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PMID: 10101163 Published · ppublish English Journal Article Research Support, Non-U.S. Gov't Research Support, U.S. Gov't, P.H.S.

Specific components of the SAGA complex are required for Gcn4- and Gcr1-mediated activation of the his4-912delta promoter in Saccharomyces cerevisiae.

Genetics ·Vol. 151 ·No. 4 ·1999-04-00 ·Pages 1365-78

Dudley AM, Gansheroff LJ, Winston F

Abstract

Mutations selected as suppressors of Ty or solo delta insertion mutations in Saccharomyces cerevisiae have identified several genes, SPT3, SPT7, SPT8, and SPT20, that encode components of the SAGA complex. However, the mechanism by which SAGA activates transcription of specific RNA polymerase II-dependent genes is unknown. We have conducted a fine-structure mutagenesis of one widely used SAGA-dependent promoter, the delta element of his4-912delta, to identify sequence elements important for its promoter activity. Our analysis has characterized three delta regions necessary for full promoter activity and accurate start site selection: an upstream activating sequence, a TATA region, and an initiator region. In addition, we have shown that factors present at the adjacent UASHIS4 (Gcn4, Bas1, and Pho2) also activate the delta promoter in his4-912delta. Our results suggest a model in which the delta promoter in his4-912delta is primarily activated by two factors: Gcr1 acting at the UASdelta and Gcn4 acting at the UASHIS4. Finally, we tested whether activation by either of these factors is dependent on components of the SAGA complex. Our results demonstrate that Spt3 and Spt20 are required for full delta promoter activity, but that Gcn5, another member of SAGA, is not required. Spt3 appears to be partially required for activation of his4-912delta by both Gcr1 and Gcn4. Thus, our work suggests that SAGA exerts a large effect on delta promoter activity through a combination of smaller effects on multiple factors.

MeSH Terms
Base Sequence DNA Probes/genetics DNA, Fungal/genetics DNA-Binding Proteins/genetics Fungal Proteins/genetics Genes, Fungal Histone Acetyltransferases Models, Genetic Mutation Promoter Regions, Genetic Protein Kinases/genetics Saccharomyces cerevisiae/genetics Saccharomyces cerevisiae Proteins TATA Box Transcription Factors Transcriptional Activation
Chemicals
DNA Probes DNA, Fungal DNA-Binding Proteins Fungal Proteins GCR1 protein, S cerevisiae SAGA protein, Emericella nidulans Saccharomyces cerevisiae Proteins Transcription Factors GCN5 protein, S cerevisiae Histone Acetyltransferases Protein Kinases
Authors & Affiliations
3 authors, click to expand affiliations / ORCID
Dudley A M
Department of Genetics, Harvard Medical School, Boston, Massachusetts 02115, USA.
Gansheroff L J
Winston F
References (63)
63 references, click to expand
  1. Detection of specific sequences among DNA fragments separated by gel electrophoresis.
    J Mol Biol. 1975 Nov 5;98(3):503-17 PMID: 1195397
  2. Repression and activation by multiprotein complexes that alter chromatin structure.
    Genes Dev. 1996 Apr 15;10(8):905-20 PMID: 8608939
  3. RNA from the yeast transposable element Ty1 has both ends in the direct repeats, a structure similar to retrovirus RNA.
    Proc Natl Acad Sci U S A. 1983 May;80(9):2432-6 PMID: 6189122
  4. Mutations affecting Ty-mediated expression of the HIS4 gene of Saccharomyces cerevisiae.
    Genetics. 1984 Jun;107(2):179-97 PMID: 6329902
  5. The SPT3 gene is required for normal transcription of Ty elements in S. cerevisiae.
    Cell. 1984 Dec;39(3 Pt 2):675-82 PMID: 6096019
  6. Rapid and efficient site-specific mutagenesis without phenotypic selection.
    Proc Natl Acad Sci U S A. 1985 Jan;82(2):488-92 PMID: 3881765
  7. A synthetic HIS4 regulatory element confers general amino acid control on the cytochrome c gene (CYC1) of yeast.
    Proc Natl Acad Sci U S A. 1985 Jan;82(2):498-502 PMID: 2982161
  8. GCN4 protein, synthesized in vitro, binds HIS3 regulatory sequences: implications for general control of amino acid biosynthetic genes in yeast.
    Cell. 1985 Nov;43(1):177-88 PMID: 3907851
  9. Each of three "TATA elements" specifies a subset of the transcription initiation sites at the CYC-1 promoter of Saccharomyces cerevisiae.
    Proc Natl Acad Sci U S A. 1985 Dec;82(24):8562-6 PMID: 3001709
  10. Yeast mRNA initiation sites are determined primarily by specific sequences, not by the distance from the TATA element.
    EMBO J. 1985 Dec 1;4(12):3273-80 PMID: 3912167
  11. A hierarchy of trans-acting factors modulates translation of an activator of amino acid biosynthetic genes in Saccharomyces cerevisiae.
    Mol Cell Biol. 1985 Sep;5(9):2349-60 PMID: 3915540
  12. GCN4 protein, a positive transcription factor in yeast, binds general control promoters at all 5' TGACTC 3' sequences.
    Proc Natl Acad Sci U S A. 1986 Nov;83(22):8516-20 PMID: 3464968
  13. The yeast PHO5 promoter: phosphate-control elements and sequences mediating mRNA start-site selection.
    Proc Natl Acad Sci U S A. 1987 Mar;84(5):1340-4 PMID: 2881299
  14. Three genes are required for trans-activation of Ty transcription in yeast.
    Genetics. 1987 Apr;115(4):649-56 PMID: 3034719
  15. Multiple global regulators control HIS4 transcription in yeast.
    Science. 1987 Aug 21;237(4817):874-80 PMID: 3303332
  16. The upstream activation site of a Ty2 element of yeast is necessary but not sufficient to promote maximal transcription of the element.
    Proc Natl Acad Sci U S A. 1987 Dec;84(23):8520-4 PMID: 2825192
  17. Isolation and analysis of a novel class of suppressor of Ty insertion mutations in Saccharomyces cerevisiae.
    Genetics. 1988 Feb;118(2):203-12 PMID: 2834263
  18. Changes in histone gene dosage alter transcription in yeast.
    Genes Dev. 1988 Feb;2(2):150-9 PMID: 2834270
  19. Functional distinctions between yeast TATA elements.
    Mol Cell Biol. 1989 Dec;9(12):5298-304 PMID: 2685558
  20. The Saccharomyces cerevisiae SPT13/GAL11 gene has both positive and negative regulatory roles in transcription.
    Mol Cell Biol. 1989 Dec;9(12):5602-9 PMID: 2685570
  21. A sequence pattern that occurs at the transcription initiation region of yeast RNA polymerase II promoters.
    Nucleic Acids Res. 1990 Jun 11;18(11):3387-93 PMID: 2192362
  22. Two types of TATA elements for the CYC1 gene of the yeast Saccharomyces cerevisiae.
    Mol Cell Biol. 1991 Feb;11(2):666-76 PMID: 1846668
  23. RAP1 is required for BAS1/BAS2- and GCN4-dependent transcription of the yeast HIS4 gene.
    Mol Cell Biol. 1991 Jul;11(7):3642-51 PMID: 1904543
  24. The SNF2, SNF5 and SNF6 genes are required for Ty transcription in Saccharomyces cerevisiae.
    Genetics. 1991 May;128(1):69-77 PMID: 1648006
  25. Histone regulatory (hir) mutations suppress delta insertion alleles in Saccharomyces cerevisiae.
    Genetics. 1991 Aug;128(4):729-38 PMID: 1655565
  26. Mutations in a conserved region of RNA polymerase II influence the accuracy of mRNA start site selection.
    Mol Cell Biol. 1991 Nov;11(11):5781-91 PMID: 1922077
  27. The yeast SUA7 gene encodes a homolog of human transcription factor TFIIB and is required for normal start site selection in vivo.
    Cell. 1992 Mar 6;68(5):977-88 PMID: 1547497
  28. SPT20/ADA5 encodes a novel protein functionally related to the TATA-binding protein and important for transcription in Saccharomyces cerevisiae.
    Mol Cell Biol. 1996 Jun;16(6):3206-13 PMID: 8649431
  29. Homeodomain interactions.
    Curr Opin Struct Biol. 1996 Feb;6(1):62-8 PMID: 8696974
  30. Yeast transcriptional regulatory mechanisms.
    Annu Rev Genet. 1995;29:651-74 PMID: 8825489
  31. Remodeling chromatin structures for transcription: what happens to the histones?
    Bioessays. 1996 Nov;18(11):875-84 PMID: 8939065
  32. Evidence that Spt3 functionally interacts with Mot1, TFIIA, and TATA-binding protein to confer promoter-specific transcriptional control in Saccharomyces cerevisiae.
    Mol Cell Biol. 1997 Jan;17(1):287-95 PMID: 8972209
  33. ADA1, a novel component of the ADA/GCN5 complex, has broader effects than GCN5, ADA2, or ADA3.
    Mol Cell Biol. 1997 Jun;17(6):3220-8 PMID: 9154821
  34. Histone octamer function in vivo: mutations in the dimer-tetramer interfaces disrupt both gene activation and repression.
    EMBO J. 1997 May 1;16(9):2493-506 PMID: 9171362
  35. 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
  36. GCR1-dependent transcriptional activation of yeast retrotransposon Ty2-917.
    Yeast. 1997 Aug;13(10):917-30 PMID: 9271107
  37. 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
  38. Identification and analysis of Mot3, a zinc finger protein that binds to the retrotransposon Ty long terminal repeat (delta) in Saccharomyces cerevisiae.
    Mol Cell Biol. 1998 Apr;18(4):1879-90 PMID: 9528759
  39. Upstream and downstream transcriptional control signals in the yeast retrotransposon, TY.
    Nucleic Acids Res. 1988 Jun 24;16(12):5439-58 PMID: 2838817
  40. Spliceosomal RNA U6 is remarkably conserved from yeast to mammals.
    Nature. 1988 Jul 21;334(6179):213-8 PMID: 3041282
  41. Control of yeast gene expression by transposable elements: maximum expression requires a functional Ty activator sequence and a defective Ty promoter.
    Mol Cell Biol. 1988 Oct;8(10):4009-17 PMID: 2847026
  42. Genetic evidence for promoter competition in Saccharomyces cerevisiae.
    Mol Cell Biol. 1988 Nov;8(11):4608-15 PMID: 2850465
  43. 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
  44. Site-directed mutagenesis by overlap extension using the polymerase chain reaction.
    Gene. 1989 Apr 15;77(1):51-9 PMID: 2744487
  45. SPT15, the gene encoding the yeast TATA binding factor TFIID, is required for normal transcription initiation in vivo.
    Cell. 1989 Sep 22;58(6):1183-91 PMID: 2673545
  46. BAS1 has a Myb motif and activates HIS4 transcription only in combination with BAS2.
    Science. 1989 Nov 17;246(4932):931-5 PMID: 2683089
  47. Biochemical and genetic characterization of a yeast TFIID mutant that alters transcription in vivo and DNA binding in vitro.
    Mol Cell Biol. 1992 May;12(5):2372-82 PMID: 1569955
  48. SPT3 interacts with TFIID to allow normal transcription in Saccharomyces cerevisiae.
    Genes Dev. 1992 Jul;6(7):1319-31 PMID: 1628834
  49. A simple and efficient procedure for transformation of yeasts.
    Biotechniques. 1992 Jul;13(1):18-20 PMID: 1503765
  50. Involvement of the SIN4 global transcriptional regulator in the chromatin structure of Saccharomyces cerevisiae.
    Mol Cell Biol. 1992 Oct;12(10):4503-14 PMID: 1406639
  51. Identification of a new set of cell cycle-regulatory genes that regulate S-phase transcription of histone genes in Saccharomyces cerevisiae.
    Mol Cell Biol. 1992 Nov;12(11):5249-59 PMID: 1406694
  52. The Swi5 zinc-finger and Grf10 homeodomain proteins bind DNA cooperatively at the yeast HO promoter.
    Proc Natl Acad Sci U S A. 1993 Dec 1;90(23):11237-41 PMID: 7902583
  53. The sua8 suppressors of Saccharomyces cerevisiae encode replacements of conserved residues within the largest subunit of RNA polymerase II and affect transcription start site selection similarly to sua7 (TFIIB) mutations.
    Mol Cell Biol. 1994 Jan;14(1):226-37 PMID: 8264591
  54. Mutations that suppress the deletion of an upstream activating sequence in yeast: involvement of a protein kinase and histone H3 in repressing transcription in vivo.
    Genetics. 1993 Nov;135(3):665-76 PMID: 8293972
  55. Equivalent mutations in the two repeats of yeast TATA-binding protein confer distinct TATA recognition specificities.
    Mol Cell Biol. 1994 Jun;14(6):3719-28 PMID: 8196615
  56. The transcriptional activator GCN4 contains multiple activation domains that are critically dependent on hydrophobic amino acids.
    Mol Cell Biol. 1995 Mar;15(3):1220-33 PMID: 7862116
  57. RNA polymerase II subunit RPB9 is required for accurate start site selection.
    Genes Dev. 1995 Feb 15;9(4):481-90 PMID: 7883169
  58. Construction of a set of convenient Saccharomyces cerevisiae strains that are isogenic to S288C.
    Yeast. 1995 Jan;11(1):53-5 PMID: 7762301
  59. Virus induction of human IFN beta gene expression requires the assembly of an enhanceosome.
    Cell. 1995 Dec 29;83(7):1091-100 PMID: 8548797
  60. Epigenetic effects on yeast transcription caused by mutations in an actin-related protein present in the nucleus.
    Genes Dev. 1996 Mar 1;10(5):604-19 PMID: 8598290
  61. A novel histone H4 mutant defective in nuclear division and mitotic chromosome transmission.
    Mol Cell Biol. 1996 Mar;16(3):1017-26 PMID: 8622646
  62. 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
  63. Insertion of the eukaryotic transposable element Ty1 creates a 5-base pair duplication.
    Nature. 1980 Jul 24;286(5771):352-6 PMID: 6250062
Article Info
Journal
Genetics
Abbr.
Genetics
ISSN
0016-6731
DOI
10.1093/genetics/151.4.1365
Published
1999-04-00
Pages
1365-78
Language
English
Region
United States
NLM ID
0374636
PMCID
PMC1460567
Subset
IM
Grants
NIGMS NIH HHS · GM-45720 · United States
External Links
PubMed source DOI: 10.1093/genetics/151.4.1365 PMC Full Text View journal details
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