Analysis on the higher-order chromatin structure in the interphase nucleus using super-resolution fluorescence microscopy

• Project/Area Number: 22870042
• Research Category: Grant-in-Aid for Research Activity Start-up
• Allocation Type: Single-year Grants
• Research Field: Structural biochemistry
• Research Institution: National Institute of Information and Communications Technology
• Principal Investigator: MATSUDA Atsushi 独立行政法人情報通信研究機構, 未来ICT研究所・バイオICT研究室, 専攻研究員 (20585723)
• Project Period (FY): 2010 – 2011
• Project Status: Completed (Fiscal Year 2011)
• Budget Amount: ¥3,146,000 (Direct Cost: ¥2,420,000、Indirect Cost: ¥726,000); Fiscal Year 2011: ¥1,508,000 (Direct Cost: ¥1,160,000、Indirect Cost: ¥348,000); Fiscal Year 2010: ¥1,638,000 (Direct Cost: ¥1,260,000、Indirect Cost: ¥378,000)
• Keywords: クロマチン / 分裂酵母 / 超分解能蛍光顕微鏡 / 遺伝子 / 発現制御 / 生物物理 / 画像 / 生体生命情報学

Research Abstract

I developed a method for live observation using super-resolution microscopy, 3DSIM, and applied on live fission yeast. The interphase chromatin in live fission yeast formed fibrous structures with a diameter of 100-150 nm. Chromatin in fixed fission yeast nuclei was stained with antibodies against modified histones and observed with 3DSIM, then the level of overlap with the DNA mass was quantitatively analyzed. The results showed that regions associated with ongoing transcription were de-condensed and extended from fibrous structures.

Research Products

• [Journal Article] Highly precise and developmentally programmed genome assembly in Paramecium requires ligase IV-dependent end joining (2011)
  • Author(s): Kapusta A, Matsuda A, Marmignon A, Ku M, Silve A, Meyer E, Forney JD, Malinsky S, Betermier M
  • Journal Title: PLoS Genet Volume: 7(4) Issue: 4 Pages: 1002049-1002049
  • DOI: 10.1371/journal.pgen.1002049
  • Peer Reviewed
• [Journal Article] Inner nuclear membrane protein Ima1 is dispensable for intranuclear positioning of centromeres (2011)
  • Author(s): Hiraoka Y, Maekawa H, Asakawa H, Chikashige Y, Kojidani T, Osakada H, Matsuda A, Haraguchi T
  • Journal Title: Genes Cells Volume: 16 Issue: 10 Pages: 1000-1011
  • DOI: 10.1111/j.1365-2443.2011.01544.x
  • Peer Reviewed
• [Journal Article] The Conjugation-Specific Die5 Protein Is Required for Development of the Somatic Nucleus in both Paramecium and Tetrahymena (2010)
  • Author(s): Matsuda, A., Shieh, A., Chalker, D., and Forney, J. D.
  • Journal Title: Eukaryotic Cell Volume: 9(7) Issue: 7 Pages: 1087-1099
  • DOI: 10.1128/ec.00379-09
  • Peer Reviewed
• [Journal Article] Fast live simultaneous multiwavelength four-dimensional optical microscopy (2010)
  • Author(s): Carlton PM, Boulanger J, Kervrann C, Sibarita JB, Salamero J, Gordon-Messer S, Bressan D, Haber JE, Haase S, Shao L, Winoto L, Matsuda A, Kner P, Uzawa S, Gustafsson M, Kam Z, Agard DA, Sedat JW
  • Journal Title: Proc Natl Acad Sci USA Volume: 107(37) Issue: 37 Pages: 16016-16022
  • DOI: 10.1073/pnas.1004037107
  • Peer Reviewed
• [Journal Article] Condensed mitotic chromosome structure at nanometer resolution using PALM and EGFP-Histones (2010)
  • Author(s): Matsuda, A., Shao, L., Boulanger, J., Kervrann, C., Carlton, P. M., Kner, P., Agard, D., and Sedat, J. W.
  • Journal Title: PLoS one Volume: 5 Issue: 9 Pages: 12768-12768
  • DOI: 10.1371/journal.pone.0012768
  • Peer Reviewed
• [Presentation] Localization microscopy with conventional GFP and noisy biological samples (2012)
  • Author(s): Atsushi Matsuda
  • Organizer: Superresolution Microscopy Workshop
  • Place of Presentation: Biopolis, Singapore
  • Year and Date: 2012-03-28
• [Presentation] Five-dimensional super-resolution imaging with OMX (2012)
  • Author(s): Atsushi Matsuda
  • Organizer: Superresolution Microscopy Workshop
  • Place of Presentation: Biopolis, Singapore
  • Year and Date: 2012-03-28
• [Presentation] 超分解能蛍光顕微鏡により観察する分裂酵母のクロマチン (2012)
  • Author(s): 松田厚志、平岡泰、原口徳子
  • Organizer: 第29回染色体ワークショップ
  • Place of Presentation: ホテルニュー水戸屋、宮城県
  • Year and Date: 2012-01-25
• [Presentation] 超分解能蛍光顕微鏡により観察する分裂酵母のクロマチン (2012)
  • Author(s): 松田厚志
  • Organizer: 第29回染色体ワークショップ
  • Place of Presentation: 仙台秋保温泉、宮城県
  • Year and Date: 2012-01-25
• [Presentation] 超分解能蛍光顕微鏡3DSIMにより見る間期核クロマチン (2012)
  • Author(s): 松田厚志
  • Organizer: 神戸大学重点研究チーム学術講演会
  • Place of Presentation: 神戸大学、兵庫県
  • Year and Date: 2012-01-10
• [Presentation] Spatial organization of fission yeast chromatin observed with super-resolution fluorescent microscopy (2011)
  • Author(s): 松田厚志,平岡泰,原口徳子
  • Organizer: 第34回日本分子生物学会年会
  • Place of Presentation: パシフィコ横浜、神奈川県
  • Year and Date: 2011-12-16
• [Presentation] 高分解能顕微鏡 (2011)
  • Author(s): 松田厚志
  • Organizer: 第17回細胞生物学ワークショップ
  • Place of Presentation: 情報通信研究機構、兵庫県
  • Year and Date: 2011-08-12
• [Presentation] 回析限界を超えた蛍光顕微鏡により見る細胞核内クロマチン (2011)
  • Author(s): 松田厚志
  • Organizer: 第37回レーザ顕微研究会
  • Place of Presentation: 理化学研究所、埼玉県
  • Year and Date: 2011-07-06
• [Presentation] 回析限界を超えた蛍光顕微鏡により見る細胞核内クロマチン (2011)
  • Author(s): 松田厚志
  • Organizer: 第37回レーザ顕微鏡研究会
  • Place of Presentation: 理化学研究所、埼玉県
  • Year and Date: 2011-07-06
• [Presentation] Interphase chromatin structure observed with superresolution microscopy (2011)
  • Author(s): Atsushi Matsuda, John W. Sedat, David A. Agard, Yasushi Hiraoka and Tokuko Haraguchi
  • Organizer: International Symposium on the Physicochemical Field for Genetic Activities
  • Place of Presentation: The Westin Awaji Island, Japan
  • Year and Date: 2011-01-24
• [Presentation] Inner nuclear membrane proteins in the fission yeast (2011)
  • Author(s): Hiromi Maekawa, Haruhiko Asakawa, Yuji Chikashige, Atsushi Matsuda, Tokuko Haraguchi, Yasushi Hiraoka
  • Organizer: International Symposium on the Physicochemical Field for Genetic Activities
  • Place of Presentation: The Westin Awaji Island, Japan
  • Year and Date: 2011-01-24
• [Presentation] Interphase chromatin structure observed with superresolution microscopy. (2011)
  • Author(s): Atsushi Matsuda
  • Organizer: International Symposium on the Physicochemical Field for Genetic Activities.
  • Place of Presentation: 淡路夢舞台国際会議場、兵庫県
  • Year and Date: 2011-01-24
• [Presentation] Inner nuclear membrane proteins in the fission yeast (2011)
  • Author(s): Hiromi Maekawa
  • Organizer: International Symposium on the Physicochemical Field for Genetic Activities.
  • Place of Presentation: 淡路夢舞台国際会議場、兵庫県
  • Year and Date: 2011-01-24
• [Presentation] 超分解能3DSIMにより観察される間期細胞核内クロマチン繊維 (2011)
  • Author(s): 松田厚志、平岡泰、原口徳子
  • Organizer: 第28回染色体ワークショップ
  • Place of Presentation: 山代温泉瑠璃光(コンベンションホール)、石川県
  • Year and Date: 2011-01-12
• [Presentation] 超分解能3DSIMにより観察される間期細胞核内クロマチン繊維 (2011)
  • Author(s): 松田厚志
  • Organizer: 染色体ワークショップ
  • Place of Presentation: 加賀温泉、石川県
  • Year and Date: 2011-01-12
• [Presentation] GFPとデノイジングを用いたPALM (2010)
  • Author(s): 松田厚志
  • Organizer: 第2回光塾
  • Place of Presentation: 大阪大学、大阪府
  • Year and Date: 2010-12-11
• [Presentation] 超分解能顕微鏡で見る細胞核構造 (2010)
  • Author(s): 松田厚志
  • Organizer: 視る生物学5-植物を視る光の新技術-
  • Place of Presentation: NAISTミレニアムホール、奈良県
  • Year and Date: 2010-11-25
• [Presentation] 超分解能顕微鏡で見る細胞核構造 (2010)
  • Author(s): 松田厚志
  • Organizer: 視る生物学5-植物を視る光の新技術
  • Place of Presentation: NAISTミレニアムホール、奈良県
  • Year and Date: 2010-11-25
• [Presentation] 時空間分解能向上によるクロマチンイメージングの新展開 (2010)
  • Author(s): 松田厚志
  • Organizer: 第48回日本生物物理学会年会
  • Place of Presentation: 東北大学、宮城県
  • Year and Date: 2010-09-21
• [Presentation] 高分解能顕微鏡 (2010)
  • Author(s): 松田厚志
  • Organizer: 第15回細胞生物学ワークショップ
  • Place of Presentation: 未来ICT研究センター、兵庫県
  • Year and Date: 2010-08-18
• [Presentation] 超高分解能蛍光顕微鏡技術によりクロマチン高次構造を直接的に観察する (2010)
  • Author(s): 松田厚志, LinShao, DavidA. Agard、John W Sedat
  • Organizer: 第9回核ダイナミクス研究
  • Place of Presentation: ラフォーレ修善寺、静岡県
  • Year and Date: 2010-05-27
• [Remarks]
  • URL: http://www2.nict.go.jp/advanced_ict/bio/w131103/CellMagic/
• [Remarks]
  • URL: http://www.fbs.osaka-u.ac.jp/labs/hiraoka/index.html
• [Remarks]
  • URL: http://www2.nict.go.jp/advanced_ict/bio/w131103/CellMagic/
• [Remarks]
  • URL: http://www.fbs.osaka-u.ac.jp/labs/hiraoka/index.html
• [Remarks]
  • URL: http://www-karc.nict.go.jp/w131103/CellMagic/index.html