Remodeling the chromatin structure of a nucleosome array by transcription factor-targeted trans-displacement of histones

EMBO Journal

Volumn 15, Issue 17, 1996, Pages 4702-4712

  Owen Hughes, Tom ^a   Workman, Jerry L ^a  

^a PENNSYLVANIA STATE UNIVERSITY   (United States)

Author keywords

Chromatin; DNase hypersensitive sites; Histones; Nucleosome; Transcription factors

Indexed keywords

DEOXYRIBONUCLEASE I; DNA; HISTONE; NUCLEOPLASMIN; TRANSCRIPTION FACTOR;

ARTICLE; CHROMATIN STRUCTURE; CONTROLLED STUDY; HUMAN; HUMAN CELL; NONHUMAN; NUCLEOSOME; PRIORITY JOURNAL; PROTEIN DNA BINDING;

EID: 0029841339     PISSN: 02614189     EISSN: None     Source Type: Journal    
DOI: 10.1002/j.1460-2075.1996.tb00847.x     Document Type: Article

References (46)

1. Barton, M.C. and Emerson, B.M. (1994) Regulated expression of the Beta-globin gene locus in synthetic nuclei. Genes Dev., 8, 2453-2465.
2. Beard, P. (1978) Mobility of histories on the chromatin of simian virus 40. Cell, 15, 955-967.
3. Becker, P.B. (1994) The establishment of active promoters in chromatin. BioEssays, 16, 541-547.
4. Bresnick, E.H., Bustin, M., Marsaud, V., Richard-Foy, H. and Hager, G.L. (1992) The transcriptionally-active MMTV promoter is depleted of histone H1. Nucleic Acids Res., 20, 273-278.
5. Chen, H., Li, B. and Workman, J.L. (1994) A histone-binding protein, nucleoplasmin, stimulates transcription factor binding to nucleosomes and factor-induced nucleosome disassembly. EMBO J., 13, 380-390.
6. Clark, D.J. and Felsenfeld, G. (1992) A nucleosome core is transferred out of the path of a transcribing polymerase. Cell, 71, 11-22.
7. Côté, J., Quinn, J., Workman, J.L. and Peterson, C.L. (1994) Stimulation of GAL4 derivative binding to nucleosomal DNA by the yeast SWI/ SNF complex. Science, 265, 53-60.
8. Côté, J., Utley, R.T. and Workman, J. (1995) Basic analysis of transcription factor binding to nucleosomes. Methods Mol. Genet., 6b, 108-128.
9. Dong, F., Hansen, J.C. and van Holde, K.E. (1990. DNA and protein determinants of nucleosome positioning on sea urchin 5S rRNA gene sequences in vitro. Proc. Natl Acad. Sci. USA, 87, 5724-5728.
10. Elgin, S.C.R. (1988) The formation and function of DNase hypersensitive sites in the process of gene activation. J. Biol. Chem., 263, 19259-19262.
11. Fragoso, G., John, S., Roberts, M.S. and Hager, G.L. (1995) Nucleosome positioning on the MMTV LTR results from the frequency-biased occupancy of multiple frames. Genes Dev., 9, 1933-1947.
12. Gross, D.S. and Garrard, W.T. (1988) Nuclease hypersensitive sites in chromatin. Annu. Rev. Biochem., 57, 159-197.
13. Heggeler-Bordier, B.T., Schild Poulter, C., Chapel, S. and Wahli, W. (1995) The fate of linear and supercoiled multinucleosomic templates during transcription. EMBO J., 14, 2561-2569.
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. Hirschhorn, J.N., Bortvin, A.L., Ricupero-Hovasse, S.L. and Winston, F. (1995) A new class of histone H2A mutations in Saccharomyces cerevisiae causes specific transcriptional defects in vivo. Mol. Cell. Biol., 15, 1999-2009.
16. Imbalzano, A.N., Kwon, H., Green, M.R. and Kingston, R.E. (1994) Facilitated binding of TATA-binding protein to nucleosomal DNA. Nature, 370, 481-485.
17. Kim, J., Zwieb, C., Wu, C. and Adhya, S. (1989) Bending of DNA by gene-regulatory proteins: Construction of a DNA bending vector. Gene, 85, 15-23.
18. Kwon, H., Imbalzano, A.N., Khavarl, P.A., Kingston, R.E. and Green, M.R. (1994) Nucleosome disruption and enhancement of activator binding by a human SWI/SNF complex. Nature, 370, 477-481.
19. Lin, Y.S., Carey, M.F., Ptashne, M. and Green, M.R. (1988) GAL4 derivatives function alone and synergistically with mammalian activators in vitro. Cell, 54, 659-664.
20. Meersseman, G., Pennings, S. and Bradbury, E.M. (1992) Mobile nucleosomes - a general behavior. EMBO J., 11, 2951-2959.
21. Owen-Hughes, T.A. and Workman, J.L. (1994) Experimental analysis of chromatin function in transcription control. Crit. Rev. Eukar. Gene Expr., 4, 403-441.
22. Pazin, M.J., Kamakaka, R.T. and Kadonaga, J.T. (1994) ATP dependent nucleosome reconfiguration and transcriptional activation from preassembled chromatin templates. Science, 266, 2007-2011.
23. Pazin, M.J., Sheridan, P.L., Cannon, K., Cao, Z., Keck, J.G., Kadonaga, J.T. and Jones, K.A. (1996) NF-κB-mediated chromatin reconfiguration and transcriptional activation of the HIV-1 enhancer in vitro. Genes Dev., 10, 37-49.
24. Pennings, S., Meersseman, G. and Bradbury, E.M. (1991) Mobility of positioned nucleosomes on 5S rDNA. J. Mol. Biol., 220, 101-110.
25. Ramsperger, U., and Stahl, H. (1995) Unwinding of chromatin by the SV40 large T antigen DNA helicase. EMBO J., 14, 3215-3225.
26. Roberts, M.S., Fragoso, G. and Hager, G.L. (1995) Nucleosomes reconstituted m vitro on mouse mammary tumor virus B region occupy multiple translational and rotational frames. Biochemistry, 34, 12470-12480.
27. Schmid, A., Fasher, K.-D. and Horz, W. (1992) Nucleosome disruption at the yeast PHO5 promoter upon PHO5 induction occurs in the absence of DNA replication. Cell, 71, 853-864.
28. Simpson, R.T., Thoma, F. and Brubaker, J.M. (1985) Chromatin reconstituted from tandemly repealed cloned DNA fragments and core histones: a model system for study of higher order structure. Cell, 42, 799-808.
29. Stein, A. (1979) DNA folding by histones: the kinetics of chromatin core particle reassembly and the interaction of nucleosomes with histones. J. Mol. Biol., 130, 103-134.
30. Studitsky, V.M., Clark, D.J. and Felsenfeld, G. (1994) A histone octamer can step around a transcribing polymerase without leaving the template. Cell, 76, 371-382.
31. Studitsky, V.M., Clark, D.J. and Felsenfeld, G. (1995) Overcoming a nucleosomal barrier to transcription. Cell, 83, 19-27.
32. Svaren, J. and Horz, W. (1993) Histones, nucleosomes and transcription. Curr. Opin. Genet. Dev., 3, 219-225.
33. Truss, M., Bartsch, J., Schelbert, A., Hache, R.J. and Beato, M. (1995) Hormone induces binding of receptors and transcription factors on the MMTV promoter in vivo. EMBO J., 14, 1737-1751.
34. Tsukiyama, T., Becker, P.B. and Wu, C. (1994) ATP-dependent nucleosome disruption at a heat-shock promoter mediated by binding of GAGA transcription factor. Nature, 367, 525-532.
35. Tsukiyama, T., Daniel, C., Tamkun, J. and Wu, C. (1995) ISWI, a member of the SW12/SNF2 ATPase family, encodes the 140 kDa subunit of the nucleosome remodeling factor. Cell, 83, 1021-1026.
36. Ura, K., Hayes, J.J. and Wolffe, A.P. (1995) A positive role for nucleosome mobility in the transcriptional activity of chromatin templates: restriction by linker histones. EMBO J., 14, 3752-3765.
37. Varga-Weisz, P.D., Blank, T.A. and Becker, P. (1995) Energy-dependent chromatin accessibilty and nucleosome mobility in a cell free system. EMBO J., 14, 2209-2216.
38. Voordouw, G. and Eisenberg, H. (1978) Binding of additional histones to chromatin core particles. Nature, 273, 446-448.
39. Wall, G., Varga-Weisz, P.D., Sandaltzopoulos, R. and Becker, P. (1995) Chromatin remodeling by GAGA factor and heat shock factor at the hypersensitive Drosophila hsp 26 promoter in vitro. EMBO J., 14, 1727-1736.
40. Wallrath, L.L., Lu, Q., Granok, H. and Elgin, S.C.R. (1994) Architectural variations of inducible eukaryotic promoters: preset and remodeled chromatin structures. BioEssays, 16, 165-170.
41. Walter, P.P. Owen-Hughes, T.A. Côté, J. and Workman, J.L. (1995) Stimulation of transcription factor binding and histone displacement by nucleosome assembly protein 1 and nucleoplasmin requires disruption of the histone octamer. Mol. Cell. Biol. 15, 6178-6187.
42. Workman, J.L. and Buchman, A.R. (1993) Multiple functions of nucleosomes and regulatory factors in transcription. Trends Biochem. Sci., 18, 90-95.
43. Workman, J.L. and Kingston, R.E. (1992) Nucleosome core displacement in vitro via a metastable transcription factor:nucleosome complex. Science, 258, 1780-1784.
44. Workman, J.L., Taylor, I.C.A. and Kingston, R.E. (1991a) Activation domains of stably bound GAL4 derivatives alleviate repression of promoters by nucleosomes. Cell, 64, 533-544.
45. Workman, J.L., Taylor, I.C.A., Kingston, R.E. and Roeder, R.G. (1991b) Control of class II gene transcription during in vitro nucleosome assembly. Methods Cell Biol., 35, 419-447.
46. Wray, W., Boulikas, T., Wray, V.P. and Hancock, R. (1981) Silver staining of proteins in polyacrylamide gels. Anal. Biochem., 118, 197-203.