Specific defects in different transcription complexes compensate for the requirement of the negative cofactor 2 repressor in Saccharomyces cerevisiae

Genetics

Volumn 176, Issue 1, 2007, Pages 125-138

  Peiró Chova, Lorena ^a   Estruch, Francisco ^a  

^a UNIVERSITY OF VALENCIA   (Spain)

Author keywords

[No Author keywords available]

Indexed keywords

NEGATIVE COFACTOR 2; TATA BINDING PROTEIN; TRANSCRIPTION FACTOR; UNCLASSIFIED DRUG; DOWN REGULATOR OF TRANSCRIPTION 1; DOWN-REGULATOR OF TRANSCRIPTION 1; GAL10 PROTEIN, S CEREVISIAE; HELICASE; MOT1 PROTEIN, S CEREVISIAE; MUTANT PROTEIN; PHOSPHOPROTEIN; PROTEIN SUBUNIT; REPRESSOR PROTEIN; RNA POLYMERASE II; SACCHAROMYCES CEREVISIAE PROTEIN; TATA BINDING PROTEIN ASSOCIATED FACTOR; TRANSACTIVATOR PROTEIN; TRANSCRIPTION FACTOR IIB; TRANSCRIPTION FACTOR IID; TRANSCRIPTION FACTOR IIH;

ARTICLE; CELL GROWTH; CONTROLLED STUDY; GENE; GENE EXPRESSION; GENE ISOLATION; GENE MUTATION; GENE REPRESSION; GENETIC SCREENING; GENETIC TRANSCRIPTION; NONHUMAN; PRIORITY JOURNAL; PROTEIN DEPLETION; RPB1 GENE; RPB2 GENE; SACCHAROMYCES CEREVISIAE; ALLELE; GENETICS; GROWTH, DEVELOPMENT AND AGING; ISOLATION AND PURIFICATION; METABOLISM; MUTATION; PROMOTER REGION;

SACCHAROMYCES CEREVISIAE;

ALLELES; DNA HELICASES; MUTANT PROTEINS; MUTATION; PHOSPHOPROTEINS; PROMOTER REGIONS (GENETICS); PROTEIN SUBUNITS; REPRESSOR PROTEINS; RNA POLYMERASE II; SACCHAROMYCES CEREVISIAE; SACCHAROMYCES CEREVISIAE PROTEINS; TATA-BINDING PROTEIN ASSOCIATED FACTORS; TRANS-ACTIVATORS; TRANSCRIPTION FACTOR TFIIB; TRANSCRIPTION FACTOR TFIID; TRANSCRIPTION FACTOR TFIIH; TRANSCRIPTION FACTORS; TRANSCRIPTION, GENETIC;

EID: 34548591645     PISSN: 00166731     EISSN: 00166731     Source Type: Journal    
DOI: 10.1534/genetics.106.066829     Document Type: Article

References (51)

1. BIDDICK, R., and E. T. YOUNG, 2005 Yeast mediator and its role in transcriptional regulation. C. R. Biol. 328: 773-782.
2. BORGGREFE, T., R. DAVIS, H. ERDJUMENT- BROMAGE, P. TEMPST and R. D. KORNBERG, 2002 A complex of the Srb8, -9, -10, and -11 transcriptional regulatory proteins from yeast. J. Biol. Chem. 277: 44202-44207.
3. BURNS, N., B. GRIMWADE, P. B. ROSS- MACDONALD, E. Y. CHOI, K. FINBERG et al., 1994 Large-scale analysis of gene expression, protein localization, and gene disruption in Saccharomyces cerevisiae. Genes Dev. 8: 1087-1105.
4. CANG, Y., and G. PRELICH, 2002 Direct stimulation of transcription by negative cofactor 2 (NC2) through TATA-binding protein (TBP). Proc. Natl. Acad. Sci. USA 99: 12727-12732.
5. CHADICK, J. Z., and F. J. ASTURIAS, 2005 Structure of eukaryotic Mediator complexes. Trends Biochem Sci. 30: 264-271.
6. CHITIKILA, C., K. L. HUISINGA, J. D. IRVIN, A. D. BASEHOAR and B. F. PUGH, 2002 Interplay of TBP inhibitors in global transcriptional control. Mol. Cell 10: 871-882.
7. CRAMER, P., D. A. BUSHNELL and R. D. KORNBERG, 2001 Structural basis of transcription: RNA polymerase II at 2.8 angstrom resolution. Science 292: 1863-1876.
8. ESTRUCH, F., and C. N. COLE, 2003 An early function during transcription for the yeast mRNA export factor Dbp5p/Rat8p suggested by its genetic and physical interactions with transcription factor IIH components. Mol. Biol. Cell 14: 1664-1676.
9. FEAVER, W. J., J. Q. SVEJSTRUP, L. BARDWELL, A. J. BARDWELL, S. BURATOWSKI et al., 1993 Dual roles of a multiprotein complex from S. cerevisiae in transcription and DNA repair. Cell 75: 1379-1387.
10. FLANAGAN, P. M., R. J. KELLEHER, III, M. H. SAYRE, H. TSCHOCHNER and R. D. KORNBERG, 1991 A mediator required for activation of RNA polymerase II transcription in vitro. Nature 350: 436-438.
11. GADBOIS, E. L., D. M. CHAO, J. C. REESE, M. R. GREEN and R. A. YOUNG, 1997 Functional antagonism between RNA polymerase II holoenzyme and global negative regulator NC2 in vivo. Proc. Natl. Acad. Sci. USA 94: 3145-3150.
12. GARCIA-MARTINEZ, J., A. ARANDA and J. E. PEREZ-ORTIN, 2004 Genomic run-on evaluates transcription rates for all yeast genes and identifies gene regulatory mechanisms. Mol. Cell 15: 303-313.
13. GARI, E., L. PIEDRAFITA, M. ALDEA and E. HERRERO, 1997 A set of vectors with a tetracycline-regulatablepromoter system formodulated gene expression in Saccharomyces cerevisiae. Yeast 13: 837-848.
14. GEISBERG, J. V., F. C. HOLSTEGE, R. A. YOUNG and K. STRUHL, 2001 Yeast NC2 associates with the RNA polymerase II preinitiation complex and selectively affects transcription in vivo. Mol. Cell. Biol. 21: 2736-2742.
15. GILEADI, O., W. J. FEAVER and R. D. KORNBERG, 1992 Cloning of a subunit of yeast RNA polymerase II transcription factor b and CTD kinase. Science 257: 1389-1392.
16. GOPPELT, A., G. STELZER, F. LOTTSPEICH and M. MEISTERERNST, 1996 A mechanism for repression of class II gene transcription through specific binding of NC2 to TBP-promoter complexes via heterodimeric histone fold domains. EMBO J. 15: 3105-3116.
17. INOSTROZA, J. A., F. H. MERMELSTEIN, I. HA, W. S. LANE and D. REINBERG, 1992 Dr1, a TATA-binding protein-associated phosphoprotein and inhibitor of class II gene transcription. Cell 70: 477-489.
18. KAMADA, K., F. SHU, H. CHEN, S. MALIK, G. STELZER et al., 2001 Crystal structure of negative cofactor 2 recognizing the TBP-DNA transcription complex. Cell 106: 71-81.
19. KANG, J. S., S. H. KIM, M. S. HWANG, S. J. HAN, Y. C. LEE et al., 2001 The structural and functional organization of the yeast mediator complex. J. Biol. Chem. 276: 42003-42010.
20. KELLEHER, R. J., III, P. M. FLANAGAN and R. D. KORNBERG, 1990 A novel mediator between activator proteins and the RNA polymerase II transcription apparatus. Cell 61: 1209-1215.
21. KIM, S., J. G. NA, M. HAMPSEY and D. REINBERG, 1997 The Dr1/DRAP1 heterodimer is a global repressor of transcription in vivo. Proc. Natl. Acad. Sci. USA 94: 820-825.
22. KIM, S., K. CABANE, M. HAMPSEY and D. REINBERG, 2000 Genetic analysis of the YDR1-BUR6 repressor complex reveals an intricate balance among transcriptional regulatory proteins in yeast. Mol. Cell. Biol. 20: 2455-2465.
23. LEE, T. I., and R. A. YOUNG, 1998 Regulation of gene expression by TBP-associated proteins. Genes Dev. 12: 1398-1408.
24. LEE, Y. C., and Y. J. KIM, 1998 Requirement for a functional interaction between mediator components Med6 and Srb4 in RNA polymerase II transcription. Mol. Cell. Biol. 18: 5364-5370.
25. LEMAIRE, M., J. XIE, M. MEISTERERNST and M. A. COLLART, 2000 The NC2 repressor is dispensable in yeast mutated for the Sin4p component of the holoenzyme and plays roles similar to Mot1p in vivo. Mol. Microbiol. 36: 163-173.
26. LEWIS, B. A., and D. REINBERG, 2003 The mediator coactivator complex: functional and physical roles in transcriptional regulation. J. Cell Sci. 116: 3667-3675.
27. LONGTINE, M. S., A. MCKENZIE, III, D. J. DEMARINI, N. G. SHAH, A. WACH et al., 1998 Additional modules for versatile and economical PCR-based gene deletion and modification in Saccharomyces cerevisiae. Yeast 14: 953-961.
28. MARTINEZ, E., Q. ZHOU, N. D. L'ETOILE, T. OELGESCHLAGER, A. J. BERK et al., 1995 Core promoter-specific function of a mutant transcription factor TFIID defective in TATA-box binding. Proc. Natl. Acad. Sci. USA 92: 11864-11868.
29. MEISTERERNST, M., and R. G. ROEDER, 1991 Family of proteins that interact with TFIID and regulate promoter activity. Cell 67: 557-567.
30. MERMELSTEIN, F., K. YEUNG, J. CAO, J. A. INOSTROZA, H. ERDJUMENT-BROMAGE et al., 1996 Requirement of a corepressor for Dr1-mediated repression of transcription. Genes Dev. 10: 1033-1048.
31. MNAIMNEH, S., A. P. DAVIERWALA, J. HAYNES, J. MOFFAT, W. T. PENG et al., 2004 Exploration of essential gene functions via titratable promoter alleles. Cell 118: 31-44.
32. NARLIKAR, G. J., H. Y. FAN and R. E. KINGSTON, 2002 Cooperation between complexes that regulate chromatin structure and transcription. Cell 108: 475-487.
33. NONET, M., D. SWEETSER and R. A. YOUNG, 1987 Functional redundancy and structural polymorphism in the large subunit of RNA polymerase II. Cell 50: 909-915.
34. OELGESCHLAGER, T., C. M. CHIANG and R. G. ROEDER, 1996 Topology and reorganization of a human TFIID-promoter complex. Nature 382: 735-738.
35. ORPHANIDES, G., and D. REINBERG, 2002 A unified theory of gene expression. Cell 108: 439-451.
36. PEREIRA, L. A., M. P. KLEJMAN and H. T. TIMMERS, 2003 Roles for BTAF1 and Mot1p in dynamics of TATA-binding protein and regulation of RNA polymerase II transcription. Gene 315: 1-13.
37. PRELICH, G., 1997 Saccharomyces cerevisiae BUR6 encodes a DRAP1/NC2alpha homolog that has both positive and negative roles in transcription in vivo. Mol. Cell. Biol. 17: 2057-2065.
38. PUGH, B. F., 2000 Control of gene expression through regulation of the TATA-binding protein. Gene 255: 1-14.
39. ROEDER, R. G., 1998 Role of general and gene-specific cofactors in the regulation of eukaryotic transcription. Cold Spring Harbor Symp. Quant. Biol. 63: 201-218.
40. SCAFE, C., D. CHAO, J. LOPES, J. P. HIRSCH, S. HENRY et al., 1990 RNA polymerase II C-terminal repeat influences response to transcriptional enhancer signals. Nature 347: 491-494.
41. STEWART, J. J., and L. A. STARGELL, 2001 The stability of the TFIIA-TBP-DNA complex is dependent on the sequence of the TATAAA element. J. Biol. Chem. 276: 30078-30084.
42. STRUHL, K., 1999 Fundamentally different logic of gene regulation in eukaryotes and prokaryotes. Cell 98: 1-4.
43. VAN DE PEPPEL, J., N. KETTELARIJ, H. VAN BAKEL, T. T. KOCKELKORN, D. VAN LEENEN et al., 2005 Mediator expression profiling epistasis reveals a signal transduction pathway with antagonistic submodules and highly specific downstream targets. Mol. Cell 19: 511-522.
44. WALKER, S. S., J. C. REESE, L. M. APONE and M. R. GREEN, 1996 Transcription activation in cells lacking TAFIIS. Nature 383: 185-188.
45. WANG, Z., S. BURATOWSKI, J. Q. SVEJSTRUP, W. J. FEAVER, X. WU et al., 1995 The yeast TFB1 and SSL1 genes, which encode subunits of transcription factor IIH, are required for nucleotide excision repair and RNA polymerase II transcription. Mol. Cell. Biol. 15: 2288-2293.
46. WEIDEMAN, C. A., R. C. NETTER, L. R. BENJAMIN, J. J. MCALLISTER, L. A. SCHMIEDEKAMP et al., 1997 Dynamic interplay of TFIIA, TBP and TATA DNA. J. Mol. Biol. 271: 61-75.
47. 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.
48. XIE, J., M. COLLART, M. LEMAIRE, G. STELZER and M. MEISTERERNST, 2000 A single point mutation in TFIIA suppresses NC2 requirement in vivo. EMBO J. 19: 672-682.
49. YOKOMORI, K., M. P. ZEIDLER, J. L. CHEN, C. P. VERRIJZER, M. MLODZIK et al., 1994 Drosophila TFIIA directs cooperative DNA binding with TBP and mediates transcriptional activation. Genes Dev. 8: 2313-2323.
50. YOON, H., S. P. MILLER, E. K. PABICH and T. F. DONAHUE, 1992 SSL1, a suppressor of a HIS4 5′-UTR stem-loop mutation, is essential for translation initiation and affects UV resistance in yeast. Genes Dev. 6: 2463-2477.
51. ZHANG, F., L. SUMIBCAY, A. G. HINNEBUSCH and M. J. SWANSON, 2004 A triad of subunits from the Gal11/tail domain of Srb mediator is an in vivo target of transcriptional activator Gcn4p. Mol. Cell. Biol. 24: 6871-6886.