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Diversity and possibility of rhodopsins

Research Project

Project/Area Number 18H02411
Research Category

Grant-in-Aid for Scientific Research (B)

Allocation TypeSingle-year Grants
Section一般
Review Section Basic Section 43040:Biophysics-related
Research InstitutionOkayama University

Principal Investigator

Sudo Yuki  岡山大学, 医歯薬学総合研究科, 教授 (10452202)

Project Period (FY) 2018-04-01 – 2021-03-31
Project Status Completed (Fiscal Year 2020)
Budget Amount *help
¥17,420,000 (Direct Cost: ¥13,400,000、Indirect Cost: ¥4,020,000)
Fiscal Year 2020: ¥5,460,000 (Direct Cost: ¥4,200,000、Indirect Cost: ¥1,260,000)
Fiscal Year 2019: ¥5,460,000 (Direct Cost: ¥4,200,000、Indirect Cost: ¥1,260,000)
Fiscal Year 2018: ¥6,500,000 (Direct Cost: ¥5,000,000、Indirect Cost: ¥1,500,000)
Keywordsロドプシン / 光 / 生物物理 / オプトジェネティクス / エネルギー変換
Outline of Final Research Achievements

Rhodopsin is a photoreceptive membrane protein distributed in the three biological domains of organisms (i.e., eukaryotes, eubacteria, and archaea), and controls the various functions through photo-energy conversion. In addition, it is utilized as a tool for optogenetics, which is a method for controlling biological activity by light. However, the most of molecules are not analyzed so far. On the basis of the background, the purpose of this study is to "explore the diversity of rhodopsin and pursue its potential". We explored the diversity by expression / purification (1. search) and precise analysis (2. analysis) of uncharacterized rhodopsins. We also pursued the possibility of novel optogenetic tools (3. application).

Academic Significance and Societal Importance of the Research Achievements

本研究は生物の光応答の理解と利用を目的に、「ロドプシンの多様性の探究と可能性の追求」を行った。『学術的意義』:多様な新規ロドプシンの発見と解析に成功するとともに、その多様性の理解に基づく生命機能の新奇光操作を実現した。これにより、これまで神経科学への適用にとどまっていたオプトジェネティクスの可能性を大きく広げ、生物物理学・生化学・細胞生物学・環境学など様々な分野に大きなインパクトを与えた。『社会的意義』:本研究により、ロドプシンの基礎的理解と光操作が飛躍的に進展し、「光をくすりにする」社会の実現に向けて前進した。

Report

(4 results)
  • 2020 Annual Research Report   Final Research Report ( PDF )
  • 2019 Annual Research Report
  • 2018 Annual Research Report
  • Research Products

    (44 results)

All 2021 2020 2019 2018 Other

All Int'l Joint Research (3 results) Journal Article (26 results) (of which Int'l Joint Research: 5 results,  Peer Reviewed: 25 results,  Open Access: 14 results) Presentation (11 results) (of which Int'l Joint Research: 4 results,  Invited: 11 results) Remarks (2 results) Patent(Industrial Property Rights) (2 results)

  • [Int'l Joint Research] モンテレーベイ水族館(米国)

    • Related Report
      2019 Annual Research Report
  • [Int'l Joint Research] ワイズマン研究所(イスラエル)

    • Related Report
      2019 Annual Research Report
  • [Int'l Joint Research] Weizmann Institute of Science(イスラエル)

    • Related Report
      2018 Annual Research Report
  • [Journal Article] Further thermo‐stabilization of thermophilic rhodopsin from Thermus thermophilus JL ‐18 through engineering in extramembrane regions2021

    • Author(s)
      Akiyama Tomoki、Kunishima Naoki、Nemoto Sayaka、Kazama Kazuki、Hirose Masako、Sudo Yuki、Matsuura Yoshinori、Naitow Hisashi、Murata Takeshi
    • Journal Title

      Proteins: Structure, Function, and Bioinformatics

      Volume: 89 Issue: 3 Pages: 301-310

    • DOI

      10.1002/prot.26015

    • Related Report
      2020 Annual Research Report
    • Peer Reviewed / Open Access
  • [Journal Article] Mechanism of absorption wavelength shifts in anion channelrhodopsin-1 mutants2021

    • Author(s)
      Tsujimura Masaki、Noji Tomoyasu、Saito Keisuke、Kojima Keiichi、Sudo Yuki、Ishikita Hiroshi
    • Journal Title

      Biochimica et Biophysica Acta (BBA) - Bioenergetics

      Volume: 1862 Issue: 2 Pages: 148349-148349

    • DOI

      10.1016/j.bbabio.2020.148349

    • Related Report
      2020 Annual Research Report
    • Peer Reviewed / Open Access
  • [Journal Article] マルチタレント光受容タンパク質「ロドプシン」2021

    • Author(s)
      須藤雄気、小島慧一
    • Journal Title

      現代化学

      Volume: 5 Pages: 50-53

    • Related Report
      2020 Annual Research Report
  • [Journal Article] Lokiarchaeota archaeon schizorhodopsin-2 (LaSzR2) is an inward proton pump displaying a characteristic feature of acid-induced spectral blue-shift2020

    • Author(s)
      Kojima Keiichi、Yoshizawa Susumu、Hasegawa Masumi、Nakama Masaki、Kurihara Marie、Kikukawa Takashi、Sudo Yuki
    • Journal Title

      Scientific Reports

      Volume: 10 Issue: 1 Pages: 20857-20857

    • DOI

      10.1038/s41598-020-77936-9

    • NAID

      120006955824

    • Related Report
      2020 Annual Research Report
    • Peer Reviewed / Open Access
  • [Journal Article] Applicability of Styrene-Maleic Acid Copolymer for Two Microbial Rhodopsins, RxR and HsSRI.2020

    • Author(s)
      Tetsuya Ueta, Keiichi Kojima, Tomoya Hino, Mikihiro Shibata, Shingo Nagano, Yuki Sudo*
    • Journal Title

      Biophysical journal

      Volume: 119 Issue: 9 Pages: 1760-1770

    • DOI

      10.1016/j.bpj.2020.09.026

    • Related Report
      2020 Annual Research Report
    • Peer Reviewed
  • [Journal Article] Comparative Studies of the Fluorescence Properties of Microbial Rhodopsins: Spontaneous Emission Versus Photointermediate Fluorescence2020

    • Author(s)
      Kojima Keiichi、Kurihara Rika、Sakamoto Masayuki、Takanashi Tsukasa、Kuramochi Hikaru、Zhang Xiao Min、Bito Haruhiko、Tahara Tahei、Sudo Yuki
    • Journal Title

      The Journal of Physical Chemistry B

      Volume: 124 Issue: 34 Pages: 7361-7367

    • DOI

      10.1021/acs.jpcb.0c06560

    • Related Report
      2020 Annual Research Report
    • Peer Reviewed
  • [Journal Article] Green-Sensitive, Long-Lived, Step-Functional Anion Channelrhodopsin-2 Variant as a High-Potential Neural Silencing Tool2020

    • Author(s)
      Kojima Keiichi、Miyoshi Natsuki、Shibukawa Atsushi、Chowdhury Srikanta、Tsujimura Masaki、Noji Tomoyasu、Ishikita Hiroshi、Yamanaka Akihiro、Sudo Yuki
    • Journal Title

      The Journal of Physical Chemistry Letters

      Volume: 11 Issue: 15 Pages: 6214-6218

    • DOI

      10.1021/acs.jpclett.0c01406

    • Related Report
      2020 Annual Research Report
    • Peer Reviewed / Int'l Joint Research
  • [Journal Article] A unique clade of light-driven proton-pumping rhodopsins evolved in the cyanobacterial lineage2020

    • Author(s)
      Hasegawa Masumi、Hosaka Toshiaki、Kojima Keiichi、Nishimura Yosuke、Nakajima Yu、Kimura-Someya Tomomi、Shirouzu Mikako、Sudo Yuki、Yoshizawa Susumu
    • Journal Title

      Scientific Reports

      Volume: 10 Issue: 1 Pages: 16752-16752

    • DOI

      10.1038/s41598-020-73606-y

    • Related Report
      2020 Annual Research Report
    • Peer Reviewed / Open Access
  • [Journal Article] Interaction of Escherichia coli and its culture supernatant with Vibrio vulnificus during biofilm formation2020

    • Author(s)
      Ohn Han‐Min、Mizuno Tamaki、Sudo Yuki、Miyoshi Shin‐Ichi
    • Journal Title

      Microbiology and Immunology

      Volume: 64 Issue: 9 Pages: 593-601

    • DOI

      10.1111/1348-0421.12829

    • Related Report
      2020 Annual Research Report
    • Peer Reviewed
  • [Journal Article] Bacterium Lacking a Known Gene for Retinal Biosynthesis Constructs Functional Rhodopsins2020

    • Author(s)
      Nakajima Yu、Kojima Keiichi、Kashiyama Yuichiro、Doi Satoko、Nakai Ryosuke、Sudo Yuki、Kogure Kazuhiro、Yoshizawa Susumu
    • Journal Title

      Microbes and Environments

      Volume: 35 Issue: 4 Pages: n/a-n/a

    • DOI

      10.1264/jsme2.me20085

    • NAID

      130007950468

    • Related Report
      2020 Annual Research Report
    • Peer Reviewed / Open Access
  • [Journal Article] Diversity and Potential of Microbial Rhodopsins2020

    • Author(s)
      須藤雄気、小島慧一
    • Journal Title

      Seibutsu Butsuri

      Volume: 60 Issue: 4 Pages: 209-214

    • DOI

      10.2142/biophys.60.209

    • NAID

      130007881674

    • ISSN
      0582-4052, 1347-4219
    • Related Report
      2020 Annual Research Report
    • Peer Reviewed / Open Access
  • [Journal Article] Vectorial Proton Transport Mechanism of RxR, a Phylogenetically Distinct and Thermally Stable Microbial Rhodopsin2020

    • Author(s)
      Kojima Keiichi、Ueta Tetsuya、Noji Tomoyasu、Saito Keisuke、Kanehara Kanae、Yoshizawa Susumu、Ishikita Hiroshi、Sudo Yuki
    • Journal Title

      Scientific Reports

      Volume: 10 Issue: 1 Pages: 1-11

    • DOI

      10.1038/s41598-019-57122-2

    • NAID

      120006884916

    • Related Report
      2019 Annual Research Report
    • Peer Reviewed / Open Access
  • [Journal Article] The Unlimited Potential of Microbial Rhodopsins as Optical Tools2020

    • Author(s)
      Kojima K, Shibukawa A, Sudo Y
    • Journal Title

      Biochemistry

      Volume: 59(3) Issue: 3 Pages: 218-229

    • DOI

      10.1021/acs.biochem.9b00768

    • NAID

      120006939595

    • Related Report
      2019 Annual Research Report
    • Peer Reviewed / Open Access
  • [Journal Article] How Does a Microbial Rhodopsin RxR Realize Its Exceptionally High Thermostability with the Proton-Pumping Function Being Retained?2020

    • Author(s)
      Hayashi Tomohiko、Yasuda Satoshi、Suzuki Kano、Akiyama Tomoki、Kanehara Kanae、Kojima Keiichi、Tanabe Mikio、Kato Ryuichi、Senda Toshiya、Sudo Yuki、Murata Takeshi、Kinoshita Masahiro
    • Journal Title

      The Journal of Physical Chemistry B

      Volume: 124 Issue: 6 Pages: 990-1000

    • DOI

      10.1021/acs.jpcb.9b10700

    • Related Report
      2019 Annual Research Report
    • Peer Reviewed
  • [Journal Article] Methodology for Further Thermostabilization of an Intrinsically Thermostable Membrane Protein Using Amino Acid Mutations with Its Original Function Being Retained2020

    • Author(s)
      Yasuda Satoshi、Akiyama Tomoki、Nemoto Sayaka、Hayashi Tomohiko、Ueta Tetsuya、Kojima Keiichi、Tsukamoto Takashi、Nagatoishi Satoru、Tsumoto Kouhei、Sudo Yuki、Kinoshita Masahiro、Murata Takeshi
    • Journal Title

      Journal of Chemical Information and Modeling

      Volume: 60 Issue: 3 Pages: 1709-1716

    • DOI

      10.1021/acs.jcim.0c00063

    • Related Report
      2019 Annual Research Report
    • Peer Reviewed
  • [Journal Article] Photochemical Characterization of a New Heliorhodopsin from the Gram-Negative Eubacterium Bellilinea caldifistulae (BcHeR) and Comparison with Heliorhodopsin-48C122019

    • Author(s)
      Shibukawa A, Kojima K, Nakajima Y, Nishimura Y, Yoshizawa S, Sudo Y
    • Journal Title

      Biochemistry

      Volume: 58(26) Issue: 26 Pages: 2934-2943

    • DOI

      10.1021/acs.biochem.9b00257

    • NAID

      120006847070

    • Related Report
      2019 Annual Research Report
    • Peer Reviewed
  • [Journal Article] Quantitation of the neural silencing activity of anion channelrhodopsins in Caenorhabditis elegans and their applicability for long-term illumination2019

    • Author(s)
      Yamanashi T, Maki M, Kojima K, Shibukawa A, Tsukamoto T, Chowdhury S, Yamanaka A, Takagi S, Sudo Y
    • Journal Title

      Sci. Rep.

      Volume: 9(1) Issue: 1 Pages: 7863-7863

    • DOI

      10.1038/s41598-019-44308-x

    • NAID

      120006733902

    • Related Report
      2019 Annual Research Report
    • Peer Reviewed / Open Access
  • [Journal Article] A distinct lineage of giant viruses brings a rhodopsin photosystem to unicellular marine predators2019

    • Author(s)
      Needham David M.、Yoshizawa Susumu、Hosaka Toshiaki et. al.
    • Journal Title

      Proceedings of the National Academy of Sciences

      Volume: 116 Issue: 41 Pages: 20574-20583

    • DOI

      10.1073/pnas.1907517116

    • Related Report
      2019 Annual Research Report
    • Peer Reviewed / Open Access / Int'l Joint Research
  • [Journal Article] GABA neurons in the ventral tegmental area regulate non-rapid eye movement sleep in mice2019

    • Author(s)
      Chowdhury Srikanta、Matsubara Takanori、Miyazaki Toh、Ono Daisuke、Fukatsu Noriaki、Abe Manabu、Sakimura Kenji、Sudo Yuki、Yamanaka Akihiro
    • Journal Title

      eLife

      Volume: 8

    • DOI

      10.7554/elife.44928

    • Related Report
      2019 Annual Research Report
    • Peer Reviewed / Open Access / Int'l Joint Research
  • [Journal Article] Application of High-Sensitivity UV photoemission Spectroscopy to Examine the Electronic Structure of Thermophilic Rhodopsin2019

    • Author(s)
      Sano Daisuke、Ide Ichiro、Akiyama Tomoki、Tanaka Yuya、Sudo Yuki、Murata Takeshi、Ishii Hisao
    • Journal Title

      Molecular Crystals and Liquid Crystals

      Volume: 687 Issue: 1 Pages: 34-39

    • DOI

      10.1080/15421406.2019.1648052

    • Related Report
      2019 Annual Research Report
    • Peer Reviewed
  • [Journal Article] Production of a Light-Gated Proton Channel by Replacing the Retinal Chromophore with Its Synthetic Vinylene Derivative.2018

    • Author(s)
      R. Takayama, A. Kaneko , T. Okitsu, S. P. Tsunoda, K. Shimono , M. Mizuno, K. Kojima, T. Tsukamoto, H. Kandori, Y. Mizutani, A. Wada, Y. Sudo
    • Journal Title

      J Phys Chem Lett

      Volume: 9 Issue: 11 Pages: 2857-2862

    • DOI

      10.1021/acs.jpclett.8b00879

    • Related Report
      2018 Annual Research Report
    • Peer Reviewed
  • [Journal Article] Mutational analysis of the conserved carboxylates of anion channelrhodopsin-2 (ACR2) expressed in <i>Escherichia coli</i> and their roles in anion transport2018

    • Author(s)
      Kojima Keiichi、C. Watanabe Hiroshi、Doi Satoko、Miyoshi Natsuki、Kato Misaki、Ishikita Hiroshi、Sudo Yuki
    • Journal Title

      Biophysics and Physicobiology

      Volume: 15 Issue: 0 Pages: 179-188

    • DOI

      10.2142/biophysico.15.0_179

    • NAID

      130007472538

    • ISSN
      2189-4779
    • Related Report
      2018 Annual Research Report
    • Peer Reviewed / Open Access
  • [Journal Article] Presence of a Haloarchaeal Halorhodopsin-Like Cl<sup>−</sup> Pump in Marine Bacteria2018

    • Author(s)
      Nakajima Yu、Tsukamoto Takashi、Kumagai Yohei、Ogura Yoshitoshi、Hayashi Tetsuya、Song Jaeho、Kikukawa Takashi、Demura Makoto、Kogure Kazuhiro、Sudo Yuki、Yoshizawa Susumu
    • Journal Title

      Microbes and Environments

      Volume: 33 Issue: 1 Pages: 89-97

    • DOI

      10.1264/jsme2.ME17197

    • NAID

      130006581777

    • ISSN
      1342-6311, 1347-4405
    • Related Report
      2018 Annual Research Report
    • Peer Reviewed / Open Access / Int'l Joint Research
  • [Journal Article] Retinal configuration of ppR intermediates revealed by photo-irradiation solid-state NMR and DFT2018

    • Author(s)
      Yoshiteru Makino, Izuru Kawamura, Takashi Okitsu, Akimori Wada, Naoki Kamo, Yuki Sudo, Kazuyoshi Ueda, Akira Naito
    • Journal Title

      Biophys. J

      Volume: 115 Issue: 1 Pages: 72-83

    • DOI

      10.1016/j.bpj.2018.05.030

    • NAID

      120006698118

    • Related Report
      2018 Annual Research Report
    • Peer Reviewed
  • [Journal Article] Correction to “High Thermal Stability of Oligomeric Assemblies of Thermophilic Rhodopsin in a Lipid Environment”2018

    • Author(s)
      Shionoya Tomomi、Mizuno Misao、Tsukamoto Takashi、Ikeda Kento、Seki Hayato、Kojima Keiichi、Shibata Mikihiro、Kawamura Izuru、Sudo Yuki、Mizutani Yasuhisa
    • Journal Title

      The Journal of Physical Chemistry B

      Volume: 122 Issue: 42 Pages: 9826-9826

    • DOI

      10.1021/acs.jpcb.8b09660

    • Related Report
      2018 Annual Research Report
    • Peer Reviewed
  • [Journal Article] Retinal?Salinixanthin Interactions in a Thermophilic Rhodopsin2018

    • Author(s)
      Misra Ramprasad、Eliash Tamar、Sudo Yuki、Sheves Mordechai
    • Journal Title

      The Journal of Physical Chemistry B

      Volume: 123 Issue: 1 Pages: 10-20

    • DOI

      10.1021/acs.jpcb.8b06795

    • Related Report
      2018 Annual Research Report
    • Peer Reviewed / Open Access / Int'l Joint Research
  • [Presentation] 『光 が くすりになる!?』2020

    • Author(s)
      須藤雄気
    • Organizer
      第8回青陵サイエンストーク
    • Related Report
      2020 Annual Research Report
    • Invited
  • [Presentation] ロドプシンの生物物理化学研究: 光 が くすりになる!?2019

    • Author(s)
      須藤雄気
    • Organizer
      第141回(2019年)・日本薬学会中国四国支部例会
    • Related Report
      2019 Annual Research Report
    • Invited
  • [Presentation] 『光 が くすりになる!?』2019

    • Author(s)
      須藤雄気
    • Organizer
      岡山大学病院・市民フォーラム2019
    • Related Report
      2019 Annual Research Report
    • Invited
  • [Presentation] A bottom-up approach to Utilizing Microbial Rhodopsins for Optogenetics2019

    • Author(s)
      Yuki Sudo
    • Organizer
      2019 ESP-IUPB World Congress
    • Related Report
      2019 Annual Research Report
    • Int'l Joint Research / Invited
  • [Presentation] 微生物型 ロドプシンによる ボトムアップ型 光操作ツール開発2019

    • Author(s)
      須藤雄気
    • Organizer
      ISSPワークショップ 「レチナールタンパク質の光機能発現の物理と化学」
    • Related Report
      2019 Annual Research Report
    • Invited
  • [Presentation] Promoting Optogenetics by Microbial Rhodopsins2019

    • Author(s)
      須藤雄気
    • Organizer
      第11回・光操作研究会
    • Related Report
      2019 Annual Research Report
    • Invited
  • [Presentation] Light can be used a Drug: What should we learn from the photoactive retinal proteins2018

    • Author(s)
      Sudo Y.
    • Organizer
      Lecture for graduated students at the department of applied chemistry
    • Related Report
      2018 Annual Research Report
    • Int'l Joint Research / Invited
  • [Presentation] 光依存性イオンポンプとイオンチャネルの機能解析と機能変換2018

    • Author(s)
      須藤雄気
    • Organizer
      第3回イオンチャネル研究会
    • Related Report
      2018 Annual Research Report
    • Invited
  • [Presentation] 生体由来光受容分子ロドプシンの機能多様性と光操作ツール開発2018

    • Author(s)
      須藤雄気
    • Organizer
      第67回高分子討論会
    • Related Report
      2018 Annual Research Report
    • Invited
  • [Presentation] Diversity of microbial rhodopsins and their applicability for optogenetics2018

    • Author(s)
      Sudo Y.
    • Organizer
      The 18th International Conference on Retinal Proteins
    • Related Report
      2018 Annual Research Report
    • Int'l Joint Research / Invited
  • [Presentation] Optical control of biological activities by microbial rhodopsins2018

    • Author(s)
      Sudo Y.
    • Organizer
      The Voltage Imaging Mini Symposium
    • Related Report
      2018 Annual Research Report
    • Int'l Joint Research / Invited
  • [Remarks] 研究室ホームページ

    • URL

      http://www.pharm.okayama-u.ac.jp/lab/bukka/

    • Related Report
      2020 Annual Research Report 2019 Annual Research Report
  • [Remarks] 研究室ホームページ

    • URL

      http://www.pharm.okayama-u.ac.jp/lab/bukka/index.html

    • Related Report
      2018 Annual Research Report
  • [Patent(Industrial Property Rights)] 光により細胞死を制御する方法2020

    • Inventor(s)
      須藤雄気、小島慧一、中尾新
    • Industrial Property Rights Holder
      須藤雄気、小島慧一、中尾新
    • Industrial Property Rights Type
      特許
    • Industrial Property Number
      2020-196718
    • Filing Date
      2020
    • Related Report
      2020 Annual Research Report
  • [Patent(Industrial Property Rights)] 膜電位センサー2020

    • Inventor(s)
      坂本雅行、チョウシャオミン、尾藤晴彦、須藤雄気、小島慧一
    • Industrial Property Rights Holder
      坂本雅行、チョウシャオミン、尾藤晴彦、須藤雄気、小島慧一
    • Industrial Property Rights Type
      特許
    • Industrial Property Number
      2020-070136
    • Filing Date
      2020
    • Related Report
      2020 Annual Research Report

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Published: 2018-04-23   Modified: 2022-01-27  

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