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Article

Direct Interplay among Histones, Histone Chaperones, and a Chromatin Boundary Protein in the Control of Histone Gene Expression

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Pages 4337-4349 | Received 28 Jun 2012, Accepted 15 Aug 2012, Published online: 20 Mar 2023

REFERENCES

  • Adkins MW, Carson JJ, English CM, Ramey CJ, Tyler JK. 2007. The histone chaperone anti-silencing function 1 stimulates the acetylation of newly synthesized histone H3 in S-phase. J. Biol. Chem. 282:1334–1340.
  • Antczak AJ, Tsubota T, Kaufman PD, Berger JM. 2006. Structure of the yeast histone H3-ASF1 interaction: implications for chaperone mechanism, species-specific interactions, and epigenetics. BMC Struct. Biol. 6:26.
  • Bonner WM, Wu RS, Panusz HT, Muneses C. 1988. Kinetics of accumulation and depletion of soluble newly synthesized histone in the reciprocal regulation of histone and DNA synthesis. Biochemistry 27:6542–6550.
  • Celic I, et al. 2006. The sirtuins Hst3 and Hst4p preserve genome integrity by controlling histone H3 lysine 56 deacetylation. Curr. Biol. 16:1280–1289.
  • Clemente-Ruiz M, Gonzalez-Prieto R, Prado F. 2011. Histone H3K56 acetylation, CAF1, and Rtt106 coordinate nucleosome assembly and stability of advancing replication forks. PLoS Genet. 7:e1002376. https://doi.org/10.1371/journal.pgen.1002376.
  • Das C, Tyler JK, Churchill ME. 2010. The histone shuffle: histone chaperones in an energetic dance. Trends Biochem. Sci. 35:476–489.
  • De Koning L, Corpet A, Haber JE, Almouzni G. 2007. Histone chaperones: an escort network regulating histone traffic. Nat. Struct. Mol. Biol. 14:997–1007.
  • Dimova D, Nackerdien Z, Furgeson S, Eguchi S, Osley MA. 1999. A role for transcriptional repressors in targeting the yeast Swi/Snf complex. Mol. Cell 4:75–83.
  • Dollard C, Ricupero-Hovasse SL, Natsoulis G, Boeke JD, Winston F. 1994. SPT10 and SPT21 are required for transcription of particular histone genes in Saccharomyces cerevisiae. Mol. Cell. Biol. 14:5223–5228.
  • Driscoll R, Hudson A, Jackson SP. 2007. Yeast Rtt109 promotes genome stability by acetylating histone H3 on lysine 56. Science 315:649–652.
  • English CM, Adkins MW, Carson JJ, Churchill ME, Tyler JK. 2006. Structural basis for the histone chaperone activity of Asf1. Cell 127:495–508.
  • Eriksson PR, Ganguli D, Clark DJ. 2011. Spt10 and Swi4 control the timing of histone H2A/H2B gene activation in budding yeast. Mol. Cell. Biol. 31:557–572.
  • Eriksson PR, Ganguli D, Nagarajavel V, Clark DJ. 2012. Regulation of histone gene expression in budding yeast. Genetics 191:7–20.
  • Fazly A, et al. 2012. Histone chaperone Rtt106 promotes nucleosome formation using (H3–H4)2 tetramers. J. Biol. Chem. 287:10753–10760.
  • Ferreira ME, Flaherty K, Prochasson P. 2011. The Saccharomyces cerevisiae histone chaperone Rtt106 mediates the cell cycle recruitment of SWI/SNF and RSC to the HIR-dependent histone genes. PLoS One 6:e21113. https://doi.org/10.1371/journal.pone.0021113.
  • Fillingham J, et al. 2009. Two-color cell array screen reveals interdependent roles for histone chaperones and a chromatin boundary regulator in histone gene repression. Mol. Cell 35:340–351.
  • Gelbart ME, Rechsteiner T, Richmond TJ, Tsukiyama T. 2001. Interactions of Isw2 chromatin remodeling complex with nucleosomal arrays: analyses using recombinant yeast histones and immobilized templates. Mol. Cell. Biol. 21:2098–2106.
  • Gietz RD, Woods RA. 2002. Transformation of yeast by lithium acetate/single-stranded carrier DNA/polyethylene glycol method. Methods Enzymol. 350:87–96.
  • Gradolatto A, et al. 2008. Saccharomyces cerevisiae Yta7 regulates histone gene expression. Genetics 179:291–304.
  • Gradolatto A, et al. 2009. A noncanonical bromodomain in the AAA ATPase protein Yta7 directs chromosomal positioning and barrier chromatin activity. Mol. Cell. Biol. 29:4604–4611.
  • Green EM, et al. 2005. Replication-independent histone deposition by the HIR complex and Asf1. Curr. Biol. 15:2044–2049.
  • Gunjan A, Paik J, Verreault A. 2005. Regulation of histone synthesis and nucleosome assembly. Biochimie 87:625–635.
  • Gunjan A, Verreault A. 2003. A Rad53 kinase-dependent surveillance mechanism that regulates histone protein levels in S. cerevisiae. Cell 115:537–549.
  • Han J, et al. 2007. Rtt109 acetylates histone H3 lysine 56 and functions in DNA replication. Science 315:653–655.
  • Huang S, et al. 2005. Rtt106p is a histone chaperone involved in heterochromatin-mediated silencing. Proc. Natl. Acad. Sci. U. S. A. 102:13410–13415.
  • Huang S, Zhou H, Tarara J, Zhang Z. 2007. A novel role for histone chaperones CAF-1 and Rtt106p in heterochromatin silencing. EMBO J. 26:2274–2283.
  • Imbeault D, Gamar L, Rufiange A, Paquet E, Nourani A. 2008. The Rtt106 histone chaperone is functionally linked to transcription elongation and is involved in the regulation of spurious transcription from cryptic promoters in yeast. J. Biol. Chem. 283:27350–27354.
  • Jambunathan N, et al. 2005. Multiple bromodomain genes are involved in restricting the spread of heterochromatic silencing at the Saccharomyces cerevisiae HMR-tRNA boundary. Genetics 171:913–922.
  • Kaplan T, et al. 2008. Cell cycle- and chaperone-mediated regulation of H3K56ac incorporation in yeast. PLoS Genet. 4:e1000270. https://doi.org/10.1371/journal.pgen.1000270.
  • Kaufman PD, Cohen JL, Osley MA. 1998. Hir proteins are required for position-dependent gene silencing in Saccharomyces cerevisiae in the absence of chromatin assembly factor I. Mol. Cell. Biol. 18:4793–4806.
  • Kurat CF, et al. 2011. Restriction of histone gene transcription to S phase by phosphorylation of a chromatin boundary protein. Genes Dev. 25:2489–2501.
  • Lambert JP, et al. 2010. Defining the budding yeast chromatin-associated interactome. Mol. Syst. Biol. 6:448.
  • Li Q, et al. 2008. Acetylation of histone H3 lysine 56 regulates replication-coupled nucleosome assembly. Cell 134:244–255.
  • Liu Y, et al. 2010. Structural analysis of Rtt106p reveals a DNA binding role required for heterochromatin silencing. J. Biol. Chem. 285:4251–4262.
  • Lombardi LM, Ellahi A, Rine J. 2011. Direct regulation of nucleosome density by the conserved AAA-ATPase Yta7. Proc. Natl. Acad. Sci. U. S. A. 108:E1302–E1311.
  • Longtine MS, et al. 1998. Additional modules for versatile and economical PCR-based gene deletion and modification in Saccharomyces cerevisiae. Yeast 14:953–961.
  • Luger K, Mader AW, Richmond RK, Sargent DF, Richmond TJ. 1997. Crystal structure of the nucleosome core particle at 2.8 A resolution. Nature 389:251–260.
  • Maas NL, Miller KM, DeFazio LG, Toczyski DP. 2006. Cell cycle and checkpoint regulation of histone H3 K56 acetylation by Hst3 and Hst4. Mol. Cell 23:109–119.
  • Makarova O, Kamberov E, Margolis B. 2000. Generation of deletion and point mutations with one primer in a single cloning step. Biotechniques 29:970–972.
  • Masumoto H, Hawke D, Kobayashi R, Verreault A. 2005. A role for cell-cycle-regulated histone H3 lysine 56 acetylation in the DNA damage response. Nature 436:294–298.
  • Natsume R, et al. 2007. Structure and function of the histone chaperone CIA/ASF1 complexed with histones H3 and H4. Nature 446:338–341.
  • Ng HH, Robert F, Young RA, Struhl K. 2002. Genome-wide location and regulated recruitment of the RSC nucleosome-remodeling complex. Genes Dev. 16:806–819.
  • Osley MA. 1991. The regulation of histone synthesis in the cell cycle. Annu. Rev. Biochem. 60:827–861.
  • Osley MA, Gould J, Kim S, Kane MY, Hereford L. 1986. Identification of sequences in a yeast histone promoter involved in periodic transcription. Cell 45:537–544.
  • Osley MA, Lycan D. 1987. Trans-acting regulatory mutations that alter transcription of Saccharomyces cerevisiae histone genes. Mol. Cell. Biol. 7:4204–4210.
  • Pan X, et al. 2006. A DNA integrity network in the yeast Saccharomyces cerevisiae. Cell 124:1069–1081.
  • Prochasson P, Florens L, Swanson SK, Washburn MP, Workman JL. 2005. The HIR corepressor complex binds to nucleosomes generating a distinct protein/DNA complex resistant to remodeling by SWI/SNF. Genes Dev. 19:2534–2539.
  • Schneider J, Bajwa P, Johnson FC, Bhaumik SR, Shilatifard A. 2006. Rtt109 is required for proper H3K56 acetylation: a chromatin mark associated with the elongating RNA polymerase II. J. Biol. Chem. 281:37270–37274.
  • Sharp JA, Fouts ET, Krawitz DC, Kaufman PD. 2001. Yeast histone deposition protein Asf1p requires Hir proteins and PCNA for heterochromatic silencing. Curr. Biol. 11:463–473.
  • Shibahara K, Stillman B. 1999. Replication-dependent marking of DNA by PCNA facilitates CAF-1-coupled inheritance of chromatin. Cell 96:575–585.
  • Silva AC, et al. 2012. The replication-independent histone H3–H4 chaperones HIR, ASF1, and RTT106 co-operate to maintain promoter fidelity. J. Biol. Chem. 287:1709–1718.
  • Su D, et al. 2012. Structural basis for recognition of H3K56-acetylated histone H3–H4 by the chaperone Rtt106. Nature 483:104–107.
  • Sutton A, Bucaria J, Osley MA, Sternglanz R. 2001. Yeast ASF1 protein is required for cell cycle regulation of histone gene transcription. Genetics 158:587–596.
  • Tackett AJ, et al. 2005. Proteomic and genomic characterization of chromatin complexes at a boundary. J. Cell Biol. 169:35–47.
  • Tsubota T, et al. 2007. Histone H3-K56 acetylation is catalyzed by histone chaperone-dependent complexes. Mol. Cell 25:703–712.
  • Tyler JK, et al. 1999. The RCAF complex mediates chromatin assembly during DNA replication and repair. Nature 402:555–560.
  • Tyler JK, et al. 2001. Interaction between the Drosophila CAF-1 and ASF1 chromatin assembly factors. Mol. Cell. Biol. 21:6574–6584.
  • Xu F, Zhang K, Grunstein M. 2005. Acetylation in histone H3 globular domain regulates gene expression in yeast. Cell 121:375–385.
  • Xu H, Kim UJ, Schuster T, Grunstein M. 1992. Identification of a new set of cell cycle-regulatory genes that regulate S-phase transcription of histone genes in Saccharomyces cerevisiae. Mol. Cell. Biol. 12:5249–5259.
  • Zill OA, Scannell D, Teytelman L, Rine J. 2010. Co-evolution of transcriptional silencing proteins and the DNA elements specifying their assembly. PLoS Biol. 8:e1000550. https://doi.org/10.1371/journal.pbio.1000550.
  • Zunder RM, Antczak AJ, Berger JM, Rine J. 2012. Two surfaces on the histone chaperone Rtt106 mediate histone binding, replication, and silencing. Proc. Natl. Acad. Sci. U. S. A. 109:E144–E153.

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