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Hierarchical self-assembly of DNA nanostructures for the construction of artificial cellular nuclear molecular robots

Research Project

Project/Area Number 18K19834
Research Category

Grant-in-Aid for Challenging Research (Exploratory)

Allocation TypeMulti-year Fund
Review Section Medium-sized Section 62:Applied informatics and related fields
Research InstitutionTokyo Institute of Technology

Principal Investigator

Takinoue Masahiro  東京工業大学, 情報理工学院, 准教授 (20511249)

Project Period (FY) 2018-06-29 – 2020-03-31
Project Status Completed (Fiscal Year 2019)
Budget Amount *help
¥6,370,000 (Direct Cost: ¥4,900,000、Indirect Cost: ¥1,470,000)
Fiscal Year 2019: ¥2,730,000 (Direct Cost: ¥2,100,000、Indirect Cost: ¥630,000)
Fiscal Year 2018: ¥3,640,000 (Direct Cost: ¥2,800,000、Indirect Cost: ¥840,000)
KeywordsDNAナノテクノロジー / 分子ロボティクス / 人工細胞工学 / 生物物理学 / DNA液滴 / 人工細胞核 / 人工クロマチン / 人工核様体 / 分子ロボット / 人工細胞 / ソフトマター物理
Outline of Final Research Achievements

In order to apply DNA microgel technology to create artificial cell-nucleus-like structures for molecular robots, research was carried out on DNA microgel self-assembly technology. The DNA microgels were made by the hybridization of Y-shaped DNA nanostructures, which were made of chemically synthesized short-stranded DNA. It was discovered that DNA forms not only the gel particle state but also the droplet state. Experiments on sequence-dependent control of the phase transition and phase separation behavior of DNA droplets were successfully performed. The phase separation pattern and the splitting of DNA gel induced by external molecular stimuli (proteins) were demonstrated. In conclusion, we have developed the fundamental technologies for the construction and control of an artificial nuclear molecular robot.

Academic Significance and Societal Importance of the Research Achievements

本研究により、通常、ゲル構造しか作らないと考えられていたDNAナノ構造が、ある条件下では、液-液相分離により、塩基配列でプログラムなDNA液滴(DNA droplet)を形成したり、粘弾性相分離によってポーラス状のカプセル構造を形成できることが分かった。また、タンパク質を集積させたり、タンパク質刺激によって構造を変化させたりすることができるため、分子センサーや人工オルガネラなどの新奇バイオナノテクノロジーの開拓に成功した。

Report

(3 results)
  • 2019 Annual Research Report   Final Research Report ( PDF )
  • 2018 Research-status Report
  • Research Products

    (58 results)

All 2020 2019 2018 Other

All Int'l Joint Research (1 results) Journal Article (10 results) (of which Int'l Joint Research: 1 results,  Peer Reviewed: 8 results,  Open Access: 6 results) Presentation (45 results) (of which Int'l Joint Research: 10 results,  Invited: 18 results) Remarks (2 results)

  • [Int'l Joint Research] ENS Paris/CNRS(フランス)

    • Related Report
      2018 Research-status Report
  • [Journal Article] Collective Ratchet Transport Generated by Particle Crowding under Asymmetric Sawtooth‐Shaped Static Potential2020

    • Author(s)
      Hayakawa Masayuki、Kishino Yusuke、Takinoue Masahiro
    • Journal Title

      Advanced Intelligent Systems

      Volume: - Issue: 7 Pages: 2000031-2000031

    • DOI

      10.1002/aisy.202000031

    • Related Report
      2019 Annual Research Report
    • Peer Reviewed / Open Access
  • [Journal Article] Surfactant concentration modulates the motion and placement of microparticles in an inhomogeneous electric field2020

    • Author(s)
      Masukawa Marcos K.、Hayakawa Masayuki、Takinoue Masahiro
    • Journal Title

      RSC Advances

      Volume: 10 Issue: 15 Pages: 8895-8904

    • DOI

      10.1039/d0ra00703j

    • Related Report
      2019 Annual Research Report
    • Peer Reviewed / Open Access
  • [Journal Article] Photolithographic shape control of DNA hydrogels by photo-activated self-assembly of DNA nanostructures2020

    • Author(s)
      Kasahara Yu、Sato Yusuke、Masukawa Marcos K.、Okuda Yukiko、Takinoue Masahiro
    • Journal Title

      APL Bioengineering

      Volume: 4 Issue: 1 Pages: 016109-016109

    • DOI

      10.1063/1.5132929

    • Related Report
      2019 Annual Research Report
    • Peer Reviewed / Open Access / Int'l Joint Research
  • [Journal Article] DNA Origami Nanoplate‐Based Emulsion with Nanopore Function2019

    • Author(s)
      Ishikawa Daisuke、Suzuki Yuki、Kurokawa Chikako、Ohara Masayuki、Tsuchiya Misato、Morita Masamune、Yanagisawa Miho、Endo Masayuki、Kawano Ryuji、Takinoue Masahiro
    • Journal Title

      Angewandte Chemie International Edition

      Volume: 58 Issue: 43 Pages: 15299-15303

    • DOI

      10.1002/anie.201908392

    • Related Report
      2019 Annual Research Report
    • Peer Reviewed
  • [Journal Article] Creation of artificial cell-like structures promoted by microfluidics technologies2019

    • Author(s)
      Yusuke Sato, Masahiro Takinoue
    • Journal Title

      Micromachines

      Volume: 10 Issue: 4 Pages: 216-216

    • DOI

      10.3390/mi10040216

    • Related Report
      2018 Research-status Report
    • Peer Reviewed / Open Access
  • [Journal Article] The Collective Transport of Microparticles under an Asymmetric Electric Field2019

    • Author(s)
      Masayuki Hayakawa, Yusuke Kishino, Masahiro Takinoue
    • Journal Title

      Proc. MEMS 2019

      Volume: 1 Pages: 43-46

    • Related Report
      2018 Research-status Report
    • Peer Reviewed
  • [Journal Article] 配列設計と相転移に基づいた DNA マイクロ構造の構築と制御2019

    • Author(s)
      佐藤 佑介, 瀧ノ上 正浩
    • Journal Title

      化学とマイクロ・ナノシステム

      Volume: 18 Pages: 24-27

    • Related Report
      2018 Research-status Report
  • [Journal Article] Controlled Construction of Stable Network Structure Composed of Honeycomb-Shaped Microhydrogels2018

    • Author(s)
      Masayuki Hayakawa, Satoshi Umeyama, Ken Nagai, Hiroaki Onoe, Masahiro Takinoue
    • Journal Title

      Life

      Volume: 8 Issue: 4 Pages: 38-38

    • DOI

      10.3390/life8040038

    • Related Report
      2018 Research-status Report
    • Peer Reviewed / Open Access
  • [Journal Article] Electric control of microparticles based on surfactant adsorption: prospective actuation of soft robots2018

    • Author(s)
      Marcos Kunihiro Masukawa, Masayuki Hayakawa, Masahiro Takinoue
    • Journal Title

      Proc. microTAS 2018

      Volume: 1 Pages: 352-354

    • Related Report
      2018 Research-status Report
    • Peer Reviewed
  • [Journal Article] DNA Origami Nanoplate-Based Emulsion with Designed Nanopore Function2018

    • Author(s)
      Daisuke Ishikawa, Yuki Suzuki, Chikako Kurokawa, Masayuki Ohara, Misato Tsuchiya, Masamune Morita, Miho Yanagisawa, Masayuki Endo, Ryuji Kawano, Masahiro Takinoue
    • Journal Title

      ChemRxiv

      Volume: 1 Pages: 1-27

    • DOI

      10.26434/chemrxiv.7046495.v1

    • Related Report
      2018 Research-status Report
    • Open Access
  • [Presentation] Cell-like molecular robots based on DNA-integrated microdroplets2019

    • Author(s)
      瀧ノ上 正浩
    • Organizer
      Workshop on Membrane Biotechnology with Microfabrications
    • Related Report
      2019 Annual Research Report
    • Int'l Joint Research / Invited
  • [Presentation] Formation of DNA microdroplets with sequence-specificity by liquid-liquid phase separation of DNA nanostructures2019

    • Author(s)
      瀧ノ上正浩
    • Organizer
      Okinawa Colloids 2019
    • Related Report
      2019 Annual Research Report
    • Int'l Joint Research / Invited
  • [Presentation] DNA microcapsules for cell-like molecular robots based on soft matter biophysics2019

    • Author(s)
      瀧ノ上 正浩
    • Organizer
      Symposium on bioinspired design of advanced materials
    • Related Report
      2019 Annual Research Report
    • Int'l Joint Research / Invited
  • [Presentation] Molecular robotics based on microfluidic control of bio soft matter2019

    • Author(s)
      瀧ノ上 正浩
    • Organizer
      DNA Nanotechnology Workshop
    • Related Report
      2019 Annual Research Report
    • Int'l Joint Research / Invited
  • [Presentation] Cell-like molecular robots built with DNA nanotechnology2019

    • Author(s)
      瀧ノ上 正浩
    • Organizer
      "ELSI mini-symposium ? Primitive Compartments: Assembly Function and Evolution"
    • Related Report
      2019 Annual Research Report
    • Invited
  • [Presentation] DNAナノテクノロジーによる細胞型分子ロボットの構築2019

    • Author(s)
      瀧ノ上正浩
    • Organizer
      群馬大学セミナー
    • Related Report
      2019 Annual Research Report
    • Invited
  • [Presentation] DNAマイクロ液滴の液-液相分離の塩基配列制御 ~ナノ/マイクロマテリアルサイエンスの立場からのLLPS研究~2019

    • Author(s)
      瀧ノ上正浩
    • Organizer
      第3回LLPS研究会
    • Related Report
      2019 Annual Research Report
    • Invited
  • [Presentation] 循環共生圏農工業におけるナノ・マイクロ生体分子ロボットの可能性2019

    • Author(s)
      瀧ノ上正浩
    • Organizer
      循環共生圏農工業研究推進体 キックオフシンポジウム
    • Related Report
      2019 Annual Research Report
    • Invited
  • [Presentation] DNAの情報生命物理学による人工細胞・分子ロボットへの挑戦2019

    • Author(s)
      瀧ノ上正浩
    • Organizer
      情報社会とイノベーション(IS&I)研究会
    • Related Report
      2019 Annual Research Report
    • Invited
  • [Presentation] バイオソフトマター制御による人工細胞工学2019

    • Author(s)
      瀧ノ上正浩
    • Organizer
      第4回個体の中の細胞社会学ワークショップ
    • Related Report
      2019 Annual Research Report
    • Invited
  • [Presentation] Fabrication of Microfluidic Devices to Explore Size Control Ability of Droplets with a Small Volume Sample2019

    • Author(s)
      WU SHANGRU
    • Organizer
      第6回サイボウニクス研究会
    • Related Report
      2019 Annual Research Report
  • [Presentation] DNAの液液相分離を利用した核酸センシングシステム構築2019

    • Author(s)
      津村希望
    • Organizer
      第6回サイボウニクス研究会
    • Related Report
      2019 Annual Research Report
  • [Presentation] Surfactant blends enable cargo delivery to microdroplet array and active w/o/w bacteria emulsion2019

    • Author(s)
      MASUKAWA Marcos Kunihiro
    • Organizer
      「細胞を創る」研究会12.0
    • Related Report
      2019 Annual Research Report
  • [Presentation] 粘弾性相分離モデルの拡張によるDNAマイクロゲルのパターン形成の数値解析2019

    • Author(s)
      阪本哲郎
    • Organizer
      第6回サイボウニクス研究会
    • Related Report
      2019 Annual Research Report
  • [Presentation] Effect of surfactant on the electric manipulation of microparticles2019

    • Author(s)
      MASUKAWA Marcos Kunihiro
    • Organizer
      化学とマイクロ・ナノシステム学会第40回研究会(CHEMINAS40)
    • Related Report
      2019 Annual Research Report
  • [Presentation] 塩基配列設計に基づいたDNA液滴の構築と制御2019

    • Author(s)
      佐藤佑介
    • Organizer
      「細胞を創る」研究会12.0
    • Related Report
      2019 Annual Research Report
  • [Presentation] イオンチャネル機能を有する両親媒化DNAナノプレート集積カプセル2019

    • Author(s)
      石川 大輔
    • Organizer
      「細胞を創る」研究会12.0
    • Related Report
      2019 Annual Research Report
  • [Presentation] Construction of hydrogel microcapsules by using phase separation of liquid-like DNA2019

    • Author(s)
      中島 裕司
    • Organizer
      第57回日本生物物理学会
    • Related Report
      2019 Annual Research Report
  • [Presentation] Dynamic system by liquid-liquid phase separation using DNA droplet2019

    • Author(s)
      佐藤佑介
    • Organizer
      第57回日本生物物理学会
    • Related Report
      2019 Annual Research Report
  • [Presentation] Simulation model and analysis of phase transition in DNA gel2019

    • Author(s)
      山本 陽大
    • Organizer
      第57回日本生物物理学会
    • Related Report
      2019 Annual Research Report
  • [Presentation] Porous microstructure formation of DNA droplet2019

    • Author(s)
      阪本 哲郎
    • Organizer
      第57回日本生物物理学会
    • Related Report
      2019 Annual Research Report
  • [Presentation] Construction of cell-inspired molecular robots based on microfluidics of bio soft matter2019

    • Author(s)
      瀧ノ上正浩
    • Organizer
      International Symposium on SSS Laser Processing (3S-LP)
    • Related Report
      2018 Research-status Report
    • Int'l Joint Research / Invited
  • [Presentation] Phase-separated DNA microdroplets controlled by base sequence information2019

    • Author(s)
      瀧ノ上正浩
    • Organizer
      アクティブマター研究会2019
    • Related Report
      2018 Research-status Report
    • Invited
  • [Presentation] 化学振動反応の制御のためのドロップレットマイクロ流体デバイス2019

    • Author(s)
      瀧ノ上正浩
    • Organizer
      研究集会「生物学・化学・数理科学から見抜くリズム現象の本質」
    • Related Report
      2018 Research-status Report
    • Invited
  • [Presentation] DNAマイクロ構造における相転移と分子ロボティクスへの展開2019

    • Author(s)
      瀧ノ上正浩
    • Organizer
      日本学術会議「第4回理論応用力学シンポジウム」力学と新学術の融合
    • Related Report
      2018 Research-status Report
    • Invited
  • [Presentation] The Collective Transport of Microparticles under an Asymmetric Electric Field2019

    • Author(s)
      Masayuki Hayakawa, Yusuke Kishino, Masahiro Takinoue
    • Organizer
      The 32nd IEEE International Conference on Micro Electro Mechanical Systems (MEMS 2019)
    • Related Report
      2018 Research-status Report
    • Int'l Joint Research
  • [Presentation] DNAナノ構造の自己集合と相転移による「DNA液滴」の創出と制御2019

    • Author(s)
      佐藤佑介, 阪本哲郎, 瀧ノ上正浩
    • Organizer
      第2回分子ロボティクス年次大会
    • Related Report
      2018 Research-status Report
  • [Presentation] DNAゲル-液滴-溶解のメカニズム解明を目指した数理モデルの構築2019

    • Author(s)
      山本陽大, 阪本哲郎, 佐藤佑介, 瀧ノ上正浩
    • Organizer
      第2回分子ロボティクス年次大会
    • Related Report
      2018 Research-status Report
  • [Presentation] 機能性DNAゲルマイクロカプセルの構築2019

    • Author(s)
      中島裕司, 佐藤佑介, 瀧ノ上正浩
    • Organizer
      第2回分子ロボティクス年次大会
    • Related Report
      2018 Research-status Report
  • [Presentation] DNA液滴によるマイクロポーラス構造形成2019

    • Author(s)
      阪本 哲郎, 佐藤 佑介, 瀧ノ上 正浩
    • Organizer
      第2回分子ロボティクス年次大会
    • Related Report
      2018 Research-status Report
  • [Presentation] Manipulation of microparticles with electric fields modulated by surfactant as molecule-electrode interface2019

    • Author(s)
      MASUKAWA K. Marcos, 早川 雅之, 瀧ノ上 正浩
    • Organizer
      第2回分子ロボティクス年次大会
    • Related Report
      2018 Research-status Report
  • [Presentation] 光照射によるDNAハイドロゲル形成の空間的制御2019

    • Author(s)
      笠原 悠, 佐藤 佑介, 瀧ノ上 正浩
    • Organizer
      第2回分子ロボティクス年次大会
    • Related Report
      2018 Research-status Report
  • [Presentation] Artificial cell-like molecular robots based on DNA self-assembly2018

    • Author(s)
      瀧ノ上正浩
    • Organizer
      Earth-Life Science Institute (ELSI) Colloquium
    • Related Report
      2018 Research-status Report
    • Int'l Joint Research / Invited
  • [Presentation] DNA microgels and microdroplets toward artificial cell-like systems2018

    • Author(s)
      瀧ノ上正浩
    • Organizer
      Seminar of Laboratory Jean Perrin, University Pierre and Marie Curie (UPMC)
    • Related Report
      2018 Research-status Report
    • Int'l Joint Research / Invited
  • [Presentation] DNA microgel/droplets technology toward artificial cells2018

    • Author(s)
      瀧ノ上正浩
    • Organizer
      Seminar of Prof. Simmel Lab., Technische Universitat Munchen
    • Related Report
      2018 Research-status Report
    • Int'l Joint Research / Invited
  • [Presentation] 細胞型分子ロボットへ向けたDNAソフトマター物理学2018

    • Author(s)
      瀧ノ上正浩
    • Organizer
      新化学技術推進協会 電子情報技術部会 マイクロナノシステムと材料・加工分科会 講演会
    • Related Report
      2018 Research-status Report
    • Invited
  • [Presentation] 配列設計と相転移の制御によるDNA液滴の創出2018

    • Author(s)
      佐藤佑介, 瀧ノ上正浩
    • Organizer
      「細胞を創る」研究会11.0
    • Related Report
      2018 Research-status Report
  • [Presentation] 光照射によるDNAマイクロ構造体の形成と熱力学的特性の解析2018

    • Author(s)
      笠原悠, 佐藤佑介, 瀧ノ上正浩
    • Organizer
      「細胞を創る」研究会11.0
    • Related Report
      2018 Research-status Report
  • [Presentation] Electric control of microparticles based on surfactant adsorption: prospective actuation of soft robots2018

    • Author(s)
      MASUKAWAMarcos Kunihiro, 早川雅之, 瀧ノ上正浩
    • Organizer
      22nd International Conference on Miniaturized Systems for Chemistry and Life Sciences
    • Related Report
      2018 Research-status Report
    • Int'l Joint Research
  • [Presentation] DNAナノ構造の相転移制御による情報を持つ液滴の創出2018

    • Author(s)
      佐藤佑介, 瀧ノ上正浩
    • Organizer
      化学とマイクロ・ナノシステム学会 第38回研究会(CHEMINAS38)
    • Related Report
      2018 Research-status Report
  • [Presentation] Construction of DNA hydrogel microcapsules using water-in-oil droplet interface2018

    • Author(s)
      中島 裕司, 笠原 悠, 瀧ノ上 正浩
    • Organizer
      第56回日本生物物理学会
    • Related Report
      2018 Research-status Report
  • [Presentation] Environment-dependent assembly of DNA nanostructures on phase-separated lipid bilayer membranes2018

    • Author(s)
      森田 雅宗, 瀧ノ上 正浩, 村田 智
    • Organizer
      第56回日本生物物理学会
    • Related Report
      2018 Research-status Report
  • [Presentation] Analysis of the thermodynamic property of DNA microstructures formed by photo-irradiation2018

    • Author(s)
      笠原 悠, 瀧ノ上 正浩
    • Organizer
      第56回日本生物物理学会
    • Related Report
      2018 Research-status Report
  • [Presentation] Numerical simulation of phase separation-based formation of cell nucleus-like DNA gel capsule2018

    • Author(s)
      阪本 哲郎, 森田 雅宗, 瀧ノ上 正浩
    • Organizer
      第56回日本生物物理学会
    • Related Report
      2018 Research-status Report
  • [Presentation] Design and analysis of DNA network with consciousness based on integrated information theory2018

    • Author(s)
      渡邉 弘貴, 瀧ノ上 正浩
    • Organizer
      第56回日本生物物理学会
    • Related Report
      2018 Research-status Report
  • [Remarks] 瀧ノ上研究室ホームページ

    • URL

      http://takinoue-lab.jp/

    • Related Report
      2019 Annual Research Report
  • [Remarks] 瀧ノ上研究室ホームページ

    • URL

      http://www.takinoue-lab.jp

    • Related Report
      2018 Research-status Report

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Published: 2018-07-25   Modified: 2021-02-19  

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