![[Feedback]](/icons/banner/feedbackACT.gif){kind=icon}
![[For Subscribers]](/icons/banner/subscriberACT.gif){kind=icon}
![[Archive]](/icons/banner/archiveACT.gif){kind=icon}
![[Search]](/icons/banner/searchACT.gif){kind=icon}
![[Contents]](/icons/banner/tocACT.gif){kind=icon}
|
|
|
|
|
||
Research Papers
Department of Biological Chemistry, University of California-Irvine 92717, USA.
Abstract
Like most eukaryotic rDNA promoters, the promoter for rDNA in Saccharomyces cerevisiae consists of two elements: a core element, which is essential, and an upstream element, which is not essential but is required for a high level of transcription. We have demonstrated that stimulation of transcription by the upstream element is mediated by a multiprotein transcription factor, UAF (upstream activation factor) which contains three proteins encoded by RRN5, RRN9, and RRN10 genes, respectively, and probably two additional uncharacterized proteins. The three genes were originally defined by mutants that show specific reduction in the transcription of rDNA. These genes were cloned and characterized. Epitope tagging of RRN5 (or RRN9), combined with immunoaffinity purification was used to purify UAF, which complemented all three (rrn5, rrn9, and rrn10) mutant extracts. Using rrn10 mutant extracts, a large stimulation by UAF was demonstrated for template containing both the core element and the upstream element but not for a template lacking the upstream element. In the absence of UAF, the mutant extracts showed the same weak transcriptional activity regardless of the presence or absence of the upstream element. We have also demonstrated that UAF alone makes a stable complex with the rDNA template, committing that template to transcription. Conversely, no such template commitment was observed with rrn10 extracts without UAF. By using a series of deletion templates, we have found that the region necessary for the stable binding of UAF corresponds roughly to the upstream element defined previously based on its ability to stimulate rDNA transcription. Differences between the yeast UAF and the previously studied metazoan UBF are discussed.
CiteULike 
Connotea 
Del.icio.us 
Digg 
Reddit 
Technorati What's this?
This article has been cited by other articles:
|
|
 |
|
  K. Merz, M. Hondele, H. Goetze, K. Gmelch, U. Stoeckl, and J. Griesenbeck Actively transcribed rRNA genes in S. cerevisiae are organized in a specialized chromatin associated with the high-mobility group protein Hmo1 and are largely devoid of histone molecules Genes & Dev., May 1, 2008; 22(9): 1190 - 1204. [Abstract] [Full Text] [PDF]
|
|
|
|
 |
|
 N. Nakazawa, T. Nakamura, A. Kokubu, M. Ebe, K. Nagao, and M. Yanagida Dissection of the essential steps for condensin accumulation at kinetochores and rDNAs during fission yeast mitosis J. Cell Biol., March 24, 2008; 180(6): 1115 - 1131. [Abstract] [Full Text] [PDF]
|
|
|
|
 |
|
 F. Beckouet, S. Labarre-Mariotte, B. Albert, Y. Imazawa, M. Werner, O. Gadal, Y. Nogi, and P. Thuriaux Two RNA Polymerase I Subunits Control the Binding and Release of Rrn3 during Transcription Mol. Cell. Biol., March 1, 2008; 28(5): 1596 - 1605. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
A. B. Berger, L. Decourty, G. Badis, U. Nehrbass, A. Jacquier, and O. Gadal Hmo1 Is Required for TOR-Dependent Regulation of Ribosomal Protein Gene Transcription Mol. Cell. Biol., November 15, 2007; 27(22): 8015 - 8026. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
A. Dasgupta, R. O. Sprouse, S. French, P. Aprikian, R. Hontz, S. A. Juedes, J. S. Smith, A. L. Beyer, and D. T. Auble Regulation of rRNA Synthesis by TATA-Binding Protein-Associated Factor Mot1 Mol. Cell. Biol., April 15, 2007; 27(8): 2886 - 2896. [Abstract] [Full Text] [PDF]
|
|
|
|
 |
|
 S. Grenetier, C. Bouchoux, and V. Goguel CTD kinase I is required for the integrity of the rDNA tandem array Nucleic Acids Res., October 18, 2006; 34(17): 4996 - 5006. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
M. L. Oakes, K. Johzuka, L. Vu, K. Eliason, and M. Nomura Expression of rRNA Genes and Nucleolus Formation at Ectopic Chromosomal Sites in the Yeast Saccharomyces cerevisiae. Mol. Cell. Biol., August 1, 2006; 26(16): 6223 - 6238. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
M. L. Oakes, I. Siddiqi, S. L. French, L. Vu, M. Sato, J. P. Aris, A. L. Beyer, and M. Nomura Role of Histone Deacetylase Rpd3 in Regulating rRNA Gene Transcription and Nucleolar Structure in Yeast Mol. Cell. Biol., May 15, 2006; 26(10): 3889 - 3901. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
F. Di Felice, F. Cioci, and G. Camilloni FOB1 affects DNA topoisomerase I in vivo cleavages in the enhancer region of the Saccharomyces cerevisiae ribosomal DNA locus Nucleic Acids Res., November 3, 2005; 33(19): 6327 - 6337. [Abstract] [Full Text] [PDF]
|
|
|
|
 |
|
 P. Tongaonkar, S. L. French, M. L. Oakes, L. Vu, D. A. Schneider, A. L. Beyer, and M. Nomura Histones are required for transcription of yeast rRNA genes by RNA polymerase I PNAS, July 19, 2005; 102(29): 10129 - 10134. [Abstract] [Full Text] [PDF]
|
|
|
|
 |
|
 L. Wang, R. A. Haeusler, P. D. Good, M. Thompson, S. Nagar, and D. R. Engelke Silencing Near tRNA Genes Requires Nucleolar Localization J. Biol. Chem., March 11, 2005; 280(10): 8637 - 8639. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
A. Meier and F. Thoma RNA Polymerase I Transcription Factors in Active Yeast rRNA Gene Promoters Enhance UV Damage Formation and Inhibit Repair Mol. Cell. Biol., March 1, 2005; 25(5): 1586 - 1595. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
B.-S. Lee, S. I. S. Grewal, and A. J. S. Klar Biochemical Interactions between Proteins and mat1 cis-Acting Sequences Required for Imprinting in Fission Yeast Mol. Cell. Biol., November 15, 2004; 24(22): 9813 - 9822. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
C. Bouchoux, G. Hautbergue, S. Grenetier, C. Carles, M. Riva, and V. Goguel CTD kinase I is involved in RNA polymerase I transcription Nucleic Acids Res., November 1, 2004; 32(19): 5851 - 5860. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
D. A. Schneider and M. Nomura RNA polymerase I remains intact without subunit exchange through multiple rounds of transcription in Saccharomyces cerevisiae PNAS, October 19, 2004; 101(42): 15112 - 15117. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
S. Fath, M. S. Kobor, A. Philippi, J. Greenblatt, and H. Tschochner Dephosphorylation of RNA Polymerase I by Fcp1p Is Required for Efficient rRNA Synthesis J. Biol. Chem., June 11, 2004; 279(24): 25251 - 25259. [Abstract] [Full Text] [PDF]
|
|
|
|
 |
|
 J. A. Claypool, S. L. French, K. Johzuka, K. Eliason, L. Vu, J. A. Dodd, A. L. Beyer, and M. Nomura Tor Pathway Regulates Rrn3p-dependent Recruitment of Yeast RNA Polymerase I to the Promoter but Does Not Participate in Alteration of the Number of Active Genes Mol. Biol. Cell, February 1, 2004; 15(2): 946 - 956. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
I. Hirschler-Laszkiewicz, A. H. Cavanaugh, A. Mirza, M. Lun, Q. Hu, T. Smink, and L. I. Rothblum Rrn3 Becomes Inactivated in the Process of Ribosomal DNA Transcription J. Biol. Chem., May 23, 2003; 278(21): 18953 - 18959. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
M. Liu, A. Guo, B. Boukhgalter, K. Van Den Heuvel, M. Tripp, and L. Pape Characterization of the fission yeast ribosomal DNA binding factor: components share homology with Upstream Activating Factor and with SWI/SNF subunits Nucleic Acids Res., December 15, 2002; 30(24): 5347 - 5359. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
A. M. Al-Khouri and M. R. Paule A Novel RNA Polymerase I Transcription Initiation Factor, TIF-IE, Commits rRNA Genes by Interaction with TIF-IB, Not by DNA Binding Mol. Cell. Biol., February 1, 2002; 22(3): 750 - 761. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
S. Fath, P. Milkereit, G. Peyroche, M. Riva, C. Carles, and H. Tschochner Differential roles of phosphorylation in the formation of transcriptional active RNA polymerase I PNAS, November 15, 2001; (2001) 231181398. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
P. Aprikian, B. Moorefield, and R. H. Reeder New Model for the Yeast RNA Polymerase I Transcription Cycle Mol. Cell. Biol., August 1, 2001; 21(15): 4847 - 4855. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
I. Siddiqi, J. Keener, L. Vu, and M. Nomura Role of TATA Binding Protein (TBP) in Yeast Ribosomal DNA Transcription by RNA Polymerase I: Defects in the Dual Functions of Transcription Factor UAF Cannot Be Suppressed by TBP Mol. Cell. Biol., April 1, 2001; 21(7): 2292 - 2297. [Abstract] [Full Text]
|
|
|
|
|
|
L. Bordi, F. Cioci, and G. Camilloni In Vivo Binding and Hierarchy of Assembly of the Yeast RNA Polymerase I Transcription Factors Mol. Biol. Cell, March 1, 2001; 12(3): 753 - 760. [Abstract] [Full Text]
|
|
|
|
|
|
H. H. Wai, L. Vu, M. Oakes, and M. Nomura Complete deletion of yeast chromosomal rDNA repeats and integration of a new rDNA repeat: use of rDNA deletion strains for functional analysis of rDNA promoter elements in vivo Nucleic Acids Res., September 15, 2000; 28(18): 3524 - 3534. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
P. Aprikian, B. Moorefield, and R. H. Reeder TATA Binding Protein Can Stimulate Core-Directed Transcription by Yeast RNA Polymerase I Mol. Cell. Biol., July 15, 2000; 20(14): 5269 - 5275. [Abstract] [Full Text]
|
|
|
|
|
|
S. Fath, P. Milkereit, A. V. Podtelejnikov, N. Bischler, P. Schultz, M. Bier, M. Mann, and H. Tschochner Association of Yeast RNA Polymerase I with a Nucleolar Substructure Active in rRNA Synthesis and Processing J. Cell Biol., May 1, 2000; 149(3): 575 - 590. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
M. R. Paule and R. J. White SURVEY AND SUMMARY Transcription by RNA polymerases I and III Nucleic Acids Res., March 15, 2000; 28(6): 1283 - 1298. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
M. Oakes, I. Siddiqi, L. Vu, J. Aris, and M. Nomura Transcription Factor UAF, Expansion and Contraction of Ribosomal DNA (rDNA) Repeats, and RNA Polymerase Switch in Transcription of Yeast rDNA Mol. Cell. Biol., December 1, 1999; 19(12): 8559 - 8569. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
L. Vu, I. Siddiqi, B.-S. Lee, C. A. Josaitis, and M. Nomura RNA polymerase switch in transcription of yeast rDNA: Role of transcription factor (upstream activation factor) in silencing rDNA transcription by RNA polymerase II PNAS, April 13, 1999; 96(8): 4390 - 4395. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
J. Keener, C. A. Josaitis, J. A. Dodd, and M. Nomura Reconstitution of Yeast RNA Polymerase I Transcription in Vitro from Purified Components. TATA-BINDING PROTEIN IS NOT REQUIRED FOR BASAL TRANSCRIPTION J. Biol. Chem., December 11, 1998; 273(50): 33795 - 33802. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
C. A. Radebaugh, W. M. Kubaska, L. H. Hoffman, K. Stiffler, and M. R. Paule A Novel Transcription Initiation Factor (TIF), TIF-IE, Is Required for Homogeneous Acanthamoeba castellanii TIF-IB (SL1) to Form a Committed Complex J. Biol. Chem., October 16, 1998; 273(42): 27708 - 27715. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
M. Oakes, J.P. Aris, J.S. Brockenbrough, H. Wai, L. Vu, and M. Nomura Mutational Analysis of the Structure and Localization of the Nucleolus in the Yeast Saccharomyces cerevisiae J. Cell Biol., October 5, 1998; 143(1): 23 - 34. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
J. S. Steffan, D. A. Keys, L. Vu, and M. Nomura Interaction of TATA-Binding Protein with Upstream Activation Factor Is Required for Activated Transcription of Ribosomal DNA by RNA Polymerase I in Saccharomyces cerevisiae In Vivo Mol. Cell. Biol., July 1, 1998; 18(7): 3752 - 3761. [Abstract] [Full Text]
|
|
|
|
|
|
T. I. Lee and R. A. Young Regulation of gene expression by TBP-associated proteins Genes & Dev., May 15, 1998; 12(10): 1398 - 1408. [Full Text]
|
|
|
|
|
|
J. Keener, J. A. Dodd, D. Lalo, and M. Nomura Histones H3 and H4 are components of upstream activation factor required for the high-level transcription of yeast rDNA by RNA polymerase I PNAS, December 9, 1997; 94(25): 13458 - 13462. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
J. Saez-Vasquez and C. S. Pikaard Extensive purification of a putative RNA polymerase I holoenzyme from plants that accurately initiates rRNA gene transcription vitro PNAS, October 28, 1997; 94(22): 11869 - 11874. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
J S Steffan, D A Keys, J A Dodd, and M Nomura The role of TBP in rDNA transcription by RNA polymerase I in Saccharomyces cerevisiae: TBP is required for upstream activation factor-dependent recruitment of core factor. Genes & Dev., October 15, 1996; 10(20): 2551 - 2563. [Abstract] [PDF]
|
|
|
|
|
|
D. Lalo, J. S. Steffan, J. A. Dodd, and M. Nomura RRN11 Encodes the Third Subunit of the Complex Containing Rrn6p and Rrn7p That Is Essential for the Initiation of rDNA Transcription by Yeast RNA Polymerase I J. Biol. Chem., August 30, 1996; 271(35): 21062 - 21067. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
B. Moorefield, E. A. Greene, and R. H. Reeder RNA polymerase I transcription factor Rrn3 is functionally conserved between yeast and human PNAS, April 25, 2000; 97(9): 4724 - 4729. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
S. Fath, P. Milkereit, G. Peyroche, M. Riva, C. Carles, and H. Tschochner Differential roles of phosphorylation in the formation of transcriptional active RNA polymerase I PNAS, December 4, 2001; 98(25): 14334 - 14339. [Abstract] [Full Text] [PDF]
|
|
