Essential functional interactions of SAGA, a Saccharomyces cerevisiae complex of spt, ada, and gcn5 proteins, with the snf/swi and srb/mediator complexes

Genetics

Volumn 147, Issue 2, 1997, Pages 451-465

  Roberts, Shannon M ^a   Winston, Fred ^a  

^a HARVARD MEDICAL SCHOOL   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

HISTONE; HISTONE ACETYLTRANSFERASE; RNA POLYMERASE II; TRANSCRIPTION FACTOR;

ARTICLE; COMPLEX FORMATION; GENE MUTATION; GENE OVEREXPRESSION; LETHAL MUTANT; NONHUMAN; PRIORITY JOURNAL; SACCHAROMYCES CEREVISIAE; TRANSCRIPTION REGULATION;

FUNGAL PROTEINS; GENES, SYNTHETIC; MUTATION; PHENOTYPE; PROTEIN BINDING; SACCHAROMYCES CEREVISIAE;

ADA; SACCHAROMYCES CEREVISIAE;

EID: 0030876429     PISSN: 00166731     EISSN: None     Source Type: Journal    
DOI: None     Document Type: Article

References (98)

1. ABRAMS, E., L. NEIGEBORN and M. CARLSON, 1986 Molecular analysis of SNF2 and SNF5, genes required for expression of glucose-repressible genes in Saccharomyces cerevisiae. Mol. Cell. Biol. 6: 3643-3651.
2. AUSUBEL, F. M., R. BRENT, R. E. KINGSTON, D. D. MOORE, J. G. SEIDMAN et al., 1988 Current Protocols in Molecular Biology. Greene Publishing Associates and Wiley-Interscience, New York.
3. BARBERIS, A., J. PEARLBERG, N. SIMKOVICH, S. FARRELL, P. REINAGEL et al., 1995 Contact with a component of the polymerase II holoenzyme suffices for gene activation. Cell 81: 359-368.
4. BARLEV, N. A., C. REYES, L. WANG, P. DARPINO, N. SILVERMAN et al., 1995 Characterization of physical interactions of the putative transcriptional adaptor, ADA2, with acidic activation domains and the TATA-binding protein. J. Biol. Chem. 270: 19337-19344.
5. BERGER, S. L., B. PINA, N. SILVERMAN, G. A. MARCUS, J. AGAPITE et al., 1992 Genetic isolation of ADA2: a potential transcriptional adaptor required for function of certain acidic activation domains. Cell 70: 251-265.
6. 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.
7. BOSSIE, M. A., C. DEHORATIUS, G. BARCELO and P. SILVER, 1992 A mutant nuclear protein with similarity to RNA binding proteins interferes with nuclear import in yeast. Mol. Biol. Cell 3: 875-893.
8. BRANDL, C. J., J. A. MARTENS, A. MARGALIOT, D. STENNING, A. M. FURLANETTO et al., 1996 Structure/functional properties of the yeast dual regulator protein NGGI that are required for glucose repression. J. Biol. Chem. 271: 9298-9306.
9. BROWNELL, J. E., and C. D. ALLIS, 1996 Special HATs for special occasions: linking histone acetylation to chromatin assembly and gene activation. Gurr. Opin. Genet. Dev. 6: 176-184.
10. BROWNELL, J. E., J. ZHOU, T. RANALLI, R. KOBAYASHI, D. G. EDMONDSON et al., 1996 Tetrahymena histone acetyltransferase A: a homolog to yeast Gcn5p linking histone acetylation to gene activation. Cell 84: 843-851.
11. CAIRNS, B. R., Y. J. KIM, M. H. SAYRE, B. C. LAURENT and R. D. KORNBERG, 1994 A multisubunit complex containing the SWI1/ ADR6, SWI2/SNF2, SWI3, SNF5, and SNF6 gene products isolated from yeast. Proc. Natl. Acad. Sci. USA 91: 1950-1954.
12. CAIRNS, B. R., N. L. HENRY and R. D. KORNBERG, 1996a TFG3/ TAF30/ANC1, a component of the yeast SWI/SNF complex that is similar to the leukemogenic proteins ENL and AF-9. Mol. Cell. Biol. 16: 3308-3316.
13. CAIRNS, B. R., R. S. LEVINSON, K. R. YAMAMOTO and R. D. KORNBERG, 1996b Essential role of Swp73p in the function of yeast Swi/ Snf complex. Genes Dev. 10: 2131-2144.
14. CAIRNS, B. R., Y. LORCH, Y. LI, M. C. ZHANG, L. LACOMIS et al., 1996c Rsc, an essential, abundant chromatin-remodeling complex. Cell 87: 1249-1260.
15. CANDAU, R., and S. L. BERGER, 1996 Structural and functional analysis of yeast putative adaptors. Evidence for an adaptor complex in vivo. J. Biol. Chem. 271: 5237-5245.
16. CANDAC, R., P. A. MOORE, L. WANG, N. BARLEV, C. Y. YING et al., 1996 Identification of human proteins functionally conserved with the yeast putative adaptors ADA2 and GCN5. Mol. Cell. Biol. 16: 593-602.
17. CANDAU, R., J. ZHOU, C. ALLIS and S. BERGER, 1997 Histone acetyltransferase and interaction with ADA2 are critical for GCN5 function in vivo. EMBO J. 16: 555-565.
18. CARLSON, M., 1997 Genetics of transcriptional regulation in yeast: connections to the RNA polymerase II CTD. Annu. Rev. Cell. Dev. Biol. 13: 1-23.
19. CARLSON, M., B. C. OSMOND, L. NEIGEBORN and D. BOTSTEIN, 1984 A suppressor of snf1 mutations causes constitutive high-level invertase synthesis in yeast. Genetics 107: 19-32.
20. CHEE, M., R. YANG, E. HUBBELL, A. BERNO, X. C. HUANG et al., 1996 Accessing genetic information with high-density DNA arrays. Science 274: 610-614.
21. CHEN, S., R. WEST, S. JOHNSON, G. HANS, B. KRUGER et al., 1993a TSF3, a global regulatory protein that silences transcription of yeast GAL genes, also mediates repression by α2 repressor and is identical to SIN4. Mol. Cell. Biol. 13: 831-840.
22. CHEN, S., R. W. J. WEST, J. MA, S. L. JOHNSON, H. GANS et al., 1993b TSF1 to TSF6, required for silencing the Saccharomyces cerevisiae GAL genes, are global regulatory genes. Genetics 134: 701-716.
23. CHIANG, Y. C., P. KOMARNITSKY, D. CHASE and C. L. DENIS, 1996 ADR1 activation domains contact the histone acetyltransferase GCN5 and the core transcriptional factor TFIIB. J. Biol. Chem. 271: 32359-32365.
24. CHOI, K. Y, B. SATTERBERG, D. M. LYONS and E. A. ELION, 1994 Ste5 tethers multiple protein kinases in the MAP kinase cascade required for mating in S. cerevisiae. Cell 78: 499-512.
25. CHRISTIANSON, T. W., R. S. SIKORSKI, M. DANTE, J. H. SHERO and P. HIETER, 1992 Multifunctional yeast high-copy-number shuttle vectors. Gene 110: 119-122.
26. CôTé, J., J. QUINN, J. L. WORKMAN and C. L. PETERSON, 1994 Stimulation of GAL4 derivative binding to nucleosomal DNA by the yeast SWI/SNF complex. Science 265: 53-60.
27. EISENMANN, D. M., K. M. ARNDT, S. L. RICUPERO, J. W. ROONEY and F. WINSTON, 1992 SPT3 interacts with TFIID to allow normal transcription in Saccharomyces cerevisiae. Genes Dev. 6: 1319-1331.
28. EISENMANN, D. M., C. CHAPON, S. M. ROBERTS, C. DOLLARD and F. WINSTON, 1994 The Saccharomyces cerevisiae SPT8 gene encodes a very acidic protein that is functionally related to SPT3 and TATA-binding protein. Genetics 137: 647-657.
29. ELION, E. A., B. SATTERBERG and J. E. KRANZ, 1993 FUS3 phosphorylates multiple components of the mating signal transduction cascade: evidence for STE12 and FAR1. Mol. Biol. Cell 4: 495-510.
30. FRANGIONI, J. V., and B. G. NEEL, 1993 Solubilization and purification of enzymatically active glutathione S-transferase (pGEX) fusion proteins. Anal. Biochem. 210: 179-187.
31. GANSHEROFF, L. J., C. DOLLARD, P. TAN and F. WINSTON, 1995 The Saccharomyces cerevisiae SPT7 gene encodes a very acidic protein important for transcription in vivo. Genetics 139: 523-536.
32. GEORGAKOPOULOS, T., and G. THIREOS, 1992 Two distinct yeast transcriptional activators require the function of the GCN5 protein to promote normal levels of transcription. EMBO J. 11: 4145-4152.
33. GIETZ, R. D., and A. SUGINO, 1988 New yeast-Escherichia coli shuttle vectors constructed with in vitro mutagenized yeast genes lacking six-base pair restriction sites. Gene 74: 527-534.
34. GRANT, P., L. DUGGAN, J. CôTé, S. ROBERTS, J. BROWNELL et al., 1997 Yeast Gcn5 functions in two multisubunit complexes to acetylate nucleosomal histones: characterization of an Ada complex and the SAGA (Spt/Ada) complex. Genes Dev. 11: 1640-1650.
35. GUARENTE, L., 1995 Transcriptional coactivators in yeast and beyond. Trends Biochem. Sci. 20: 517-521.
36. HENGARTNER, C. J., C. M. THOMPSON, J. ZHANG, D. M. CHAO, S. M. LIAO et al., 1995 Association of an activator with an RNA polymerase II holoenzyme. Genes Dev. 9: 897-910.
37. HIMMELFARB, H. J., J. PEARLBERG, D. H. LAST and M. PTASHNE, 1990 GAL11P: a yeast mutation that potentiates the effect of weak GAL4-derived activators. Cell 63: 1299-1309.
38. HIRSCHHORN, J. N., S. A. BROWN, C. D. CLARK and F. WINSTON, 1992 Evidence that SNF2/SWI2 and SNF5 activate transcription in yeast by altering chromatin structure. Genes Dev. 6: 2288-2298.
39. HORIUCHI, J., N. SILVERMAN, G. A. MARCUS and L. GUARENTE, 1995 ADA3, a putative transcriptional adaptor, consists of two separable domains and interacts with ADA2 and GCN5 in a trimeric complex. Mol. Cell. Biol. 15: 1203-1209.
40. HORIUCHI, J., N. SILVERMAN, B. PIN̄A, G.A. MARCUS and L. GUARENTE, 1997 ADA1, a novel component of the ADA/GCN5 complex, has broader effects than GCN5, ADA2, or ADA3. Mol. Cell. Biol. 17: 3220-3228.
41. IMBALZANO, A. N., H. KWON, M. R. GREEN and R. E. KINGSTON, 1994 Facilitated binding of TATA-binding protein to nucleosomal DNA. Nature 370: 481-485.
42. JIANG, Y. W., and D. J. STILLMAN, 1992 Involvement of the SIN4 global transcriptional regulator in the chromatin structure of Saccharomyces cerevisiae. Mol. Cell. Biol. 12: 4503-4514.
43. JIANG, Y. W., and D. J. STILLMAN, 1995 Regulation of HIS4 expression by the Saccharomyces cerevisiae SIN4 transcriptional regulator. Genetics 140: 103-114.
44. JIANG, Y. W., P. R. DOHRMANN and D. J. STILLMAN, 1995 Genetic and physical interactions between yeast RGR1 and SIN4 in chromatin organization and transcriptional regulation. Genetics 140: 47-54.
45. KANG, J. J., D. T. AUBLE, J. A. RANISH and S. HAHN, 1995 Analysis of the yeast transcription factor TFIIA: distinct functional regions and a polymerase II-specific role in basal and activated transcription. Mol. Cell. Biol. 15: 1234-1243.
46. KIM, Y. J., S. BJORKLUND, Y. LI, M. H. SAYRE and R. D. KORNBERG, 1994 A multiprotein mediator of transcriptional activation and its interaction with the C-terminal repeat domain of RNA polymerase II. Cell 77: 599-608.
47. KINGSTON, R. E., C. A. BUNKER and A. N. IMBALZANO, 1996 Repression and activation by multiprotein complexes that alter chromatin structure. Genes Dev. 10: 905-920.
48. KOLESKE, A. J., and R. A. YOUNG, 1994 An RNA polymerase II holoenzyme responsive to activators. Nature 368: 466-469.
49. KOLESKE, A. J., S. BURATOWSKI, M. NONET and R. A. YOUNG, 1992 A novel transcription factor reveals a functional link between the RNA polymerase II CTD and TFIID. Cell 69: 883-894.
50. KOSHLAND, D., J. C. KENT and L. H. HARTWELL, 1985 Genetic analysis of the mitotic transmission of minichromosomes. Cell 40: 393-403.
51. KRANZ, J. E., and C. HOLM, 1990 Cloning by function: an alternative approach for identifying yeast homologs of genes from other organisms. Proc. Natl. Acad. Sci. USA 87: 6629-6633.
52. KRUGER, W., and I. HERSKOWITZ, 1991 A negative regulator of HO transcription, SIN1 (SPT2), is a nonspecific DNA-binding protein related to HMG1. Mol. Cell. Biol. 11: 4135-4146.
53. KRUGER, W., C. L. PETERSON, A. SIL, C. COBURN, G. ARENTS et al., 1995 Amino acid substitutions in the structured domains of histones H3 and H4 partially relieve the requirement of the yeast SWI/SNF complex for transcription. Genes Dev. 9: 2770-2779.
54. KUO, M. H., J. E. BROWNELL, R. E. SOBEL, T. A. RANALLI, R. G. COOK et al., 1996 Transcription-linked acetylation by Gcn5p of histones H3 and H4 at specific lysines. Nature 383: 269-272.
55. KWON, H., A. N. IMBALZANO, P. A. KHAVARI, R. E. KINGSTON and M. R. GREEN, 1994 Nucleosome disruption and enhancement of activator binding by a human SWI/SNF complex. Nature 370: 477-481.
56. LAI, J. S., and W. HERR, 1992 Ethidium bromide provides a simple tool for identifying genuine DNA-independent protein associations. Proc. Natl. Acad. Sci. USA 89: 6958-6962.
57. LI, Y., S. BJORKLUND, Y. W. JIANG, Y. J. KIM, W. S. LANE et al., 1995 Yeast global transcriptional regulators Sin4 and Rgr1 are components of mediator complex/RNA polymerase II holoenzyme. Proc. Natl. Acad. Sci. USA 92: 10864-10868.
58. MADISON, J. M., and F. WINSTON, 1997 Evidence that Spt3 functionally interacts with Mot1, TFIIA, and TATA-binding protein to confer promoter-specific transcriptional control in Saccharomyces cerevisiae. Mol. Cell. Biol. 17: 287-295.
59. MARCUS, G. A., N. SILVERMAN, S. L. BERGER, J. HORIUCHI and L. GUARENTE, 1994 Functional similarity and physical association between GCN5 and ADA2: putative transcriptional adaptors. EMBO J. 13: 4807-4815.
60. MARCUS, G. A., J. HORIUCHI, N. SILVERMAN and L. GUARENTE, 1996 ADA5/SPT20 links the ADA and SPT genes, which are involved in yeast transcription. Mol. Cell. Biol. 16: 3197-3205.
61. MARTENS, J. A., J. GENEREAUX, A. SALEH and C. J. BRANDL, 1996 Transcriptional activation by yeast PDR1p is inhibited by its association with NGG1p/ADA3p. J. Biol. Chem. 271: 15884-15890.
62. MELCHER, K., and S. A. JOHNSTON, 1995 GAL4 interacts with TATA-binding protein and coactivators. Mol. Cell. Biol. 15: 2839-2848.
63. MENGUS, G., M. MAY, X. JACQ, A. STAUB, L. TORA et al., 1995 Cloning and characterization of hTAFII18, hTAFII20 and hTAFII28: three subunits of the human transcription factor TFIID. EMBO J. 14: 1520-1531.
64. MITCHELL, D. A., T. K. MARSHALL and R. J. DESCHENES, 1993 Vectors for the inducible overexpression of glutathione S-transferase fusion proteins in yeast. Yeast 9: 715-722.
65. MIZZEN, C. A., X. J. YANG, T. KOKUBO, J. E. BROWNELL, A. J. BANNISTER et al., 1996 The TAF(II)250 subunit of TFIID has histone acetyltransferase activity. Cell 87: 1261-1270.
66. NEIGEBORN, L., and M. CARLSON, 1984 Genes affecting the regulation of SUC2 gene expression by glucose repression in Saccharomyces cerevisiae. Genetics 108: 845-858.
67. NONET, M. L., and R. A. YOUNG, 1989 Intragenic and extragenic suppressors of mutations in the heptapeptide repeat domain of Saccharomyces cerevisiae RNA polymerase II. Genetics 123: 715-724.
68. PETERSON, C. L., A. DINGWALL and M. P. SCOTT, 1994 Five SWI/SNF gene products are components of a large multisubunit complex required for transcriptional enhancement. Proc. Natl. Acad. Sci. USA 91: 2905-2908.
69. PETERSON, C. L., and I. HERSKOWITZ, 1992 Characterization of the yeast SWI1, SWI2, and SWI3 genes, which encode a global activator of transcription. Cell 68: 573-583.
70. PETERSON, C. L., and J. W. TAMKUN, 1995 The SWI-SNF complex: a chromatin remodeling machine? Trends Biochem. Sci. 20: 143-146.
71. PIÑA, B., S. BERGER, G. A. MARCUS, N. SILVERMAN, J. AGAPITE et al., 1993 ADA3: a gene, identified by resistance to GAL4-VP16, with properties similar to and different from those of ADA2. Mol. Cell. Biol. 13: 5981-5989.
72. ROBERTS, S. M., and F. WINSTON, 1996 SPT20/ADA5 encodes a novel protein functionally related to the TATA-binding protein and important for transcription in Saccharomyces cerevisiae. Mol. Cell. Biol. 16: 3206-3213.
73. ROSE, M. D., F. WINSTON and P. HIETER, 1990 Methods in Yeast Genetics: a laboratory course manual. Cold Spring Harbor Laboratory Press, Cold Spring Harbor, NY.
74. ROTHSTEIN, R. J., 1983 One-step gene disruption in yeast. Methods Enzymol. 101: 202-211.
75. SAKAI, A., Y. SHIMIZU, S. KONDOU, T. CHIBAZAKURA and F. HISHINUM, 1990 Structure and molecular analysis of RGR1, a gene required for glucose repression of Saccharomyces cerevisiae. Mol. Cell. Biol. 10: 4130-4138.
76. SAKURAI, H., Y. J. KIM, T. OHISHI, R. D. KORNBERG and T. FUKASAWA, 1996 The yeast GAL11 protein binds to the transcription factor IIE through GAL11 regions essential for its in vivo function. Proc. Natl. Acad. Sci. USA 93: 9488-9492.
77. SALEH, A., V. LANG, R. COOK and C. BRANDL, 1997 Identification of native complexes containing the yeast coactivator/repressor proteins NGG1/ADA3 and ADA2. J. Biol. Chem. 9: 5571-5578.
78. 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.
79. SHI, X., A. FINKELSTEIN, A. J. WOLF, P. A. WADE, Z. F. BURTON et al., 1996 Paf1p, an RNA polymerase II-associated factor in Saccharomyces cerevisiae, may have both positive and negative roles in transcription. Mol. Cell. Biol. 16: 669-676.
80. SHI, X. M., M. P. CHANG, A. J. WOLF, C. H. CHANG, A. A. FRAZERABEL et al., 1997 Cdc73p and Paf1p are found in a novel RNA polymerase II-containing complex distinct from the Srbp-containing holoenzyme. Mol. Cell. Biol. 17: 1160-1169.
81. 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.
82. SILVERMAN, N., J. AGAPITE and L. GUARENTE, 1994 Yeast ADA2 protein binds to the VP16 protein activation domain and activates transcription. Proc. Natl. Acad. Sci. USA 91: 11665-11668.
83. SIMCHEN, G., F. WINSTON, C. A. STYLES and G. R. FINK, 1984 Tymediated gene expression of the LYS2 and HIS4 genes of Saccharomyces cerevisiae is controlled by the same SPT genes. Proc. Natl. Acad. Sci. USA 81: 2431-2434.
84. SONG, W. J., I. TREICH, N. F. QIAN, S. KUCHIN and M. CARLSON, 1996 SSN genes that affect transcriptional repression in Saccharomyces cerevisiae encode Sin4, Rox3, and Srb proteins associated with RNA polymerase II. Mol. Cell. Biol. 16: 115-120.
85. SPENCER, F., C. CONNELLY, S. LEE and P. HIETER, 1988 Isolation and cloning of conditionally lethal chromosome transmission fidelity genes in Saccharomyces cerevisiae, pp. 441-452 in Eukaryotic DNA Replication, edited by T. KELLY and B. STILLMAN. Cold Spring Harbor Laboratory Press, Cold Spring Harbor, NY.
86. STILLMAN, D. J., S. DORLAND and Y. YU, 1994 Epistasis analysis of suppressor mutations that allow HO expression in the absence of the yeast SWI5 transcriptional activator. Genetics 136: 781-788.
87. STRUHL, K., 1995 Yeast transcriptional regulatory mechanisms. Annu. Rev. Genet. 29: 651-674.
88. THOMPSON, C. M., A. J. KOLESKE, D. M. CHAO and R. A. YOUNG, 1993 A multisubunit complex associated with the RNA polymerase II CTD and TATA-binding protein in yeast. Cell 73: 1361-1375.
89. THOMPSON, N. E., T. H. STEINBERG, D. B. ARONSON and R. R. BURGESS, 1989 Inhibition of in vivo and in vitro transcription by monoclonal antibodies prepared against wheat germ RNA polymerase II that react with the heptapeptide repeat of eukaryotic RNA polymerase II. J. Biol. Chem. 264: 11511-11520.
90. TREICH, I., B. R. CAIRNS, T. DE LOS SANTOS, E. BREWSTER and M. CARLSON, 1995 SNF11, a new component of the yeast SNF-SWI complex that interacts with a conserved region of SNF2. Mol. Cell. Biol. 15: 4240-4248.
91. TURNER, B. M., and L. P. O'NEILL, 1995 Histone acetylation in chromatin and chromosomes. Semin. Cell Biol. 6: 229-236.
92. VALAY, J. G., M. SIMON, M. F. DUBOIS, O. BENSAUDE, C. FACCA et al., 1995 The KIN28 gene is required both for RNA polymerase II mediated transcription and phosphorylation of the Rpb1p CTD. J. Mol. Biol. 249: 535-544.
93. VELCULESCU, V. E., L. ZHANG, W. ZHOU, J. VOGELSTEIN, M. A. BASRAI et al., 1997 Characterization of the yeast transcriptome. Cell 88: 243-251.
94. WILSON, C. J., D. M. CHAO, A. N. IMBALZANO, G. R. SCHNITZLER, R. E. KINGSTON et al., 1996 RNA polymerase II holoenzyme contains SWI/SNF regulators involved in chromatin remodeling. Cell 84: 235-244.
95. WINSTON, F., 1992 Analysis of SPT genes: a genetic approach towards analysis of TFIID, histones and other transcription factors of yeast, pp. 1271-1293 in Transcriptional Regulation, edited by S. L. MCKNIGHT and K. R. YAMAMOTO. Cold Spring Harbor Laboratory Press, Cold Spring Harbor, NY.
96. WINSTON, F., C. DOLLARD, E. A. MALONE, J. CLARE, J. G. KAPAKOS et al., 1987 Three genes are required for trans-activation of Ty transcription in yeast. Genetics 115: 649-656.
97. WINSTON, F., C. DOLLARD and S. L. RICUPERO-HOVASSE, 1995 Construction of a set of convenient Saccharomyces cerevisiae strains that are isogenic to S288C. Yeast 11: 53-55.
98. YANG, X., V. OGRYZKO, J. NISHIKAWA, B. HOWARD and Y. NAKATANI, 1996 A p300/CBP-associated factor that competes with the adenoviral oncoprotein E1A. Nature 382: 319-324.