The conserved core of a human SIR2 homologue functions in yeast silencing

Molecular Biology of the Cell

Volumn 10, Issue 9, 1999, Pages 3045-3059

  Sherman, Joyce M ^a   Stone, Elisa M ^a,d   Freeman Cook, Lisa L ^a   Brachmann, Carrie B ^b   Boeke, Jef D ^c   Pillus, Lorraine ^a,d  

^a UNIVERSITY OF COLORADO   (United States)

^b WASHINGTON UNIVERSITY SCHOOL OF MEDICINE   (United States)

^c JOHNS HOPKINS UNIVERSITY SCHOOL OF MEDICINE   (United States)

^d UNIVERSITY OF CALIFORNIA   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

ZINC FINGER PROTEIN;

ARTICLE; CHIMERA; CHROMATIN STRUCTURE; CONSENSUS SEQUENCE; EVOLUTION; GENE SILENCING; NONHUMAN; PRIORITY JOURNAL; PROTEIN LOCALIZATION; SACCHAROMYCES CEREVISIAE; TELOMERE; TRANSCRIPTION INITIATION; TRANSCRIPTION REGULATION; YEAST;

FUNGI; MYXOGASTRIA; SACCHAROMYCES CEREVISIAE;

EID: 0032823749     PISSN: 10591524     EISSN: None     Source Type: Journal    
DOI: 10.1091/mbc.10.9.3045     Document Type: Article

References (62)

1. Aparicio, O.M., Billington, B.L., and Gottschling, D.E. (1991). Modifiers of position effect are shared between telomeric and silent mating-type loci in S. cerevisiae. Cell 66, 1279-1287.
2. Aris, J.P., and Blobel, G. (1988). Identification and characterization of a yeast nucleolar protein that is similar to a rat liver nucleolar protein. J. Cell Biol. 107, 17-31.
3. Brachmann, C.B., Sherman, J.M., Devine, S.E., Cameron, E.E., Pillus, L., and Boeke, J.D. (1995). The SIR2 gene family, conserved from bacteria to humans, functions in silencing, cell cycle progression and chromosome stability. Genes & Dev. 9, 2888-2902.
4. Braunstein, M., Rose, A.B., Holmes, S.G., Allis, C.D., and Broach, J.R. (1993). Transcriptional silencing in yeast is associated with reduced nucleosome acetylation. Genes & Dev. 7, 592-604.
5. Braunstein, M., Sobel, R., Allis, C.D., Turner, B.M., and Broach, J.R. (1996). Efficient transcriptional silencing in Saccharomyces cerevisiae requires a heterochromatin histone acetylation pattern. Mol. Cell. Biol. 16, 4349-4356.
6. Bryk, M., Banarjee, M., Murphy, M., Knudsen, K.E., Garfinkel, D.J., and Curcio, M.J. (1997). Transcriptional silencing of Ty1 elements in the RDN1 locus of yeast. Genes & Dev. 11, 255-269.
7. Buchman, A.R., Kimmerly, W.J., Rine, J., and Kornberg, RD. (1988). Two DNA-binding factors recognize specific sequences at silencers, upstream activating sequences, autonomously replicating sequences, and telomeres in Saccharomyces cerevisiae. Mol. Cell. Biol. 8, 210-225.
8. Buck, S.W., and Shore, D. (1995). Action of a RAP1 carboxy-terminal silencing domain reveals an underlying competition between HMR and telomeres in yeast. Genes & Dev. 9, 370-384.
9. Chen, X.-J., and Clark-Walker, G.D. (1994). sir2 mutants of Kluyveromyces lactis are hypersensitive to DNA-targeting drugs. Mol. Cell. Biol. 14, 4501-4508.
10. Coleman, J.E. (1992). Zinc proteins: enzymes, storage proteins, transcription factors and replication proteins. Annu. Rev. Biochem. 61, 897-946.
11. Cormack, B.P., Strubin, M., Ponticelli, A.S., and Struhl, K. (1991). Functional differences between yeast and human TFIID are localized to the highly conserved region. Cell 65, 341-348.
12. Derbyshire, M.K., Weinstock, K.G., and Strathern, J.N. (1996). HST1, a new member of the SIR2 family of genes. Yeast 12, 631-640.
13. Ersfeld, K., and Stone, E.M. (1999). Simultaneous in situ detection of DNA and proteins. In: The Practical Approach Series, ed. V. Allan, New York: Oxford University Press (in press).
14. Freeman-Cook, L.L., Sherman, J.M., Brachman, C.B., Allshire, R.C., Boeke, J.D., and Pillus, L. (1999). The Schizosaccharomyces pombe hst4+ gene is a SIR2 homologue with silencing and centromeric functions. Mol. Biol. Cell (in press).
15. Fritze, C., and Esposito, E. (1997). Direct evidence for SIR2 modulation of chromatin structure in yeast rDNA. EMBO J. 16, 6495-6509.
16. Gdula, D.A., Sandaltzopoulos, R., Tsukiyama, T., Ossipow, V., and Wu, C. (1998). Inorganic pyrophosphatase is a component of the Drosophila nucleosome remodeling factor complex. Genes & Dev. 12, 3206-3216.
17. Gill, G., and Tjian, R. (1991). A highly conserved domain of TFIID displays species specificity in vivo. Cell 65, 333-340.
18. Gotta, M., Strahl-Bolsinger, S., Renauld, H., Laroche, T., Kennedy, B.K., Grunstein, M., and Gasser, S.M. (1997). Localization of Sir2p: the nucleolus as a compartment for silent information regulators. EMBO J. 16, 3243-3255.
19. Gottlieb, S., and Esposito, R.E. (1989). A new role for a yeast transcriptional silencer gene, SIR2, in regulation of recombination in ribosomal DNA. Cell 56, 771-776.
20. Gottschling, D.E. (1992). Telomere-proximal DNA in Saccharomyces cerevisiae is refractory to methyltransferase activity in vivo. Proc. Natl. Acad. Sci. USA 89, 4062-4065.
21. Gottschling, D.E., Aparicio, O.M., Billington, B.L., and Zakian, V.A. (1990). Position effect at S. cerevisiae telomeres: reversible repression of Pol II transcription. Cell 63, 751-762.
22. Harlow, E., and Lane, D. (1988). Antibodies, a Laboratory Manual, Cold Spring Harbor, NY: Cold Spring Harbor Laboratory Press.
23. Hecht, A., Laroche, T., Strahl-Bolsinger, 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.
24. Hecht, A., Strahl-Bolsinger, S., and Grunstein, M. (1996). Spreading of transcriptional repressor SIR3 from telomeric heterochromatin. Nature 383, 92-96.
25. Henikoff, S., and Matzke, M.A. (1997). Exploring and explaining epigenetic effects. Trends Genet. 13, 293-295.
26. Hill, I.E., Myers, A.M., Koerner, T.J., and Tzagaloff, A. (1986). Yeast/E. coli shuttle vectors with multiple unique restriction sites. Yeast 2, 163-167.
27. Holmes, S.G., Rose, A.B., Steuerle, K., Saez, E., Sayegh, S., Lee, Y.M., and Broach, J.R. (1997). Hyperactivation of the silencing proteins, Sir2p and Sir3p, causes chromosome loss. Genetics 145, 605-614.
28. Ivy, J.M., Klar, A.J.S., and Hicks, J.B. (1986). Cloning and characterization of four SIR genes of Saccharomyces cerevisiae. Mol. Cell. Biol. 6, 688-702.
29. Jeppesen, P., and Turner, B.M. (1993). The inactive X chromosome in female mammals is distinguished by a lack of histone H4 acetylation, a cytogenetic marker for gene expression. Cell 74, 282-289.
30. Kadonaga, J.T. (1998). Eukaryotic transcription: an interlaced network of transcription factors and chromatin modifying machines. Cell 92, 307-313.
31. Lin, R., Leone, J.W., Cook, R.J., and Allis, C.D. (1989). Antibodies specific to acetylated histones document the existence of deposition- and transcription-related histone acetylation in Tetrahymena. J. Cell Biol. 108, 1577-1588.
32. Loo, S., and Rine, J. (1994). Silencers and domains of generalized repression. Science 264, 1768-1771.
33. Loo, S., and Rine, J. (1995). Silencing and heritable domains of gene expression. Annu. Rev. Cell Dev. Biol. 11, 519-548.
34. Maillet, L., Boscheron, C., Gotta, M., Marcand, S., Gilson, E., and Gasser, S.M. (1996). Evidence for silencing compartments within the yeast nucleus: a role for telomere proximity and Sir protein concentration in silencer-mediated repression. Genes & Dev. 10, 1796-1811.
35. Moazed, D., and Johnson, A.D. (1996). A deubiquitinating enzyme interacts with SIR4 and regulates silencing in S. cerevisiae. Cell 86, 667-677.
36. Moazed, D., Kistler, A., Axelrod, A., Rine, J., and Johnson., A.D. (1997). Silent information regulator protein complexes in Saccharomyces cerevisiae: a SIR2/SIR4 complex and evidence for a regulatory domain in SIR4 that inhibits its interaction with SIR3. Proc. Natl. Acad. Sci. USA 94, 2186-2191.
37. Moran, E., and Matthews, M.B. (1987). Multiple functional domains in the adenovirus E1A gene. Cell 48, 177-178.
38. Nasmyth, K.A. (1982). The regulation of yeast mating-type chromatin structure by SIR: an action at a distance affecting both transcription and transposition. Cell 30, 567-578.
39. O'Neill, L.P., and Turner, B.M. (1995). Histone H4 acetylation distinguishes coding regions of the human genome from heterochromatin in a differentiation-dependent, but transcription-independent manner. EMBO J. 14, 3936-3939.
40. Parsell, D.A., and Sauer, R.T. (1989). The structural stability of a protein is an important determinant of its proteolytic susceptibility in E. coli. J. Biol. Chem. 264, 7590-7595.
41. Perez-Martin, J., Uria, J.A., and Johnson, A.D. (1999). Phenotypic switching in Candida albicans is controlled by a SIR2 gene. EMBO J. 18, 2580-2592.
42. Reddy, P., and Hahn, S. (1991). Dominant negative mutations in yeast TFIID define a bipartite DNA-binding region. Cell 65, 349-357.
43. Renauld, H., Aparicio, O.M., Zierath, P.D., Billington, B.L., Chhablani, S.K., and Gottschling, D.E. (1993). Silent domains are assembled continuously from the telomere and are defined by promoter distance and strength, and SIR3 dosage. Genes & Dev. 7, 1133-1145.
44. Rine, J., and Herskowitz, I. (1987). Four genes responsible for a position effect on expression from HML and HMR in Saccharomyces cerevisiae. Genetics 116, 9-22.
45. Rose, M.D., Winston, F., and Hieter, P. (1989). Laboratory Course Manual for Methods in Yeast Genetics, Cold Spring Harbor, NY: Cold Spring Harbor Laboratory Press.
46. Russo, V.E.A., Martienssen, R.A., and Riggs, A.D. (eds.) (1996). Epigenetic Mechanisms of Gene Regulation, New York: Cold Spring Harbor Laboratory Press.
47. Sambrook, J., Fritsch, E.F., and Maniatis, T. (1989). Molecular Cloning: a Laboratory Manual, Cold Spring Harbor, NY: Cold Spring Harbor Press.
48. Sherman, J.M., and Pillus, L. (1997). An uncertain silence. Trends Genet. 13, 308-313.
49. Shore, D., and Nasmyth, K. (1987). Purification and cloning of a DNA binding protein from yeast that binds to both silencer and activator elements. Cell 53, 721-732.
50. Shore, D., Squire, M., and Nasmyth, K.A. (1984). Characterization of two genes required for the position-effect control of yeast mating-type genes. EMBO J. 3, 2817-2823.
51. Sikorski, R.S., and Hieter, P. (1989). A system of shuttle vectors and yeast host strains designed for efficient manipulation of DNA in Saccharomyces cerevisiae. Genetics 122, 19-27.
52. Singh, J., and Klar, A.J.S. (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.
53. Smith, J.S., and Boeke, J.D. (1997). An unusual form of transcriptional silencing in yeast ribosomal DNA. Genes & Dev. 11, 241-254.
54. Smith, J.S., Brachmann, C.B., Pillus, L., and Boeke, J.D. (1998). Distribution of a limited Sir2 protein pool regulates the strength of yeast rDNA silencing and is modulated by Sir4p. Genetics 149, 1205-1219.
55. 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.
56. Struhl, K. (1996). Chromatin structure and the RNA polymerase II connection: implications for transcription. Cell 84, 179-182.
57. Thomas, B.J., and Rothstein, R. (1989). Elevated recombination rates in transcriptionally active DNA. Cell 56, 619-630.
58. Tsang, A.W., and Escalante-Semerena, J.G. (1998). CobB, a new member of the SIR2 family of eukaryotic regulatory proteins, is required to compensate for the lack of nicotinate mononucleotide:5,6-dimethylbenzimidazole phosphoribosyltransferase activity in cobT mutants during cobalamin biosynthesis in Salmonella typhimurium LT2. J. Biol. Chem. 273, 31788-31794.
59. Turner, B.M., Birley, A.J., and Jayne, L. (1992). Histone H4 isoforms acetylated at specific lysine residues define individual chromosomes and chromatin domains in Drosophila polytene nuclei. Cell 69, 375-384.
60. Winston, F., Dollard, C., and Ricupero-Hovasse, S.L. (1995). Construction of a set of convenient Saccharomyces cerevisiae strains that are isogenic to S288C. Yeast 11, 53-55.
61. Workman, J.L., and Kingston, R.E. (1998). Alteration of nucleosome structure as a mechanism of transcriptional regulation. Annu. Rev. Biochem. 67, 545-579.
62. Yahiaoui, B., Taibi, A., and Ouaissi, A. (1996). A Leishmania major protein with extensive homology to silent information regulator 2 of Saccharomyces cerevisiae. Gene 169, 115-118.