasmid. Cell 51: 473-481.
21. Imai, S., C. M. Armstrong, M. Kaeberlein and L. Guarente, 2000 Transcriptional silencing and longevity, protein Sir2 is an NAD-dependent histone deacetylase. Nature 403: 795-800.
22. Ito H.,Y. Fukuda, K. Murata and A. Kimura. 1983 Transformation of intact yeast cells treated with alkali cations. J. Bacteriol. 153: 163-168.
23. Landry, J., A. Sutton, S. T. Tafrov, R. C. Heller, J. Stebbins et al., 2000 The silencing protein SIR2 and its homologs are NAD-dependent protein deacetylases. Proc. Natl. Acad. Sci. USA 97: 5807-5811.
24. Loo, S., and J. Rine, 1994 Silencers and domains of generalized repression. Science 264: 1768-1771.
25. Loo, S., and J. Rine, 1995 Silencing and domains of heritable gene expression. Annu. Rev. Cell Dev. Biol. 11: 519-548.
26. Marahrens, Y., and B. Stillman, 1992 A yeast chromosomal origin of DNA replication defined by multiple functional elements. Science 255: 817-823.
27. McNally, F. J., and J. Rine, 1991 A synthetic silencer mediates SIR-dependent functions in Saccharomyces cerevisiae. Mol. Cell. Biol. 11: 5648-5659.
28. Nehlin, J. O., M. Carlberg and H. Ronne, 1991 Control of yeast GAL genes by MIG1 repressor: a transcriptional cascade in the glucose response. EMBO J. 10: 3373-3377.
29. Nielsen, A. L., M. Oulad-Abdelghani, J. A. Ortiz, E. Remboutsika, P. Chambon et al., 2001 Heterochromatin formation in mammalian cells: interaction between histones and HP1 proteins. Mol. Cell 7: 729-739.
30. Ostling, J., and H. Ronne, 1998 Negative control of the Mig1p repressor by Snf1p-dependent phosphorylation in the absence of glucose. Eur. J. Biochem. 252: 162-168.
31. Pak, D. T., M. Pflumm, I. Chesnokov, D. W. Huang, R. Kellum et al., 1997 Association of the origin recognition complex with heterochromatin and HP1 in higher eukaryotes. Cell 91: 311-323.
32. Palacios DeBeer, M. A., and C. A. Fox, 1999 A role for a replicator dominance mechanism in silencing. EMBO J. 18: 3808-3819.
33. Perrod, S., M. M. Cockell, T. Laroche, H. Renauld, A. Ducrest et al., 2001 A cytosolic NAD-dependent deacetylase, Hst2p, can modulate nucleolar and telomeric silencing in yeast. EMBO J. 20: 197-209.
34. Pryde, F. E., and E. J. Louis, 1999 Limitations of silencing at native yeast telomeres. EMBO J. 18: 2538-2550.
35. Quandt, K., K. Frech, H. Karas, E. Wingender and T. Werner, 1995 MatInd and MatInspector: new fast and versatile tools for detection of consensus matches in nucleotide sequence data. Nucleic Acids Res. 23: 4878-4884.
36. Rao, H., Y. Marahrens and B. Stillman, 1994 Functional conservation of multiple elements in yeast chromosomal replicators. Mol. Cell. Biol. 14: 7643-7651.
37. Reynolds, A. E., R. M. McCarroll, C. S. Newlon and W. L. Fangman, 1989 Time of replication of ARS elements along yeast chromosome III. Mol. Cell. Biol. 9: 4488-4494.
38. Rivier, D. H., and J. Rine, 1992 An origin of DNA replication and a transcription silencer require a common element. Science 256: 659-663.
39. Rivier, D. H., J. L. Ekena and J. Rine, 1999 HMR-I is an origin of replication and a silencer in Saccharomyces cerevisiae. Genetics 151: 521-529.
40. Roy, A., F. Exinger and R. Losson, 1990 cis-and trans-acting regulatory elements of the yeast URA3 promoter. Mol. Cell. Biol. 10: 5257-5270.
41. Rusche, L. N., and J. Rine, 2001 Conversion of a gene-specific repressor to a regional silencer. Genes Dev. 15: 955-967.
42. Sambrook, J., E. F. Fritsch and T. Maniatis, 1989 Molecular Cloning: A Laboratory Manual. Cold Spring Harbor Laboratory Press, Cold Spring Harbor, NY.
43. Sherman, F., 1991 Getting started with yeast. Methods Enzymol. 194: 3-21.
44. Sherman, J. M., E. M. Stone, L. L. Freeman-Cook, C. B. Brachmann, J. D. Boeke et al., 1999 The conserved core of a human SIR2 homologue functions in yeast silencing. Mol. Biol. Cell 10: 3045-3059.
45. Sikorski, R. S., and P. Hieter, 1989 A system of shuttle vectors and yeast host strains designed for efficient manipulation of DNA in Saccharomyces cerevisiae. Genetics 122: 19-27.
46. Singh, J., and A. J. Klar, 1992 Active genes in budding yeast display enhanced in vivo accessibility to foreign DNA methylases: a novel in vivo probe for chromatin structure of yeast. Genes Dev. 6: 186-196.
47. Smith, J. S., and J. D. Boeke, 1997 An unusual form of transcriptional silencing in yeast ribosomal DNA. Genes Dev. 11: 241-254.
48. Smith, J. S., C. B. Brachmann, I. Celic, M. A. Kenna, S. Muhammad et al., 2000 A phylogenetically conserved NAD+-dependent protein deacetylase activity in the Sir2 protein family. Proc. Natl. Acad. Sci. USA 97: 6658-6663.
49. Som, T., K. A. Armstrong, F. C. Volkert and J. R. Broach, 1988 Autoregulation of 2 micron circle gene expression provides a model for maintenance of stable plasmid copy levels. Cell 52: 27-37.
50. Stevenson, J. B., and D. E. Gottschling, 1999 Telomeric chromatin modulates replication timing near chromosome ends. Genes Dev. 13: 146-151.
51. Sutton, A., R. C. Heller, J. Landry, J. S. Chov, A. Sirko et al., 2001 A novel form of transcriptional silencing by Sum1-1 requires Hst1 and the origin recognition complex. Mol. Cell. Biol. 21: 3514-3522.
52. Tanny, J. C., and D. Moazed, 2001 Coupling of histone deacetylation to NAD breakdown by the yeast silencing protein Sir2: evidence for acetyl transfer from substrate to an NAD breakdown product. Proc. Natl. Acad. Sci. USA 98: 415-420.
53. Treitel, M. A., and M. Carlson, 1995 Repression by SSN6-TUP1 is directed by MIG1, a repressor/activator protein. Proc. Natl. Acad. Sci. USA 92: 3132-3136.
54. Triolo, T., and R. Sternglanz, 1996 Role of interactions between the origin recognition complex and SIR1 in transcriptional silencing. Nature 381: 251-253.
55. Uetz, P., L. Giot, G. Cagney, T. A. Mansfield, R. S. Judson et al., 2000 A comprehensive analysis of protein-protein interactions in Saccharomyces cerevisiae. Nature 403: 623-627.
56. Wach, A., A. Brachat, R. Pohlmann and P. Philippsen, 1994 New heterologous modules for classical or PCR-based gene disruptions in Saccharomyces cerevisiae. Yeast 10: 1793-1808.
57. Weiler, K. S., and B. T. Wakimoto, 1995 Heterochromatin and gene expression in Drosophila. Annu. Rev. Genet. 29: 577-605.
58. Wu, J., N. Suka, M. Carlson and M. Grunstein, 2001 TUP1 utilizes histone H3/H2B-specific HDA1 deacetylase to repress gene activity in yeast. Mol. Cell 7: 117-126.
59. Wyrick, J. J., F. C. Holstege, E. G. Jennings, H. C. Causton, D. Shore et al., 1999 Chromosomal landscape of nucleosome-dependent gene expression and silencing in yeast. Nature 402: 418-421.
60. Xie, J., M. Pierce, V. Gailus-Durner, M. Wagner, E. Winter et al., 1999 Sum1 and Hst1 repress middle sporulation-specific gene expression during mitosis in Saccharomyces cerevisiae. EMBO J. 18: 6448-6454.
61. Zakian, V. A., B. J. Brewer and W. L. Fangman, 1979 Replication of each copy of the yeast 2 micron DNA plasmid occurs during the S phase. Cell 17: 923-934.