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Developing DNA / RNA molecular devices for constructing a new generation of artificial cells.

Research Project

Project/Area Number 15H02774
Research Category

Grant-in-Aid for Scientific Research (B)

Allocation TypeSingle-year Grants
Section一般
Research Field Life / Health / Medical informatics
Research InstitutionTohoku University

Principal Investigator

NOMURA Shin-ichiro  東北大学, 工学研究科, 准教授 (50372446)

Co-Investigator(Kenkyū-buntansha) 齊藤 博英  京都大学, iPS細胞研究所, 教授 (20423014)
Project Period (FY) 2015-04-01 – 2018-03-31
Project Status Completed (Fiscal Year 2017)
Budget Amount *help
¥16,510,000 (Direct Cost: ¥12,700,000、Indirect Cost: ¥3,810,000)
Fiscal Year 2017: ¥4,030,000 (Direct Cost: ¥3,100,000、Indirect Cost: ¥930,000)
Fiscal Year 2016: ¥4,030,000 (Direct Cost: ¥3,100,000、Indirect Cost: ¥930,000)
Fiscal Year 2015: ¥8,450,000 (Direct Cost: ¥6,500,000、Indirect Cost: ¥1,950,000)
Keywords人工細胞 / 分子ロボティクス / RNAナノテクノロジー / DNAナノテクノロジー / DNAコンピュータ / 細胞融合 / RNP / バイオテクノロジー
Outline of Final Research Achievements

In this project we developed functional molecular devices using DNA / RNA. It would lead to the realization of new generation artificial cells showing new functions in the future. We performed design and functional evaluation of artificial molecular device group and developed a method to actually introduce the device into the cell. As a result, we achieved the goal of constructing artificial RNP (complex of RNA and protein) nanostructures in mammalian cells, and controling the cell fate. In addition, artificial cells that switch between motive-state and stationary-state were constructed using DNA complex molecular system (molecular clutch) that controls on / off linkage with lipid membrane. In addition, all the results of the molecular devices we constructed were also published in the journal papers. The results of this project will be used as a basis for constructing a new generation of artificial cells.

Report

(4 results)
  • 2017 Annual Research Report   Final Research Report ( PDF )
  • 2016 Annual Research Report
  • 2015 Annual Research Report
  • Research Products

    (55 results)

All 2018 2017 2016 2015 Other

All Journal Article (18 results) (of which Int'l Joint Research: 2 results,  Peer Reviewed: 17 results,  Open Access: 9 results,  Acknowledgement Compliant: 4 results) Presentation (30 results) (of which Int'l Joint Research: 18 results,  Invited: 26 results) Book (1 results) Remarks (4 results) Patent(Industrial Property Rights) (2 results) (of which Overseas: 1 results)

  • [Journal Article] Construction of T-Motif-Based DNA Nanostructures through Enzymatic Reactions2018

    • Author(s)
      Kageyama Ryo、Kawamata Ibuki、Tanabe Kaori、Suzuki Yuki、Nomura Shin-ichiro M.、Murata Satoshi
    • Journal Title

      ChemBioChem

      Volume: 19(8) Issue: 8 Pages: 873-876

    • DOI

      10.1002/cbic.201700682

    • Related Report
      2017 Annual Research Report
    • Peer Reviewed
  • [Journal Article] DNA cytoskeleton for stabilizing artificial cells2017

    • Author(s)
      Kurokawa Chikako、Fujiwara Kei、Morita Masamune、Kawamata Ibuki、Kawagishi Yui、Sakai Atsushi、Murayama Yoshihiro、Nomura Shin-ichiro M.、Murata Satoshi、Takinoue Masahiro、Yanagisawa Miho
    • Journal Title

      Proc. Natl. Acad. Sci. USA

      Volume: 114 Issue: 28 Pages: 7228-7233

    • DOI

      10.1073/pnas.1702208114

    • Related Report
      2017 Annual Research Report
    • Peer Reviewed / Open Access
  • [Journal Article] In vitro transcription-translation using bacterial genome as a template to reconstitute intracellular profile2017

    • Author(s)
      Fujiwara Kei、Sawamura Tsunehito、Niwa Tatsuya、Deyama Tatsuki、Nomura Shin-ichiro M.、Taguchi Hideki、Doi Nobuhide
    • Journal Title

      Nucleic Acids Research

      Volume: 45 Issue: 19 Pages: 11449-11458

    • DOI

      10.1093/nar/gkx776

    • Related Report
      2017 Annual Research Report
    • Peer Reviewed / Open Access
  • [Journal Article] Revolving Vernier Mechanism Controls Size of Linear Homomultimer2017

    • Author(s)
      Takeo Uchida, Keita Abe, Yuma Endo, Shosei Ichiseki, Satoru Akita, Shiyun Liu, Sho Aradachi, Masataka Saito, Akihiko Fukuchi, Taiyo Kikkawa, Theo Dammaretz, Ibuki Kawamata, Yuki Suzuki, Shin-ichiro M. Nomura, Satoshi Murata
    • Journal Title

      Small

      Volume: 13 Issue: 41 Pages: 1702158-1702158

    • DOI

      10.1002/smll.201702158

    • Related Report
      2017 Annual Research Report
    • Peer Reviewed / Open Access
  • [Journal Article] Stepping operation of rotary DNA origami device2017

    • Author(s)
      Takahiro Tomaru, Yuki Suzuki, Ibuki Kawamata, Shin-ichiro M Nomura and Satoshi Murata
    • Journal Title

      Chem. Commun.

      Volume: 53 Pages: 7716-7719

    • Related Report
      2017 Annual Research Report
    • Peer Reviewed
  • [Journal Article] Unzipping and Shearing DNA with Electrophoresed Nanoparticle in Hydrogel2017

    • Author(s)
      Keitel Abraham Cervantes-Salguero, Ibuki Kawamata, Shin-ichiro M Nomura and Satoshi Murata
    • Journal Title

      Phys. Chem. Chem. Phys.

      Volume: 19 Pages: 13414-13418

    • Related Report
      2017 Annual Research Report
    • Peer Reviewed
  • [Journal Article] アメーバ型分子ロボットの可能性2017

    • Author(s)
      佐藤祐介,川又生吹,野村慎一郎
    • Journal Title

      医療と検査機器・試薬

      Volume: 40(3) Pages: 190-194

    • Related Report
      2017 Annual Research Report
  • [Journal Article] Protein-driven RNA nanostructured devices that function in vitro and control mammalian cell fate.2017

    • Author(s)
      Tomonori Shibata, Yoshihiko Fujita, Hirohisa Ohno, Yuki Suzuki, Karin Hayashi, Kaoru R. Komatsu, Shunsuke Kawasaki, Kumi Hidaka, Shin Yonehara, Hiroshi Sugiyama, Masayuki Endo and Hirohide Saito
    • Journal Title

      Nature Communications

      Volume: 8 Issue: 1 Pages: 540-540

    • DOI

      10.1038/s41467-017-00459-x

    • NAID

      120006346264

    • Related Report
      2017 Annual Research Report
    • Peer Reviewed / Open Access
  • [Journal Article] Synthetic mRNA devices that detect endogenous proteins and distinguish mammalian cells.2017

    • Author(s)
      Kawasaki S, Fujita Y, Nagaike T, Tomita K, Saito H.
    • Journal Title

      Nucleic Acids Res.

      Volume: 45(12)

    • NAID

      120006305984

    • Related Report
      2017 Annual Research Report
    • Peer Reviewed / Open Access
  • [Journal Article] Micrometer-sized molecular robot changes its shape in response to signal molecules2017

    • Author(s)
      Yusuke Sato, Yuichi Hiratsuka, Ibuki Kawamata, Satoshi Murata, Shin-ichiro M. Nomura
    • Journal Title

      Science Robotics

      Volume: 2 Issue: 4

    • DOI

      10.1126/scirobotics.aal3735

    • Related Report
      2016 Annual Research Report
    • Peer Reviewed / Acknowledgement Compliant
  • [Journal Article] Reversible Gel-Sol Transition of Photo-Responsive DNA Gel2016

    • Author(s)
      Daisuke Kandatsu, Ibuki Kawamata, Shogo Hamada, Shin-ichiro M. Nomura, Kenzo Fujimoto, Satoshi Murata
    • Journal Title

      ChemBioChem

      Volume: 17 Issue: 12 Pages: 1118-1121

    • DOI

      10.1002/cbic.201600088

    • Related Report
      2016 Annual Research Report
    • Peer Reviewed / Acknowledgement Compliant
  • [Journal Article] BIOMOD: Road to Molecular Robotics2016

    • Author(s)
      佐藤佑介, 瀧ノ上正浩, 野村 M. 慎一郎
    • Journal Title

      Seibutsu Butsuri

      Volume: 56 Issue: 5 Pages: 290-292

    • DOI

      10.2142/biophys.56.290

    • NAID

      130005264848

    • ISSN
      0582-4052, 1347-4219
    • Related Report
      2016 Annual Research Report
    • Peer Reviewed / Open Access
  • [Journal Article] RNA and RNP as Building Blocks for Nanotechnology and Synthetic Biology.2016

    • Author(s)
      Ohno, Hirohisa and Saito, Hirohide
    • Journal Title

      Prog. Mol. Biol. Transl. Sci.

      Volume: 139 Pages: 165-185

    • DOI

      10.1016/bs.pmbts.2015.12.004

    • ISBN
      9780128045657
    • Related Report
      2016 Annual Research Report
    • Peer Reviewed / Acknowledgement Compliant
  • [Journal Article] Design, assembly, and evaluation of RNA-protein nanostructures.2015

    • Author(s)
      Ohno H, Osada E, Saito H
    • Journal Title

      Methods in molecular biology

      Volume: 1297 Pages: 197-211

    • Related Report
      2015 Annual Research Report
    • Peer Reviewed
  • [Journal Article] Folding RNA-Protein Complex into Designed Nanostructures.2015

    • Author(s)
      Shibata T, Suzuki Y, Sugiyama H, Endo M, Saito H
    • Journal Title

      Methods in molecular biology

      Volume: 1316 Pages: 169-179

    • Related Report
      2015 Annual Research Report
    • Peer Reviewed
  • [Journal Article] Efficient Detection and Purification of Cell Populations Using Synthetic MicroRNA Switches.2015

    • Author(s)
      Miki K, Endo K, Takahashi S, Funakoshi S, Takei I, Katayama S, Toyoda T, Kotaka M, Takaki T, Umeda M, Okubo C, Nishikawa M, Oishi A, Narita M, Miyashita I, Asano K, Hayashi K, Osafune K, Yamanaka S, Saito H, Yoshida Y.
    • Journal Title

      Cell Stem Cell.

      Volume: 16(6) Issue: 6 Pages: 699-711

    • DOI

      10.1016/j.stem.2015.04.005

    • Related Report
      2015 Annual Research Report
    • Peer Reviewed / Open Access
  • [Journal Article] Droplet-Shooting and Size-Filtration (DSSF) Method for Synthesis of Cell-Sized Liposomes with Controlled Lipid Compositions2015

    • Author(s)
      M. Morita, H. Onoe, M. Yanagisawa, H. Ito, M. Ichikawa, K. Fujiwara, H. Saito and M. Takinoue
    • Journal Title

      ChemBioChem

      Volume: 16 Issue: 14 Pages: 2029-2035

    • DOI

      10.1002/cbic.201500354

    • Related Report
      2015 Annual Research Report
    • Peer Reviewed / Open Access / Int'l Joint Research / Acknowledgement Compliant
  • [Journal Article] Mammalian synthetic circuits with RNA binding proteins for RNA-only delivery.2015

    • Author(s)
      Wroblewska L, Kitada T, Endo K, Siciliano V, Stillo B, Saito H, Weiss R
    • Journal Title

      Nature biotechnology

      Volume: 33 Issue: 8 Pages: 839-841

    • DOI

      10.1038/nbt.3301

    • Related Report
      2015 Annual Research Report
    • Peer Reviewed / Open Access / Int'l Joint Research
  • [Presentation] Synthetic RNA technologies to program cells2018

    • Author(s)
      齊藤博英
    • Organizer
      The SPIRITS INTERNATIONAL SYMPOSIUM 2018
    • Related Report
      2017 Annual Research Report
    • Int'l Joint Research / Invited
  • [Presentation] Motility control of amoeba type molecular robot by DNA devices and molecular motors2017

    • Author(s)
      Yusuke SATO, Yuichi HIRATSUKA, Ibuki KAWAMATA, Satoshi MURATA and Shin- ichiro M. NOMURA
    • Organizer
      FNANO2017
    • Place of Presentation
      Snowbird Cliff Lodge, Snowbird, Utah, USA
    • Year and Date
      2017-04-10
    • Related Report
      2016 Annual Research Report
    • Int'l Joint Research
  • [Presentation] Molecular robots under construction: amoeba-type artificial cell model2017

    • Author(s)
      Nomura M. Shin-ichiro, Sato Yusuke, Hiratsuka Yuichi, Kawagishi Yui, Ogura Toshihiko, Kawamata Ibuki, Murata Satoshi
    • Organizer
      第64回応用物理学会春季学術講演会
    • Place of Presentation
      パシフィコ横浜
    • Year and Date
      2017-03-15
    • Related Report
      2016 Annual Research Report
    • Invited
  • [Presentation] 自動人工アメーバ型マイクロ分子ロボット2017

    • Author(s)
      野村 M. 慎一郎
    • Organizer
      NI-SIGNAC-CSS合同研究会
    • Place of Presentation
      東京工業大学,大岡山キャンパス
    • Year and Date
      2017-03-10
    • Related Report
      2016 Annual Research Report
    • Invited
  • [Presentation] Molecular robotics approach for creating artificial cells2017

    • Author(s)
      Shinichiro Nomura
    • Organizer
      The 6th Conference on Exploring Next-Generation Materials Science and Nanoscience (6NGMSNS)
    • Place of Presentation
      NISEKO CONFERENCE CENTRE,北海道,ニセコ町
    • Year and Date
      2017-01-07
    • Related Report
      2016 Annual Research Report
    • Invited
  • [Presentation] Molecular Robot: An artificial molecular system constructed by integration of molecular machines2017

    • Author(s)
      Shin-ichiro M. NOMURA
    • Organizer
      ICRA2017 workshop
    • Related Report
      2017 Annual Research Report
    • Int'l Joint Research / Invited
  • [Presentation] 物質転送ベシクル:細胞内への大規模物体導入法2017

    • Author(s)
      野村 慎一郎
    • Organizer
      第69回日本細胞生物学会大会
    • Related Report
      2017 Annual Research Report
    • Invited
  • [Presentation] アメーバ型分子ロボットの構築2017

    • Author(s)
      野村 慎一郎
    • Organizer
      バイオ高分子研究会
    • Related Report
      2017 Annual Research Report
    • Invited
  • [Presentation] 物質転送ベシクル:細胞内への大規模物体導入法2017

    • Author(s)
      野村 慎一郎
    • Organizer
      ミトコンドリアサイエンスワークショップ2017
    • Related Report
      2017 Annual Research Report
    • Invited
  • [Presentation] Non Natural Tiny-wet Machine: Molecular Robot2017

    • Author(s)
      Yusuke Sato, Yuichi Hiratsuka, Ibuki Kawamata, Satoshi Murata and Shin-ichiro M. Nomura
    • Organizer
      2017 International Symposium on Micro-NanoMechatronics and Human Science
    • Related Report
      2017 Annual Research Report
    • Int'l Joint Research / Invited
  • [Presentation] Molecular Robot with Switching Molecular Motors2017

    • Author(s)
      NOMURA M. Shin-ichiro
    • Organizer
      International Symposium on Nanomedicine 2017
    • Related Report
      2017 Annual Research Report
    • Int'l Joint Research / Invited
  • [Presentation] Molecular Robotics: yet another artificial cell2017

    • Author(s)
      Shin-ichiro M. Nomura
    • Organizer
      The Active Matter Workshop 2018
    • Related Report
      2017 Annual Research Report
    • Int'l Joint Research / Invited
  • [Presentation] Synthetic RNA switch technologies to purify and program target cell types2017

    • Author(s)
      齊藤博英
    • Organizer
      14th US-Japan Symposium on Drag Delivery Systems
    • Related Report
      2017 Annual Research Report
    • Int'l Joint Research / Invited
  • [Presentation] RNAナノデバイスによる細胞プログラミング2017

    • Author(s)
      齊藤博英
    • Organizer
      第30回 バイオエンジニアリング講話会
    • Related Report
      2017 Annual Research Report
    • Invited
  • [Presentation] Synthetic RNA-protein nanostructured devices that function in vitro and in cells2017

    • Author(s)
      齊藤博英
    • Organizer
      生物物理学会
    • Related Report
      2017 Annual Research Report
    • Invited
  • [Presentation] Robotic Vesicle: Motility Control of Microcapsule by DNA devices and Molecular Motors2016

    • Author(s)
      Y. Sato, Y. Hiratsuka, I. Kawamata, S. Murata, S. M. Nomura
    • Organizer
      Thirteenth International Conference on Flow Dynamics
    • Place of Presentation
      仙台国際会議場
    • Year and Date
      2016-10-10
    • Related Report
      2016 Annual Research Report
    • Invited
  • [Presentation] 細胞様構造をつくる分子ロボットのデザイン2016

    • Author(s)
      野村 M. 慎一郎
    • Organizer
      アストロバイオロジーネットワーク2016年年会
    • Place of Presentation
      東北大学 さくら記念ホール
    • Year and Date
      2016-09-22
    • Related Report
      2016 Annual Research Report
    • Invited
  • [Presentation] Protein-driven nanostructures:Controlling mammalian cell fate2016

    • Author(s)
      Hirohide Saito
    • Organizer
      RNA Naonotechnology Conference
    • Place of Presentation
      Wokefield Park, UK
    • Year and Date
      2016-08-01
    • Related Report
      2016 Annual Research Report
    • Int'l Joint Research / Invited
  • [Presentation] Synthetic RNA switches & nanostructures that Indentify and control target mammmalian cells based n intracelluar information2016

    • Author(s)
      Hirohide Saito
    • Organizer
      FIBER International summit for nucleic acids2016
    • Place of Presentation
      甲南大学,日本
    • Year and Date
      2016-07-06
    • Related Report
      2016 Annual Research Report
    • Int'l Joint Research / Invited
  • [Presentation] Synthetic RNA switches & nanostructures: programming mammalian cell fate2016

    • Author(s)
      Hirohide Saito
    • Organizer
      special bioengineering seminar in Caltech
    • Place of Presentation
      カリフォルニア工科大学,USA
    • Year and Date
      2016-06-19
    • Related Report
      2016 Annual Research Report
    • Int'l Joint Research / Invited
  • [Presentation] Development of Molecular Sensor and Device for Intelligent Molecular Robots2016

    • Author(s)
      Hirohide Saito
    • Organizer
      IEEE-NEMS2016
    • Place of Presentation
      Taikanso, Matsushima, Sendai
    • Year and Date
      2016-04-17
    • Related Report
      2016 Annual Research Report
    • Int'l Joint Research / Invited
  • [Presentation] アメーバ型分子ロボットのデザインと構築2016

    • Author(s)
      野村 M. 慎一郎
    • Organizer
      11th Beyond^x Robotics 研究会
    • Place of Presentation
      仙台市,東北大学
    • Year and Date
      2016-03-26
    • Related Report
      2015 Annual Research Report
    • Invited
  • [Presentation] Synthetic RNA Switches and Circuits to Detect and Purify Target Live Cells2016

    • Author(s)
      Hirohide Saito
    • Organizer
      UC San Diego Kyoto University joint Sympojium
    • Place of Presentation
      University of Califonia ,San Diego(USA・SanDiego)
    • Year and Date
      2016-03-14
    • Related Report
      2015 Annual Research Report
    • Int'l Joint Research / Invited
  • [Presentation] Synthetic RNA Switches and Nanostructures ti Detect,Purify,and Control Target Mammalian Calls2016

    • Author(s)
      Hirohide Saito
    • Organizer
      SBE's 6th International Conference on Biomolecular Engineerin
    • Place of Presentation
      Grand Hyatt Singapore(Singapore)
    • Year and Date
      2016-01-04
    • Related Report
      2015 Annual Research Report
    • Int'l Joint Research / Invited
  • [Presentation] RNA membrane vesicle: micro compartment made by designed RNA molecules2015

    • Author(s)
      NOMURA M. Shin-ichiro, SAITO Hirohide, TAKINOUE Masahiro, FUJIWARA Kei, OHNO Hirohisa
    • Organizer
      PacifiChem2015
    • Place of Presentation
      Honolulu, Hawaii, USA
    • Year and Date
      2015-12-16
    • Related Report
      2015 Annual Research Report
    • Int'l Joint Research / Invited
  • [Presentation] "Synthetic RNA technologies to detect, purify, and control live cell populations"2015

    • Author(s)
      Hirohide Saito
    • Organizer
      Paris Symposium on Integrated Cell-Material Sciences
    • Place of Presentation
      Institut Pierre-Gilles de Gennes pour la Microfluidique(Paris,France)
    • Year and Date
      2015-10-12
    • Related Report
      2015 Annual Research Report
    • Int'l Joint Research / Invited
  • [Presentation] 合成細胞生物学ツールとして活用するGUV人工細胞モデル2015

    • Author(s)
      NOMURA M. Shin-ichiro
    • Organizer
      第53回日本生物物理学会
    • Place of Presentation
      金沢市,金沢大学
    • Year and Date
      2015-09-15
    • Related Report
      2015 Annual Research Report
    • Invited
  • [Presentation] Molecular information processing in micro gel beads with entrapped DNAs2015

    • Author(s)
      Satoru Yoshizawa, Ibuki Kawamata, Shin-ichiro M. Nomura, Satoshi Murata
    • Organizer
      DNA21
    • Place of Presentation
      Harvard Univ., Boston, USA
    • Year and Date
      2015-08-17
    • Related Report
      2015 Annual Research Report
    • Int'l Joint Research
  • [Presentation] Electrofusion of Cell-GUV enables micrometer-sized artificial objects transfer into live cells2015

    • Author(s)
      Akira C. Saito, Toshihiko Ogura, Satoshi Murata, and Shin-ichiro M. Nomura
    • Organizer
      10th European Biophysics Congress
    • Place of Presentation
      Dresden, Germany
    • Year and Date
      2015-07-18
    • Related Report
      2015 Annual Research Report
    • Int'l Joint Research
  • [Presentation] Designing an Artificial Membrane Channel From DNA origami2015

    • Author(s)
      Kazuki Hirahara, Ibuki Kawamata, Satoshi Murata, NOMURA M. Shin-ichiro
    • Organizer
      FNANO15
    • Place of Presentation
      SNOWBIRD, UT, USA
    • Year and Date
      2015-04-13
    • Related Report
      2015 Annual Research Report
    • Int'l Joint Research
  • [Book] ナノテクノロジーが拓く 未来の医療(第3章, 3-1)2017

    • Author(s)
      齊藤博英
    • Total Pages
      272
    • Publisher
      丸善プラネット
    • Related Report
      2017 Annual Research Report
  • [Remarks] 骨格で支えられた人工細胞の形成に成功 薬用カプセルや化粧品などの応用に耐える補強が実現

    • URL

      https://www.tohoku.ac.jp/japanese/2017/06/press20170626-02.html

    • Related Report
      2017 Annual Research Report
  • [Remarks] 細胞内でタンパク質を検出して運命制御できる「RNA ナノマシン」の構築

    • URL

      http://www.cira.kyoto-u.ac.jp/j/pressrelease/news/170915-080000.html

    • Related Report
      2017 Annual Research Report
  • [Remarks] 2017年 | プレスリリース

    • URL

      http://www.tohoku.ac.jp/japanese/2017/03/press20170228-02.html

    • Related Report
      2016 Annual Research Report
  • [Remarks] Research News

    • URL

      http://www.tohoku.ac.jp/en/press/molecular_robot.html

    • Related Report
      2016 Annual Research Report
  • [Patent(Industrial Property Rights)] RNA-タンパク質複合体とその使用2016

    • Inventor(s)
      齊藤博英, 柴田知範
    • Industrial Property Rights Holder
      齊藤博英, 柴田知範
    • Industrial Property Rights Type
      特許
    • Filing Date
      2016-07-16
    • Related Report
      2016 Annual Research Report
    • Overseas
  • [Patent(Industrial Property Rights)] 生きた細胞内へのミトコンドリア導入法2015

    • Inventor(s)
      小椋利彦,野村慎一郎,齋藤明
    • Industrial Property Rights Holder
      国立研究開発法人科学技術振興機構
    • Industrial Property Rights Type
      特許
    • Industrial Property Number
      2015-185058
    • Filing Date
      2015-09-18
    • Related Report
      2015 Annual Research Report

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Published: 2015-04-16   Modified: 2019-03-29  

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