The molecular mechanisms of heterochromatin establishment and maintenance

• Project/Area Number: 19687001
• Research Category: Grant-in-Aid for Young Scientists (A)
• Allocation Type: Single-year Grants
• Research Field: Genetics/Genome dynamics
• Research Institution: The Institute of Physical and Chemical Research
• Principal Investigator: NAKAYAMA Jun-ichi The Institute of Physical and Chemical Research, クロマチン動態研究チーム, チームリーダー (60373338)
• Project Period (FY): 2007 – 2010
• Project Status: Completed (Fiscal Year 2010)
• Budget Amount: ¥24,960,000 (Direct Cost: ¥19,200,000、Indirect Cost: ¥5,760,000); Fiscal Year 2010: ¥6,110,000 (Direct Cost: ¥4,700,000、Indirect Cost: ¥1,410,000); Fiscal Year 2009: ¥6,110,000 (Direct Cost: ¥4,700,000、Indirect Cost: ¥1,410,000); Fiscal Year 2008: ¥6,110,000 (Direct Cost: ¥4,700,000、Indirect Cost: ¥1,410,000); Fiscal Year 2007: ¥6,630,000 (Direct Cost: ¥5,100,000、Indirect Cost: ¥1,530,000)
• Keywords: 遺伝子 / 発現制御 / ヘテロクロマチン / RNA干渉 / 分裂酵母 / 遺伝子発現制御 / サイレンシング / RNAi

Research Abstract

In this research program, we tried to gain a better understanding of the molecular mechanisms underlying the establishment and maintenance of higher-order chromatin structure, heterochromatin. Using fission yeast as an model organism, we employed an genetic screening and successfully identified novel RNAi-related factors involved in heterochromatin assembly. Further genetic analyses of mutant cells uncovered a novel insight into the molecular mechanisms of how RNAi effector complexes are recruited to the heterochromatin.

Research Products

• [Journal Article] Roles of fission yeast Grc3 protein in ribosomal RNA processing and heterochromatic gene silencing. (2011)
  • Author(s): Kitano, E., Hayashi, A., Kanai, D., Shinmyozu, K., Nakayama, J.
  • Journal Title: J.Biol.Chem. 286 Pages: 15391-15402
  • Peer Reviewed
• [Journal Article] N-terminal phosphorylation of HP1α promotes its chromatin binding. (2011)
  • Author(s): Hiragami-Hamada, K., Shinmyozu, K., Hamada, D., Tatsu, Y., Uegaki, S., Fujiwara, S., Nakayama, J.
  • Journal Title: Mol.Cell.Biol. 31 Pages: 1186-1200
  • Peer Reviewed
• [Journal Article] Physiological roles of Class I HDAC complex and Histone demethylase. (2011)
  • Author(s): Hayakawa, T., Nakayama, J.
  • Journal Title: J.Biomed.Biotech. 2011 Pages: 129383-129383
  • Peer Reviewed
• [Journal Article] N-terminal phosphorylation of HP1α promotes its chromatin binding. (2011)
  • Author(s): Kyoko Hiragami-Hamada
  • Journal Title: Molecular and Cellular Biology Volume: (in press)
  • Peer Reviewed
• [Journal Article] Physiological Roles of Class I HDAC Complex and Histone Demethylase. (2011)
  • Author(s): Tomohiro Hayakawa
  • Journal Title: Journal of Biomedicine and Biotechnology Pages: 1-10
  • Peer Reviewed
• [Journal Article] Methylation of ribosomal protein L42 regulates ribosomal function and stress-adapted cell growth. (2010)
  • Author(s): Shirai, A., Sadaie, M., Shinmyozu, K., Nakayama, J.
  • Journal Title: J.Biol.Chem. 285 Pages: 22448-22460
  • Peer Reviewed
• [Journal Article] R.MRG15 directly binds to PALB2 and stimulates homology-directed repair of chromosomal breaks. (2010)
  • Author(s): Hayakawa, T., Zhang, F., Hayakawa, N., Ohtani, Y., Shinmyozu, K., Nakayama, J., Andressen, P.
  • Journal Title: J.Cell Sci. 123 Pages: 1124-1130
  • Peer Reviewed
• [Journal Article] Methylation of ribosomal protein L42 regulates ribosomal function and stress-adapted cell growth. (2010)
  • Author(s): Atsuko Shirai
  • Journal Title: The Journal of Biological Chemistry Volume: 285 Pages: 22448-60
  • Peer Reviewed
• [Journal Article] MRG15 directly binds to PALB2 and stimulates homology-directed repair of chromosomal breaks (2010)
  • Author(s): Tomohiro Hayakawa
  • Journal Title: Journal of Cell Science (in press)
  • Peer Reviewed
• [Journal Article] Reconstitution of Arabidopsis thaliana SUMO pathways in E.coli : functional evaluation of SUMO machinery proteins and mapping of SUMOylation sites by mass spectrometry. (2009)
  • Author(s): Okada, S., Nagabuchi, M., Takamura, Y., Nakagawa, T., Shinmyozu, K., Nakayama, J., Tanaka, K.
  • Journal Title: Plant Cell Physiol. 50 Pages: 1049-1061
  • Peer Reviewed
• [Journal Article] Phosphorylation of Swi6/HP1 regulates transcriptional gene silencing at heterochromatin. (2009)
  • Author(s): Shimada, A., Dohke, K., Sadaie, M., Shinmyozu, K., Nakayama, J., Urano, T., Murakami, Y.
  • Journal Title: Genes Dev. 23 Pages: 18-23
  • Peer Reviewed
• [Journal Article] The heterochromatin protein Swi6/HP1 activates replication origins at pericentromeres and silent mating-type locus. (2009)
  • Author(s): Hayashi, M.T., Takahashi, T.S., Nakagawa, T., Nakayama, J., Masukata, H.
  • Journal Title: Nat.Cell Biol. 11 Pages: 357-362
  • Peer Reviewed
• [Journal Article] The heterochromatin protein Swi6/HP1 activates replication origins at pericentromeres and silent mating-type locus. (2009)
  • Author(s): Hayashi, M.T., Takahashi, T.S., Nakagawa, T., Nakayama, J., Masukata, H.
  • Journal Title: Nat. Cell Biol. 11 Pages: 357-62
  • Peer Reviewed
• [Journal Article] Property of cold inducible DEAD-box RNA helicase in hyperthermophilic archaea (2009)
  • Author(s): Yoko Shimada
  • Journal Title: Biochemical and Biophysical Research Communications 389 Pages: 622-627
  • Peer Reviewed
• [Journal Article] Efficient in vitro synthesis of cis-polyisoprenes using a thermostable cis-prenyltransferase from a hyperthermophilic archaeon Thermococcus kodakaraensis (2009)
  • Author(s): Yosuke Yamada
  • Journal Title: Journal of Biotechnology 143 Pages: 151-156
  • Peer Reviewed
• [Journal Article] Reconstitution of Arabidopsis thaliana SUMO Pathways in E. coli : Functional Evaluation of SUMO Machinery Proteins and Mapping of SUM Oylation Sites by Mass Spectrometry (2009)
  • Author(s): Sachiko Okada
  • Journal Title: Plant & Cell Physiology 50 Pages: 1049-1061
  • Peer Reviewed
• [Journal Article] The heterochromatin protein Swi6/HP1 activates replication origins at the pericentromeric region and silent mating-type locus. (2009)
  • Author(s): Makoto T. Hayashi
  • Journal Title: Nature Cell Biology. (in press)
  • Peer Reviewed
• [Journal Article] Phosphorylation of Swi6/HP1 regulates transcriptional gene silencing at heterochromatin. (2009)
  • Author(s): Atsushi Shimada
  • Journal Title: Genes & Developmant 23 Pages: 18-23
  • Peer Reviewed
• [Journal Article] Balance between distinct HP1 family proteins controls heterochromatin assembly in fission yeast. (2008)
  • Author(s): Sadaie, M., Kawaguchi, R., Ohtani, Y., Arisaka, F., Tanaka, K., Shirahige, K., Nakayama, J.
  • Journal Title: Mol.Cell.Biol. 28 Pages: 6973-6988
  • Peer Reviewed
• [Journal Article] siRNA-mediated heterochromatin establishment requires HP1 and is associated with antisense transcription. (2008)
  • Author(s): Iida, T., Nakayama, J., Moazed, D.
  • Journal Title: Mol.Cell 31 Pages: 178-189
  • Peer Reviewed
• [Journal Article] A conserved SET-domain methyl transferase, Set11, modifies ribosomal protein Rpl12 in fission yeast. (2008)
  • Author(s): Sadaie, M., Shinmyozu, K., Nakayama, J.
  • Journal Title: J.Biol.Chem. 283 Pages: 7185-7195
  • Peer Reviewed
• [Journal Article] Gene expression and distribution of Swi6 in partial aneuploids of the fission yeast Schizosaccharomyces pombe. (2008)
  • Author(s): Chikashige, Y., Nakayama, J., Hiraoka, Y.
  • Journal Title: Cell Struct.Funct. 32 Pages: 149-161
  • NAID: 130004137526
  • Peer Reviewed
• [Journal Article] Balance between distinct HP1 family proteins controls heterochromatin assembly in fission yeast. (2008)
  • Author(s): Sadaie, M., Kawaguchi, R., Ohtani, Y., Arisaka, F., Tanaka, K., Shirahige, K., Nakayama, J.
  • Journal Title: Mol. Cell. Biol. 28 Pages: 6973-88
  • Peer Reviewed
• [Journal Article] siRNA-mediated heterochromatin establishment requires HP1 and is associated with antisense transcription. (2008)
  • Author(s): Iida, T., Nakayama, J., Moazed, D.
  • Journal Title: Mol. Cell 31 Pages: 178-189
  • Peer Reviewed
• [Journal Article] Gene expression and distribution of Swi6 in partial aneuploids of the fission yeast Schizosaccharomyces pombe. (2008)
  • Author(s): Chikashige, Y., Nakayama, J. (8人中5番目), Hiraoka, Y.
  • Journal Title: Cell Struct. Funct. 32 Pages: 149-161
  • NAID: 130004137526
  • Peer Reviewed
• [Journal Article] Balance between distinct HP1 family proteins controls heterochromatin assembly in fission yeast. (2008)
  • Author(s): Mahioto Sadaie
  • Journal Title: Molecular and Cellular Biology 28 Pages: 6973-6988
  • Peer Reviewed
• [Journal Article] Fusion of OTT to BSAC results in aberrant up-regulation of transcriptional activity. (2008)
  • Author(s): Taisuke Sawada
  • Journal Title: The Journal of Biological Chemistry 283 Pages: 26820-26828
  • Peer Reviewed
• [Journal Article] siRNA-mediated heterochromatin establishment requires HP1 and is associated with antisense transcription. (2008)
  • Author(s): Tetsushi Iida
  • Journal Title: Molecular Cell 31 Pages: 178-189
  • Peer Reviewed
• [Journal Article] A conserved SET domain methyltransferase, Setll, modifies ribosomal protein Rpl12 in fission yeast. (2008)
  • Author(s): Mahito Sadaie
  • Journal Title: Journal of Biological Chemistry 283(in press)
  • Peer Reviewed
• [Journal Article] Gene expression and distribution of Swi6 in partial aneuploids of the fission yeast Schizosaccharomyces pombe. (2008)
  • Author(s): Yuji Chikashige
  • Journal Title: Cell Structure and Function (in press)
  • Peer Reviewed
• [Journal Article] Efficient synthesis of trans-polyisoprene compounds using two therm ostable enzymes in an organic-aqueous dual-liquid phase system. (2008)
  • Author(s): Shinsuke Fujiwara
  • Journal Title: Biochem. Biophys. Res. Commun. 365 Pages: 117-123
  • Peer Reviewed
• [Journal Article] RBP2 is an MRG15 complex component and downregulates intragenic histone H3 lysine 4 methylation. (2007)
  • Author(s): Tomohiro Hayakawa
  • Journal Title: Genes to Cells 12 Pages: 811-826
  • Peer Reviewed
• [Presentation] 高次クロマチン構造形成におけるクロモドメインタンパク質の役割 (2010)
  • Author(s): 中山潤一
  • Organizer: 第33回日本分子生物学会,第83回日本生化学会合同年会
  • Place of Presentation: 神戸市
  • Year and Date: 2010-12-09
• [Presentation] 高次クロマチン構造形成におけるクロモドメインタンパク質の役割 (2010)
  • Author(s): 中山潤一
  • Organizer: 第33回日本分子生物学会年会・第83回日本生化学会大会 合同大会
  • Place of Presentation: 神戸
  • Year and Date: 2010-12-09
• [Presentation] ヒストンのメチル化修飾とエピジェネティクス制御 (2010)
  • Author(s): 中山潤一
  • Organizer: 21^<st>フォーラム・イン・ドージン
  • Place of Presentation: 熊本
  • Year and Date: 2010-11-26
• [Presentation] ヒストンのメチル化修飾とエピジェネティクス制御 (2010)
  • Author(s): 中山潤一
  • Organizer: 大阪大学蛋白質研究所セミナー「ゲノム機能の記憶の成立とその制御」
  • Place of Presentation: 大阪
  • Year and Date: 2010-11-20
• [Presentation] Roles of Chromodomain Proteins in Heterochromatin Assembly (2010)
  • Author(s): 中山潤一
  • Organizer: 構造エピゲノム研究会 第2回ワークショップ
  • Place of Presentation: 横浜
  • Year and Date: 2010-11-08
• [Presentation] Chromodomain Proteins and RNAi-mediated Heterochromatin Assembly (2010)
  • Author(s): Jun-ichi Nakayama
  • Organizer: JSPS presents Sweden-Japan Joint Colloquium on "Epigenetics～New Horizon in Japan & Scandinavia～"
  • Place of Presentation: Stockholm, Sweden
  • Year and Date: 2010-09-06
• [Presentation] Chromodomain proteins and RNAi-mediated heterochromatin assembly (2010)
  • Author(s): Jun-ichi Nakayama
  • Organizer: The 19th CDB Meeting on "RNA Science in Cell and Developmental Biology"
  • Place of Presentation: 神戸
  • Year and Date: 2010-05-10
• [Presentation] ヒストンメチル化修飾の認識と高次クロマチン構造形成 (2010)
  • Author(s): 中山潤一
  • Organizer: 構造エピゲノム研究会発足記念シンポジウム
  • Place of Presentation: 横浜
  • Year and Date: 2010-04-30
• [Presentation] Chromodomain proteins and RNAi-mediated heterochromatin assembly (2009)
  • Author(s): 中山潤一
  • Organizer: 第32回日本分子生物学会年会
  • Place of Presentation: 横浜市
  • Year and Date: 2009-12-09
• [Presentation] Chromodomain Protein and RNAi-mediated Heterochromatin Assembly (2009)
  • Author(s): 中山潤一
  • Organizer: 第32回日本分子生物学会年会
  • Place of Presentation: 神奈川県 横浜市
  • Year and Date: 2009-12-09
• [Presentation] Distinct roles of chromodomain proteins in the formation of higher-order chromatin structure (2009)
  • Author(s): 中山潤一
  • Organizer: The 5th International Fission Yeast Meeting
  • Place of Presentation: 東京都
  • Year and Date: 2009-10-29
• [Presentation] Distinct Roles of Chromodomain Proteins in the Formation of Higher-Order Chromatin Structure (2009)
  • Author(s): 中山潤一
  • Organizer: The Fifth International Fission Yeast Meeting
  • Place of Presentation: 東京都 国立オリンピック記念青少年総合センター
  • Year and Date: 2009-10-29
• [Presentation] 分裂酵母のSETドメインタンパク質はリボソームタンパク質のメチル化修飾してリボソーム機能を制御する (2009)
  • Author(s): 中山潤一
  • Organizer: 第11回RNAミーティング
  • Place of Presentation: 新潟県 新潟市
  • Year and Date: 2009-07-29
• [Presentation] 哺乳類HP1のリン酸化修飾の同定とその機能の解析 (2009)
  • Author(s): 中山 潤一
  • Organizer: 第26回染色体ワークショップ
  • Place of Presentation: 姫路
  • Year and Date: 2009-01-27
• [Presentation] 高次クロマチン構造形成におけるクロモドメインタンパク質の役割 (2008)
  • Author(s): 中山 潤一
  • Organizer: 大阪大学蛋白質研セミナー「クロマチン-構造とダイナミクス-」
  • Place of Presentation: 吹田
  • Year and Date: 2008-10-30
• [Presentation] 分裂酵母SETドメインタンパク質の機能解析 (2008)
  • Author(s): 中山 潤一
  • Organizer: 酵母遺伝学フォーラム第41回研究報告会
  • Place of Presentation: 札幌
  • Year and Date: 2008-09-10
• [Presentation] Distinct roles of chromodomain proteins in the formation of higher-order chromatin structure (2008)
  • Author(s): 中山潤一
  • Organizer: 第21回内藤カンファレンス
  • Place of Presentation: 北杜
  • Year and Date: 2008-06-26
• [Presentation] Distinct roles of chromodomain proteins in the formation of higher-order chromatin structure (2008)
  • Author(s): 中山 潤一
  • Organizer: The 21th NAITO Conference
  • Place of Presentation: 北杜
  • Year and Date: 2008-06-26
• [Presentation] Balance between distinct HP1 proteins controls heterochromatin assembly in fission yeast. (2008)
  • Author(s): 中山 潤一
  • Organizer: International Symposium on Chromosome Dynamics in Ise, 2008
  • Place of Presentation: 志摩
  • Year and Date: 2008-05-28
• [Presentation] 高次クロマチン構造形成とRNA代謝ネットワーク (2008)
  • Author(s): 中山潤一
  • Organizer: 第2回日本エピジェネティクス研究会年会
  • Place of Presentation: 三島市
  • Year and Date: 2008-05-10
• [Presentation] 高次クロマチン構造形成とRNA代謝ネットワーク (2008)
  • Author(s): 中山 潤一
  • Organizer: 第2回日本エピジェネティクス研究会年会
  • Place of Presentation: 三島
  • Year and Date: 2008-05-10
• [Presentation] 分裂酵母ヘテロクロマチン構造形成には2つのHP1タンパク質の別個の機能が必要である (2007)
  • Author(s): 中山潤一
  • Organizer: 第30回日本分子生物学会年会,第80回日本生化学会合同年会
  • Place of Presentation: 横浜市
  • Year and Date: 2007-12-12
• [Presentation] 分裂酵母ヘテロクロマチン構造形成には2つのHP1タンパク質の別個の機能が必要である (2007)
  • Author(s): 中山潤一
  • Organizer: 第30回日本分子生物学会年会, 第80回日本生化学会合同年会
  • Place of Presentation: 横浜市
  • Year and Date: 2007-12-12
• [Presentation] 分裂酵母ヘテロクロマチン構造形成には2つのHP1タンパク質の別個の機能が必要である (2007)
  • Author(s): 中山 潤一
  • Organizer: 第30回 日本分子生物学会 第80回 日本生化学会 合同年会
  • Place of Presentation: パシフィコ横浜
  • Year and Date: 2007-12-12
• [Presentation] Analyzing the function of SET domain containing proteins in fission yeast. (2007)
  • Author(s): 中山 潤一
  • Organizer: 4th International fission yeast meeting
  • Place of Presentation: 4th International fission yeast meeting
  • Year and Date: 2007-06-12
• [Book] 細胞工学2011年7月号(「高次クロマチン構造とノンコーディングRNA」) (2011)
  • Author(s): 中山潤一
  • Publisher: 学研メディカル秀潤社(印刷中)
• [Book] エピジェネティクス(堀越正美 監訳)(「3章 概観と概念(Overview and Concept)」) (2010)
  • Author(s): 中山潤一
  • Publisher: 培風館
• [Book] エピジェネティクス-3章 概観と概念- (2010)
  • Author(s): 堀越正美
  • Publisher: 培風館
• [Book] 蛋白質核酸酵素増刊「染色体サイクル」(正井久雄、升方久夫、釣本敏樹、仁木宏典、篠原彰編),54巻(染色体サイクルのクロマチン制御:概論) (2009)
  • Author(s): 中山潤一
  • Publisher: 共立出版
• [Book] 蛋白質核酸酵素2008年6月号,53巻(「高次クロマチンの形成機構とエピジェネティック制御」) (2008)
  • Author(s): 中山潤一
  • Publisher: 共立出版
• [Book] RNA実験ノート(稲田利文・塩見春彦編)(「小分子RNAとクロマチン動態」無敵のバイオテクニカルシリーズ) (2008)
  • Author(s): 石田真由美・中山潤一
  • Publisher: 羊土社
• [Book] 蛋白質核酸酵素2007年6月号,52巻(「ヒストンのメチル化修飾と高次クロマチン構造の形成機構」) (2007)
  • Author(s): 定家真人・中山潤一
  • Publisher: 共立出版
• [Book] 実験医学増刊「染色体サイクル」(正井久雄・渡辺良典編),25巻(RNAiによるヘテロクロマチン制御機構) (2007)
  • Author(s): 飯田哲史・中山潤一
  • Publisher: 羊土社
• [Remarks]
  • URL: http://www.riken.go.jp/r-world/research/lab/cdb/chromatin/index.html