In Vivo Analysis of Functional Regions within Yeast Rap1p

REFERENCES

• Baker, H. V. 1986. Glycolytic gene expression in Saccharomyces cerevisiae: nucleotide sequence of GCR1, null mutants, and evidence for expression. Mol. Cell. Biol. 6:3774–3784.
   PubMedGoogle Scholar
• Baker, H. V. 1991. GCR1 of Saccharomyces cerevisiae encodes a DNA binding protein whose binding is abolished by mutations in the CTTCC sequence motif. Proc. Natl. Acad. Sci. USA 88:9443–9447.
   PubMedGoogle Scholar
• Bitter, G. A., K. K. H. Chang, and J. Egan 1991. A multi-component upstream activation sequence of the Saccharomyces cerevisiae glyceraldehyde-3-phosphate dehydrogenase gene promoter. Mol. Gen. Genet. 231:22–32.
   PubMedGoogle Scholar
• Brindle, P. K., J. P. Holland, C. E. Willett, M. A. Innis, and J. Holland 1990. Multiple factors bind the upstream activation sites of the yeast enolase genes ENO1 and ENO2: ABF1 protein, like repressor activator protein RAP1, binds cis-acting sequences which modulate repression or activation of transcription. Mol. Cell. Biol. 10:4872–4885.
   PubMed Web of Science ®Google Scholar
• Butler, G., I. W. Dawes, and J. McConnell 1990. TUF factor binds to the upstream region of the pyruvate decarboxylase structural gene (PDC1) of Saccharomyces cerevisiae. Mol. Gen. Genet. 223:449–456.
   PubMedGoogle Scholar
• Callebaut, I., and J. Mornon 1997. From BRCA1 to RAP1: a widespread BRCT module closely associated with DNA repair. FEBS Lett. 400:25–30.
   PubMed Web of Science ®Google Scholar
• Chambers, A., E. A. Packham, and J. Graham 1995. Control of glycolytic gene expression in the budding yeast (Saccharomyces cerevisiae). Curr. Genet. 29:1–9.
   PubMedGoogle Scholar
• Chambers, A., C. Stanway, A. J. Kingsman, and J. Kingsman 1988. The UAS of the yeast PGK gene is composed of multiple functional elements. Nucleic Acids Res. 16:8245–8260.
   PubMedGoogle Scholar
• Chambers, A., C. Stanway, J. S. H. Tsang, Y. Henry, A. J. Kingsman, and J. Kingsman 1990. ARS binding factor 1 binds adjacent to RAP1 at the UASs of the yeast glycolytic genes PGK and PYK1. Nucleic Acids Res. 18:5393–5399.
   PubMedGoogle Scholar
• Chambers, A., J. H. Tsang, C. Stanway, A. J. Kingsman, and J. Kingsman 1989. Transcriptional control of the Saccharomyces cerevisiae PGK gene by RAP1. Mol. Cell. Biol. 9:5516–5524.
   PubMedGoogle Scholar
• Chen, D.-Z., B. C. Yang, and J. Kuo 1992. One-step transformation of yeast in stationary phase. Curr. Genet. 21:83–84.
   PubMed Web of Science ®Google Scholar
• Clifton, D., and J. Fraenkel 1981. The gcr (glycolysis regulation) mutation of Saccharomyces cerevisiae. J. Biol. Chem 256:13074–13078.
   PubMed Web of Science ®Google Scholar
• Conrad, M. N., J. H. Wright, A. J. Wolf, and J. Zakian 1990. RAP1 protein interacts with yeast telomeres in vivo: overproduction alters telomere structure and decreases chromosome stability. Cell 63:739–750.
   PubMed Web of Science ®Google Scholar
• Devlin, C., K. Tice-Baldwin, D. Shore, and J. Arndt 1991. RAP1 is required for BAS1/BAS2- and GCN4-dependent transcription of the yeast HIS4 gene. Mol. Cell. Biol. 7:3642–3651.
   Google Scholar
• Drazinic, C. M., J. B. Smerage, M. C. Lopez, and J. Baker 1996. Activation mechanism of the multifunctional transcription factor repressor-activator protein 1 (Rap1). Mol. Cell. Biol. 16:3187–3196.
   PubMedGoogle Scholar
• Giesman, D., L. Best, and J. Tatchell 1991. The role of RAP1 in the regulation of the Matα locus. Mol. Cell. Biol. 11:1069–1079.
   PubMedGoogle Scholar
• Gonçalves, P. M., G. Griffioen, R. Minnee, M. Bosma, L. S. Kraakman, W. H. Mager, and J. Planta 1995. Transcriptional activation of yeast ribosomal protein genes requires additional elements apart from binding sites for Abf1p or Rap1p. Nucleic Acids Res. 23:1475–1480.
   PubMedGoogle Scholar
• Gonçalves, P. M., K. Maurer, G. V. N. Amerongen, K. Bergkamp-Steffens, W. H. Mager, and J. Planta 1996. C-terminal domains of general regulatory factors Abf1p and Rap1p in Saccharomyces cerevisiae display functional similarity. Mol. Microbiol. 19:535–543.
   PubMedGoogle Scholar
• Graham, I. R., and J. Chambers 1994. Use of a selection technique to identify the diversity of binding sites for the yeast RAP1 transcription factor. Nucleic Acids Res. 22:124–130.
   PubMedGoogle Scholar
• Hardy, C. F. J., D. Balderes, and J. Shore 1992. Dissection of a carboxy-terminal region of the yeast regulatory protein RAP1 with effects on both transcriptional activation and silencing. Mol. Cell. Biol. 12:1209–1217.
   PubMedGoogle Scholar
• Hardy, C. F. J., L. Sussel, and J. Shore 1992. A RAP1-interacting protein involved in transcriptional silencing and telomere length regulation. Genes Dev. 6:801–814.
   PubMed Web of Science ®Google Scholar
• Hawthorne, D. C., and J. Mortimer 1960. Chromosome mapping in Saccharomyces cerevisiae: centromere-linked genes. Genetics 45:1085–1110.
   PubMedGoogle Scholar
• Hecht, A., S. Strahl-Bolsinger, and J. Grunstein 1996. Spreading of transcriptional repressor SIR3 from telomeric heterochromatin. Nature 383:92–95.
   PubMed Web of Science ®Google Scholar
• Henry, Y. A. L., A. Chambers, J. S. H. Tsang, A. J. Kingsman, and J. Kingsman 1990. Characterisation of the DNA binding domain of the yeast RAP1 protein. Nucleic Acids Res. 18:2617–2623.
   PubMedGoogle Scholar
• Hoffman, C. S., and J. Winston 1987. A ten-minute DNA preparation from yeast efficiently releases autonomous plasmids for transformation of Escherichia coli. Gene 57:267–272.
   PubMed Web of Science ®Google Scholar
• Holland, M. J., T. Yokoi, J. P. Holland, K. Myambo, and J. Innis 1987. The GCR1 gene encodes a positive transcriptional regulator of the enolase and glyceraldehyde-3-phosphate dehydrogenase gene families in Saccharomyces cerevisiae. Mol. Cell. Biol. 7:813–820.
   PubMedGoogle Scholar
• Konig, P., R. Giraldo, L. Chapman, and J. Rhodes 1996. The crystal structure of the DNA-binding domain of yeast RAP1 in complex with telomeric DNA. Cell 85:125–136.
   PubMed Web of Science ®Google Scholar
• Kraakman, L. S., G. Griffioen, S. Zerp, P. Groeneveld, J. M. Thevelein, W. M. Mager, and J. Planta 1993. Growth-related expression of ribosomal protein genes in Saccharomyces cerevisiae. Mol. Gen. Genet. 238:196–204.
   Google Scholar
• Kurtz, S., and J. Shore 1991. RAP1 protein activates and silences transcription of mating-type genes in yeast. Genes Dev. 5:616–628.
   PubMed Web of Science ®Google Scholar
• Kyrion, G., K. A. Boakye, and J. Lustig 1992. C-terminal truncation of RAP1 results in the deregulation of telomere size, stability, and function in Saccharomyces cerevisiae. Mol. Cell. Biol. 12:5159–5173.
   PubMedGoogle Scholar
• Larson, G. P., D. Castanotto, J. J. Rossi, and J. Malafa 1994. Isolation and functional analysis of a Kluyveromyces lactis RAP1 homologue. Gene 150:35–41.
   PubMedGoogle Scholar
• Liu, C., X. Mao, and J. Lustig 1994. Mutational analysis defines a C-terminal tail domain of RAP1 essential for telomeric silencing in Saccharomyces cerevisiae. Genetics 138:1025–1040.
   PubMedGoogle Scholar
• Lopez, M. C., J. B. Smerage, and J. Baker 1998. Multiple domains of repressor activator protein 1 contribute to facilitated binding of glycolysis regulatory protein 1. Proc. Natl. Acad. Sci. USA 95:14112–14117.
   PubMedGoogle Scholar
• Lustig, A. J., S. Kurtz, and J. Shore 1990. Involvement of the silencer and UAS binding protein RAP1 in regulation of telomere length. Science 250:549–553.
   PubMedGoogle Scholar
• Marcand, S., E. Gilson, and J. Shore 1997. A protein-counting mechanism for telomere length regulation in yeast. Science 275:986–990.
   PubMed Web of Science ®Google Scholar
• Mellor, J., M. J. Dobson, N. A. Roberts, M. F. Tuite, J. S. Emtage, S. White, P. A. Lowe, T. Patel, A. J. Kingsman, and J. Kingsman 1983. Efficient synthesis of enzymatically active calf chymosin in Saccharomyces cerevisiae. Gene 24:1–14.
   PubMed Web of Science ®Google Scholar
• Mizuta, K., R. Tsujii, J. R. Warner, and J. Nishiyama 1998. The C-terminal silencing domain of Rap1p is essential for the repression of ribosomal protein genes in response to a defect in the secretory pathway. Nucleic Acids Res. 26:1063–1069.
   PubMedGoogle Scholar
• Moretti, P., K. Freeman, L. Coodly, and J. Shore 1994. Evidence that a complex of SIR proteins interacts with the silencer and telomere binding protein RAP1. Genes Dev. 8:2257–2269.
   PubMed Web of Science ®Google Scholar
• Muller, T., E. Gilson, R. Schmidt, R. Giraldo, J. Sogo, H. Gross, and J. Gasser 1994. Imaging the asymmetrical DNA bend induced by repressor activator protein 1 with scanning tunneling microscopy. J. Struct. Biol. 113:1–12.
   PubMedGoogle Scholar
• Nishizawa, M., R. Araki, and J. Teranishi 1989. Identification of an upstream activating sequence and an upstream repressible sequence of the pyruvate kinase gene of the yeast Saccharomyces cerevisiae. Mol. Cell. Biol. 9:442–451.
   PubMedGoogle Scholar
• Ogden, J. E., C. Stanway, S. Kim, J. Mellor, A. J. Kingsman, and J. Kingsman 1986. Efficient expression of the Saccharomyces cerevisiae PGK gene depends on an upstream activating sequence, but does not require TATA sequences. Mol. Cell. Biol. 6:4335–4343.
   PubMedGoogle Scholar
• Pretorius, G. H. J., and J. Muller 1992. Conservation of binding site specificity of three yeast DNA binding proteins. FEBS Lett. 298:203–205.
   PubMedGoogle Scholar
• Rotenberg, M. O., and J. Woolford 1986. Tripartite upstream promoter element essential for expression of Saccharomyces cerevisiae ribosomal protein genes. Mol. Cell. Biol. 6:674–687.
   PubMedGoogle Scholar
• Santangelo, G. M., and J. Tornow 1990. Efficient transcription of the glycolytic gene ADH1 and three translational component genes requires the GCR1 product, which can act through TUF/GRF/RAP binding sites. Mol. Cell. Biol. 10:859–862.
   PubMedGoogle Scholar
• Sherman, F. 1991. Getting started with yeast. Methods Enzymol. 194:3–21.
   PubMed Web of Science ®Google Scholar
• Shore, D. 1994. RAP1: a protean regulator in yeast. Trends Genet. 10:408–412.
   PubMed Web of Science ®Google Scholar
• Shore, D., and J. Nasmyth 1987. Purification and cloning of a DNA binding protein from yeast that binds to both silencer and activator elements. Cell 51:721–732.
   PubMed Web of Science ®Google Scholar
• Sikorski, R. S., and J. 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
• Sussel, L., and J. Shore 1991. Separation of transcriptional activation and silencing functions of the RAP1-encoded repressor/activator protein 1: isolation of viable mutants affecting both silencing and telomere length. Proc. Natl. Acad. Sci. USA 88:7749–7753.
   PubMedGoogle Scholar
• Thompson, J. D., J. D. Higgins, and J. Gibson 1994. Clustal-W-improving the sensitivity of progressive multiple sequence alignment through sequence weighting position-specific gap penalties and weight matrix choice. Nucleic Acids Res. 22:4673–4680.
   PubMed Web of Science ®Google Scholar
• Tornow, J., X. Zeng, W. Gao, and J. Santangelo 1993. GCR1, a transcriptional activator in Saccharomyces cerevisiae, complexes with RAP1 and can function without its DNA binding domain. EMBO J. 12:2431–2437.
   PubMed Web of Science ®Google Scholar
• Uemura, H., M. Koshio, Y. Inoue, M. Cecilia Lopez, and J. Baker 1997. The role of Gcr1p in the transcriptional activation of glycolytic genes in yeast Saccharomyces cerevisiae. Genetics 147:521–532.
   PubMedGoogle Scholar
• Wotton, D., and J. Shore 1997. A novel Rap1p-interacting factor, Rif2p, cooperates with Rif1p to regulate telomere length in Saccharomyces cerevisiae. Genes Dev. 11:748–760.
   PubMed Web of Science ®Google Scholar
• Woudt, L. P., W. H. Mager, R. T. M. Nieuwint, G. M. Wassenaar, A. C. van der Kuyl, J. J. Murre, M. F. M. Hoekman, P. G. M. Brockhoff, and J. Planta 1987. Analysis of upstream activation sites of yeast ribosomal protein genes. Nucleic Acids Res. 15:6037–6048.
   PubMedGoogle Scholar