Positive and Negative Autoregulation ofREB1 Transcription in Saccharomyces cerevisiae

REFERENCES

• Aiyar, A., and J. Leis 1993. Modification of the megaprimer method of PCR mutagenesis: improved amplification of the final product. BioTechniques 14: 366–368.
   PubMedGoogle Scholar
• Angel, P., K. Hattori, T. Smeal, and M. Karin 1988. The jun proto-oncogene is positively autoregulated by its product, Jun/AP-1. Cell 55: 875–885.
   PubMed Web of Science ®Google Scholar
• Bartsch, I., C. Schoneberg, and I. Grummt 1988. Purification and characterization of TTFI, a factor that mediates termination of mouse ribosomal DNA transcription. Mol. Cell. Biol. 8: 3891–3897.
   PubMedGoogle Scholar
• Brandl, C. J., and K. Struhl 1990. A nucleosome-positioning sequence is required for GCN4 to activate transcription in the absence of a TATA element. Mol. Cell. Biol. 10: 4256–4265.
   PubMedGoogle Scholar
• Burns, L. G., and C. L. Peterson 1997. The yeast SWI-SNF complex facilitates binding of a transcriptional activator to nucleosomal sites in vivo. Mol. Cell. Biol. 17: 4811–4819.
   PubMedGoogle Scholar
• Butlin, M., and R. Quincey 1991. Activity of promoter mutants of the yeast ribosomal RNA gene with and without the enhancer. Yeast 7: 679–689.
   PubMedGoogle Scholar
• Carey, J. 1988. Gel retardation at low pH resolves trp repressor-DNA complexes for quantitative study. Proc. Natl. Acad. Sci. USA 85: 975–979.
   PubMed Web of Science ®Google Scholar
• Carmen, A. A., and M. J. Holland 1994. The upstream repression sequence from the yeast enolase gene ENO1 is a complex regulatory element that binds multiple trans-acting factors including REB1. J. Biol. Chem. 269: 9790–9797.
   PubMedGoogle Scholar
• Chasman, D. I., N. F. Lue, A. R. Buchman, J. W. LaPointe, Y. Lorch, and R. D. Kornberg 1990. A yeast protein that influences the chromatin structure of UASG and functions as a powerful auxiliary gene activator. Genes Dev. 4: 503–514.
   PubMed Web of Science ®Google Scholar
• Chen, B. P., and T. Hai 1994. Expression vectors for affinity purification and radiolabeling of proteins using Escherichia coli as host. Gene 139: 73–75.
   PubMedGoogle Scholar
• Dabeva, M. D., and J. R. Warner 1987. The yeast ribosomal protein L32 and its gene. J. Biol. Chem. 262: 16055–16059.
   PubMed Web of Science ®Google Scholar
• Delahodde, A., T. Delaveau, and C. Jacq 1995. Positive autoregulation of the yeast transcription factor Pdr3p, which is involved in control of drug resistance. Mol. Cell. Biol. 15: 4043–4051.
   PubMedGoogle Scholar
• Erkine, A. M., C. C. Adams, T. Diken, and D. S. Gross 1996. Heat shock factor gains access to the yeast HSC82 promoter independently of other sequence-specific factors and antagonizes nucleosomal repression of basal and induced transcription. Mol. Cell. Biol. 16: 7004–7017.
   PubMedGoogle Scholar
• Evers, R., and I. Grummt 1995. Molecular coevolution of mammalian ribosomal gene terminator sequences and the transcription termination factor TTF-I. Proc. Natl. Acad. Sci. USA 92: 5827–5831.
   PubMed Web of Science ®Google Scholar
• Evers, R., A. Smid, U. Rudloff, F. Lottspeich, and I. Grummt 1995. Different domains of the murine RNA polymerase I-specific termination factor mTTF-I serve distinct functions in transcription termination. EMBO J. 14: 1248–1256.
   PubMed Web of Science ®Google Scholar
• Facchini, L. M., S. Chen, W. W. Marhin, J. N. Lear, and L. Z. Penn 1997. The Myc negative autoregulation mechanism requires Myc-Max association and involves the c-myc P2 minimal promoter. Mol. Cell. Biol. 17: 100–114.
   PubMed Web of Science ®Google Scholar
• Fedor, M. J., N. F. Lue, and R. D. Kornberg 1988. Statistical positioning of nucleosomes by specific protein-binding to an upstream activating sequence in yeast. J. Mol. Biol. 204: 109–127.
   PubMedGoogle Scholar
• Gerber, J. K., E. Gogel, C. Berger, M. Wallisch, F. Muller, I. Grummt, and F. Grummt 1997. Termination of mammalian rDNA replication: polar arrest of replication fork movement by transcription termination factor TTF-I. Cell 90: 559–567.
   PubMed Web of Science ®Google Scholar
• Graham, I. R., and A. Chambers 1994. The Reb1p-binding site is required for efficient activation of the yeast RAP1 gene, but multiple binding sites for Rap1p are not essential. Mol. Microbiol. 12: 931–940.
   PubMedGoogle Scholar
• Graham, I. R., and A. Chambers 1996. Rap1p is a negative regulator of the RAP1 gene. Curr. Genet. 30: 93–100.
   PubMedGoogle Scholar
• Grummt, I., A. Kuhn, I. Bartsch, and H. Rosenbauer 1986. A transcription terminator located upstream of the mouse rDNA initiation site affects rRNA synthesis. Cell 47: 901–911.
   PubMedGoogle Scholar
• Grummt, I., U. Maier, A. Ohrlein, N. Hassouna, and J. P. Bachellerie 1985. Transcription of mouse rDNA terminates downstream of the 3′ end of 28S RNA and involves interaction of factors with repeated sequences in the 3′ spacer. Cell 43: 801–810.
   PubMedGoogle Scholar
• Herrick, D., R. Parker, and A. Jacobson 1990. Identification and comparison of stable and unstable mRNAs in Saccharomyces cerevisiae. Mol. Cell. Biol. 10: 2269–2284.
   PubMed Web of Science ®Google Scholar
• Hill, J. E., A. M. Myers, T. J. Koerner, and A. Tzagoloff 1986. Yeast/E. coli shuttle vectors with multiple unique restriction sites. Yeast 2: 163–167.
   PubMed Web of Science ®Google Scholar
• Hu, M. C., and N. Davidson 1987. The inducible lac operator-repressor system is functional in mammalian cells. Cell 48: 555–566.
   PubMedGoogle Scholar
• Huie, M. A., E. W. Scott, C. M. Drazinic, M. C. Lopez, I. K. Hornstra, T. P. Yang, and H. V. Baker 1992. Characterization of the DNA-binding activity of GCR1: in vivo evidence for two GCR1-binding sites in the upstream activating sequence of TPI of Saccharomyces cerevisiae. Mol. Cell. Biol. 12: 2690–2700.
   PubMedGoogle Scholar
• Johnston, M., and R. W. Davis 1984. Sequences that regulate the divergent GAL1-GAL10 promoter in Saccharomyces cerevisiae. Mol. Cell. Biol. 4: 1440–1448.
   PubMed Web of Science ®Google Scholar
• Ju, Q., B. E. Morrow, and J. R. Warner 1990. REB1, a yeast DNA-binding protein with many targets, is essential for growth and bears some resemblance to the oncogene myb. Mol. Cell. Biol. 10: 5226–5234.
   PubMedGoogle Scholar
• Kim, T., T. Lagrange, Y. Wang, J. D. Griffith, D. Reinberg, and R. H. Ebright 1997. Trajectory of DNA in the RNA polymerase II transcription preinitiation complex. Proc. Natl. Acad. Sci. USA 94: 12268–12273.
   PubMedGoogle Scholar
• Krumm, A., T. Meulia, and M. Groudine 1993. Common mechanisms for the control of eukaryotic transcriptional elongation. Bioessays 15: 659–665.
   PubMedGoogle Scholar
• Kulkens, T., C. A. van der Sande, A. F. Dekker, H. van Heerikhuizen, and R. J. Planta 1992. A system to study transcription by yeast RNA polymerase I within the chromosomal context: functional analysis of the ribosomal DNA enhancer and the RBP1/REB1 binding sites. EMBO J. 11: 4665–4674.
   PubMedGoogle Scholar
• Kulkens, T., H. van Heerikhuizen, J. Klootwijk, J. Oliemans, and R. J. Planta 1989. A yeast ribosomal DNA-binding protein that binds to the rDNA enhancer and also close to the site of Pol I transcription initiation is not important for enhancer functioning. Curr. Genet. 16: 351–359.
   PubMedGoogle Scholar
• Lang, W. H., B. E. Morrow, Q. Ju, J. R. Warner, and R. H. Reeder 1994. A model for transcription termination by RNA polymerase I. Cell 79: 527–534.
   PubMedGoogle Scholar
• Lang, W. H., and R. H. Reeder 1993. The REB1 site is an essential component of a terminator for RNA polymerase I in Saccharomyces cerevisiae. Mol. Cell. Biol. 13: 649–658.
   PubMedGoogle Scholar
• Lang, W. H., and R. H. Reeder 1995. Transcription termination of RNA polymerase I due to a T-rich element interacting with Reb1p. Proc. Natl. Acad. Sci. USA 92: 9781–9785.
   PubMedGoogle Scholar
• Langst, G., T. A. Blank, P. B. Becker, and I. Grummt 1997. RNA polymerase I transcription on nucleosomal templates: the transcription termination factor TTF-I induces chromatin remodeling and relieves transcriptional repression. EMBO J. 16: 760–768.
   PubMed Web of Science ®Google Scholar
• Liaw, P. C., and C. J. Brandl 1994. Defining the sequence specificity of the Saccharomyces cerevisiae DNA binding protein REB1p by selecting binding sites from random-sequence oligonucleotides. Yeast 10: 771–787.
   PubMedGoogle Scholar
• Lockhart, D. J. Personal communication.
   Google Scholar
• McLean, M., A. V. Hubberstey, D. J. Bouman, N. Pece, P. Mastrangelo, and A. G. Wildeman 1995. Organization of the Saccharomyces cerevisiae actin gene UAS: functional significance of reiterated REB1 binding sites and AT-rich elements. Mol. Microbiol. 18: 605–614.
   PubMedGoogle Scholar
• Morita, T., K. Shigesada, F. Kimizuka, and H. Aiba 1988. Regulatory effect of a synthetic CRP recognition sequence placed downstream of a promoter. Nucleic Acids Res. 16: 7315–7332.
   PubMedGoogle Scholar
• Morrow, B. E., S. P. Johnson, and J. R. Warner 1989. Proteins that bind to the yeast rDNA enhancer. J. Biol. Chem. 264: 9061–9068.
   PubMedGoogle Scholar
• Morrow, B. E., Q. Ju, and J. R. Warner 1990. Purification and characterization of the yeast rDNA binding protein REB1. J. Biol. Chem. 265: 20778–20783.
   PubMedGoogle Scholar
• Morrow, B. E., Q. Ju, and J. R. Warner 1993. A bipartite DNA-binding domain in yeast Reb1p. Mol. Cell. Biol. 13: 1173–1182.
   PubMedGoogle Scholar
• Nicolaides, N. C., R. Gualdi, C. Casadevall, L. Manzella, and B. Calabretta 1991. Positive autoregulation of c-myb expression via Myb binding sites in the 5′ flanking region of the human c-myb gene. Mol. Cell. Biol. 11: 6166–6176.
   PubMed Web of Science ®Google Scholar
• Nonet, M., C. Scafe, J. Sexton, and R. Young 1987. Eucaryotic RNA polymerase conditional mutant that rapidly ceases mRNA synthesis. Mol. Cell. Biol. 7: 1602–1611.
   PubMedGoogle Scholar
• Ofir, R., V. J. Dwarki, D. Rashid, and I. M. Verma 1990. Phosphorylation of the C terminus of Fos protein is required for transcriptional transrepression of the c-fos promoter. Nature 348: 80–82.
   PubMedGoogle Scholar
• Packham, E. A., I. R. Graham, and A. Chambers 1996. The multifunctional transcription factors Abf1p, Rap1p and Reb1p are required for full transcriptional activation of the chromosomal PGK gene in Saccharomyces cerevisiae. Mol. Gen. Genet. 250: 348–356.
   PubMedGoogle Scholar
• Paulmier, N., M. Yaniv, B. von Wilcken-Bergmann, and B. Muller-Hill 1987. gal4 transcription activator protein of yeast can function as a repressor in Escherichia coli. EMBO J. 6: 3539–3542.
   PubMedGoogle Scholar
• Ptashne, M. 1986. A genetic switch: gene control and phage λ. Cell Press & Blackwell Scientific Publications, Ltd., Oxford, England.
   Google Scholar
• Remacle, J. E., and S. Holmberg 1992. A REB1-binding site is required for GCN4-independent ILV1 basal level transcription and can be functionally replaced by an ABF1-binding site. Mol. Cell. Biol. 12: 5516–5526.
   PubMedGoogle Scholar
• Rose, M. D., F. Winston, and P. Hieter 1990. Methods in yeast genetics: a laboratory course manual. Cold Spring Harbor Laboratory Press, Cold Spring Harbor, N.Y.
   Google Scholar
• Rothstein, R. 1991. Targeting, disruption, replacement, and allele rescue: integrative DNA transformation in yeast. Methods Enzymol. 194: 281–301.
   PubMed Web of Science ®Google Scholar
• Sambrook, J., E. F. Fritsch, and T. Maniatis 1989. Molecular cloning: a laboratory manual2nd ed. Cold Spring Harbor Laboratory, Cold Spring Harbor, N.Y.
   Google Scholar
• Schmitt, M. E., T. A. Brown, and B. L. Trumpower 1990. A rapid and simple method for preparation of RNA from Saccharomyces cerevisiae. Nucleic Acids Res. 18: 3091–3092.
   PubMed Web of Science ®Google Scholar
• Scott, E. W., and H. V. Baker 1993. Concerted action of the transcriptional activators REB1, RAP1, and GCR1 in the high-level expression of the glycolytic gene TPI. Mol. Cell. Biol. 13: 543–550.
   PubMedGoogle Scholar
• Sellitti, M. A., P. A. Pavco, and D. A. Steege 1987. lac repressor blocks in vivo transcription of lac control region DNA. Proc. Natl. Acad. Sci. USA 84: 3199–3203.
   PubMed Web of Science ®Google Scholar
• Serfling, E. 1989. Autoregulation—a common property of eukaryotic transcription factors? Trends Genet. 5: 131–133.
   PubMedGoogle Scholar
• Sikorski, R. S., and P. Hieter 1989. A system of shuttle vectors and yeast host strains designed for efficient manipulation of DNA in Saccharomyces cerevisiae. Genetics 122: 19–27.
   PubMed Web of Science ®Google Scholar
• Studier, F. W., A. H. Rosenberg, J. J. Dunn, and J. W. Dubendorff 1990. Use of T7 RNA polymerase to direct expression of cloned genes. Methods Enzymol. 185: 60–89.
   PubMed Web of Science ®Google Scholar
• Thomas, B. J., and R. Rothstein 1989. Elevated recombination rates in transcriptionally active DNA. Cell 56: 619–630.
   PubMed Web of Science ®Google Scholar
• Velculescu, V. E., L. Zhang, W. Zhou, J. Vogelstein, M. A. Basrai, Bassett D. E., Jr., P. Hieter, B. Vogelstein, and K. W. Kinzler 1997. Characterization of the yeast transcriptome. Cell 88: 243–251.
   PubMed Web of Science ®Google Scholar
• Wang, H., P. R. Nicholson, and D. J. Stillman 1990. Identification of a Saccharomyces cerevisiae DNA-binding protein involved in transcriptional regulation. Mol. Cell. Biol. 10: 1743–1753.
   PubMedGoogle Scholar
• Warner, J. R. 1989. Synthesis of ribosomes in Saccharomyces cerevisiae. Microbiol. Rev. 53: 256–271.
   PubMedGoogle Scholar
• Wodicka, L., H. Dong, M. Mittmann, M. Ho, and D. J. Lockhart 1997. Genome-wide expression monitoring in Saccharomyces cerevisiae. Nat. Biotechnol. 15: 1359–1367.
   PubMed Web of Science ®Google Scholar
• Wu, H. M., and D. M. Crothers 1984. The locus of sequence-directed and protein-induced DNA bending. Nature 308: 509–513.
   PubMed Web of Science ®Google Scholar
• Zhou, P., and D. J. Thiele 1993. Rapid transcriptional autoregulation of a yeast metalloregulatory transcription factor is essential for high-level copper detoxification. Genes Dev. 7: 1824–1835.
   PubMedGoogle Scholar