Home LiteratureArticle Details
PMID: 10205178 Published · ppublish English Journal Article Research Support, Non-U.S. Gov't

Continuous and widespread roles for the Swi-Snf complex in transcription.

The EMBO journal ·Vol. 18 ·No. 8 ·1999-04-15 ·Pages 2254-64

Biggar SR, Crabtree GR

Abstract

Chromatin presents a significant obstacle to transcription, but two means of overcoming its repressive effects, histone acetylation and the activities of the Swi-Snf complex, have been proposed. Histone acetylation and Swi-Snf activity have been shown to be crucial for transcriptional induction and to facilitate binding of transcription factors to DNA. By regulating the activity of the Swi-Snf complex in vivo, we found that active transcription requires continuous Swi-Snf function, demonstrating a role for this complex beyond the induction of transcription. Despite the presumably generalized packaging of genes into chromatin, previous studies have indicated that the transcriptional requirements for the histone acetyltransferase, Gcn5, and the Swi-Snf complex are limited to a handful of genes. However, inactivating Swi-Snf function in cells also lacking GCN5 revealed defects in transcription of several genes previously thought to be SWI-SNF- and GCN5-independent. These findings suggest that chromatin remodeling plays a widespread role in gene expression and that these two chromatin remodeling activities perform independent and overlapping functions during transcriptional activation.

MeSH Terms
DNA-Binding Proteins/physiology Fungal Proteins/physiology Histone Acetyltransferases Mutation Nuclear Proteins Protein Kinases/physiology Saccharomyces cerevisiae Proteins Transcription Factors/physiology Transcription, Genetic/physiology
Chemicals
DNA-Binding Proteins Fungal Proteins GAL4 protein, S cerevisiae Nuclear Proteins Saccharomyces cerevisiae Proteins Transcription Factors GCN5 protein, S cerevisiae Histone Acetyltransferases Protein Kinases
Authors & Affiliations
2 authors, click to expand affiliations / ORCID
Biggar S R
Departments of Developmental Biology and Pathology, Stanford University Medical School, Stanford, CA 94305, USA.
Crabtree G R
References (68)
68 references, click to expand
  1. FACT, a factor that facilitates transcript elongation through nucleosomes.
    Cell. 1998 Jan 9;92(1):105-16 PMID: 9489704
  2. SWI-SNF complex participation in transcriptional activation at a step subsequent to activator binding.
    Mol Cell Biol. 1998 Apr;18(4):1774-82 PMID: 9528749
  3. Perturbation of nucleosome core structure by the SWI/SNF complex persists after its detachment, enhancing subsequent transcription factor binding.
    Proc Natl Acad Sci U S A. 1998 Apr 28;95(9):4947-52 PMID: 9560208
  4. Human SWI/SNF interconverts a nucleosome between its base state and a stable remodeled state.
    Cell. 1998 Jul 10;94(1):17-27 PMID: 9674423
  5. Identification and comparison of stable and unstable mRNAs in Saccharomyces cerevisiae.
    Mol Cell Biol. 1990 May;10(5):2269-84 PMID: 2183028
  6. A rapid and simple method for preparation of RNA from Saccharomyces cerevisiae.
    Nucleic Acids Res. 1990 May 25;18(10):3091-2 PMID: 2190191
  7. Essential role for induced Ca2+ influx followed by [Ca2+]i rise in maintaining viability of yeast cells late in the mating pheromone response pathway. A study of [Ca2+]i in single Saccharomyces cerevisiae cells with imaging of fura-2.
    J Biol Chem. 1990 Aug 5;265(22):13391-9 PMID: 2198292
  8. Two systems of glucose repression of the GAL1 promoter in Saccharomyces cerevisiae.
    Mol Cell Biol. 1990 Sep;10(9):4757-69 PMID: 2201902
  9. Activation domains of stably bound GAL4 derivatives alleviate repression of promoters by nucleosomes.
    Cell. 1991 Feb 8;64(3):533-44 PMID: 1991320
  10. Facilitated binding of GAL4 and heat shock factor to nucleosomal templates: differential function of DNA-binding domains.
    Genes Dev. 1991 Jul;5(7):1285-98 PMID: 2065977
  11. A negative regulator of HO transcription, SIN1 (SPT2), is a nonspecific DNA-binding protein related to HMG1.
    Mol Cell Biol. 1991 Aug;11(8):4135-46 PMID: 2072912
  12. Histone acetylation and control of gene expression.
    J Cell Sci. 1991 May;99 ( Pt 1):13-20 PMID: 1757496
  13. Stable nucleosome positioning and complete repression by the yeast alpha 2 repressor are disrupted by amino-terminal mutations in histone H4.
    Genes Dev. 1992 Mar;6(3):411-25 PMID: 1547940
  14. Genetic isolation of ADA2: a potential transcriptional adaptor required for function of certain acidic activation domains.
    Cell. 1992 Jul 24;70(2):251-65 PMID: 1638630
  15. Yeast SNF2/SWI2, SNF5, and SNF6 proteins function coordinately with the gene-specific transcriptional activators GAL4 and Bicoid.
    Genes Dev. 1992 Sep;6(9):1707-15 PMID: 1516829
  16. Evidence that SNF2/SWI2 and SNF5 activate transcription in yeast by altering chromatin structure.
    Genes Dev. 1992 Dec;6(12A):2288-98 PMID: 1459453
  17. A positive role for histone acetylation in transcription factor access to nucleosomal DNA.
    Cell. 1993 Jan 15;72(1):73-84 PMID: 8422685
  18. The yeast SNF2/SWI2 protein has DNA-stimulated ATPase activity required for transcriptional activation.
    Genes Dev. 1993 Apr;7(4):583-91 PMID: 8458575
  19. GAL4 disrupts a repressing nucleosome during activation of GAL1 transcription in vivo.
    Genes Dev. 1993 May;7(5):857-69 PMID: 8491382
  20. A histone octamer can step around a transcribing polymerase without leaving the template.
    Cell. 1994 Jan 28;76(2):371-82 PMID: 8293470
  21. Transcription: in tune with the histones.
    Cell. 1994 Apr 8;77(1):13-6 PMID: 8156588
  22. The global transcriptional regulators, SSN6 and TUP1, play distinct roles in the establishment of a repressive chromatin structure.
    Genes Dev. 1994 Jun 15;8(12):1400-10 PMID: 7926740
  23. Functional similarity and physical association between GCN5 and ADA2: putative transcriptional adaptors.
    EMBO J. 1994 Oct 17;13(20):4807-15 PMID: 7957049
  24. Differential repression of transcription factor binding by histone H1 is regulated by the core histone amino termini.
    EMBO J. 1994 Dec 15;13(24):6031-40 PMID: 7813441
  25. GAL4 interacts with TATA-binding protein and coactivators.
    Mol Cell Biol. 1995 May;15(5):2839-48 PMID: 7739564
  26. General requirement for RNA polymerase II holoenzymes in vivo.
    Proc Natl Acad Sci U S A. 1995 May 9;92(10):4587-90 PMID: 7753848
  27. The SWI-SNF complex: a chromatin remodeling machine?
    Trends Biochem Sci. 1995 Apr;20(4):143-6 PMID: 7770913
  28. 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. 1995 Nov 15;9(22):2770-9 PMID: 7590252
  29. RNA polymerase II holoenzyme contains SWI/SNF regulators involved in chromatin remodeling.
    Cell. 1996 Jan 26;84(2):235-44 PMID: 8565069
  30. Genetic analysis of glucose regulation in saccharomyces cerevisiae: control of transcription versus mRNA turnover.
    EMBO J. 1996 Jan 15;15(2):363-74 PMID: 8617211
  31. Tetrahymena histone acetyltransferase A: a homolog to yeast Gcn5p linking histone acetylation to gene activation.
    Cell. 1996 Mar 22;84(6):843-51 PMID: 8601308
  32. Acetylation of histone H4 plays a primary role in enhancing transcription factor binding to nucleosomal DNA in vitro.
    EMBO J. 1996 May 15;15(10):2508-18 PMID: 8665858
  33. Two differentially regulated mRNAs with different 5' ends encode secreted with intracellular forms of yeast invertase.
    Cell. 1982 Jan;28(1):145-54 PMID: 7039847
  34. Efficient in vitro synthesis of biologically active RNA and RNA hybridization probes from plasmids containing a bacteriophage SP6 promoter.
    Nucleic Acids Res. 1984 Sep 25;12(18):7035-56 PMID: 6091052
  35. Five SWI genes are required for expression of the HO gene in yeast.
    J Mol Biol. 1984 Oct 5;178(4):853-68 PMID: 6436497
  36. Genes affecting the regulation of SUC2 gene expression by glucose repression in Saccharomyces cerevisiae.
    Genetics. 1984 Dec;108(4):845-58 PMID: 6392017
  37. Saccharomyces cerevisiae GAL1-GAL10 divergent promoter region: location and function of the upstream activating sequence UASG.
    Mol Cell Biol. 1984 Nov;4(11):2467-78 PMID: 6392852
  38. Removal of positioned nucleosomes from the yeast PHO5 promoter upon PHO5 induction releases additional upstream activating DNA elements.
    EMBO J. 1986 Oct;5(10):2689-96 PMID: 3536481
  39. Activation of the yeast HO gene by release from multiple negative controls.
    Cell. 1987 Feb 27;48(4):567-77 PMID: 3545494
  40. Nucleosomes inhibit the initiation of transcription but allow chain elongation with the displacement of histones.
    Cell. 1987 Apr 24;49(2):203-10 PMID: 3568125
  41. Transcription of adenovirus 2 major late and peptide IX genes under conditions of in vitro nucleosome assembly.
    Mol Cell Biol. 1987 Apr;7(4):1401-8 PMID: 3600631
  42. Binding of transcription factor TFIID to the major late promoter during in vitro nucleosome assembly potentiates subsequent initiation by RNA polymerase II.
    Cell. 1987 Nov 20;51(4):613-22 PMID: 3677170
  43. Depletion of histone H4 and nucleosomes activates the PHO5 gene in Saccharomyces cerevisiae.
    EMBO J. 1988 Jul;7(7):2221-8 PMID: 3046934
  44. Nucleosome loss activates yeast downstream promoters in vivo.
    Cell. 1988 Dec 23;55(6):1137-45 PMID: 2849508
  45. Assembly of RNA polymerase II preinitiation complexes before assembly of nucleosomes allows efficient initiation of transcription on nucleosomal templates.
    Mol Cell Biol. 1988 Aug;8(8):3114-21 PMID: 2463472
  46. A system of shuttle vectors and yeast host strains designed for efficient manipulation of DNA in Saccharomyces cerevisiae.
    Genetics. 1989 May;122(1):19-27 PMID: 2659436
  47. Nucleosome positioning modulates accessibility of regulatory proteins to the mouse mammary tumor virus promoter.
    Cell. 1990 Mar 9;60(5):719-31 PMID: 2155706
  48. An upstream transcription factor, USF (MLTF), facilitates the formation of preinitiation complexes during in vitro chromatin assembly.
    EMBO J. 1990 Apr;9(4):1299-308 PMID: 2323340
  49. Persistent site-specific remodeling of a nucleosome array by transient action of the SWI/SNF complex.
    Science. 1996 Jul 26;273(5274):513-6 PMID: 8662543
  50. Two zinc-finger-containing repressors are responsible for glucose repression of SUC2 expression.
    Mol Cell Biol. 1996 Sep;16(9):4790-7 PMID: 8756637
  51. TBP-associated factors are not generally required for transcriptional activation in yeast.
    Nature. 1996 Sep 12;383(6596):188-91 PMID: 8774887
  52. Transcription-linked acetylation by Gcn5p of histones H3 and H4 at specific lysines.
    Nature. 1996 Sep 19;383(6597):269-72 PMID: 8805705
  53. RSC, an essential, abundant chromatin-remodeling complex.
    Cell. 1996 Dec 27;87(7):1249-60 PMID: 8980231
  54. The TAF(II)250 subunit of TFIID has histone acetyltransferase activity.
    Cell. 1996 Dec 27;87(7):1261-70 PMID: 8980232
  55. Opening the way to gene activity.
    Science. 1997 Jan 10;275(5297):155-7 PMID: 8999545
  56. Histone acetyltransferase activity and interaction with ADA2 are critical for GCN5 function in vivo.
    EMBO J. 1997 Feb 3;16(3):555-65 PMID: 9034338
  57. RNA polymerase II holoenzyme recruitment is sufficient to remodel chromatin at the yeast PHO5 promoter.
    Cell. 1997 Apr 4;89(1):55-62 PMID: 9094714
  58. Yeast Gcn5 functions in two multisubunit complexes to acetylate nucleosomal histones: characterization of an Ada complex and the SAGA (Spt/Ada) complex.
    Genes Dev. 1997 Jul 1;11(13):1640-50 PMID: 9224714
  59. The yeast SWI-SNF complex facilitates binding of a transcriptional activator to nucleosomal sites in vivo.
    Mol Cell Biol. 1997 Aug;17(8):4811-9 PMID: 9234737
  60. Essential functional interactions of SAGA, a Saccharomyces cerevisiae complex of Spt, Ada, and Gcn5 proteins, with the Snf/Swi and Srb/mediator complexes.
    Genetics. 1997 Oct;147(2):451-65 PMID: 9335585
  61. Role for ADA/GCN5 products in antagonizing chromatin-mediated transcriptional repression.
    Mol Cell Biol. 1997 Nov;17(11):6212-22 PMID: 9343382
  62. Interplay of yeast global transcriptional regulators Ssn6p-Tup1p and Swi-Snf and their effect on chromatin structure.
    EMBO J. 1997 Oct 15;16(20):6263-71 PMID: 9321405
  63. Catalytic activity of the yeast SWI/SNF complex on reconstituted nucleosome arrays.
    EMBO J. 1997 Nov 17;16(22):6772-82 PMID: 9362491
  64. Mechanism of transcription through the nucleosome by eukaryotic RNA polymerase.
    Science. 1997 Dec 12;278(5345):1960-3 PMID: 9395401
  65. Characterization of Saccharomyces cerevisiae dna2 mutants suggests a role for the helicase late in S phase.
    Mol Biol Cell. 1997 Dec;8(12):2519-37 PMID: 9398673
  66. A multiprotein mediator of transcriptional activation and its interaction with the C-terminal repeat domain of RNA polymerase II.
    Cell. 1994 May 20;77(4):599-608 PMID: 8187178
  67. Stimulation of GAL4 derivative binding to nucleosomal DNA by the yeast SWI/SNF complex.
    Science. 1994 Jul 1;265(5168):53-60 PMID: 8016655
  68. Synergistic release from glucose repression by mig1 and ssn mutations in Saccharomyces cerevisiae.
    Genetics. 1994 May;137(1):49-54 PMID: 8056322
Article Info
Journal
The EMBO journal
Abbr.
EMBO J
ISSN
0261-4189
Published
1999-04-15
Pages
2254-64
Language
English
Region
England
NLM ID
8208664
PMCID
PMC1171308
Subset
IM
Analysis Services
Analysis Services

Contact

No. 2 Wenbo Road, Zhangqiu District, Jinan, Shandong

Qilu Normal University · Genelibs Bioinformatics Lab

750 Shunhua Rd, Jinan

2F, Bldg F, University Science Park

Tel: 0531-88819269

WeChat Official Account

Follow our WeChat subscription account for real-time updates and the latest in medical and biological research.


Business Email

E-mail: product@genelibs.com