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Development of 3D-AFM for visualizing chromosomes by carbon nanotube tip

Research Project

Project/Area Number 22K14603
Research Category

Grant-in-Aid for Early-Career Scientists

Allocation TypeMulti-year Fund
Review Section Basic Section 29020:Thin film/surface and interfacial physical properties-related
Research InstitutionKanazawa University

Principal Investigator

Miyazawa Keisuke  金沢大学, フロンティア工学系, 助教 (40845525)

Project Period (FY) 2022-04-01 – 2024-03-31
Project Status Completed (Fiscal Year 2023)
Budget Amount *help
¥4,550,000 (Direct Cost: ¥3,500,000、Indirect Cost: ¥1,050,000)
Fiscal Year 2023: ¥1,170,000 (Direct Cost: ¥900,000、Indirect Cost: ¥270,000)
Fiscal Year 2022: ¥3,380,000 (Direct Cost: ¥2,600,000、Indirect Cost: ¥780,000)
Keywords原子間力顕微鏡 / カーボンナノチューブ / 染色体 / 探針
Outline of Research at the Start

本研究では,ヒトの染色体の3次元立体構造を非染色かつ低侵襲でナノスケール計測することができる3次元原子間力顕微鏡(3D-AFM)を開発する.直径30nm以下,長さ500 nm以上の超高アスペクト比のカーボンナノチューブ(CNT)探針を開発し,厚みのある染色体の内部にCNT探針を直接挿入して染色体内部で探針が受ける相互作用力の3次元分布を取得することにより、従来は困難であった染色体の3次元ナノスケール立体構造計測を実現する.開発した3D-AFMにより,染色体のナノレベルの構造を捉え,がんや先天性疾患・不妊症の原因となるナノレベルの染色体異常の形成メカニズムの理解に貢献できることを実証する.

Outline of Final Research Achievements

In this study, we developed a carbon nanotube (CNT) tip used for in-liquid atomic force microscopy (AFM) and succeeded in visualizing the three-dimensional structure of human chromosomes by 3D-AFM with the CNT tip, which was difficult to achieve with conventional AFM. In addition, we performed the measurement of DNA in liquid using the developed CNT tip, and the problem of swelling of the apparent shape of DNA using conventional AFM tip was solved, and the helical structure of the DNA surface was successfully observed simultaneously while measuring the shape of DNA with a diameter of 2 nm.

Academic Significance and Societal Importance of the Research Achievements

本研究により、従来のAFMでは困難であった生体試料の内部計測が可能となり、本研究で用いた染色体だけではなく、細胞核、ゴルジ体、ミトコンドリアなどの各オルガネラの液中3次元計測の可能性が拓かれた。これは、液中AFMの応用可能性を大きく広げる成果であり、液中AFMが生物学や医学・薬学などの各分野に普及し、生体試料に関するナノレベルの新たな構造・力学情報に関する知見を与えることが期待される。

Report

(3 results)
  • 2023 Annual Research Report   Final Research Report ( PDF )
  • 2022 Research-status Report
  • Research Products

    (24 results)

All 2024 2023 2022 Other

All Journal Article (9 results) (of which Int'l Joint Research: 5 results,  Peer Reviewed: 9 results,  Open Access: 9 results) Presentation (14 results) (of which Int'l Joint Research: 9 results,  Invited: 6 results) Remarks (1 results)

  • [Journal Article] Dynamics of Molecular Self‐Assembly of Short Peptides at Liquid-Solid Interfaces-Effect of Charged Amino Acid Point Mutations2024

    • Author(s)
      Yurtsever Ayhan、Hirata Kaito、Kojima Ryohei、Miyazawa Keisuke、Miyata Kazuki、Kesornsit Sanhanut、Zareie Hadi、Sun Linhao、Maeda Katsuhiro、Sarikaya Mehmet、Fukuma Takeshi
    • Journal Title

      Small

      Volume: 20 Issue: 25 Pages: 2400653-2400653

    • DOI

      10.1002/smll.202400653

    • Related Report
      2023 Annual Research Report
    • Peer Reviewed / Open Access / Int'l Joint Research
  • [Journal Article] Identification of a novel type of focal adhesion remodelling via FAK/FRNK replacement, and its contribution to cancer progression2023

    • Author(s)
      Tsujioka M, Miyazawa K, Ohmuraya M, Nibe Y, Shirokawa T, Hayasaka H, Mizushima T, Fukuma T, Shimizu S
    • Journal Title

      Cell Death & Disease

      Volume: 14 Issue: 4 Pages: 256-256

    • DOI

      10.1038/s41419-023-05774-4

    • Related Report
      2023 Annual Research Report 2022 Research-status Report
    • Peer Reviewed / Open Access
  • [Journal Article] Three-dimensional ordering of water molecules reflecting hydroxyl groups on sapphire (001) and α-quartz (100) surfaces2023

    • Author(s)
      Nagai Sho、Urata Shingo、Suga Kent、Fukuma Takeshi、Hayashi Yasuo、Miyazawa Keisuke
    • Journal Title

      Nanoscale

      Volume: 15 Issue: 32 Pages: 13262-13271

    • DOI

      10.1039/d3nr02498a

    • Related Report
      2023 Annual Research Report
    • Peer Reviewed / Open Access
  • [Journal Article] Protocol for live imaging of intracellular nanoscale structures using atomic force microscopy with nanoneedle probes2023

    • Author(s)
      Ichikawa Takehiko、Alam Mohammad Shahidul、Penedo Marcos、Matsumoto Kyosuke、Fujita Sou、Miyazawa Keisuke、Furusho Hirotoshi、Miyata Kazuki、Nakamura Chikashi、Fukuma Takeshi
    • Journal Title

      STAR Protocols

      Volume: 4 Issue: 3 Pages: 102468-102468

    • DOI

      10.1016/j.xpro.2023.102468

    • Related Report
      2023 Annual Research Report
    • Peer Reviewed / Open Access / Int'l Joint Research
  • [Journal Article] Highly Stable Triangular Single‐Layer 2D Assemblies: Synthesis and Their Stimuli‐Responsive Elastic and Anisotropic Curling2023

    • Author(s)
      Hao Yajiao、Yu Lin、Miyazawa Keisuke、Zhang Shengrui、Liu Mo、Yu Zhongqi、Liu Jun、Yu Yang、Li Song、Xu Shujue、Fukuma Takeshi、Xiao‐An Zhang Sean、Li Minjie
    • Journal Title

      Angewandte Chemie

      Volume: - Issue: 22

    • DOI

      10.1002/ange.202302365

    • Related Report
      2022 Research-status Report
    • Peer Reviewed / Open Access / Int'l Joint Research
  • [Journal Article] Chemical fixation creates nanoscale clusters on the cell surface by aggregating membrane proteins2022

    • Author(s)
      Ichikawa Takehiko、Wang Dong、Miyazawa Keisuke、Miyata Kazuki、Oshima Masanobu、Fukuma Takeshi
    • Journal Title

      Communications Biology

      Volume: 5 Issue: 1 Pages: 487-487

    • DOI

      10.1038/s42003-022-03437-2

    • Related Report
      2022 Research-status Report
    • Peer Reviewed / Open Access
  • [Journal Article] Computed Three-Dimensional Atomic Force Microscopy Images of Biopolymers Using the Jarzynski Equality2022

    • Author(s)
      Sumikama Takashi、Federici Canova Filippo、Gao David Z.、Penedo Marcos、Miyazawa Keisuke、Foster Adam S.、Fukuma Takeshi
    • Journal Title

      The Journal of Physical Chemistry Letters

      Volume: 13 Issue: 23 Pages: 5365-5371

    • DOI

      10.1021/acs.jpclett.2c01093

    • Related Report
      2022 Research-status Report
    • Peer Reviewed / Open Access / Int'l Joint Research
  • [Journal Article] Visualizing Molecular-Scale Adsorption Structures of Anti-freezing Surfactants on Sapphire (0001) Surfaces at Different Concentrations by 3D Scanning Force Microscopy2022

    • Author(s)
      Ikarashi Takahiko、Nakayama Kyosuke、Nakajima Naoki、Miyata Kazuki、Miyazawa Keisuke、Fukuma Takeshi
    • Journal Title

      ACS Applied Materials & Interfaces

      Volume: 14 Issue: 39 Pages: 44947-44957

    • DOI

      10.1021/acsami.2c10475

    • Related Report
      2022 Research-status Report
    • Peer Reviewed / Open Access
  • [Journal Article] Molecular insights on the crystalline cellulose-water interfaces via three-dimensional atomic force microscopy2022

    • Author(s)
      Yurtsever Ayhan、Wang Pei-Xi、Priante Fabio、Morais Jaques Ygor、Miyazawa Keisuke、MacLachlan Mark J.、Foster Adam S.、Fukuma Takeshi
    • Journal Title

      Science Advances

      Volume: 8 Issue: 41

    • DOI

      10.1126/sciadv.abq0160

    • Related Report
      2022 Research-status Report
    • Peer Reviewed / Open Access / Int'l Joint Research
  • [Presentation] Intracellular live imaging of organelle structures and mechanical properties by nanoendoscopy using AFM2023

    • Author(s)
      Keisuke Miyazawa, Takeshi Fukuma
    • Organizer
      The 100th Anniversary Annual Meeting of The Physiological Society of Japan
    • Related Report
      2023 Annual Research Report
    • Invited
  • [Presentation] 液中原子間力顕微鏡(AFM )による細胞内構造・力学特性計測2023

    • Author(s)
      宮澤佳甫
    • Organizer
      第5回形態解析ワークショップ
    • Related Report
      2023 Annual Research Report
    • Invited
  • [Presentation] 液中原子間力顕微鏡の開発と、動物・微生物・植物細胞の応用計測の展開2023

    • Author(s)
      宮澤佳甫
    • Organizer
      第14回植物電子顕微鏡若手ワークショップ
    • Related Report
      2023 Annual Research Report
    • Invited
  • [Presentation] Visualization of 3D internal structures of human chromosomes by 3D-AFM using a carbon nanotube tip2023

    • Author(s)
      R. Kojima, K. Miyazawa, K. Teramae, T. Sumikkama, M. Meguro, K. Imadate, N. Okano, S. Horike, K. Hirahara, T. Fukuma
    • Organizer
      9th Multifrequency AFM conference
    • Related Report
      2023 Annual Research Report
    • Int'l Joint Research
  • [Presentation] Nanoendoscopy-AFM for Visualizing Intracellular Nanostructures of Living Cells2023

    • Author(s)
      K. Miyazawa, M. Penedo, H. Furusho, T. Ichikawa, M. S. Alam, K. Miyata, C. Nakamura, T. Fukuma
    • Organizer
      Microscopy and Microanalysis 2023
    • Related Report
      2023 Annual Research Report
    • Int'l Joint Research
  • [Presentation] Atomic-Scale Hydration Structures Visualized by Three-Dimensional Atomic Force Microscopy (3D-AFM)2023

    • Author(s)
      K. Miyazawa, T. Fukuma
    • Organizer
      AVS69
    • Related Report
      2023 Annual Research Report
    • Int'l Joint Research
  • [Presentation] Development of nanoendoscopy-AFM for visualizing intracellular nanostructures of living cells2022

    • Author(s)
      Keisuke Miyazawa
    • Organizer
      IEEE-NEMS2022
    • Related Report
      2022 Research-status Report
    • Int'l Joint Research / Invited
  • [Presentation] 生きた細胞内部の分子構造動態を可視化するためのIn-cell AFM技術の開発2022

    • Author(s)
      宮澤佳甫、Marcos Penedo Garcia、岡野直子、古庄公寿、市川壮彦、Alam Mohammad Shahidul、 宮田一輝、中村史、福間剛士
    • Organizer
      第22回日本蛋白質科学会年会
    • Related Report
      2022 Research-status Report
    • Invited
  • [Presentation] Intracellular live imaging of organelle structures and mechanical properties by nanoendoscopy using AFM2022

    • Author(s)
      Keisuke Miyazawa, Takeshi Fukuma
    • Organizer
      The 100th Anniversary Annual Meeting of The Physiological Society of Japan
    • Related Report
      2022 Research-status Report
    • Int'l Joint Research / Invited
  • [Presentation] Development of nanoendoscopy-AFM for visualizing intracellular nanostructures of living cells2022

    • Author(s)
      K. Miyazawa, M. Penedo, N. Okano, H. Furusho, T. Ichikawa, M. S. Alam, K. Miyata, C. Nakamura, T Fukuma
    • Organizer
      The 22nd International Vacuum Congress (IVC-22)
    • Related Report
      2022 Research-status Report
    • Int'l Joint Research
  • [Presentation] Development of Nanoendoscopy-AFM for Visualizing Intracellular Nanostructures of Living Cells2022

    • Author(s)
      K. Miyazawa, M. Penedo, N. Okano, H. Furusho, T. Ichikawa, M. S. Alam, K. Miyata, C. Nakamura, T Fukuma
    • Organizer
      AVS 68th INTERNATIONAL SYMPOSIUM & EXHIBITION
    • Related Report
      2022 Research-status Report
    • Int'l Joint Research
  • [Presentation] Visualizing 3D internal structure of cell nucleus by 3D-AFM2022

    • Author(s)
      R. Kojima, K. Miyazawa, A. M. Shahidul, K. Sivashanmugan, T. Sumikama, R. Omura and T. Fukuma
    • Organizer
      AFM BioMed Conference 2022
    • Related Report
      2022 Research-status Report
    • Int'l Joint Research
  • [Presentation] Development of a Method for Visualizing Nanometer-Scale Three-Dimensional Structures of Chromosomes by Three-Dimensional Atomic Force Microscopy2022

    • Author(s)
      R. Kojima, K. Miyazawa, K. Teramae, T. Sumikama, M. Meguro, K. Imadate, N. Okano, S. Horike, K. Hirahara T. Fukuma
    • Organizer
      AVS 68th INTERNATIONAL SYMPOSIUM & EXHIBITION
    • Related Report
      2022 Research-status Report
    • Int'l Joint Research
  • [Presentation] 細胞核内部の3 次元構造を可視化する3D-AFM の開発2022

    • Author(s)
      児島 亮平,宮澤 佳甫,Alam Mohammad Shahidul,Kundan Sivashanmugan,炭竈 享司,太村 理沙,福間 剛士
    • Organizer
      第83回応用物理学会秋季学術講演会
    • Related Report
      2022 Research-status Report
  • [Remarks] サファイア(001)と α-クォーツ(100)の表面構造 および水和構造を原子スケールで可視化!

    • URL

      https://www.kanazawa-u.ac.jp/wp/wp-content/uploads/2023/08/230818.pdf

    • Related Report
      2023 Annual Research Report

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Published: 2022-04-19   Modified: 2025-01-30  

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