Basic Information

Faculty

• Faculty of Engineering

Concurrent Affiliation

• Center for the Promotion of Interdisciplinary Education and Research (C-PiER), スーパーグローバルコース 化学系ユニット

Academic Degree

• 修士（理学）(東京大学)
• 博士（理学）(東京大学)

Language of Instruction

• English
• Japanese

ID,URL

• ORCID ID

  0000-0001-8112-8169

• J-Global ID

  201501035428102456

• Researcher number

  00753146

researchmap URL

• https://researchmap.jp/7000011464

Research

Research Areas

• Nanotechnology/Materials, Polymer materials, Supramolecular hydrogels; coacervates
• Nanotechnology/Materials, Structural/physical organic chemistry

Papers

• A minimalist design approach to simple coacervates from low-molecular-weight components

  Ryou Kubota

  Polymer Journal, 08 May 2025

  
• Molecular technologies in life innovation: Novel molecular technologies for labeling and functional control of proteins under live cell conditions

  Itaru Hamachi; Shigeki Kiyonaka; Tomonori Tamura; Ryou Kubota

  Molecular Technology: Materials Innovation, 06 Feb. 2019

  
• Cell‐Like Synthetic Supramolecular Soft Materials Realized in Multicomponent, Non‐/Out‐of‐Equilibrium Dynamic Systems

  Ryou Kubota; Itaru Hamachi

  Advanced Science, Feb. 2024

  
• Emergence of Dynamic Instability by Hybridizing Synthetic Self-Assembled Dipeptide Fibers with Surfactant Micelles

  Shogo Torigoe; Kazutoshi Nagao; Ryou Kubota; Itaru Hamachi

  Journal of the American Chemical Society, 26 Feb. 2024

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• 生体分子センシングや薬剤放出の多段階制御を可能とする超分子ヒドロゲル

  中村 圭佑; 窪田 亮; 浜地 格

  バイオサイエンスとインダストリー / バイオサイエンスとインダストリー編集委員会 編, 2021, Peer-reviewed

  
• Supramolecular–Polymer Composite Hydrogels: From In Situ Network Observation to Functional Properties

  Ryou Kubota

  Bulletin of the Chemical Society of Japan, 15 Aug. 2023

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• Visualizing Formation and Dynamics of a Three-Dimensional Sponge-like Network of a Coacervate in Real Time

  Ryou Kubota; Taro Hiroi; Yuriki Ikuta; Yuchong Liu; Itaru Hamachi

  Journal of the American Chemical Society, 10 Aug. 2023

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• Four distinct network patterns of supramolecular/polymer composite hydrogels controlled by formation kinetics and interfiber interactions

  Keisuke Nakamura; Ryou Kubota; Takuma Aoyama; Kenji Urayama; Itaru Hamachi

  Nature Communications, 27 Mar. 2023

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• Temporal Stimulus Patterns Drive Differentiation of a Synthetic Dipeptide-Based Coacervate

  Ryou Kubota; Shogo Torigoe; Itaru Hamachi

  Journal of the American Chemical Society, 09 Aug. 2022

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• Phototriggered Spatially Controlled Out-of-Equilibrium Patterns of Peptide Nanofibers in a Self-Sorting Double Network Hydrogel

  Keisuke Nakamura; Wataru Tanaka; Kei Sada; Ryou Kubota; Takuma Aoyama; Kenji Urayama; Itaru Hamachi

  JOURNAL OF THE AMERICAN CHEMICAL SOCIETY, Nov. 2021, Peer-reviewed

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• An adaptive supramolecular hydrogel comprising self-sorting double nanofibre networks (vol 13, pg 165, 2018)

  Hajime Shigemitsu; Takahiro Fujisaku; Wataru Tanaka; Ryou Kubota; Saori Minami; Kenji Urayama; Itaru Hamachi

  NATURE NANOTECHNOLOGY, Mar. 2018, Peer-reviewed

  
• Coordination chemogenetics for activation of GPCR-type glutamate receptors in brain tissue.

  Kento Ojima; Wataru Kakegawa; Tokiwa Yamasaki; Yuta Miura; Masayuki Itoh; Yukiko Michibata; Ryou Kubota; Tomohiro Doura; Eriko Miura; Hiroshi Nonaka; Seiya Mizuno; Satoru Takahashi; Michisuke Yuzaki; Itaru Hamachi; Shigeki Kiyonaka

  Nature communications, 16 Jun. 2022

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• Shape-selective one-step synthesis of branched gold nanoparticles on the crystal surface of redox-active Pd-II-macrocycles

  Yutaro Yamashita; Shohei Tashiro; Yoshiki Ishii; Takayuki Uchihashi; Nobuyuki Matsushita; Ryou Kubota; Mitsuhiko Shionoya

  DALTON TRANSACTIONS, Jan. 2022

  
• Microscopic Imaging Techniques for Molecular Assemblies: Electron, Atomic Force, and Confocal Microscopies

  Ryou Kubota; Wataru Tanaka; Itaru Hamachi

  Chemical Reviews, 04 May 2021, Peer-reviewed, Invited

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• Face-selective adsorption of a prochiral compound on the chiral pore-surface of a metal–macrocycle framework (MMF) directed towards stereoselective reactions

  Shohei Tashiro; Tsutomu Umeki; Ryou Kubota; Mitsuhiko Shionoya

  Faraday Discussions, 2021, Peer-reviewed

  
• Control of seed formation allows two distinct self-sorting patterns of supramolecular nanofibers

  Ryou Kubota; Kazutoshi Nagao; Wataru Tanaka; Ryotaro Matsumura; Takuma Aoyama; Kenji Urayama; Itaru Hamachi

  Nature Communications, Dec. 2020, Peer-reviewed, Lead author

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• Protein-responsive protein release of supramolecular/polymer hydrogel composite integrating enzyme activation systems

  Hajime Shigemitsu; Ryou Kubota; Keisuke Nakamura; Tomonobu Matsuzaki; Saori Minami; Takuma Aoyama; Kenji Urayama; Itaru Hamachi

  Nature Communications, Dec. 2020, Peer-reviewed, Lead author

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• Force generation by a propagating wave of supramolecular nanofibers

  Ryou Kubota; Masahiro Makuta; Ryo Suzuki; Masatoshi Ichikawa; Motomu Tanaka; Itaru Hamachi

  Nature Communications, Dec. 2020, Peer-reviewed, Lead author

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• In Situ Real-time Confocal Imaging of a Self-assembling Peptide-grafted Polymer Showing pH-responsive Hydrogelation

  Ryou Kubota; Shogo Torigoe; Shuang Liu; Itaru Hamachi

  Chemistry Letters, 05 Nov. 2020, Peer-reviewed, Lead author

  
• Core–shell metal–macrocycle framework (MMF): spatially selective dye inclusion through core-to-shell anisotropic transport along crystalline 1D-channels connected by epitaxial growth

  Shohei Tashiro; Shinya Mitsui; David W. Burke; Ryou Kubota; Nobuyuki Matsushita; Mitsuhiko Shionoya

  CrystEngComm, 2020, Peer-reviewed

  
• The Power of Confocal Laser Scanning Microscopy in Supramolecular Chemistry: In situ Real‐time Imaging of Stimuli‐Responsive Multicomponent Supramolecular Hydrogels

  Ryou Kubota; Keisuke Nakamura; Shogo Torigoe; Itaru Hamachi

  ChemistryOpen, Jan. 2020, Peer-reviewed

  
• pH Nanosensor Using Electronic Spins in Diamond

  Takahiro Fujisaku; Ryotaro Tanabe; Shinobu Onoda; Ryou Kubota; Takuya F. Segawa; Frederick T.-K. So; Takeshi Ohshima; Itaru Hamachi; Masahiro Shirakawa; Ryuji Igarashi

  ACS Nano, 22 Oct. 2019, Peer-reviewed

  
• Post-assembly Fabrication of a Functional Multicomponent Supramolecular Hydrogel Based on a Self-Sorting Double Network

  Wataru Tanaka; Hajime Shigemitsu; Takahiro Fujisaku; Ryou Kubota; Saori Minami; Kenji Urayama; Itaru Hamachi

  Journal of the American Chemical Society, 27 Mar. 2019, Peer-reviewed

  
• On-cell coordination chemistry: Chemogenetic activation of membrane-bound glutamate receptors in living cells

  Ryou Kubota; Shigeki Kiyonaka; Itaru Hamachi

  Methods in Enzymology, 2019, Peer-reviewed, Lead author

  
• Chemogenetic Approach Using Ni(II) Complex–Agonist Conjugates Allows Selective Activation of Class A G-Protein-Coupled Receptors

  Ryou Kubota; Wataru Nomura; Takuma Iwasaka; Kento Ojima; Shigeki Kiyonaka; Itaru Hamachi

  ACS Central Science, 26 Sep. 2018, Peer-reviewed

  
• Imaging-Based Study on Control Factors over Self-Sorting of Supramolecular Nanofibers Formed from Peptide- and Lipid-type Hydrogelators

  Ryou Kubota; Shuang Liu; Hajime Shigemitsu; Keisuke Nakamura; Wataru Tanaka; Masato Ikeda; Itaru Hamachi

  Bioconjugate Chemistry, 20 Jun. 2018, Peer-reviewed

  
• An adaptive supramolecular hydrogel comprising self-sorting double nanofibre networks

  Hajime Shigemitsu; Takahiro Fujisaku; Wataru Tanaka; Ryou Kubota; Saori Minami; Kenji Urayama; Itaru Hamachi

  Nature Nanotechnology, 01 Feb. 2018, Peer-reviewed

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• Rational synthesis of benzimidazole[3]arenes by CuII-catalyzed post-macrocyclization transformation

  Shohei Tashiro; Tsutomu Umeki; Ryou Kubota; Mitsuhiko Shionoya

  Chemical Science, 2018, Peer-reviewed

  
• In situ real-time imaging of self-sorted supramolecular nanofibres

  Onogi, Shoji; Shigemitsu, Hajime; Yoshii, Tatsuyuki; Tanida, Tatsuya; Ikeda, Masato; Kubota, Ryou; Hamachi, Itaru

  Nature Chemistry, 2016, Peer-reviewed

  
• Allosteric activation of membrane-bound glutamate receptors using coordination chemistry within living cells

  Kiyonaka, Shigeki; Kubota, Ryou; Michibata, Yukiko; Sakakura, Masayoshi; Takahashi, Hideo; Numata, Tomohiro; Inoue, Ryuji; Yuzaki, Michisuke; Hamachi, Itaru

  Nature Chemistry, 2016, Peer-reviewed

  
• Non-covalent immobilisation of p-toluenesulfonic acid in a porous molecular crystal for size-specific acid-catalysed reactions

  Tashiro, Shohei; Yonezawa, Hirotaka; Kubota, Ryou; Umeki, Tsutomu; Shionoya, Mitsuhiko

  Chemical Communications, 2016, Peer-reviewed

  
• Chiral metal-macrocycle frameworks: supramolecular chirality induction and helicity inversion of the helical macrocyclic structures

  Kubota, Ryou; Tashiro, Shohei; Shionoya, Mitsuhiko

  Chemical Science, 2016, Peer-reviewed

  
• ナノ空間での分子吸着の瞬間を捉えた! : X線回折測定を用いた分子吸着過程のスナップショット観察

  窪田 亮; 田代 省平; 塩谷 光彦

  化学 = Chemistry, Jan. 2015

  
• Protein recognition using synthetic small-molecular binders toward optical protein sensing in vitro and in live cells

  Kubota, Ryou; Hamachi, Itaru

  Chemical Society Reviews, 2015, Peer-reviewed

  
• 学部生に伝える研究最前線

  島野 亮; 松永 隆佑; 窪田 亮; 田代 省平; 塩谷 光彦; 中島 保寿; 泉 賢太郎

  東京大学理学系研究科・理学部ニュース, Jan. 2015

  
• Simultaneous Arrangement of up to Three Different Molecules on the Pore Surface of a Metal-Macrocycle Framework: Cooperation and Competition

  Tashiro, Shohei; Umeki, Tsutomu; Kubota, Ryou; Shionoya, Mitsuhiko

  Angewandte Chemie-International Edition, 2014, Peer-reviewed

  
• In situ X-ray snapshot analysis of transient molecular adsorption in a crystalline channel

  Kubota, Ryou; Tashiro, Shohei; Shiro, Motoo; Shionoya, Mitsuhiko

  Nature Chemistry, 2014, Peer-reviewed

  
• 電磁シールド材料間の接続部性能に関する研究 : スリット状接続部透過後の電界位相変化の解析及び定式化(研究速報)

  窪田 亮; 三枝 健二; 吉野 涼二

  電子情報通信学会論文誌. B, 通信, Jan. 2013

  
• Palladium- or proton-induced submicro spherical aggregation of macrocyclic amphiphiles in aqueous solution

  Tashiro, Shohei; Kubota, Ryou; Kawagoe, Minori; Shionoya, Mitsuhiko

  Dalton Transactions, 2013, Peer-reviewed

  
• Non-covalent surface modification of metal-macrocycle framework with mono-substituted benzenes

  Kubota, Ryou; Tashiro, Shohei; Umeki, Tsutomu; Shionoya, Mitsuhiko

  Supramolecular Chemistry, 2012, Peer-reviewed

  
• Metal-Macrocycle Framework (MMF): Supramolecular Nano-Channel Surfaces with Shape Sorting Capability

  Tashiro, Shohei; Kubota, Ryou; Shionoya, Mitsuhiko

  Journal of the American Chemical Society, 2012, Peer-reviewed

  

Awards

• 25 Mar. 2017

  Chemical Society of Japan, 日本化学会第97春季年会　講演賞（学術）
• 25 Mar. 2017

  Chemical Society of Japan, Royal Society of Chemisty, PCCP prize
• 10 Sep. 2016

  Chemical Society of Japan, Presentation Award, The 10th Symposium on Biorelevant Chemistry
• 25 Mar. 2013

  Graduate School of Science, The University of Tokyo, 東京大学理学系研究科　研究奨励賞
• Mar. 2020

  The Chemical Society of Japan, 若い世代の特別講演証
• 07 Jan. 2021

  The Chemical Society of Japan, The Chemical Society of Japan Award for Young Chemists for 2020

External funds: Kakenhi

• Supramolecular chemistry in the prebiotic environment

  Grant-in-Aid for Early-Career Scientists

  Basic Section 37010:Bio-related chemistry

  Kyoto University

  Ryou Kubota

  From 01 Apr. 2020, To 31 Mar. 2022, Project Closed

  超分子;コアセルベート;液液相分離;ヒドロゲル;非平衡散逸系;超分子化学;自己集合;相分離;ペプチド;非平衡;人工生命

  https://kaken.nii.ac.jp/grant/KAKENHI-PROJECT-20K15400/
• Metallo-chemogenetics to decode intracellular signaling networks

  Grant-in-Aid for Early-Career Scientists

  Basic Section 37010:Bio-related chemistry

  Kyoto University

  Ryou Kubota

  From 01 Apr. 2018, To 31 Mar. 2020, Project Closed

  超分子化学;金属錯体;Gタンパク質共役受容体;ケモジェネティクス;細胞;ヒドロゲル;ソフトマテリアル;ケミカルバイオロジー;金属錯体化学;ケモジェネティックス;超分子;動物個体;in vivo;核内受容体

  https://kaken.nii.ac.jp/grant/KAKENHI-PROJECT-18K14333/
• Functional programming of membrane-bound receptors by On-cell Coordination Chemistry

  Grant-in-Aid for Research Activity Start-up

  Kyoto University

  Ryou Kubota

  From 28 Aug. 2015, To 31 Mar. 2017, Project Closed

  金属錯体;化学遺伝学;GPCR;リガンド作動性イオンチャネル;遺伝子工学;膜タンパク質受容体;部位特異的変異導入;Gタンパク質共役受容体;グルタミン酸受容体;アドレナリン受容体;超分子化学;蛋白質;シグナル伝達;分子認識;細胞・組織;配位結合;ケミカルバイオロジー

  https://kaken.nii.ac.jp/grant/KAKENHI-PROJECT-15H06318/
• Construction of life-like supramolecular materials based on hierarchical self-assembly

  Grant-in-Aid for Scientific Research (B)

  Basic Section 37010:Bio-related chemistry

  Kyoto University

  窪田 亮

  From 01 Apr. 2022, To 31 Mar. 2026, Granted

  超分子化学;ヒドロゲル;自己集合;非平衡;反応拡散;超分子;多成分;非平衡散逸系

  https://kaken.nii.ac.jp/grant/KAKENHI-PROJECT-22H02195/
• Construction of life-like supramolecular materials based on hierarchical self-assembly

  Grant-in-Aid for Scientific Research (B)

  Basic Section 37010:Bio-related chemistry

  Kyoto University

  窪田 亮

  From 01 Apr. 2022, To 31 Mar. 2026, Granted

  超分子化学;ヒドロゲル;階層構造;非平衡;反応拡散;超分子;コアセルベート;共焦点顕微鏡;自己集合;多成分;非平衡散逸系

  https://kaken.nii.ac.jp/grant/KAKENHI-PROJECT-23K23462/

Education

Teaching subject(s)

• From 01 Apr. 2024, To 31 Mar. 2025

  Basic Biochemistry II

  7064, Fall, Faculty of Engineering, 2
• From 01 Apr. 2024, To 31 Mar. 2025

  Exercises in Basic Organic Chemistry

  7103, Spring, Faculty of Engineering, 2
• From 01 Apr. 2024, To 31 Mar. 2025

  Advanced Biological Chemistry 2 Continued

  P836, Spring, Graduate School of Engineering, 1
• From 01 Apr. 2024, To 31 Mar. 2025

  Bioorganic Chemistry

  H813, Fall, Graduate School of Engineering, 1.5
• From 01 Apr. 2024, To 31 Mar. 2025

  Advanced Biological Chemistry

  H836, Spring, Graduate School of Engineering, 3
• From 01 Apr. 2023, To 31 Mar. 2024

  Basic Biochemistry II

  7064, Fall, Faculty of Engineering, 2
• From 01 Apr. 2023, To 31 Mar. 2024

  Advanced Biological Chemistry 2 Continued

  P836, Spring, Graduate School of Engineering, 1
• From 01 Apr. 2023, To 31 Mar. 2024

  Advanced Biological Chemistry

  H836, Spring, Graduate School of Engineering, 3
• From 01 Apr. 2022, To 31 Mar. 2023

  Basic Biochemistry II

  7064, Fall, Faculty of Engineering, 2
• From 01 Apr. 2022, To 31 Mar. 2023

  Advanced Biological Chemistry 2 Continued

  P836, Spring, Graduate School of Engineering, 1
• From 01 Apr. 2022, To 31 Mar. 2023

  Chemical Basis of Life(Advanced Chemistry)

  7426, Fall, Faculty of Engineering, 2
• From 01 Apr. 2022, To 31 Mar. 2023

  Advanced Biological Chemistry

  H836, Spring, Graduate School of Engineering, 3
• From 01 Apr. 2022, To 31 Mar. 2023

  Bioorganic Chemistry

  H813, Fall, Graduate School of Engineering, 1.5