Loss of Sin3/Rpd3 Histone Deacetylase Restores the DNA Damage Response in Checkpoint-Deficient Strains of Saccharomyces cerevisiae

REFERENCES

• Adams, A. E., and J. R. Pringle. 1984. Relationship of actin and tubulin distribution to bud growth in wild-type and morphogenetic-mutant Saccharomyces cerevisiae. J. Cell Biol. 98: 934–945.
   PubMed Web of Science ®Google Scholar
• Amon, A. 1999. The spindle checkpoint. Curr. Opin. Genet. Dev. 9: 69–75.
   PubMed Web of Science ®Google Scholar
• Bernstein, B. E., J. K. Tong, and S. L. Schreiber. 2000. Genomewide studies of histone deacetylase function in yeast. Proc. Natl. Acad. Sci. USA 97: 13708–13713.
   PubMed Web of Science ®Google Scholar
• Bowdish, K. S., and A. P. Mitchell. 1993. Bipartite structure of an early meiotic upstream activation sequence from Saccharomyces cerevisiae. Mol. Cell. Biol. 13: 2172–2181.
   PubMed Web of Science ®Google Scholar
• Buggy, J. J., M. L. Sideris, P. Mak, D. D. Lorimer, B. McIntosh, and J. M. Clark. 2000. Cloning and characterization of a novel human histone deacetylase, HDAC8. Biochem. J. 350: 199–205.
   PubMedGoogle Scholar
• Burke, D., D. Dawson, and T. Stearns. 2000. Methods in yeast genetics: a Cold Spring Harbor Laboratory course manual. Cold Spring Harbor Laboratory Press, Cold Spring Harbor, N.Y.
   Google Scholar
• Cai, R. L., Y. Yan-Neale, M. A. Cueto, H. Xu, and D. Cohen. 2000. HDAC1, a histone deacetylase, forms a complex with Hus1 and Rad9, two G2/M checkpoint Rad proteins. J. Biol. Chem. 275: 27909–27916.
   PubMed Web of Science ®Google Scholar
• Craig, E. A., B. D. Gambill, and R. J. Nelson. 1993. Heat shock proteins: molecular chaperones of protein biogenesis. Microbiol. Rev. 57: 402–414.
   PubMedGoogle Scholar
• Cress, W. D., and E. Seto. 2000. Histone deacetylases, transcriptional control, and cancer. J. Cell. Physiol. 184: 1–16.
   PubMed Web of Science ®Google Scholar
• Desany, B. A., A. A. Alcasabas, J. B. Bachant, and S. J. Elledge. 1998. Recovery from DNA replicational stress is the essential function of the S-phase checkpoint pathway. Genes Dev. 12: 2956–2970.
   PubMed Web of Science ®Google Scholar
• Frei, C., and S. M. Gasser. 2000. The yeast Sgs1p helicase acts upstream of Rad53p in the DNA replication checkpoint and colocalizes with Rad53p in S-phase-specific foci. Genes Dev. 14: 81–96.
   PubMed Web of Science ®Google Scholar
• Garber, P. M., and J. Rine. 2002. Overlapping roles of the spindle assembly and DNA damage checkpoints in the cell-cycle response to altered chromosomes in Saccharomyces cerevisiae. Genetics 161: 521–534.
   PubMedGoogle Scholar
• Gardner, R. D., and D. J. Burke. 2000. The spindle checkpoint: two transitions, two pathways. Trends Cell Biol. 10: 154–158.
   PubMedGoogle Scholar
• Hartwell, L. H., and T. A. Weinert. 1989. Checkpoints: controls that ensure the order of cell cycle events. Science 246: 629–634.
   PubMed Web of Science ®Google Scholar
• Hong, L., G. P. Schroth, H. R. Matthews, P. Yau, and E. M. Bradbury. 1993. Studies of the DNA binding properties of histone H4 amino terminus. Thermal denaturation studies reveal that acetylation markedly reduces the binding constant of the H4 “tail” to DNA. J. Biol. Chem. 268: 305–314.
   PubMed Web of Science ®Google Scholar
• Howe, L., D. Auston, P. Grant, S. John, R. G. Cook, J. L. Workman, and L. Pillus. 2001. Histone H3 specific acetyltransferases are essential for cell cycle progression. Genes Dev. 15: 3144–3154.
   PubMed Web of Science ®Google Scholar
• Hu, E., Z. Chen, T. Fredrickson, Y. Zhu, R. Kirkpatrick, G. F. Zhang, K. Johanson, C. M. Sung, R. Liu, and J. Winkler. 2000. Cloning and characterization of a novel human class I histone deacetylase that functions as a transcription repressor. J. Biol. Chem. 275: 15254–15264.
   PubMed Web of Science ®Google Scholar
• Hu, F., A. A. Alcasabas, and S. J. Elledge. 2001. Asf1 links Rad53 to control of chromatin assembly. Genes Dev. 15: 1061–1066.
   PubMed Web of Science ®Google Scholar
• Kadonaga, J. T. 1998. Eukaryotic transcription: an interlaced network of transcription factors and chromatin-modifying machines. Cell 92: 307–313.
   PubMed Web of Science ®Google Scholar
• Kadosh, D., and K. Struhl. 1997. Repression by Ume6 involves recruitment of a complex containing Sin3 corepressor and Rpd3 histone deacetylase to target promoters. Cell 89: 365–371.
   PubMed Web of Science ®Google Scholar
• Kasten, M. M., S. Dorland, and D. J. Stillman. 1997. A large protein complex containing the yeast Sin3p and Rpd3p transcriptional regulators. Mol. Cell. Biol. 17: 4852–4858.
   PubMedGoogle Scholar
• Kondo, T., T. Wakayama, T. Naiki, K. Matsumoto, and K. Sugimoto. 2001. Recruitment of Mec1 and Ddc1 checkpoint proteins to double-strand breaks through distinct mechanisms. Science 294: 867–870.
   PubMedGoogle Scholar
• Kuo, M. H., and C. D. Allis. 1998. Roles of histone acetyltransferases and deacetylases in gene regulation. Bioessays 20: 615–626.
   PubMed Web of Science ®Google Scholar
• Longtine, M. S., A. McKenzie I I I, D. J. Demarini, N. G. Shah, A. Wach, A. Brachat, P. Philippsen, and J. R. Pringle. 1998. Additional modules for versatile and economical PCR-based gene deletion and modification in Saccharomyces cerevisiae. Yeast 14: 953–961.
   PubMed Web of Science ®Google Scholar
• Magnaghi-Jaulin, L., S. Ait-Si-Ali, and A. Harel-Bellan. 2000. Histone acetylation and the control of the cell cycle. Prog. Cell Cycle Res. 4: 41–47.
   PubMedGoogle Scholar
• Maringele, L., and D. Lydall. 2002. EXO1-dependent single-stranded DNA at telomeres activates subsets of DNA damage and spindle checkpoint pathways in budding yeast yku70Delta mutants. Genes Dev. 16: 1919–1933.
   PubMed Web of Science ®Google Scholar
• Megee, P. C., B. A. Morgan, and M. M. Smith. 1995. Histone H4 and the maintenance of genome integrity. Genes Dev. 9: 1716–1727.
   PubMed Web of Science ®Google Scholar
• Melo, J. A., J. Cohen, and D. P. Toczyski. 2001. Two checkpoint complexes are independently recruited to sites of DNA damage in vivo. Genes Dev. 15: 2809–2821.
   PubMed Web of Science ®Google Scholar
• Mikhailov, A., R. W. Cole, and C. L. Rieder. 2002. DNA damage during mitosis in human cells delays the metaphase/anaphase transition via the spindle-assembly checkpoint. Curr. Biol. 12: 1797–1806.
   PubMed Web of Science ®Google Scholar
• Morgan, B. A., B. A. Mittman, and M. M. Smith. 1991. The highly conserved N-terminal domains of histones H3 and H4 are required for normal cell cycle progression. Mol. Cell. Biol. 11: 4111–4120.
   PubMedGoogle Scholar
• Nakajima, H., Y. B. Kim, H. Terano, M. Yoshida, and S. Horinouchi. 1998. FR901228, a potent antitumor antibiotic, is a novel histone deacetylase inhibitor. Exp. Cell. Res. 241: 126–133.
   PubMed Web of Science ®Google Scholar
• Paciotti, V., G. Lucchini, P. Plevani, and M. P. Longhese. 1998. Mec1p is essential for phosphorylation of the yeast DNA damage checkpoint protein Ddc1p, which physically interacts with Mec3p. EMBO J. 17: 4199–4209.
   PubMed Web of Science ®Google Scholar
• Pati, D., C. Keller, M. Groudine, and S. E. Plon. 1997. Reconstitution of a MEC1-independent checkpoint in yeast by expression of a novel human fork head cDNA. Mol. Cell. Biol. 17: 3037–3046.
   PubMedGoogle Scholar
• Qiu, L., A. Burgess, D. P. Fairlie, H. Leonard, P. G. Parsons, and B. G. Gabrielli. 2000. Histone deacetylase inhibitors trigger a G2 checkpoint in normal cells that is defective in tumor cells. Mol. Biol. Cell 11: 2069–2083.
   PubMed Web of Science ®Google Scholar
• Rundlett, S. E., A. A. Carmen, N. Suka, B. M. Turner, and M. Grunstein. 1998. Transcriptional repression by UME6 involves deacetylation of lysine 5 of histone H4 by RPD3. Nature 392: 831–835.
   PubMed Web of Science ®Google Scholar
• Sambucetti, L. C., D. D. Fischer, S. Zabludoff, P. O. Kwon, H. Chamberlin, N. Trogani, H. Xu, and D. Cohen. 1999. Histone deacetylase inhibition selectively alters the activity and expression of cell cycle proteins leading to specific chromatin acetylation and antiproliferative effects. J. Biol. Chem. 274: 34940–34947.
   PubMed Web of Science ®Google Scholar
• Sanchez, Y., B. A. Desany, W. J. Jones, Q. Liu, B. Wang, and S. J. Elledge. 1996. Regulation of RAD53 by the ATM-like kinases MEC1 and TEL1 in yeast cell cycle checkpoint pathways. Science 271: 357–360.
   PubMed Web of Science ®Google Scholar
• Schiestl, R. H., P. Reynolds, S. Prakash, and L. Prakash. 1989. Cloning and sequence analysis of the Saccharomyces cerevisiae RAD9 gene and further evidence that its product is required for cell cycle arrest induced by DNA damage. Mol. Cell. Biol. 9: 1882–1896.
   PubMed Web of Science ®Google Scholar
• Sellers, W. R., and W. G. Kaelin, Jr. 1997. Role of the retinoblastoma protein in the pathogenesis of human cancer. J. Clin. Oncol. 15: 3301–3312.
   PubMed Web of Science ®Google Scholar
• Silverstein, R. A., W. Richardson, H. Levin, R. Allshire, and K. Ekwall. 2003. A new role for the transcriptional corepressor SIN3; regulation of centromeres. Curr. Biol. 13: 68–72.
   PubMedGoogle Scholar
• Stillman, D. J., S. Dorland, and Y. Yu. 1994. Epistasis analysis of suppressor mutations that allow HO expression in the absence of the yeast SW15 transcriptional activator. Genetics 136: 781–788.
   PubMedGoogle Scholar
• Strich, R., M. R. Slater, and R. E. Esposito. 1989. Identification of negative regulatory genes that govern the expression of early meiotic genes in yeast. Proc. Natl. Acad. Sci. USA 86: 10018–10022.
   PubMedGoogle Scholar
• Struhl, K. 1998. Histone acetylation and transcriptional regulatory mechanisms. Genes Dev. 12: 599–606.
   PubMed Web of Science ®Google Scholar
• Tsuchiya, E., T. Hosotani, and T. Miyakawa. 1998. A mutation in NPS1/STH1, an essential gene encoding a component of a novel chromatin-remodeling complex RSC, alters the chromatin structure of Saccharomyces cerevisiae centromeres. Nucleic Acids Res. 26: 3286–3292.
   PubMedGoogle Scholar
• Tsukiyama, T., and C. Wu. 1997. Chromatin remodeling and transcription. Curr. Opin. Genet. Dev. 7: 182–191.
   PubMed Web of Science ®Google Scholar
• Van den Wyngaert, I., W. de Vries, A. Kremer, J. Neefs, P. Verhasselt, W. H. Luyten, and S. U. Kass. 2000. Cloning and characterization of human histone deacetylase 8. FEBS Lett. 478: 77–83.
   PubMed Web of Science ®Google Scholar
• Vidal, M., and R. F. Gaber. 1991. RPD3 encodes a second factor required to achieve maximum positive and negative transcriptional states in Saccharomyces cerevisiae. Mol. Cell. Biol. 11: 6317–6327.
   PubMed Web of Science ®Google Scholar
• Vidal, M., R. Strich, R. E. Esposito, and R. F. Gaber. 1991. RPD1 (SIN3/UME4) is required for maximal activation and repression of diverse yeast genes. Mol. Cell. Biol. 11: 6306–6316.
   PubMedGoogle Scholar
• Vignali, M., A. H. Hassan, K. E. Neely, and J. L. Workman. 2000. ATP-dependent chromatin-remodeling complexes. Mol. Cell. Biol. 20: 1899–1910.
   PubMed Web of Science ®Google Scholar
• Wade, P. A. 2001. Transcriptional control at regulatory checkpoints by histone deacetylases: molecular connections between cancer and chromatin. Hum. Mol. Genet. 10: 693–698.
   PubMed Web of Science ®Google Scholar
• Weinert, T. A., G. L. Kiser, and L. H. Hartwell. 1994. Mitotic checkpoint genes in budding yeast and the dependence of mitosis on DNA replication and repair. Genes Dev. 8: 652–665.
   PubMed Web of Science ®Google Scholar
• Zhao, X., E. G. Muller, and R. Rothstein. 1998. A suppressor of two essential checkpoint genes identifies a novel protein that negatively affects dNTP pools. Mol. Cell 2: 329–340.
   PubMed Web of Science ®Google Scholar
• Zhou, B. B., and S. J. Elledge. 2000. The DNA damage response: putting checkpoints in perspective. Nature 408: 433–439.
   PubMed Web of Science ®Google Scholar
• Zou, L., D. Cortez, and S. J. Elledge. 2002. Regulation of ATR substrate selection by Rad17-dependent loading of Rad9 complexes onto chromatin. Genes Dev. 16: 198–208.
   PubMed Web of Science ®Google Scholar