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Article

Direct Interaction between DNA Methyltransferase DIM-2 and HP1 Is Required for DNA Methylation in Neurospora crassa

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Pages 6044-6055 | Received 21 May 2008, Accepted 21 Jul 2008, Published online: 27 Mar 2023

REFERENCES

  • Aagaard, L., G. Laible, P. Selenko, M. Schmid, R. Dorn, G. Schotta, S. Kuhfittig, A. Wolf, A. Lebersorger, P. B. Singh, G. Reuter, and T. Jenuwein. 1999. Functional mammalian homologues of the Drosophila PEV-modifier Su(var)3-9 encode centromere-associated proteins which complex with the heterochromatin component M31. EMBO J. 18:1923–1938.
  • Bestor, T. H. 2000. The DNA methyltransferases of mammals. Hum. Mol. Genet. 9:2395–2402.
  • Bhaumik, S. R., E. Smith, and A. Shilatifard. 2007. Covalent modifications of histones during development and disease pathogenesis. Nat. Struct. Mol. Biol. 14:1008–1016.
  • Brasher, S. V., B. O. Smith, R. H. Fogh, D. Nietlispach, A. Thiru, P. R. Nielsen, R. W. Broadhurst, L. J. Ball, N. V. Murzina, and E. D. Laue. 2000. The structure of mouse HP1 suggests a unique mode of single peptide recognition by the shadow chromo domain dimer. EMBO J. 19:1587–1597.
  • Chan, S. W., I. R. Henderson, and S. E. Jacobsen. 2005. Gardening the genome: DNA methylation in Arabidopsis thaliana. Nat. Rev. Genet. 6:351–360.
  • Chuang, L. S., H. I. Ian, T. W. Koh, H. H. Ng, G. Xu, and B. F. Li. 1997. Human DNA-(cytosine-5) methyltransferase-PCNA complex as a target for p21WAF1. Science 277:1996–2000.
  • Collins, R. E., M. Tachibana, H. Tamaru, K. M. Smith, D. Jia, X. Zhang, E. U. Selker, Y. Shinkai, and X. Cheng. 2005. In vitro and in vivo analyses of a Phe/Tyr switch controlling product specificity of histone lysine methyltransferases. J. Biol. Chem. 280:5563–5570.
  • Colot, H. V., G. Park, G. E. Turner, C. Ringelberg, C. M. Crew, L. Litvinkova, R. L. Weiss, K. A. Borkovich, and J. C. Dunlap. 2006. A high-throughput gene knockout procedure for Neurospora reveals functions for multiple transcription factors. Proc. Natl. Acad. Sci. USA 103:10352–10357.
  • Cowell, I. G., R. Aucott, S. K. Mahadevaiah, P. S. Burgoyne, N. Huskisson, S. Bongiorni, G. Prantera, L. Fanti, S. Pimpinelli, R. Wu, D. M. Gilbert, W. Shi, R. Fundele, H. Morrison, P. Jeppesen, and P. B. Singh. 2002. Heterochromatin, HP1 and methylation at lysine 9 of histone H3 in animals. Chromosoma 111:22–36.
  • Davis, R. H. 2000. Neurospora: contributions of a model organism. Oxford University Press, New York, NY.
  • Ebbs, M. L., and J. Bender. 2006. Locus-specific control of DNA methylation by the Arabidopsis SUVH5 histone methyltransferase. Plant Cell 18:1166–1176.
  • Eskeland, R., A. Eberharter, and A. Imhof. 2007. HP1 binding to chromatin methylated at H3K9 is enhanced by auxiliary factors. Mol. Cell. Biol. 27:453–465.
  • Esteve, P. O., H. G. Chin, A. Smallwood, G. R. Feehery, O. Gangisetty, A. R. Karpf, M. F. Carey, and S. Pradhan. 2006. Direct interaction between DNMT1 and G9a coordinates DNA and histone methylation during replication. Genes Dev. 20:3089–3103.
  • Feinberg, A. P. 2007. Phenotypic plasticity and the epigenetics of human disease. Nature 447:433–440.
  • Feldman, N., A. Gerson, J. Fang, E. Li, Y. Zhang, Y. Shinkai, H. Cedar, and Y. Bergman. 2006. G9a-mediated irreversible epigenetic inactivation of Oct-3/4 during early embryogenesis. Nat. Cell Biol. 8:188–194.
  • Freitag, M., P. C. Hickey, T. K. Khlafallah, N. D. Read, and E. U. Selker. 2004. HP1 is essential for DNA methylation in Neurospora. Mol. Cell 13:427–434.
  • Freitag, M., and E. U. Selker. 2005. Controlling DNA methylation: many roads to one modification. Curr. Opin. Genet. Dev. 15:191–199.
  • Fuks, F., P. J. Hurd, R. Deplus, and T. Kouzarides. 2003. The DNA methyltransferases associate with HP1 and the SUV39H1 histone methyltransferase. Nucleic Acids Res. 31:2305–2312.
  • Geiman, T. M., U. T. Sankpal, A. K. Robertson, Y. Zhao, and K. D. Robertson. 2004. DNMT3B interacts with hSNF2H chromatin remodeling enzyme, HDACs 1 and 2, and components of the histone methylation system. Biochem. Biophys. Res. Commun. 318:544–555.
  • Goff, C. G. 1976. Histones of Neurospora crassa. J. Biol. Chem. 251:4131–4138.
  • Goll, M. G., and T. H. Bestor. 2005. Eukaryotic cytosine methyltransferases. Annu. Rev. Biochem. 74:481–514.
  • Green, G. R., L. C. Gustavsen, and D. L. Poccia. 1990. Phosphorylation of plant H2A histones. Plant Physiol. 93:1241–1245.
  • Grewal, S. I., and S. Jia. 2007. Heterochromatin revisited. Nat. Rev. Genet. 8:35–46.
  • Hediger, F., and S. M. Gasser. 2006. Heterochromatin protein 1: don't judge the book by its cover! Curr. Opin. Genet. Dev. 16:143–150.
  • Hermann, A., H. Gowher, and A. Jeltsch. 2004. Biochemistry and biology of mammalian DNA methyltransferases. Cell. Mol. Life Sci. 61:2571–2587.
  • Huang, Y., M. P. Myers, and R. M. Xu. 2006. Crystal structure of the HP1-EMSY complex reveals an unusual mode of HP1 binding. Structure 14:703–712.
  • Jackson, J. P., A. M. Lindroth, X. Cao, and S. E. Jacobsen. 2002. Control of CpNpG DNA methylation by the KRYPTONITE histone H3 methyltransferase. Nature 416:556–560.
  • James, P., J. Halladay, and E. A. Craig. 1996. Genomic libraries and a host strain designed for highly efficient two-hybrid selection in yeast. Genetics 144:1425–1436.
  • Klose, R. J., and A. P. Bird. 2006. Genomic DNA methylation: the mark and its mediators. Trends Biochem. Sci. 31:89–97.
  • Kouzminova, E., and E. U. Selker. 2001. dim-2 encodes a DNA methyltransferase responsible for all known cytosine methylation in Neurospora. EMBO J. 20:4309–4323.
  • Krauss, V. 2008. Glimpses of evolution: heterochromatic histone H3K9 methyltransferases left its marks behind. Genetica 133:93–106.
  • Lehnertz, B., Y. Ueda, A. A. Derijck, U. Braunschweig, L. Perez-Burgos, S. Kubicek, T. Chen, E. Li, T. Jenuwein, and A. H. Peters. 2003. Suv39h-mediated histone H3 lysine 9 methylation directs DNA methylation to major satellite repeats at pericentric heterochromatin. Curr. Biol. 13:1192–1200.
  • Lindroth, A. M., D. Shultis, Z. Jasencakova, J. Fuchs, L. Johnson, D. Schubert, D. Patnaik, S. Pradhan, J. Goodrich, I. Schubert, T. Jenuwein, S. Khorasanizadeh, and S. E. Jacobsen. 2004. Dual histone H3 methylation marks at lysines 9 and 27 required for interaction with CHROMOMETHYLASE3. EMBO J. 23:4286–4296.
  • Maison, C., and G. Almouzni. 2004. HP1 and the dynamics of heterochromatin maintenance. Nat. Rev. Mol. Cell Biol. 5:296–304.
  • Malagnac, F., L. Bartee, and J. Bender. 2002. An Arabidopsis SET domain protein required for maintenance but not establishment of DNA methylation. EMBO J. 21:6842–6852.
  • Margolin, B. S., M. Freitag, and E. U. Selker. 1997. Improved plasmids for gene targeting at the his-3 locus of Neurospora crassa by electroporation. Fungal Genet. Newsl. 44:34–36.
  • Nakai, K., and P. Horton. 1999. PSORT: a program for detecting sorting signals in proteins and predicting their subcellular localization. Trends Biochem. Sci. 24:34–36.
  • Ninomiya, Y., K. Suzuki, C. Ishii, and H. Inoue. 2004. Highly efficient gene replacements in Neurospora strains deficient for nonhomologous end-joining. Proc. Natl. Acad. Sci. USA 101:12248–12253.
  • Oldenburg, K. R., K. T. Vo, S. Michaelis, and C. Paddon. 1997. Recombination-mediated PCR-directed plasmid construction in vivo in yeast. Nucleic Acids Res. 25:451–452.
  • Peters, A. H., S. Kubicek, K. Mechtler, R. J. O'Sullivan, A. A. Derijck, L. Perez-Burgos, A. Kohlmaier, S. Opravil, M. Tachibana, Y. Shinkai, J. H. Martens, and T. Jenuwein. 2003. Partitioning and plasticity of repressive histone methylation states in mammalian chromatin. Mol. Cell 12:1577–1589.
  • Rice, J. C., S. D. Briggs, B. Ueberheide, C. M. Barber, J. Shabanowitz, D. F. Hunt, Y. Shinkai, and C. D. Allis. 2003. Histone methyltransferases direct different degrees of methylation to define distinct chromatin domains. Mol. Cell 12:1591–1598.
  • Robertson, K. D., S. Ait-Si-Ali, T. Yokochi, P. A. Wade, P. L. Jones, and A. P. Wolffe. 2000. DNMT1 forms a complex with Rb, E2F1 and HDAC1 and represses transcription from E2F-responsive promoters. Nat. Genet. 25:338–342.
  • Rountree, M. R., K. E. Bachman, and S. B. Baylin. 2000. DNMT1 binds HDAC2 and a new co-repressor, DMAP1, to form a complex at replication foci. Nat. Genet. 25:269–277.
  • Rountree, M. R., and E. U. Selker. 1997. DNA methylation inhibits elongation but not initiation of transcription in Neurospora crassa. Genes Dev. 11:2383–2395.
  • Sampath, S. C., I. Marazzi, K. L. Yap, A. N. Krutchinsky, I. Mecklenbrauker, A. Viale, E. Rudensky, M. M. Zhou, B. T. Chait, and A. Tarakhovsky. 2007. Methylation of a histone mimic within the histone methyltransferase G9a regulates protein complex assembly. Mol. Cell 27:596–608.
  • Sarraf, S. A., and I. Stancheva. 2004. Methyl-CpG binding protein MBD1 couples histone H3 methylation at lysine 9 by SETDB1 to DNA replication and chromatin assembly. Mol. Cell 15:595–605.
  • Schwendemann, A., T. Matkovic, C. Linke, A. Klebes, A. Hofmann, and G. Korge. 2008. Hip, an HP1-interacting protein, is a haplo- and triplo-suppressor of position effect variegation. Proc. Natl. Acad. Sci. USA 105:204–209.
  • Selker, E. U., N. A. Tountas, S. H. Cross, B. S. Margolin, J. G. Murphy, A. P. Bird, and M. Freitag. 2003. The methylated component of the Neurospora crassa genome. Nature 422:893–897.
  • Smallwood, A., P. O. Esteve, S. Pradhan, and M. Carey. 2007. Functional cooperation between HP1 and DNMT1 mediates gene silencing. Genes Dev. 21:1169–1178.
  • Smothers, J. F., and S. Henikoff. 2000. The HP1 chromo shadow domain binds a consensus peptide pentamer. Curr. Biol. 10:27–30.
  • Tamaru, H., and E. U. Selker. 2001. A histone H3 methyltransferase controls DNA methylation in Neurospora crassa. Nature 414:277–283.
  • Tamaru, H., and E. U. Selker. 2003. Synthesis of signals for de novo DNA methylation in Neurospora crassa. Mol. Cell. Biol. 23:2379–2394.
  • Tamaru, H., X. Zhang, D. McMillen, P. B. Singh, J. Nakayama, S. I. Grewal, C. D. Allis, X. Cheng, and E. U. Selker. 2003. Trimethylated lysine 9 of histone H3 is a mark for DNA methylation in Neurospora crassa. Nat. Genet. 34:75–79.
  • Thiru, A., D. Nietlispach, H. R. Mott, M. Okuwaki, D. Lyon, P. R. Nielsen, M. Hirshberg, A. Verreault, N. V. Murzina, and E. D. Laue. 2004. Structural basis of HP1/PXVXL motif peptide interactions and HP1 localisation to heterochromatin. EMBO J. 23:489–499.
  • Turck, F., F. Roudier, S. Farrona, M. L. Martin-Magniette, E. Guillaume, N. Buisine, S. Gagnot, R. A. Martienssen, G. Coupland, and V. Colot. 2007. Arabidopsis TFL2/LHP1 specifically associates with genes marked by trimethylation of histone H3 lysine 27. PLoS Genet. 3:e86.
  • Xin, Z., M. Tachibana, M. Guggiari, E. Heard, Y. Shinkai, and J. Wagstaff. 2003. Role of histone methyltransferase G9a in CpG methylation of the Prader-Willi syndrome imprinting center. J. Biol. Chem. 278:14996–15000.
  • Zhang, X., S. Germann, B. J. Blus, S. Khorasanizadeh, V. Gaudin, and S. E. Jacobsen. 2007. The Arabidopsis LHP1 protein colocalizes with histone H3 Lys27 trimethylation. Nat. Struct. Mol. Biol. 14:869–871.

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