A role for a replicator dominance mechanism in silencing

EMBO Journal

Volumn 18, Issue 13, 1999, Pages 3808-3819

  Palacios DeBeer, Madeleine A ^a   Fox, Catherine A ^a  

^a UNIVERSITY OF WISCONSIN SCHOOL OF MEDICINE AND PUBLIC HEALTH   (United States)

Author keywords

ORC; Origins; Replication; Silencers; Yeast

Indexed keywords

ARTICLE; DNA FLANKING REGION; DNA REPLICATION ORIGIN; FUNGAL GENETICS; GENE INACTIVATION; GENE MUTATION; GENE SILENCING; PRIORITY JOURNAL;

ALLELES; BINDING SITES; CELL DIVISION; DNA REPLICATION; DNA-BINDING PROTEINS; GENES, FUNGAL; HISTONE DEACETYLASES; MODELS, GENETIC; MUTATION; ORIGIN RECOGNITION COMPLEX; REGULATORY SEQUENCES, NUCLEIC ACID; REPLICATION ORIGIN; SACCHAROMYCES CEREVISIAE; SACCHAROMYCES CEREVISIAE PROTEINS; SILENT INFORMATION REGULATOR PROTEINS, SACCHAROMYCES CEREVISIAE; SIRTUINS; TELOMERE; TRANS-ACTIVATORS; TRANSCRIPTION, GENETIC;

EID: 0033168182     PISSN: 02614189     EISSN: None     Source Type: Journal    
DOI: 10.1093/emboj/18.13.3808     Document Type: Article

References (63)

1. Abraham, J., Nasmyth, K.A., Strathern, J.N., Klar, A.J. and Hicks, J.B. (1984) Regulation of mating-type information in yeast: negative control requiring sequences both 5′ and 3′ to the regulated region. J. Mol. Biol., 176, 307-331.
2. Bell, S.P. and Stillman, B. (1992) ATP-dependent recognition of eukaryotic origins of DNA replication by a multiprotein complex. Nature, 357, 128-134.
3. Bell, S.P., Kobayashi, R. and Stillman, B. (1993) Yeast origin recognition complex functions in transcription silencing and DNA replication. Science, 262, 1844-1849.
4. Bell, S.P., Mitchell, J., Leber, J., Kobayashi, R. and Stillman, B. (1995) The multidomain structure of Orc1p reveals similarity to regulators of DNA replication and transcriptional silencing. Cell, 83, 563-568.
5. Bielinsky, A. and Gerbi, S.A. (1998) Discrete start sites for DNA synthesis in the yeast ARS1 origin. Science, 279, 95-98.
6. Brand, A.H., Micklem, G. and Nasmyth, K. (1987) A yeast silencer contains sequences that can promote autonomous plasmid replication and transcriptional activation. Cell, 51, 709-719.
7. Brewer, B.J. and Fangman, W.L. (1987) The localization of replication origins on ARS plasmids in S.cerevisiae. Cell, 51, 463-471.
8. Brewer, B.J. and Fangman, W.L. (1993) Initiation at closely spaced replication origins in a yeast chromosome. Science, 262, 1728-1731.
9. Carpenter, P.B., Mueller, P.R. and Dunphy, W.G. (1996) Role for a Xenopus Orc2-related protein in controlling DNA replication. Nature, 379, 357-360.
10. Chien, C.T., Buck, S., Sternglanz, R. and Shore, D. (1993) Targeting of Sir1 protein establishes transcriptional silencing at HM loci and telomeres in yeast. Cell, 75, 531-541.
11. DePamphilis, M.L. (1996) Origins of DNA replication. In DePamphilis, M.L. (ed.), DNA Replication in Eukaryotic Cells. Cold Spring Harbor Laboratory Press, Cold Spring Harbor, NY, pp. 45-86.
12. DePamphilis, M.L. (1999) Replication origins in metazoan chromosomes: fact or fiction? BioEssays, 21, 5-16.
13. Dershowitz, A. and Newlon, C.S. (1993) The effect on chromosome stability of deleting replication origins. Mol. Cell. Biol., 13, 391-398.
14. Deshpande, A.M. and Newlon, C.S. (1992) The ARS consensus sequence is required for chromosomal origin function in Saccharomyces cerevisiae. Mol. Cell. Biol., 12, 4305-4313.
15. Dillin, A. and Rine, J. (1995) On the origin of a silencer. Trends Biochem. Sci., 20, 231-235.
16. Dillin, A. and Rine, J. (1997) Separable function of ORC5 in replication initiation and silencing in Saccharomyces cerevisiae. Genetics, 147, 1053-1062.
17. Dubey, D.D., Davis, L.R., Greenfeder, S.A., Ong, L.Y., Zhu, J.G., Broach, J.R., Newlon, C.S. and Huberman, J.A. (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.
18. Dubey, D.D., Zhu, J., Carlson, D.L., Sharma, K. and Huberman, J.A. (1994) Three ARS elements contribute to the ura4 replication origin region in the fission yeast, Schizosaccharomyces pombe. EMBO J., 13, 3638-3647.
19. Ehrenhofer-Murray, A., Gossen, M., Pak, D., Botchan, M.R. and Rine, J. (1995) Separation of origin recognition complex functions by cross-species complementation. Science, 270, 1671-1674.
20. Fangman, W.L. and Brewer, B.J. (1991) Activation of replication origins within yeast chromosomes. Annu. Rev. Cell Biol., 7, 375-402.
21. Foss, M., McNally, F.J., Laurenson, P. and Rine, J. (1993) A role of the origin recognition complex (ORC) in transcriptional silencing and DNA replication in Saccharomyces cerevisiae. Science, 262, 1838-1844.
22. Fox, C.A., Loo, S., Dillin, A. and Rine, J. (1995) The origin recognition complex has essential functions in transcriptional silencing and chromosomal replication. Genes Dev., 9, 911-924.
23. Fox, C.A., Ehrenhofer-Murray, A.E., Loo, S. and Rine, J. (1997) The origin recognition complex, SIR1 and the S-phase requirement for silencing. Science, 276, 1547-1551.
24. Friedman, K.L., Brewer, B.J. and Fangman, W.L. (1997) Replication profile of Saccharomyces cerevisiae chromosome VI. Genes Cells, 2, 667-678.
25. Gardner, K.A., Rine, J. and Fox, C.A. (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.
26. Gavin, K.A., Hidaka, M. and Stillman, B. (1995) Conserved initiator proteins in eukaryotes. Science, 270, 1667-1671.
27. Gossen, M., Pak, D.T.S., Hansen, S.K., Acharya, J.K. and Botchan, M.R. (1995) A Drosophila homolog of the yeast origin recognition complex. Science, 270, 1674-1677.
28. Greenfeder, S.A. and Newlon, C.S. (1992) A replication map of a 61-kb circular derivative of Saccharomyces cerevisiae chromosome III. Mol. Cell. Biol., 3, 999-1013.
29. Grunstein, M. (1997) Molecular model for telomeric heterochromatin in yeast. Curr. Opin. Cell Biol., 9, 383-387.
30. Guthrie, C. and Fink, G.R. (1991) Guide to Yeast Genetics and Molecular Biology. Academic Press, San Diego, CA.
31. Hand, R. (1978) Eukaryotic DNA: organization of the genome for replication. Cell, 15, 317-325.
32. Hecht, A., Laroche, T., Strahl, B.S., Gasser, S.M. and Grunstein, M. (1995) Histone H3 and H4 N-termini interact with Sir3 and Sir4 proteins: a molecular model for the formation of heterochromatin in yeast. Cell, 80, 583-592.
33. Hecht, A., Strahl-Bolsinger, S. and Grunstein, M. (1996) Spreading of transcriptional represser SIR3 from telomeric heterochromatin. Nature, 383, 92-96.
34. Herman, P.K. and Rine, J. (1997) Yeast spore germination: a requirement for RAS protein activity during re-entry into the cell cycle. EMBO J., 16, 6171-6181.
35. Herskowitz, I., Rine, J. and Strathern, J. (1992) Mating-type determination and mating-type interconversion in Saccharomyces cerevisiae. In Jones, E.W., Pringle, J.R. and Broach, J.R (eds), The Molecular and Cellular Biology of the Yeast Saccharomyces cerevisiae: Gene Expression. Cold Spring Harbor Laboratory Press, Cold Spring Harbor, NY, pp. 583-656.
36. Hogan, E. and Koshland, D. (1992) Addition of extra origins of replication to a minichromosome suppresses its mitotic loss in cdc6 and cdc14 mutants of Saccharomyces cerevisiae. Proc. Natl Acad. Sci. USA, 89, 3098-3102.
37. Huang, R.-Y. and Kowalski, D. (1993) A DNA unwinding element and an ARS consensus comprise a replication origin within a yeast chromosome. EMBO J., 12, 4521-4531.
38. Hurst, S.T. and Rivier, D.H. (1999) Identification of a compound origin of replication at the HMR-E locus in Sacharomyces cerevisiae. J. Biol. Chem., 274, 4155-4159.
39. Jacob, F., Brenner, S. and Cuzin, F. (1963) On the regulation of DNA replication in bacteria. Cold Spring Harbor Symp. Quant. Biol., 28, 328-448.
40. Lee, D.G. and Bell, S.P. (1997) Architecture of the yeast origin recognition complex bound to origins of DNA replication. Mol. Cell. Biol., 17, 7159-7168.
41. Li, J.J. and Herskowitz, I. (1993) Isolation of ORC6, a component of the yeast origin recognition complex by a one-hybrid system. Science, 262, 1870-1874.
42. Liang, C., Weinreich, M. and Stillman, B. (1995) ORC and Cdc6p interact and determine the frequency of initiation of DNA replication in the genome. Cell, 81, 667-676.
43. Loo, S. and Rine, J. (1995) Silencing and domains of heritable gene expression. Annu. Rev. Cell. Dev. Biol., 11, 519-548.
44. Loo, S., Fox, C.A., Rine, J., Kobayashi, R., Stillman, B. and Bell, S. (1995a) The origin recognition complex in silencing, cell-cycle progression and DNA replication. Mol. Biol. Cell, 6, 741-756.
45. Loo, S., Laurenson, P., Foss, M., Dillin, A. and Rine, J. (1995b) Roles of ABF1, NPL3 and YCL54 in silencing in Saccharomyces cerevisiae. Genetics, 141, 889-902.
46. Marahrens, Y. and Stillman, B. (1992) A yeast chromosomal origin of DNA replication defined by multiple functional elements. Science, 255, 817-823.
47. Marahrens, Y. and Stillman, B. (1994) Replicator dominance in a eukaryotic chromosome. EMBO J., 13, 3395-3400.
48. McNally, F.J. and Rine, J. (1991) A synthetic silencer mediates SIR-dependent functions in Saccharomyces cerevisiae. Mol. Cell. Biol., 11, 5648-5659.
49. Micklem, G., Rowley, A., Harwood, J., Nasmyth, K. and Diffley, J.F. (1993) Yeast origin recognition complex is involved in DNA replication and transcriptional silencing. Nature, 366, 87-89.
50. Newlon, C.S. (1996) DNA replication in yeast. In DePamphilis, M.L. (ed.), DNA Replication in Eukaryotic Cells. Cold Spring Harbor University Press, Cold Spring Harbor, NY, pp. 873-914.
51. Newlon, C.S., Collins, I., Dershowitz, A., Deshpande, A.M., Greenfeder, S.A., Ong, L.Y. and Theis, J.F. (1993) Analysis of replication origin function on chromosome III of Saccharomyces cerevisiae. Cold Spring Harbor Symp. Quant. Biol., 58, 415-423.
52. Reynolds, A.E., McCarroll, R.M., Newlon, C.S. and Fangman, W.L. (1989) Time of replication of ARS elements along yeast chromosome III. Mol. Cell. Biol., 9, 4488-4494.
53. Rivier, D.H. and Rine, J. (1992) An origin of DNA replication and a transcription silencer require a common element. Science, 256, 659-663.
54. Rivier, D.H., Ekena, J.L. and Rine, J. (1999) HMR-1 is an origin of replication and a silencer in Saccharomyces cerevisiae. Genetics, 151, 521-529.
55. Sambrook, J., Fritsch, E.F. and Maniatis, T. (1989) Molecular Cloning: A Laboratory Manual. Cold Spring Harbor Laboratory Press, Cold Spring Harbor, NY.
56. Shore, D. (1994) RAP1: a protean regulator in yeast. Trends Genet., 10, 408-412.
57. Stillman, B. (1993) DNA replication. Replicator renaissance. Nature, 366, 506-507.
58. Strahl-Bolsinger, S., Hecht, A., Luo, K. and Grunstein, M. (1997) Sir2 and Sir4 interactions differ in core and extended telomeric heterochromatin in yeast. Genes Dev., 11, 83-93.
59. Thomas, B.J. and Rothstein, R. (1989) Elevated recombination rates in transcriptionally active DNA. Cell, 56, 619-630.
60. Triolo, T. and Sternglanz, R. (1996) Role of interactions between the origin recognition complex and Sir1 in transcriptional silencing. Nature, 381, 251-253.
61. Van Houten, J.V. and Newlon, C.S. (1990) Mutational analysis of the consensus sequence of a replication origin from yeast chromosome III. Mol. Cell. Biol., 10, 3917-3925.
62. Walter, J., Sun, L. and Newport, J. (1998) Regulated chromosomal DNA replication in the absence of a nucleus. Mol. Cell, 1, 519-529.
63. Yamashita, M., Shinomiya, T., Obuse, C., Tsurimoto, T., Yoshikawa, H. and Shirahige, K. (1997) The efficiency and timing of initiation of replication of multiple replicons of Saccharomyces cerevisiae chromosome VI. Genes Cells, 2, 655-665.