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Article

H2A.Z Functions To Regulate Progression through the Cell Cycle

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Pages 489-501 | Received 01 Oct 2005, Accepted 30 Oct 2005, Published online: 27 Mar 2023

REFERENCES

  • Adam, M., F. Robert, M. Larochelle, and L. Gaudreau. 2001. H2A.Z is required for global chromatin integrity and for recruitment of RNA polymerase II under specific conditions. Mol. Cell. Biol. 21:6270–6279.
  • Alcasabas, A. A., A. J. Osborn, J. Bachant, F. Hu, P. J. Werler, K. Bousset, K. Furuya, J. F. Diffley, A. M. Carr, and S. J. Elledge. 2001. Mrc1 transduces signals of DNA replication stress to activate Rad53. Nat. Cell Biol. 3:958–965.
  • Andrews, B., and V. Measday. 1998. The cyclin family of budding yeast: abundant use of a good idea. Trends Genet. 14:66–72.
  • Aparicio, O. M., A. M. Stout, and S. P. Bell. 1999. Differential assembly of Cdc45p and DNA polymerases at early and late origins of DNA replication. Proc. Natl. Acad. Sci. USA 96:9130–9135.
  • Aparicio, O. M., D. M. Weinstein, and S. P. Bell. 1997. Components and dynamics of DNA replication complexes in S. cerevisiae: redistribution of MCM proteins and Cdc45p during S phase. Cell 91:59–69.
  • Araki, H., P. A. Ropp, A. L. Johnson, L. H. Johnston, A. Morrison, and A. Sugino. 1992. DNA polymerase II, the probable homolog of mammalian DNA polymerase epsilon, replicates chromosomal DNA in the yeast Saccharomyces cerevisiae. EMBO J. 11:733–740.
  • Bell, S. P., and B. Stillman. 1992. ATP-dependent recognition of eukaryotic origins of DNA replication by a multiprotein complex. Nature 357:128–134.
  • Brewer, B. J., and W. L. Fangman. 1991. Mapping replication origins in yeast chromosomes. Bioessays 13:317–322.
  • Chanet, R., and M. Heude. 2003. Characterization of mutations that are synthetic lethal with pol3-13, a mutated allele of DNA polymerase delta in Saccharomyces cerevisiae. Curr. Genet. 43:337–350.
  • Choy, J. S., and S. J. Kron. 2002. NuA4 subunit Yng2 function in intra-S-phase DNA damage response. Mol. Cell. Biol. 22:8215–8225.
  • Clarkson, M. J., J. R. Wells, F. Gibson, R. Saint, and D. J. Tremethick. 1999. Regions of variant histone His2AvD required for Drosophila development. Nature 399:694–697.
  • Cosgrove, A. J., C. A. Nieduszynski, and A. D. Donaldson. 2002. Ku complex controls the replication time of DNA in telomere regions. Genes Dev. 16:2485–2490.
  • Cosma, M. P. 2002. Ordered recruitment: gene-specific mechanism of transcription activation. Mol. Cell 10:227–236.
  • Cosma, M. P., S. Panizza, and K. Nasmyth. 2001. Cdk1 triggers association of RNA polymerase to cell cycle promoters only after recruitment of the mediator by SBF. Mol. Cell 7:1213–1220.
  • Cosma, M. P., T. Tanaka, and K. Nasmyth. 1999. Ordered recruitment of transcription and chromatin remodeling factors to a cell cycle- and developmentally regulated promoter. Cell 97:299–311.
  • Cross, F. R., and M. D. Jacobson. 2000. Conservation and function of a potential substrate-binding domain in the yeast Clb5 B-type cyclin. Mol. Cell. Biol. 20:4782–4790.
  • Dhillon, N., and R. T. Kamakaka. 2000. A histone variant, Htz1p, and a Sir1p-like protein, Esc2p, mediate silencing at HMR. Mol. Cell 6:769–780.
  • Diffley, J. F. 2004. Regulation of early events in chromosome replication. Curr. Biol. 14:R778—R786.
  • Dirick, L., T. Bohm, and K. Nasmyth. 1995. Roles and regulation of Cln-Cdc28 kinases at the start of the cell cycle of Saccharomyces cerevisiae. EMBO J. 14:4803–4813.
  • Donaldson, A. D., M. K. Raghuraman, K. L. Friedman, F. R. Cross, B. J. Brewer, and W. L. Fangman. 1998. CLB5-dependent activation of late replication origins in S. cerevisiae. Mol. Cell 2:173–182.
  • Early, A., L. S. Drury, and J. F. Diffley. 2004. Mechanisms involved in regulating DNA replication origins during the cell cycle and in response to DNA damage. Philos. Trans. R Soc. Lond. B. Biol. Sci. 359:31–38.
  • Ehrenhofer-Murray, A. E. 2004. Chromatin dynamics at DNA replication, transcription and repair. Eur. J. Biochem. 271:2335–2349.
  • Ehrenhofer-Murray, A. E., R. T. Kamakaka, and J. Rine. 1999. A role for the replication proteins PCNA, RF-C, polymerase epsilon and Cdc45 in transcriptional silencing in Saccharomyces cerevisiae. Genetics 153:1171–1182.
  • Ehrenhofer-Murray, A. E., D. H. Rivier, and J. Rine. 1997. The role of Sas2, an acetyltransferase homologue of Saccharomyces cerevisiae, in silencing and ORC function. Genetics 145:923–934.
  • Friedman, K. L., B. J. Brewer, and W. L. Fangman. 1997. Replication profile of Saccharomyces cerevisiae chromosome VI. Genes Cells 2:667–678.
  • Friedman, K. L., J. D. Diller, B. M. Ferguson, S. V. Nyland, B. J. Brewer, and W. L. Fangman. 1996. Multiple determinants controlling activation of yeast replication origins late in S phase. Genes Dev. 10:1595–1607.
  • Friedman, K. L., M. K. Raghuraman, W. L. Fangman, and B. J. Brewer. 1995. Analysis of the temporal program of replication initiation in yeast chromosomes. J. Cell Sci. Suppl. 19:51–58.
  • Futcher, B. 1996. Cyclins and the wiring of the yeast cell cycle. Yeast 12:1635–1646.
  • 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.
  • Ghidelli, S., D. Donze, N. Dhillon, and R. T. Kamakaka. 2001. Sir2p exists in two nucleosome-binding complexes with distinct deacetylase activities. EMBO J. 20:4522–4535.
  • Gibson, D. G., J. G. Aparicio, F. Hu, and O. M. Aparicio. 2004. Diminished S-phase cyclin-dependent kinase function elicits vital Rad53-dependent checkpoint responses in Saccharomyces cerevisiae. Mol. Cell. Biol. 24:10208–10222.
  • Grunstein, M. 1990. Histone function in transcription. Annu. Rev. Cell Biol. 6:643–678.
  • Hanawalt, P. C. 1994. Transcription-coupled repair and human disease. Science 266:1957–1958.
  • Horak, C. E., N. M. Luscombe, J. Qian, P. Bertone, S. Piccirrillo, M. Gerstein, and M. Snyder. 2002. Complex transcriptional circuitry at the G1/S transition in Saccharomyces cerevisiae. Genes Dev. 16:3017–3033.
  • 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.
  • Iizuka, M., and B. Stillman. 1999. Histone acetyltransferase HBO1 interacts with the ORC1 subunit of the human initiator protein. J. Biol. Chem. 274:23027–23034.
  • Kamakaka, R. T., and S. Biggins. 2005. Histone variants: deviants? Genes Dev. 19:295–310.
  • Kobor, M. S., S. Venkatasubrahmanyam, M. D. Meneghini, J. W. Gin, J. L. Jennings, A. J. Link, H. D. Madhani, and J. Rine. 2004. A protein complex Containing the conserved Swi2/Snf2-Related ATPase Swr1p deposits histone variant H2A.Z into euchromatin. PLoS Biol. 2:E131.
  • Krebs, J. E., C. J. Fry, M. L. Samuels, and C. L. Peterson. 2000. Global role for chromatin remodeling enzymes in mitotic gene expression. Cell 102:587–598.
  • Krebs, J. E., M. H. Kuo, C. D. Allis, and C. L. Peterson. 1999. Cell cycle-regulated histone acetylation required for expression of the yeast HO gene. Genes Dev. 13:1412–1421.
  • Krogan, N. J., K. Baetz, M. C. Keogh, N. Datta, C. Sawa, T. C. Kwok, N. J. Thompson, M. G. Davey, J. Pootoolal, T. R. Hughes, A. Emili, S. Buratowski, P. Hieter, and J. F. Greenblatt. 2004. Regulation of chromosome stability by the histone H2A variant Htz1, the Swr1 chromatin remodeling complex, and the histone acetyltransferase NuA4. Proc. Natl. Acad. Sci. USA 101:13513–13518.
  • Krogan, N. J., M. C. Keogh, N. Datta, C. Sawa, O. W. Ryan, H. Ding, R. A. Haw, J. Pootoolal, A. Tong, V. Canadien, D. P. Richards, X. Wu, A. Emili, T. R. Hughes, S. Buratowski, and J. F. Greenblatt. 2003. A Snf2 family ATPase complex required for recruitment of the histone H2A variant Htz1. Mol. Cell 12:1565–1576.
  • Kusch, T., L. Florens, W. H. Macdonald, S. K. Swanson, R. L. Glaser, J. R. Yates III, S. M. Abmayr, M. P. Washburn, and J. L. Workman. 2004. Acetylation by Tip60 is required for selective histone variant exchange at DNA lesions. Science 306:2084–2087.
  • Larochelle, M., and L. Gaudreau. 2003. H2A.Z has a function reminiscent of an activator required for preferential binding to intergenic DNA. EMBO J. 22:4512–4522.
  • Le Masson, I., D. Y. Yu, K. Jensen, A. Chevalier, R. Courbeyrette, Y. Boulard, M. M. Smith, and C. Mann. 2003. Yaf9, a novel NuA4 histone acetyltransferase subunit, is required for the cellular response to spindle stress in yeast. Mol. Cell. Biol. 23:6086–6102.
  • Leach, T. J., M. Mazzeo, H. L. Chotkowski, J. P. Madigan, M. G. Wotring, and R. L. Glaser. 2000. Histone H2A.Z is widely but nonrandomly distributed in chromosomes of Drosophila melanogaster. J. Biol. Chem. 275:23267–23272.
  • Lengronne, A., and E. Schwob. 2002. The yeast CDK inhibitor Sic1 prevents genomic instability by promoting replication origin licensing in late G(1). Mol. Cell 9:1067–1078.
  • Lipford, J. R., and S. P. Bell. 2001. Nucleosomes positioned by ORC facilitate the initiation of DNA replication. Mol. Cell 7:21–30.
  • Lopes, M., C. Cotta-Ramusino, A. Pellicioli, G. Liberi, P. Plevani, M. Muzi-Falconi, C. S. Newlon, and M. Foiani. 2001. The DNA replication checkpoint response stabilizes stalled replication forks. Nature 412:557–561.
  • Madigan, J. P., H. L. Chotkowski, and R. L. Glaser. 2002. DNA double-strand break-induced phosphorylation of Drosophila histone variant H2Av helps prevent radiation-induced apoptosis. Nucleic Acids Res. 30:3698–3705.
  • Malone, E. A., C. D. Clark, A. Chiang, and F. Winston. 1991. Mutations in SPT16/CDC68 suppress cis- and trans-acting mutations that affect promoter function in Saccharomyces cerevisiae. Mol. Cell. Biol. 11:5710–5717.
  • McCarroll, R. M., and W. L. Fangman. 1988. Time of replication of yeast centromeres and telomeres. Cell 54:505–513.
  • Megee, P. C., B. A. Morgan, and M. M. Smith. 1995. Histone H4 and the maintenance of genome integrity. Genes Dev. 9:1716–1727.
  • Melo, J., and D. Toczyski. 2002. A unified view of the DNA-damage checkpoint. Curr. Opin. Cell Biol. 14:237–245.
  • Meneghini, M. D., M. Wu, and H. D. Madhani. 2003. Conserved histone variant H2A.Z protects euchromatin from the ectopic spread of silent heterochromatin. Cell 112:725–736.
  • Mizuguchi, G., X. Shen, J. Landry, W. H. Wu, S. Sen, and C. Wu. 2004. ATP-driven exchange of histone H2A.Z variant catalyzed by SWR1 chromatin remodeling complex. Science 303:343–348.
  • Nash, P., X. Tang, S. Orlicky, Q. Chen, F. B. Gertler, M. D. Mendenhall, F. Sicheri, T. Pawson, and M. Tyers. 2001. Multisite phosphorylation of a CDK inhibitor sets a threshold for the onset of DNA replication. Nature 414:514–521.
  • Nasmyth, K. 1993. Control of the yeast cell cycle by the Cdc28 protein kinase. Curr. Opin. Cell Biol. 5:166–179.
  • Navas, T. A., Z. Zhou, and S. J. Elledge. 1995. DNA polymerase epsilon links the DNA replication machinery to the S phase checkpoint. Cell 80:29–39.
  • Pasero, P., K. Shimada, and B. P. Duncker. 2003. Multiple roles of replication forks in S phase checkpoints: sensors, effectors and targets. Cell Cycle 2:568–572.
  • Paulovich, A. G., and L. H. Hartwell. 1995. A checkpoint regulates the rate of progression through S phase in S. cerevisiae in response to DNA damage. Cell 82:841–847.
  • Peterson, C. L., and J. Cote. 2004. Cellular machineries for chromosomal DNA repair. Genes Dev. 18:602–616.
  • Raghuraman, M. K., E. A. Winzeler, D. Collingwood, S. Hunt, L. Wodicka, A. Conway, D. J. Lockhart, R. W. Davis, B. J. Brewer, and W. L. Fangman. 2001. Replication dynamics of the yeast genome. Science 294:115–121.
  • Rangasamy, D., L. Berven, P. Ridgway, and D. J. Tremethick. 2003. Pericentric heterochromatin becomes enriched with H2A.Z during early mammalian development. EMBO J. 22:1599–1607.
  • Rowley, A., R. A. Singer, and G. C. Johnston. 1991. CDC68, a yeast gene that affects regulation of cell proliferation and transcription, encodes a protein with a highly acidic carboxyl terminus. Mol. Cell. Biol. 11:5718–5726.
  • Rupes, I. 2002. Checking cell size in yeast. Trends Genet. 18:479–485.
  • Sambrook J., and D. W. Russell. 2001. Molecular cloning: a laboratory manual, 3rd ed. Cold Spring Harbor Laboratory Press, Cold Spring Harbor, N.Y.
  • Santisteban, M. S., T. Kalashnikova, and M. M. Smith. 2000. Histone H2A.Z regulates transcription and is partially redundant with nucleosome remodeling complexes. Cell 103:411–422.
  • Santocanale, C., and J. F. Diffley. 1998. A Mec1- and Rad53-dependent checkpoint controls late-firing origins of DNA replication. Nature 395:615–618.
  • 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.
  • Schwob, E., and K. Nasmyth. 1993. CLB5 and CLB6, a new pair of B cyclins involved in DNA replication in Saccharomyces cerevisiae. Genes Dev. 7:1160–1175.
  • Sherman, F. 1991. Getting started with yeast. Methods Enzymol. 194:3–21.
  • Shimada, K., P. Pasero, and S. M. Gasser. 2002. ORC and the intra-S-phase checkpoint: a threshold regulates Rad53p activation in S phase. Genes Dev. 16:3236–3252.
  • Simpson, R. T. 1990. Nucleosome positioning can affect the function of a cis-acting DNA element in vivo. Nature 343:387–389.
  • Stevenson, J. B., and D. E. Gottschling. 1999. Telomeric chromatin modulates replication timing near chromosome ends. Genes Dev. 13:146–151.
  • Suter, B., A. Tong, M. Chang, L. Yu, G. W. Brown, C. Boone, and J. Rine. 2004. The origin recognition complex links replication, sister chromatid cohesion and transcriptional silencing in Saccharomyces cerevisiae. Genetics 167:579–591.
  • Svejstrup, J. Q. 2002. Mechanisms of transcription-coupled DNA repair. Nat. Rev. Mol. Cell. Biol. 3:21–29.
  • Swaminathan, J., E. M. Baxter, and V. G. Corces. 2005. The role of H2Av variant replacement and histone H4 acetylation in the establishment of Drosophila heterochromatin. Genes Dev., in press. 19:65–76.
  • Takayama, Y., Y. Kamimura, M. Okawa, S. Muramatsu, A. Sugino, and H. Araki. 2003. GINS, a novel multiprotein complex required for chromosomal DNA replication in budding yeast. Genes Dev. 17:1153–1165.
  • Tanaka, S., and J. F. Diffley. 2002. Deregulated G1-cyclin expression induces genomic instability by preventing efficient pre-RC formation. Genes Dev. 16:2639–2649.
  • Tercero, J. A., and J. F. Diffley. 2001. Regulation of DNA replication fork progression through damaged DNA by the Mec1/Rad53 checkpoint. Nature 412:553–557.
  • Tercero, J. A., M. P. Longhese, and J. F. Diffley. 2003. A central role for DNA replication forks in checkpoint activation and response. Mol. Cell 11:1323–1336.
  • Tong, A. H., G. Lesage, G. D. Bader, H. Ding, H. Xu, X. Xin, J. Young, G. F. Berriz, R. L. Brost, M. Chang, Y. Chen, X. Cheng, G. Chua, H. Friesen, D. S. Goldberg, J. Haynes, C. Humphries, G. He, S. Hussein, L. Ke, N. Krogan, Z. Li, J. N. Levinson, H. Lu, P. Menard, C. Munyana, A. B. Parsons, O. Ryan,R. Tonikian, T. Roberts, A. M. Sdicu, J. Shapiro, B. Sheikh, B. Suter, S. L. Wong, L. V. Zhang, H. Zhu, C. G. Burd, S. Munro, C. Sander, J. Rine, J. Greenblatt, M. Peter, A. Bretscher, G. Bell, F. P. Roth, G. W. Brown, B. Andrews, H. Bussey, and C. Boone. 2004. Global mapping of the yeast genetic interaction network. Science 303:808–813.
  • Tyers, M., G. Tokiwa, and B. Futcher. 1993. Comparison of the Saccharomyces cerevisiae G1 cyclins: Cln3 may be an upstream activator of Cln1, Cln2 and other cyclins. EMBO J. 12:1955–1968.
  • Verger, A., and M. Crossley. 2004. Chromatin modifiers in transcription and DNA repair. Cell Mol. Life Sci. 61:2154–2162.
  • Verma, R., H. McDonald, J. R. Yates III, and R. J. Deshaies. 2001. Selective degradation of ubiquitinated Sic1 by purified 26S proteasome yields active S phase cyclin-Cdk. Mol. Cell 8:439–448.
  • Vogelauer, M., L. Rubbi, I. Lucas, B. J. Brewer, and M. Grunstein. 2002. Histone acetylation regulates the time of replication origin firing. Mol. Cell 10:1223–1233.
  • Weinberger, M., P. A. Trabold, M. Lu, K. Sharma, J. A. Huberman, and W. C. Burhans. 1999. Induction by adozelesin and hydroxyurea of origin recognition complex-dependent DNA damage and DNA replication checkpoints in Saccharomyces cerevisiae. J. Biol. Chem. 274:35975–35984.
  • Weinreich, M., M. A. Palacios DeBeer, and C. A. Fox. 2004. The activities of eukaryotic replication origins in chromatin. Biochim. Biophys. Acta 1677:142–157.
  • Wittenberg, C., and S. I. Reed. 2005. Cell cycle-dependent transcription in yeast: promoters, transcription factors, and transcriptomes. Oncogene 24:2746–2755.
  • Wittenberg, C., K. Sugimoto, and S. I. Reed. 1990. G1-specific cyclins of S. cerevisiae: cell cycle periodicity, regulation by mating pheromone, and association with the p34CDC28 protein kinase. Cell 62:225–237.
  • Wyrick, J. J., J. G. Aparicio, T. Chen, J. D. Barnett, E. G. Jennings, R. A. Young, S. P. Bell, and O. M. Aparicio. 2001. Genome-wide distribution of ORC and MCM proteins in S. cerevisiae: high-resolution mapping of replication origins. Science 294:2357–2360.
  • Yamashita, M., Y. Hori, T. Shinomiya, C. Obuse, T. Tsurimoto, H. Yoshikawa, and K. Shirahige. 1997. The efficiency and timing of initiation of replication of multiple replicons of Saccharomyces cerevisiae chromosome VI. Genes Cells 2:655–665.
  • Yan, H., S. Gibson, and B. K. Tye. 1991. Mcm2 and Mcm3, two proteins important for ARS activity, are related in structure and function. Genes Dev. 5:944–957.
  • Zhang, W., J. R. Bone, D. G. Edmondson, B. M. Turner, and S. Y. Roth. 1998. Essential and redundant functions of histone acetylation revealed by mutation of target lysines and loss of the Gcn5p acetyltransferase. EMBO J. 17:3155–3167.
  • Zou, L., and B. Stillman. 1998. Formation of a preinitiation complex by S-phase cyclin CDK-dependent loading of Cdc45p onto chromatin. Science 280:593–596.

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