The nucleosome remodeling complex, Snf/Swi, is required for the maintenance of transcription in vivo and is partially redundant with the histone acetyltransferase, Gcn5

EMBO Journal

Volumn 18, Issue 11, 1999, Pages 3101-3106

  Sudarsanam, Priya ^a   Cao, Yixue ^b   Wu, Lena ^a,c   Laurent, Brehon C ^b   Winston, Fred ^a  

^a HARVARD MEDICAL SCHOOL   (United States)

^b STATE UNIVERSITY OF NEW YORK   (United States)

^c MILLENNIUM PHARMACEUTICALS INC   (United States)

Author keywords

Histone acetylation; Nucleosome remodeling; Saccharomyces cerevisiae; Snf; Swi

Indexed keywords

HISTONE ACETYLTRANSFERASE; REGULATOR PROTEIN;

ARTICLE; CHROMATIN STRUCTURE; CONTROLLED STUDY; NONHUMAN; NUCLEOSOME; PRIORITY JOURNAL; PROMOTER REGION; SACCHAROMYCES CEREVISIAE; TRANSCRIPTION REGULATION;

ACETYLTRANSFERASES; CARRIER PROTEINS; CHROMOSOMAL PROTEINS, NON-HISTONE; DNA-BINDING PROTEINS; EPISTASIS, GENETIC; FUNGAL PROTEINS; GENE EXPRESSION REGULATION, FUNGAL; GENES, REPORTER; GREEN FLUORESCENT PROTEINS; HISTONE ACETYLTRANSFERASES; LUMINESCENT PROTEINS; MEMBRANE TRANSPORT PROTEINS; MODELS, GENETIC; MOLECULAR CONFORMATION; MUTATION; NUCLEOSOMES; PLANT PROTEINS; PROTEIN KINASES; PROTEIN-SERINE-THREONINE KINASES; RNA, MESSENGER; SACCHAROMYCES CEREVISIAE; SACCHAROMYCES CEREVISIAE PROTEINS; TEMPERATURE; TEMPLATES, GENETIC; TRANSCRIPTION FACTORS; TRANSCRIPTION, GENETIC;

SACCHAROMYCES CEREVISIAE;

EID: 0033151812     PISSN: 02614189     EISSN: None     Source Type: Journal    
DOI: 10.1093/emboj/18.11.3101     Document Type: Article

References (43)

1. Bagga, R. and Emerson, B.M. (1997) An HMG I/Y-containing repressor complex and supercoiled DNA topology are critical for long-range enhancer-dependent transcription in vitro. Genes Dev., 11, 629-639.
2. Biggar, S.R. and Crabtree, G.R. (1999) Continuous and widespread roles for the Swi-Snf complex in transcription. EMBO J., 18, 2254-2264.
3. Brown, S.A., Imbalzano, A.N. and Kingston, R.E. (1996) Activator-dependent regulation of transcriptional pausing on nucleosomal templates. Genes Dev., 10, 1479-1490.
4. Brownell, J.E., Zhou, J., Ranalli, T., Kobayashi, R., Edmondson, D.G., Roth, S.Y. and Allis, C.D. (1996) Tetrahymena histone acetyltransferase A: a homolog to yeast Gcn5p linking histone acetylation to gene activation. Cell, 84, 843-851.
5. Cairns, B.R. (1998) Chromatin remodeling machines: similar motors, ulterior motives. Trends Biochem. Sci., 23, 20-25.
6. Cairns, B.R., Kim, Y.-J., Sayre, M.H., Laurent, B.C. and Kornberg, R.D. (1994) A multisubunit complex containing the SW11/ADR6, SW12/ SNF2, SW13, SNF5 and SNF6 gene products isolated from yeast. Proc. Natl Acad. Sci. USA, 91, 1950-1954.
7. Carlson, M., Osmond, B.C. and Botstein, D. (1981) Mutants of yeast defective in sucrose utilization. Genetics. 98, 25-40.
8. Cereghino, G.P. and Scheffler, I.E. (1996) Genetic analysis of glucose regulation in Saccharomyces cerevisiae: control of transcription versus mRNA turnover. EMBO J., 15, 363-374.
9. Chee, M. et al. (1996) Accessing genetic information with high-density DNA arrays. Science, 274, 610-614.
10. Cormack, B.P., Bertram, G., Egerton, M., Gow, N.A., Falkow, S. and Brown, A.J. (1997) Yeast-enhanced green fluorescent protein (yEGFP) a reporter of gene expression in Candida albicans. Microbiology, 143, 303-311.
11. Côté, J., Quinn, J., Workman, J.L. and Peterson, C.L. (1994) Stimulation of GAL4 derivative binding to nucleosomal DNA by the yeast SNF/ SWI complex. Science, 265, 53-60.
12. Côté, J., Peterson, C.L. and Workman, J.L. (1998) Perturbation of nucleosome core structure by the SWI/SNF complex persists after its detachment, enhancing subsequent transcription factor binding. Proc. Natl Acad. Sci. USA, 95, 4947-4952.
13. Fiering, S., Northrop, J.P., Nolan, G.P., Mattila, P.S., Crabtree, G.R. and Herzenberg, L.A. (1990) Single cell assay of a transcription factor reveals a threshold in transcription activated by signals emanating from the T-cell antigen receptor. Genes Dev., 4, 1823-1834.
14. Hirschhorn, J.N., Brown, S.A., Clark, C.D. and Winston, F. (1992) Evidence that SNF2/SWI2 and SNF5 activate transcription in yeast by altering chromatin structure. Genes Dev., 6, 2288-2298.
15. Ho, S.N., Biggar, S.R., Spencer, D.M., Schreiber, S.L. and Crabtree, G.R. (1996) Dimeric ligands define a role for transcriptional activation domains in reinitiation. Nature, 382, 822-826.
16. Holstege, F.C., Jennings, E.G., Wyrick, J.J., Lee, T.I., Hengartner, C.J., Green, M.R., Golub, T.R., Lander, E.S. and Young, R.A. (1998) Dissecting the regulatory circuitry of a eukaryotic genome. Cell, 95, 717-728.
17. Imbalzano, A.N., Schnitzler, G.R. and Kingston, R.E. (1996) Nucleosome disruption by human SWI/SNF is maintained in the absence of continued ATP hydrolysis. J. Biol. Chem., 271, 20726-20733.
18. Kingston, R.E., Bunker, C.A. and Imbalzano, A.N. (1996) Repression and activation by multiprotein complexes that alter chromatin structure. Genes Dev., 10, 905-920.
19. Kringstein, A.M., Rossi, F.M.V., Hofmann, A. and Blau, H.M. (1998) Graded transcriptional response to different concentrations of a single transactivator. Proc. Natl Acad. Sci. USA, 95, 13670-13675.
20. Kuo, M.H., Zhou, J., Jambeck, P., Churchill, M.E. and Allis, C.D. (1998) Histone acetyltransferase activity of yeast Gcn5p is required for the activation of target genes in vivo. Genes Dev., 12, 627-639.
21. Lewin, B. (1990) Genes IV. Oxford University Press, NY.
22. Logie, C. and Peterson, C.L. (1997) Catalytic activity of the yeast SWI/ SNF complex on reconstituted nucleosome arrays. EMBO J., 16, 6772-6782.
23. Lorch, Y., Cairns, B.R., Zhang, M. and Kornberg, R.D. (1998) Activated RSC-nucleosome complex and persistently altered form of the nucleosome. Cell, 94, 29-34.
24. Matallana, E., Franco, L. and Perez-Ortin, J.E. (1992) Chromatin structure of the yeast SUC2 promoter in regulatory mutants. Mol. Gen. Genet., 231, 395-400.
25. Owen-Hughes, T., Utley, R.T., Cote, J., Peterson, C.L. and Workman, J.L. (1996) Persistent site-specific remodeling of a nucleosome array by transient action of the SWI/SNF complex. Science, 273, 513-516.
26. Peterson, C.L. and Tamkun, J.W. (1995) The SWI-SNF complex: a chromatin remodeling machine? Trends Biochem. Sci., 20, 143-146.
27. Peterson, C.L., Dingwall, A. and Scott, M.P. (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.
28. Pollard, K.J. and Peterson, C.L. (1997) Role for ADA/GCN5 products in antagonizing chromatin-mediated transcriptional repression. Mol. Cell. Biol., 17, 6212-6222.
29. Prasher, D.C. (1995) Using GFP to see the light. Trends Genet., 11, 320-323.
30. Recht, J. and Osley, J.A. (1999) Mutations in both the structured domain and N-terminus of histone H2B bypass the requirement for Swi-Snf in yeast. EMBO J., 18, 229-240.
31. Roberts, S.M. and Winston, F. (1997) Essential functional interactions of SAGA, a Saccharamyces cerevisiae complex of Spt, Ada and Gcn5 proteins, with the Snf/Swi and Srb/mediator complexes. Genetics, 147, 451-465.
32. Rose, M.D. and Winston, F. (1990) Methods in Yeast Genetics: a Laboratory Course Manual. Cold Spring Harbor Laboratory Press, Cold Spring Harbor, NY.
33. Schena, M., Shalon, D., Davis, R.W. and Brown, P.O. (1995) Quantitative monitoring of gene expression patterns with a complementary DNA microarray. Science, 270, 467-470.
34. Schnitzler, G., Sif, S. and Kingston, R.E. (1998) Human SWI/SNF interconverts a nucleosome between its base state and a stable remodeled state. Cell, 94, 17-27.
35. Steger, D.J. and Workman, J.L. (1996) Remodeling chromatin structures for transcription: what happens to the histones? BioEssays, 18, 875-884.
36. Swanson, M.S., Malone, E.A. and Winston, F. (1991) SPT5, an essential gene important for normal transcription in Saccharomyces cerevisiae, encodes an acidic nuclear protein with a carboxy-terminal repeat [published erratum appears in Mol. Cell. Biol. 1991 Aug;11 (8):4286]. Mol. Cell. Biol., 11, 3009-3019.
37. Tsien, R.Y. (1998) The green fluorescent protein. Annu. Rev. Biochem., 67, 509-544.
38. Velculescu, V.E., Zhang, L., Zhou, W., Vogelstein, J., Basrai, M.A., Bassett, D.E., Jr, Hieter, P., Vogelstein, B. and Kinzler, K.W. (1997) Characterization of the yeast transcriptome. Cell, 88, 243-251.
39. Walters, M.C., Fiering, S., Eidemiller, J., Magis, W., Groudine, M. and Martin, D.I. (1995) Enhancers increase the probability but not the level of gene expression. Proc. Natl Acad. Sci. USA, 92, 7125-7129.
40. Walters, M.C., Magis, W., Fiering, S., Eidemiller, J., Scalzo, D., Groudine, M. and Martin, D.I.K. (1996) Transcriptional enhancers act in cis to suppress position-effect variegation. Genes Dev., 10, 185-195.
41. Wang, L., Liu, L. and Berger, S.L. (1998) Critical residues for histone acetylation by Gcn5, functioning in Ada and SAGA complexes, are also required for transcriptional function in vivo. Genes Dev., 12, 640-653.
42. Weintraub, H. (1988) Formation of stable transcription complexes as assayed by analysis of individual templates. Proc. Natl Acad. Sci. USA, 85, 5819-5823.
43. Winston, F. and Carlson, M. (1992) Yeast SNF/SWI transcriptional activators and the SPT/SIN chromatin connection. Trends Genet., 8, 387-391.