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Periodic porous DNA nanostructures for ordered arrangement of protein molecules and their structural analysis

Research Project

Project/Area Number 19K22103
Research Category

Grant-in-Aid for Challenging Research (Exploratory)

Allocation TypeMulti-year Fund
Review Section Medium-sized Section 28:Nano/micro science and related fields
Research InstitutionNagoya University

Principal Investigator

Tagawa Miho  名古屋大学, 未来材料・システム研究所, 教授 (40512330)

Project Period (FY) 2019-06-28 – 2024-03-31
Project Status Completed (Fiscal Year 2023)
Budget Amount *help
¥6,240,000 (Direct Cost: ¥4,800,000、Indirect Cost: ¥1,440,000)
Fiscal Year 2021: ¥1,820,000 (Direct Cost: ¥1,400,000、Indirect Cost: ¥420,000)
Fiscal Year 2020: ¥1,950,000 (Direct Cost: ¥1,500,000、Indirect Cost: ¥450,000)
Fiscal Year 2019: ¥2,470,000 (Direct Cost: ¥1,900,000、Indirect Cost: ¥570,000)
KeywordsDNA / ナノ粒子 / 結晶成長 / X線小角散乱 / 自己集合 / コロイド結晶成長 / 自己組織化 / 多孔構造 / コロイド結晶 / 結晶 / 構造解析
Outline of Research at the Start

本研究は、タンパク質立体構造解析の簡便化に向けたタンパク分子規則配列化のためのDNA規則的多孔構造(DNA結晶スポンジ)の創製を目的とする。これにより、従来のタンパク質立体構造解析においてボトルネックとなっている網羅的実験が必要な「タンパク結晶化」を介することなく立体構造解析を可能にするための新手法の開発を目指す。従来のDNAナノ構造体設計法(DNAタイル、DNAオリガミ)とは異なる「DNA修飾ナノ粒子超格子(DNA-NP)の結晶化機構を模した設計法」でDNA結晶スポンジを実現する狙いである。

Outline of Final Research Achievements

We worked on the fabrication of crystals of DNA-functionalized nanoparticle superlattices with sponge functionality. In order to improve the uptake efficiency of guest molecules such as protein molecules, we worked on the fabrication of crystals with lattice constants larger than the nanoparticle particle diameter. The crystals were found to have a bcc structure with high crystallinity, which was confirmed by SAXS structural analysis. Streptavidin and RNP were successfully encapsulated, and cross-sectional observation of the crystals by confocal laser scanning microscopy confirmed that the protein molecules were incorporated into the interior of the crystal.

Academic Significance and Societal Importance of the Research Achievements

DNA修飾ナノ粒子の結晶が、規則的な空孔にタンパク分子のような大きな分子も取り込めることを確認したことで、今後は規則配列化による構造解析のみならず、結晶内での反応制御等、様々な応用が考えられる。DNA修飾ナノ粒子の結晶が持つ光電場の増強効果を利用し、ラマン散乱等の手法を用いて封入分子の反応課程を観察する手法としても有効であると期待できる。

Report

(5 results)
  • 2023 Final Research Report ( PDF )
  • 2022 Research-status Report
  • 2021 Research-status Report
  • 2020 Research-status Report
  • 2019 Research-status Report
  • Research Products

    (21 results)

All 2022 2021 2020 2019

All Journal Article (3 results) (of which Peer Reviewed: 3 results,  Open Access: 2 results) Presentation (16 results) (of which Int'l Joint Research: 9 results,  Invited: 4 results) Patent(Industrial Property Rights) (2 results) (of which Overseas: 1 results)

  • [Journal Article] DNA-functionalized colloidal crystals for macromolecular encapsulation2022

    • Author(s)
      Maasa Yokomori, Hayato Suzuki, Akiyoshi Nakamura, Shigeo S. Sugano, Miho Tagawa
    • Journal Title

      Soft Matter

      Volume: 18 Issue: 36 Pages: 6954-6964

    • DOI

      10.1039/d2sm00949h

    • Related Report
      2022 Research-status Report
    • Peer Reviewed / Open Access
  • [Journal Article] Two-step nanoparticle crystallization via DNA-guided self-assembly and non-equilibrium dehydration process2021

    • Author(s)
      Hayato Sumi, Noboru Ohta, Hiroshi Sekiguchi, Shunta Harada, Toru Ujihara, Katsuo Tsukamoto, Miho Tagawa
    • Journal Title

      Crystal Growth & Design

      Volume: 21 Issue: 8 Pages: 4506-4515

    • DOI

      10.1021/acs.cgd.1c00398

    • Related Report
      2021 Research-status Report
    • Peer Reviewed / Open Access
  • [Journal Article] Protein crystallization in microdroplets with the aid of electrically induced microbubbles2021

    • Author(s)
      A. Hirao, N. Tottori, M. Yokomori, M.Tagawa, S. S. Sugano, S. Sakuma, Y. Yamanishi
    • Journal Title

      Proc. of the IEEE International Conference on Micro Electro Mechanical Systems (MEMS)

      Volume: 未定

    • Related Report
      2020 Research-status Report
    • Peer Reviewed
  • [Presentation] DNA-Programmable Nanoparticle Crystallization and Structural Analysis by Small-angle X-ray Scattering2022

    • Author(s)
      Miho Tagawa, Maasa Yokomori, Hayato Sumi, LiDong Zhang, Noboru Ohta, Hiroshi Sekiguchi, Shunta Harada, Toru Ujihara
    • Organizer
      The 17th Conference of the Asian Crystallographic Association (AsCA2022)
    • Related Report
      2022 Research-status Report
    • Int'l Joint Research / Invited
  • [Presentation] DNA自己集合を利用したナノ粒子の コロイド結晶成長とX線小角散乱による構造解析2022

    • Author(s)
      田川美穂
    • Organizer
      第2回マテリアル・計測ハイブリッド研究センター 若手フォーラム
    • Related Report
      2022 Research-status Report
    • Invited
  • [Presentation] DNA修飾ナノ粒子の結晶成長における重水の影響2022

    • Author(s)
      張力東, 横森真麻, 鷲見隼人, 小島憧子, 太田昇, 関口博史, 原田俊太, 宇治原徹, 田川美穂
    • Organizer
      第51回結晶成長国内会議
    • Related Report
      2022 Research-status Report
  • [Presentation] DNA-functionalized colloidal crystals for encapsulating macromolecules2021

    • Author(s)
      Maasa Yokomori, Shigeo S. Sugano, Noboru Ohta, Hiroshi Sekiguchi, Shunta Harada, Toru Ujihara, Miho Tagawa
    • Organizer
      ICMaSS2021(International Conference on Materials and Systems for Sustainability)
    • Related Report
      2021 Research-status Report
    • Int'l Joint Research
  • [Presentation] DNA-guided crystallization of nanoparticles: the effect of solvent composition on crystal structure2021

    • Author(s)
      Miho Tagawa, Maasa Yokomori, Yuji Maeda, Hayato Sumi, Noboru Ohta, Hiroshi Sekiguchi, Shunta Harada, Toru Ujihara
    • Organizer
      ICMaSS2021(International Conference on Materials and Systems for Sustainability)
    • Related Report
      2021 Research-status Report
    • Int'l Joint Research
  • [Presentation] Controlling Protein Crystallization in Nanoliter Droplets Treated by Electrically Induced Microbubbles2021

    • Author(s)
      Naotomo Tottori, Azusa Takao, Akiho Hirao, Akira Shinod, Akiyoshi Nakamura,Yusuke Yamada, Maasa Yokomori, Miho Tagawa, Shigeo S. Sugano, Shinya Sakuma, Yoko Yamanishi
    • Organizer
      MicroTAS2021
    • Related Report
      2021 Research-status Report
    • Int'l Joint Research
  • [Presentation] DNA self-assembly によるナノ粒子の結晶化:構造デザインとSAXS 解析2021

    • Author(s)
      田川美穂,横森真麻
    • Organizer
      化学工学会第87年会 シンポジウム HC-12 「ダイバーシティフォーラム」
    • Related Report
      2021 Research-status Report
  • [Presentation] DNAガイドのナノ粒子結晶化:構造制御と結晶対称性を維持した収縮制御2021

    • Author(s)
      田川美穂, 鷲見隼人, 横森真麻,  前田勇士, 太田昇, 関口博史, 原田俊太, 宇治原徹
    • Organizer
      日本物理学会第76回年次大会
    • Related Report
      2020 Research-status Report
    • Invited
  • [Presentation] Protein crystallization in microdroplets with the aid of electrically induced microbubbles2021

    • Author(s)
      A. Hirao, N. Tottori, M. Yokomori, M.Tagawa, S. S. Sugano, S. Sakuma, Y. Yamanishi
    • Organizer
      The 34th IEEE Int. Conf. on Micro Electro Mechanical Systems (IEEE MEMS 2021)
    • Related Report
      2020 Research-status Report
    • Int'l Joint Research
  • [Presentation] DNAコロイド結晶を反応場として活用する試み2021

    • Author(s)
      横森 真麻,菅野 茂夫,中村 彰良,田川 美穂
    • Organizer
      日本農芸化学会2021年度大会
    • Related Report
      2020 Research-status Report
  • [Presentation] 分子捕捉能を有するDNA修飾金ナノ粒子結晶の開発2021

    • Author(s)
      横森真麻,菅野茂夫,中村彰良,原田俊太,宇治原徹,田川美穂
    • Organizer
      化学工学会第86年会
    • Related Report
      2020 Research-status Report
  • [Presentation] THE OPTIMUM DESIGN OF DNA-GUIDED NANOPARTICLE SUPERLATTICES FOR DIRECT DEHYDRATION2019

    • Author(s)
      H. Sumi, T. Isogai, S. Kojima, N. Ohta, H. Sekiguchi, S. Harada, T. Ujihara, M. Tagawa
    • Organizer
      the 19th International Conference on Crystal Growth and Epitaxy (ICCGE-19)
    • Related Report
      2019 Research-status Report
    • Int'l Joint Research
  • [Presentation] DNA-guided crystallization of nanoparticles: optimization of crystallization conditions and structure analysis2019

    • Author(s)
      Miho Tagawa, Shoko Kojima, Hayato Sumi, Noboru Ohta, Hiroshi Sekiguchi, Shunta Harada, Toru Ujihara
    • Organizer
      International Conference on Materials and Systems for Sustainability (ICMaSS) 2019
    • Related Report
      2019 Research-status Report
    • Int'l Joint Research
  • [Presentation] Structural stability analysis of DNA-guided nanoparticle superlattice by direct dehydration2019

    • Author(s)
      Hayato Sumi, Noboru Ohta, Hiroshi Sekiguchi, Shunta Harada, Toru Ujihara, Miho Tagawa
    • Organizer
      International Conference on Materials and Systems for Sustainability (ICMaSS) 2019
    • Related Report
      2019 Research-status Report
    • Int'l Joint Research
  • [Presentation] Effect of polyethylene glycol induced depletionattraction on DNA-functionalized nanoparticle crystalization2019

    • Author(s)
      Shoko Kojima, Hayato Sumi, Noboru Ohta, Hiroshi Sekiguchi, Shunta Harada, Toru Ujihara, Miho Tagawa
    • Organizer
      Okinawa Colloids 2019
    • Related Report
      2019 Research-status Report
    • Int'l Joint Research
  • [Presentation] DNAガイドのナノ粒子結晶化:結晶化条件の最適化と構造解析2019

    • Author(s)
      田川 美穂、小島 憧子、鷲見 隼人、西部 愛里紗、磯貝 卓巳、横森 真麻、原田 俊太、宇治原 徹、塚本 勝男
    • Organizer
      日本地球惑星科学連合(JpGU2019)
    • Related Report
      2019 Research-status Report
    • Invited
  • [Patent(Industrial Property Rights)] 導入装置、高分子の細胞導入方法、DNAナノ粒子結晶及びDNAナノ粒子結晶封入体の製造方法2020

    • Inventor(s)
      山西陽子、田川美穂、菅野茂夫、黄文敬、横森真麻
    • Industrial Property Rights Holder
      山西陽子、田川美穂、菅野茂夫、黄文敬、横森真麻
    • Industrial Property Rights Type
      特許
    • Filing Date
      2020
    • Related Report
      2020 Research-status Report
    • Overseas
  • [Patent(Industrial Property Rights)] ナノ粒子結晶及びその製造方法2019

    • Inventor(s)
      田川美穂、横森真麻
    • Industrial Property Rights Holder
      名古屋大学
    • Industrial Property Rights Type
      特許
    • Industrial Property Number
      2019-169737
    • Filing Date
      2019
    • Related Report
      2019 Research-status Report

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Published: 2019-07-04   Modified: 2025-01-30  

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