Analyses of interaction between the reconstituted chromatin fiber and the nuclear matrix

• Project/Area Number: 18770131
• Research Category: Grant-in-Aid for Young Scientists (B)
• Allocation Type: Single-year Grants
• Research Field: Biophysics
• Research Institution: Kyoto University
• Principal Investigator: HIZUME Kohji Kyoto University, 大学院生命科学研究科, 助教 (10378846)
• Project Period (FY): 2006 – 2008
• Project Status: Completed (Fiscal Year 2008)
• Budget Amount: ¥3,910,000 (Direct Cost: ¥3,700,000、Indirect Cost: ¥210,000); Fiscal Year 2008: ¥910,000 (Direct Cost: ¥700,000、Indirect Cost: ¥210,000); Fiscal Year 2007: ¥700,000 (Direct Cost: ¥700,000); Fiscal Year 2006: ¥2,300,000 (Direct Cost: ¥2,300,000)
• Keywords: タンパク質 / 核酸の構造 / 動態 / 機能 / クロマチン / ヌクレオソーム / AFM / 核マトリクス

Research Abstract

遺伝情報を担うDNA分子を含むクロマチンファイバーが、細胞核内部の骨格構造とどのように相互作用しているのかを明らかにするため、その構造を試験管内で人工的に再構築し、原子間力顕微鏡による観察を行った。その結果、核内骨格の構成因子であるtopo IIタンパク質を加えることで、クロマチンファイバーがたぐり寄せられるように集合し、ループ状構造を形成することを明らかにした。また、クロマチンのアセチル化修飾を引き金に、クロマチンファイバーが弛緩して細くなり、更に、核内骨格から遊離し易い(自由度の高い)状態へと変化することを示唆する実験結果を得た。

Research Products

• [Journal Article] Removal of histone tails from nucleosome dissects the physical mechanisms of salt-induced aggregation, linker histone H1-induced compaction and 30-nm fiber formation of the nucleosome array (2009)
  • Author(s): Hizume, K., Nakai, T., Araki, S., Prieto, E., Yoshikawa, K., and Takeyasu, K
  • Journal Title: Ultramicroscopy In Press
  • NAID: 120001468043
  • Peer Reviewed
• [Journal Article] Removal of histone tails from nucleosome dissects the physical mechanisms of salt-induced aggregation, linker histone H1-induced compaction, and 30-nm fiber formation of the nucleosome array (2009)
  • Author(s): Hizume K, Nakai T, Araki S, Prieto E, Yoshikawa K, Takeyasu K
  • Journal Title: Ultramicroscopy (Epub ahead of print)
  • NAID: 120001468043
  • Peer Reviewed
• [Journal Article] Nuclear architecture and chromatin dynamics revealed by atomic force microscopy in combination with biochemistry and cell biology (2008)
  • Author(s): Hirano, Y., Takahashi, H., Kumeta, M., Hizume, K., Hirai, Y., Otsuka, S., Yoshimura, S.H., and Takeyasu, K
  • Journal Title: Pflugers Arch 456 Pages: 139-153
  • Peer Reviewed
• [Journal Article] Nuclear architecture and chromatin dynamics revealed by atomic force microscopy in combination with biochemistry and cell biology. (2008)
  • Author(s): Hirano Y, Takahashi H, Kumeta M, Hizume K, Hirai Y, Otsuka S, Yoshimura SH, Takeyasu K.
  • Journal Title: Pflugers Arch. 456 Pages: 139-153
  • Peer Reviewed
• [Journal Article] Topoisomerase II, scaffold component, promotes chromatin compaction in vitro in a linker-histone H1-dependent manner (2007)
  • Author(s): Hizume, K., Araki, S., Yoshikawa, K., and Takeyasu, K
  • Journal Title: Nucleic Acids Res 35 Pages: 2787-2799
  • NAID: 120000896374
  • Peer Reviewed
• [Journal Article] Structural organization of dynamic chromatin. (2007)
  • Author(s): Hizume K, Yoshimura SH, Kumeta M, Takeyasu K.
  • Journal Title: Subcell Biochem. 41 Pages: 3-28
• [Journal Article] Transcriptional coactivator PC4, a chromatin-associated protein, induces chromatin condensation (2006)
  • Author(s): Das, C., Hizume, K.*, Batta, K., Kumar, B.R., Gadad, S.S., Ganguly, S., Lorain, S., Verreault, A., Sadhale, P.P., Takeyasu, K., et al
  • Journal Title: Mol Cell Biol 26 Pages: 8303-8315
  • Peer Reviewed
• [Presentation] An Insight into Nucleosomepacking Mechanisms Obtained from Chromatin Reconstitution and Nano-Technology (2008)
  • Author(s): Kohji Hizume, Tonau Nakai, Sumiko Araki, Eloise Prieto, Kenichi Yoshikawa, Kunio Takeyasu
  • Organizer: The American Society for Cell Biology 48th annual meeting
  • Place of Presentation: 米国サンフランシスコ
  • Year and Date: 2008-12-15
• [Presentation] Nano-Scale Observation of Higher-Order Genome Structure Rebonstituted from DNA and Chromosome Proteins (2008)
  • Author(s): Kohji Hizume, Sumiko Araki, Kenichi Yoshikawa, Kunio Takeyasu and Shige H. Yoshimura
  • Organizer: 2008 International Symposium on Micro-Nano Mechatronics and Human Science
  • Place of Presentation: 名古屋
  • Year and Date: 2008-11-07
• [Presentation] Nano-Scale Observation of Higher-Order Genome Structure Reconstituted from DNA and Chromosome Proteins (2008)
  • Author(s): Hizume K, Araki S, Yoshikawa K, Takeyasu K and Yoshimura SH
  • Organizer: 2008 International Symposium on Micro-Nano Mechatronics and Human Science
• [Presentation] An insight into nucleosome-packing mechamisms obtained from chromatin reconstitution and nano-technology (2008)
  • Author(s): Hizume K, Nakai T, Araki S, Prieto E, Yoshikawa K, Takeyasu K
  • Organizer: The 48th annual meeting of the American Society for Cell Biology
  • Place of Presentation: San Francisco
• [Presentation] Nucleosome dynamics in vitro studied by atomic force microscopy (2006)
  • Author(s): Hizume K, Takeyasu K
  • Organizer: 16th International Microscopy Congress
  • Place of Presentation: Sapporo
• [Book] Biopolymer Research Trends, (Kobori T, Hizume K, Ohniwa R.L, Yoshimura S.H, Takeyasu K.(分担), "Biochemical and biophysical basis of genome folding mechanisms.") (2008)
  • Author(s): Tamas S. Nemeth., (編)
  • Publisher: Nova Science Publishers
• [Book] Chromatin and Disease, (Hizume K, Yoshimura SH, Kumeta M, Takeyasu K.(分担), "Structural organization of dynamic chromatin.") (2007)
  • Author(s): T.K Kundu. Dipak D, (編)
  • Publisher: Springer
• [Book] Chromosome Nano-science and Technology, (Hizume K, Kobori T, Yoshimura S.H, Takeyasu K.(分担)"Mechanisms of higher-order chromatin folding revealed by AFM observation of in vitro reconstituted chromatin.") (2007)
  • Author(s): Fukui K, Ushiki T, (編)
  • Publisher: CRC Pr I Llc