The fission yeast TFIIB-related factor limits RNA polymerase III to a TATA-dependent pathway of TBP recruitment

Nucleic Acids Research

Volumn 31, Issue 8, 2003, Pages 2108-2116

  Huang, Ying ^a   McGillicuddy, Edward ^a   Weindel, Michael ^a   Dong, Steven ^a   Maraia, Richard J ^a  

^a EUNICE KENNEDY SHRIVER NATIONAL INSTITUTE OF CHILD HEALTH AND HUMAN DEVELOPMENT   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

BRF1 PROTEIN, S CEREVISIAE; DNA DIRECTED RNA POLYMERASE III; FUNGAL DNA; SACCHAROMYCES CEREVISIAE PROTEIN; SERINE TRANSFER RNA; TATA BINDING PROTEIN; TRANSCRIPTION FACTOR IIIB; INITIATION FACTOR; INITIATION FACTOR 2; PROTEIN SUBUNIT; RIBOSOME RNA; RNA 5S; TRANSFER RNA;

ARTICLE; GENE EXPRESSION REGULATION; GENETICS; METABOLISM; PROTEIN BINDING; SCHIZOSACCHAROMYCES; TATA BOX; ARABIDOPSIS; COMPLEX FORMATION; CONTROLLED STUDY; DNA FLANKING REGION; FUNGAL STRAIN; GEL MOBILITY SHIFT ASSAY; GENOME ANALYSIS; NONHUMAN; PRIORITY JOURNAL; PROMOTER REGION; PROTEIN PROTEIN INTERACTION; SACCHAROMYCES CEREVISIAE; SCHIZOSACCHAROMYCES POMBE;

DNA, FUNGAL; GENE EXPRESSION REGULATION, FUNGAL; PROTEIN BINDING; RNA POLYMERASE III; RNA, TRANSFER, SER; SACCHAROMYCES CEREVISIAE PROTEINS; SCHIZOSACCHAROMYCES; TATA BOX; TATA-BOX BINDING PROTEIN; TRANSCRIPTION FACTOR TFIIIB;

ARABIDOPSIS; SACCHAROMYCES; SACCHAROMYCES CEREVISIAE; SCHIZOSACCHAROMYCES; SCHIZOSACCHAROMYCES POMBE;

EID: 0038476176     PISSN: 03051048     EISSN: None     Source Type: Journal    
DOI: 10.1093/nar/gkg301     Document Type: Article

References (57)

1. Paule, M.R. and White, R.J. (2000) Survey and summary: transcription by RNA polymerases I and III. Nucleic Acids Res., 28, 1283-1298.
2. Hernandez, N. (1993) TBP, a universal eukaryotic, transcription factor? Genes Dev., 7, 1291-1308.
3. Soppa, J. (1999) Transcription initiation in Archaea: facts, factors and future aspects. Mol. Microbiol., 31, 1295-1305.
4. Albright, S.R. and Tjian, R. (2000) TAFs revisited: more data reveal new twists and confirm old ideas. Gene, 242, 1-13.
5. Pugh, B.F. (2000) Control of gene expression through regulation of the TATA-binding protein. Gene, 255, 1-14.
6. Langer, D., Hain, J., Thuriaux, P. and Zillig, W. (1995) Transcription in archaea: similarity to that in eucarya. Proc. Natl Acad. Sci. USA, 92, 5768-5772.
7. Lagrange, T., Kapanidis, A.N., Tang, H., Reinberg, D. and Ebright, R.H. (1998) New core promoter element in RNA polymerase II-dependent transcription: sequence-specific DNA binding by transcription factor IIB. Genes Dev., 12, 34-44.
8. Kassavetis, G., Letts, G. and Geiduschek, E.P. (2001) The RNA polymerase III transcription initiation factor TFIIIB participates in two steps of promoter opening. EMBO J., 20, 2823-2834.
9. Kassavetis, G.A., Braun, B.R., Nguyen, L.H. and Geiduschek, E.P. (1990) S. cerevisiae TFIIIB is the transcription initiation factor proper of RNA polymerase III, while TFIIIA and TFIIIC are assembly factors. Cell, 60, 235-245.
10. Reinberg, D., Orphanides, G., Ebright, R., Akoulitchev, S., Carcamo, J., Cho, H., Cortes, P., Drapkin, R., Flores, O., Ha, I., Inostroza, J.A., Kim, S., Kim, T.K., Kumar, P., Lagrange, T., LeRoy, G., Lu, H., Ma, D.M., Maldonado, E., Merino, A., Mermelstein, F., Olave, I., Sheldon, M., Shiekhattar, R., Zawel, L. et al. (1998) The RNA polymerase II general transcription factors: past, present and future. Cold Spring Harb. Symp. Quant. Biol., 63, 83-103.
11. Pan, G. and Greenblatt, J. (1994) Initiation of transcription by RNA polymerase II is limited by melting of the promoter DNA in the region immediately upstream of the initiation site. J. Biol. Chem., 269, 30101-30104.
12. Hawkes, N.A. and Roberts, S.G. (1999) The role of human TFIIB in transcription start site selection in vitro and in vivo. J. Biol. Chem., 274, 14337-14343.
13. Cho, E.J. and Buratowski, S. (1999) Evidence that transcription factor IIB is required for a post-assembly step in transcription initiation. J. Biol. Chem., 274, 25807-25813.
14. Teichmann, M., Wang, Z. and Roeder, R.G. (2000) A stable complex of a novel transcription factor IIB-related factor, human TFIIIB50 and associated proteins mediate selective transcription by RNA polymerase III of genes with upstream promoter elements [In Process Citation]. Proc. Natl Acad. Sci. USA, 97, 14200-14205.
15. Schramm, L., Pendergrast, P.S., Sun, Y. and Hernandez, N. (2000) Different human TFIIIB activities direct RNA polymerase III transcription from TATA-containing and TATA-less promoters [In Process Citation]. Genes Dev., 14, 2650-2663.
16. Geiduschek, E.P. and Kassavetis, G.A. (2001) The RNA polymerase III transcription apparatus. J. Mol. Biol., 310, 1-26.
17. Chedin, S., Ferri, M.L., Peyroche, G., Andrau, J.C., Jourdain, S., Lefebvre, O., Werner, M., Carles, C. and Sentenac, A. (1998) The yeast RNA polymerase III transcription machinery: a paradigm for eukaryotic gene activation. Cold Spring Harb. Symp. Quant. Biol., 63, 381-389.
18. Kassavetis, G.A., Bardeleben, C., Bartholomew, B., Braun, B.R., Joazeiro, C.A.P., Pisano, M. and Geiduschek, E.P. (1994) In Conaway, R.C. and Conaway, J.W. (eds), Transcription: Mechanisms and Regulation. Raven Press, Ltd, New York, NY, pp. 107-126.
19. Willis, I.M. (1993) RNA polymerase III genes, factors and transcriptional specificity. Eur. J. Biochem., 212, 1-11.
20. Poon, D. and Weil, P.A. (1993) Immunopurification of yeast TATA-binding protein and associated factors. Presence of transcription factor IIIB transcriptional activity. J. Biol. Chem., 268, 15325-15338.
21. Jaozeiro, C.A.P., Kassavetis, G.A. and Geiduschek, E.P. (1996) Alternative outcomes in assembly of promoter complexes: the roles of TBP and a flexible linker in placing TFIIIB on tRNA genes. Genes Dev., 10, 725-739.
22. Dieci, G., Percudani, R., Giuliodori, S., Bottarelli, L. and Ottonello, S. (2000) TFIIIC-independent in vitro transcription of yeast tRNA genes. J. Mol. Biol., 299, 601-613.
23. Whitehall, S.K., Kassavetis, G.A. and Geiduschek, E.P. (1995) The symmetry of the yeast U6 RNA gene's TATA box and the orientation of the TATA-binding protein in yeast TFIIIB. Genes Dev., 9, 2974-2985.
24. Jaozeiro, C.A.P., Kassavetis, G.A. and Geiduschek, E.P. (1994) Identical components of yeast transcription factor IIIB are required and sufficient for transcription of TATA box-containing and TATA-less genes. Mol. Cell. Biol., 14, 2798-2808.
25. Hamada, M., Sakulich, A.L., Koduru, S.B. and Maraia, R. (2000) Transcription termination by RNA polymerase III in fission yeast: a genetic and biochemically-tractable model system. J. Biol. Chem., 275, 29076-29081.
26. Huang, Y., Hamada, M. and Maraia, R.J. (2000) Isolation and cloning of four subunits of a fission yeast TFIIIC complex that includes an ortholog of the human regulatory protein TFIIICbeta. J. Biol. Chem., 275, 31480-31487.
27. Hamada, M., Huang, Y., Lowe, T.M. and Maraia, R.J. (2001) Widespread use of TATA elements in the core promoters for RNA Polymerases III, II and I in fission yeast. Mol. Cell. Biol., 21, 6870-6881.
28. Huang, Y. and Maraia, R.J. (2001) Comparison of the RNA polymerase III transcription machinery in S. pombe, S. cerevisiae and humans (Review). Nucleic Acids Res., 29, 2675-2690.
29. Huang, Y., Hamada, M., Patel, J. and Maraia, R.J. (2001) Construction of FLAG and histidine tagging vectors for Schizosaccharomyces pombe. Yeast, 18, 463-468.
30. Rothstein, R.J. (1983) One-step gene disruption in yeast. Methods Enzymol., 101, 202-211.
31. Kassavetis, G.A., Kumar, A., Ramirez, E. and Geiduschek, E.P. (1998) Functional and structural organization of Brf, the TFIIB-related component of the RNA polymerase III transcription initiation complex. Mol. Cell. Biol., 18, 5587-5599.
32. Willis, I.M. (2002) A universal nomenclature for subunits of the RNA polymerase III transcription initiation factor TFIIIB. Genes Dev., 16, 1337-1338.
33. Shibuya, T., Tsuneyoshi, S., Azad, A.K., Urushiyama, S., Ohshima, Y. and Tani, T. (1999) Characterization of the ptr6(+) gene in fission yeast: a possible involvement of a transcriptional coactivator TAF in nucleocytoplasmic transport of mRNA. Genetics, 152, 869-880.
34. Mitsuzawa, H., Seino, H., Yamao, F. and Ishihama, A. (2001) Two WD repeat-containing TATA-binding protein-associated factors in fission yeast that suppress defects in the anaphase-promoting complex. J. Biol. Chem., 276, 17117-17124.
35. Lee, T.I. and Young, R.A. (1998) Regulation of gene expression by TBP-associated proteins. Genes Dev., 12, 1398-1408.
36. Fikes, J.D., Becker, D.M., Winston, F. and Guarente, L. (1990) Striking conservation of TFIID in Schizosaccharomyces pombe and Saccharomyces cerevisiae. Nature, 346, 291-294.
37. Colbert, T., Lee, S., Schimmack, G. and Hahn, S. (1998) Architecture of protein and DNA contacts within the TFIIIB-DNA complex. Mol. Cell. Biol., 18, 1682-1691.
38. Kassavetis, G.A., Joazeiro, C.A.P., Pisano, M., Geiduschek, E.P., Colbert, T., Hahn, S. and Blanco, J.A. (1992) The role of the TATA-binding protein in the assembly and function of the multisubunit yeast RNA polymerase III transcription factor, TFIIIB. Cell, 71, 1055-1064.
39. Maundrell, K. (1993) Thiamine-repressible expression vectors pREP and pRIP for fission yeast. Gene, 123, 127-130.
40. Sakurai, H. and Ishihama, A. (2001) Transcription organization and mRNA levels of the genes for all 12 subunits of the fission yeast RNA polymerase II. Genes Cells, 6, 25-36.
41. Sethy-Coraci, I., Moir, R.D., Lopez-de-Leon, A. and Willis, I.M. (1998) A differential response of wild type and mutant promoters to TFIIIB70 overexpression in vivo and in vitro. Nucleic Acids Res., 26, 2344-2352.
42. Andrau, J.C., Sentenac, A. and Werner, M. (1999) Mutagenesis of yeast TFIIIB70 reveals C-terminal residues critical for interaction with TBP and C34. J. Mol. Biol., 288, 511-520.
43. Hahn, S. and Roberts, S. (2000) The zinc ribbon domains of the general transcription factors TFIIB and Brf: conserved functional surfaces but different roles in transcription initiation. Genes Dev., 14, 719-730.
44. Khoo, B., Brophy, B. and Jackson, S.P. (1994) Conserved functional domains of the RNA polymerase III general transcription factor BRF. Genes Dev., 8, 2879-2890.
45. Wang, Z. and Roeder, R.G. (1995) Structure and function of a human transcription factor TFIIIB subunit that is evolutionarily conserved and contains both TFIIB and high-mobility-group protein 2-related domains. Proc. Natl Acad. Sci. USA, 89, 7026-7030.
46. Kassavetis, G., Bardeleben, C., Kumar, A., Ramirez, E. and Geduschek, E.P. (1997) Domains of the Brf component of RNA polymerase III transcription factor IIIB (TFIIIB): functions in assembly of TFIIIB-DNA complexes and recruitment of RNA polymerase to the promoter. Mol. Cell. Biol., 17, 5299-5306.
47. Barberis, A., Muller, C.W., Harrison, S.C. and Ptashne, M. (1993) Delineation of two functional regions of transcription factor TFIIB. Proc. Natl Acad. Sci. USA, 90, 5628-5632.
48. Stargell, L.A. and Struhl, K. (1996) A new class of activation-defective TATA-binding protein mutants: evidence for two steps of transcriptional activation in vivo. Mol. Cell. Biol., 16, 4456-4464.
49. Imbalzano, A.N., Zaret, K.S. and Kingston, R.E. (1994) Transcription factor (TF) IIB and TFIIA can independently increase the affinity of the TATA-binding protein for DNA. J. Biol. Chem., 269, 8280-8286.
50. Wolner, B.S. and Gralla, J.D. (2001) TATA-flanking sequences influence the rate and stability of TATA-binding protein and TFIIB binding. J. Biol. Chem., 276, 6260-6266.
51. Zhao, X. and Herr, W. (2002) A regulated two-step mechanism of TBP binding to DNA. A solvent-exposed surface of TBP inhibits TATA box recognition. Cell, 108, 615-627.
52. Dingermann, T., Burke, D.J., Sharp, S., Schaack, J. and Soll, D. (1982) The 5-flanking sequences of Drosophila tRNAArg genes control their in vitro transcription in a Drosophila cell extract. J. Biol. Chem., 257, 14738-14744.
53. Takada, S., Lis, J.T., Zhou, S. and Tjian, R. (2000) A TRF1:BRF complex directs Drosophila RNA polymerase III transcription. Cell, 101, 459-469.
54. Ouyang, C., Martinez, M.J., Young, L.S. and Sprague, K.U. (2000) TATA-binding protein-TATA interaction is a key determinant of differential transcription of silkworm constitutive and silk gland-specific tRNA(Ala) genes. Mol. Cell. Biol., 20, 1329-1343.
55. Trivedi, A., Young, L.S., Ouyang, C., Johnson, D.L. and Sprague, K.U. (1999) A TATA element is required for tRNA promoter activity and confers TATA-binding protein responsiveness in Drosophila Schneider-2 cells. J. Biol. Chem., 274, 11369-11375.
56. Hausner, W., Frey, G. and Thomm, M. (1991) Control regions of an archaeal gene. A TATA box and an initiator element promote cell-free transcription of the tRNA(Val) gene of Methanococcus vannielii. J. Mol. Biol., 222, 495-508.
57. Woese, C.R. (2002) On the evolution of cells. Proc. Natl Acad. Sci. USA, 99, 8742-8747.