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Investigation, modification and utilization of the retinal proteins

Research Project

Project/Area Number 15H04363
Research Category

Grant-in-Aid for Scientific Research (B)

Allocation TypeSingle-year Grants
Section一般
Research Field Biophysics
Research InstitutionOkayama University

Principal Investigator

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

Co-Investigator(Renkei-kenkyūsha) TSUKAMOTO Takashi  岡山大学, 大学院医歯薬学総合研究科(薬学系), 助教 (30744271)
Project Period (FY) 2015-04-01 – 2018-03-31
Project Status Completed (Fiscal Year 2017)
Budget Amount *help
¥16,380,000 (Direct Cost: ¥12,600,000、Indirect Cost: ¥3,780,000)
Fiscal Year 2017: ¥4,030,000 (Direct Cost: ¥3,100,000、Indirect Cost: ¥930,000)
Fiscal Year 2016: ¥4,810,000 (Direct Cost: ¥3,700,000、Indirect Cost: ¥1,110,000)
Fiscal Year 2015: ¥7,540,000 (Direct Cost: ¥5,800,000、Indirect Cost: ¥1,740,000)
Keywords生物物理 / ロドプシン / レチナール / 光遺伝学 / オプトジェネティクス / 生体分子 / 分子機械 / 膜タンパク質 / 光 / イオン輸送 / 分子認識 / 生物・生体工学 / 光操作
Outline of Final Research Achievements

Retinal protein, also called "rhodopsin", has a vitamin-A aldehyde as a chromophore. It is widely distributed in the three biological domains (animals, bacteria, archaea), and is responsible for various light-dependent functions. In addition to such biological interests, recently, the new technology called "optogenetics" which is a method for controlling biological activities by light, has been established as a collaborative work with the retinal proteins. In this research, based on the background, we investigated the retinal proteins fundamentally by using various methods. Then we modified the molecular properties to develop the novel optogenetics tools that can be widely utilized for scientific research.

Report

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

    (44 results)

All 2018 2017 2016 2015 Other

All Int'l Joint Research (1 results) Journal Article (22 results) (of which Int'l Joint Research: 3 results,  Peer Reviewed: 17 results,  Acknowledgement Compliant: 6 results,  Open Access: 11 results) Presentation (19 results) (of which Int'l Joint Research: 4 results,  Invited: 19 results) Book (1 results) Remarks (1 results)

  • [Int'l Joint Research] The Hebrew University/Weizman Institute of Science(イスラエル)

    • Related Report
      2016 Annual Research Report
  • [Journal Article] Spectroscopic characteristics of Rubricoccus marinus xenorhodopsin (RmXeR) and a putative model for its inward H+ transport mechanism2018

    • Author(s)
      Inoue Saki、Yoshizawa Susumu、Nakajima Yu、Kojima Keiichi、Tsukamoto Takashi、Kikukawa Takashi、Sudo Yuki
    • Journal Title

      Phys. Chem. Chem. Phys.

      Volume: 20 Issue: 5 Pages: 3172-3183

    • DOI

      10.1039/c7cp05033j

    • Related Report
      2017 Annual Research Report
    • Peer Reviewed
  • [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
      2017 Annual Research Report
    • Peer Reviewed / Open Access / Int'l Joint Research
  • [Journal Article] Comparative evaluation of the stability of seven-transmembrane microbial rhodopsins to various physicochemical stimuli2017

    • Author(s)
      Honda Naoya、Tsukamoto Takashi、Sudo Yuki
    • Journal Title

      Chem. Phys. Lett.

      Volume: 682 Pages: 6-14

    • DOI

      10.1016/j.cplett.2017.05.055

    • Related Report
      2017 Annual Research Report
    • Peer Reviewed
  • [Journal Article] Few-cycle pulse generation from noncollinear optical parametric amplifier with static dispersion compensation2017

    • Author(s)
      Shunsuke Adachi, Yuya Watanabe, Yuki Sudo, Toshinori Suzuki
    • Journal Title

      Chemical Physics Letters

      Volume: 印刷中 Pages: 7-11

    • DOI

      10.1016/j.cplett.2017.04.001

    • Related Report
      2017 Annual Research Report
    • Peer Reviewed / Acknowledgement Compliant
  • [Journal Article] Hybrid Model Membrane Combining Micropatterned Lipid Bilayer and Hydrophilic Polymer Brush2017

    • Author(s)
      Nishimura Toshiki、Tamura Fuyuko、Kobayashi Sawako、Tanimoto Yasushi、Hayashi Fumio、Sudo Yuki、Iwasaki Yasuhiko、Morigaki Kenichi
    • Journal Title

      Langmuir

      Volume: 33 Issue: 23 Pages: 5752-5759

    • DOI

      10.1021/acs.langmuir.7b00463

    • Related Report
      2017 Annual Research Report
    • Peer Reviewed
  • [Journal Article] Conversion of microbial rhodopsins: insights into functionally essential elements and rational protein engineering2017

    • Author(s)
      Kaneko Akimasa、Inoue Keiichi、Kojima Keiichi、Kandori Hideki、Sudo Yuki
    • Journal Title

      Biophysical Reviews

      Volume: 9 Issue: 6 Pages: 861-876

    • DOI

      10.1007/s12551-017-0335-x

    • Related Report
      2017 Annual Research Report
    • Peer Reviewed
  • [Journal Article] Demonstration of a light-driven SO42- transporter and its spectroscopic characteristics2017

    • Author(s)
      Niho A, Yoshizawa S, Tsukamoto T, Kurihara M, Tahara S, Nakajima Y, Mizuno M, Kuramochi H, Tahara T, Mizutani Y, *Sudo Y.
    • Journal Title

      J. Am. Chem. Soc.

      Volume: 139 Issue: 12 Pages: 4376-4389

    • DOI

      10.1021/jacs.6b12139

    • NAID

      120006425837

    • Related Report
      2016 Annual Research Report
    • Peer Reviewed / Acknowledgement Compliant
  • [Journal Article] A phylogenetically distinctive and extremely heat stable light-driven proton pump from the eubacterium Rubrobacter xylanophilus DSM 9941T2017

    • Author(s)
      Kanehara K, Yoshizawa S, Tsukamoto T, *Sudo Y.
    • Journal Title

      Sci. Rep.

      Volume: 7 Issue: 1 Pages: 44427-44427

    • DOI

      10.1038/srep44427

    • Related Report
      2016 Annual Research Report
    • Peer Reviewed / Open Access / Acknowledgement Compliant
  • [Journal Article] An inhibitory role of Arg-84 in anion channelrhodopsin-2 expressed in Escherichia coli2017

    • Author(s)
      Doi S, Tsukamoto T, Yoshizawa S, & *Sudo Y.
    • Journal Title

      Sci. Rep.

      Volume: 7 Issue: 1 Pages: 41879-41879

    • DOI

      10.1038/srep41879

    • Related Report
      2016 Annual Research Report
    • Peer Reviewed / Open Access / Acknowledgement Compliant
  • [Journal Article] Implications for the light-driven chloride ion transport mechanism of Nonlabens marinus rhodopsin 3 by its photochemical characteristics2017

    • Author(s)
      *Tsukamoto T, Yoshizawa S, Kikukawa T, Demura M, *Sudo Y.
    • Journal Title

      J. Phys. Chem. B

      Volume: 121 Issue: 9 Pages: 2027-2038

    • DOI

      10.1021/acs.jpcb.6b11101

    • Related Report
      2016 Annual Research Report
    • Peer Reviewed / Open Access
  • [Journal Article] Structural and Functional Studies on Photoactive Retinal Proteins: Light Becomes Drugs with Proteins2016

    • Author(s)
      須藤雄気
    • Journal Title

      YAKUGAKU ZASSHI

      Volume: 136 Issue: 2 Pages: 185-189

    • DOI

      10.1248/yakushi.15-00229-3

    • NAID

      130005121476

    • ISSN
      0031-6903, 1347-5231
    • Year and Date
      2016-02-01
    • Related Report
      2015 Annual Research Report
  • [Journal Article] Temperature independence of ultrafast photo-isomerization in thermophilic rhodopsin: Assessment vs other microbial proton pumps2016

    • Author(s)
      Iyer ES, Misra R, Maity A, Lioubashevski O, Sudo Y, Sheves M, *Ruhman S.
    • Journal Title

      J. Am. Chem. Soc.

      Volume: 138 Issue: 38 Pages: 12401-12407

    • DOI

      10.1021/jacs.6b05002

    • Related Report
      2016 Annual Research Report
    • Peer Reviewed / Open Access / Acknowledgement Compliant
  • [Journal Article] Live-cell single-molecule imaging of the cytokine receptor MPL for analysis of dynamic dimerization2016

    • Author(s)
      *Sakamoto A, Tsukamoto T, Furutani Y, Sudo Y, Shimada K, Tomita A, Kiyoi H, Kato T, Funatsu T.
    • Journal Title

      J. Mol. Cell Biol.

      Volume: 8 Issue: 6 Pages: 553-555

    • DOI

      10.1093/jmcb/mjw027

    • Related Report
      2016 Annual Research Report
    • Peer Reviewed / Open Access
  • [Journal Article] X-ray crystallographic structure of thermophilic rhodopsin: implications for high thermal stability and optogenetic function2016

    • Author(s)
      Tsukamoto T, Mizutani K, Hasegawa T, Takahashi M, Honda N, Hashimoto N, Shimono K, Yamashita K, Yamamoto M, Miyauchi S, Takagi S, Hayashi S, Murata T, Sudo Y.
    • Journal Title

      J. Biol. Chem.

      Volume: in press Issue: 23 Pages: 12223-12232

    • DOI

      10.1074/jbc.m116.719815

    • Related Report
      2016 Annual Research Report 2015 Annual Research Report
    • Peer Reviewed / Open Access / Acknowledgement Compliant
  • [Journal Article] Functional and Photochemical Characterization of a Light-Driven Proton Pump from the Gammaproteobacterium Pantoea vagans.2016

    • Author(s)
      Sudo Y, Yoshizawa S.
    • Journal Title

      Photochem. Photobiol.

      Volume: in press Issue: 3 Pages: 420-427

    • DOI

      10.1111/php.12585

    • Related Report
      2016 Annual Research Report 2015 Annual Research Report
    • Peer Reviewed / Open Access
  • [Journal Article] オプトジェネティクス2016

    • Author(s)
      須藤雄気
    • Journal Title

      光と生命の事典

      Volume: 1 Pages: 372-373

    • Related Report
      2015 Annual Research Report
  • [Journal Article] Factors affecting the stability and performance of ionic liquid-based planar transient photodetectors2015

    • Author(s)
      *Dalgleish, S., Reissig, L., Hu, L., Matsushita, M.M., Sudo, Y., & *Awaga, K.
    • Journal Title

      Langmuir

      Volume: 印刷中 Issue: 18 Pages: 5235-5243

    • DOI

      10.1021/la504972q

    • Related Report
      2015 Annual Research Report
    • Peer Reviewed
  • [Journal Article] Atomistic design of microbial opsin-based blue-shifted optogenetics tools2015

    • Author(s)
      Kato HE, Kamiya M, Sugo S, Ito J, Taniguchi R, Orito A, Hirata K, Inutsuka A,Yamanaka A, Maturana AD, Ishitani R, Sudo Y, Hayashi S, Nureki O
    • Journal Title

      Nat Commun

      Volume: 6 Issue: 1 Pages: 7177-7177

    • DOI

      10.1038/ncomms8177

    • NAID

      120005745621

    • Related Report
      2015 Annual Research Report
    • Peer Reviewed / Open Access / Int'l Joint Research
  • [Journal Article] Structural and functional roles of the N- and C-terminal extended modules in channelrhodopsin-12015

    • Author(s)
      Doi S, Mori A, Tsukamoto T, Reissig L, Ihara K, Sudo Y.
    • Journal Title

      Photochem. Photobiol. Sci.

      Volume: 14 Issue: 9 Pages: 1628-1636

    • DOI

      10.1039/c5pp00213c

    • Related Report
      2015 Annual Research Report
    • Peer Reviewed
  • [Journal Article] Retinal Proteins in Thermophilic Bacteria2015

    • Author(s)
      塚本卓、須藤雄気
    • Journal Title

      Seibutsu Butsuri

      Volume: 55 Issue: 2 Pages: 092-094

    • DOI

      10.2142/biophys.55.092

    • NAID

      130005061232

    • ISSN
      0582-4052, 1347-4219
    • Related Report
      2015 Annual Research Report
    • Open Access
  • [Journal Article] Color tuning in retinylidene proteins2015

    • Author(s)
      Katayama K, Sekharan S, Sudo, Y.
    • Journal Title

      Optogenetics: Light-Sensing Proteins and Their Applications

      Volume: Chapter 7 Pages: 89-107

    • DOI

      10.1007/978-4-431-55516-2_7

    • ISBN
      9784431555155, 9784431555162
    • Related Report
      2015 Annual Research Report
    • Int'l Joint Research
  • [Journal Article] Microbial rhodopsins: wide distribution, rich diversity and great potential2015

    • Author(s)
      Kurihara M, Sudo Y.
    • Journal Title

      Biophysics and Physicobiology

      Volume: 12 Issue: 0 Pages: 121-129

    • DOI

      10.2142/biophysico.12.0_121

    • NAID

      130005131092

    • ISSN
      2189-4779
    • Related Report
      2015 Annual Research Report
    • Open Access
  • [Presentation] Microbial Rhodopsins with Rich Diversity & Great Potential2018

    • Author(s)
      Yuki Sudo
    • Organizer
      The 2nd Symposium of Chiral Molecular Science and Technology in Chiba University, Advanced Materials Science, Biology & Nanophotonics in Chiba
    • Related Report
      2017 Annual Research Report
    • Int'l Joint Research / Invited
  • [Presentation] Photoactive Retinal Proteins with wide Distribution, rich Diversity & great Potential2018

    • Author(s)
      Yuki Sudo
    • Organizer
      The 4th International Workshop on Chromogenic Materials and Devices
    • Related Report
      2017 Annual Research Report
    • Int'l Joint Research / Invited
  • [Presentation] 光刺激と生物応答から学ぶ生体 光操作ツールの開発2018

    • Author(s)
      須藤雄気
    • Organizer
      分子研研究会
    • Related Report
      2017 Annual Research Report
    • Invited
  • [Presentation] 光受容タンパク質ロドプシンの 機能多様性とそれに基づく生命機能の人工光操作2018

    • Author(s)
      須藤雄気
    • Organizer
      日本化学会・第98春季年会
    • Related Report
      2017 Annual Research Report
    • Invited
  • [Presentation] フォトケミカルバイオロジーツールとしてのレチナールタンパク質2017

    • Author(s)
      須藤雄気
    • Organizer
      第二回先端ケミカルバイオロジー研究会
    • Related Report
      2017 Annual Research Report
    • Invited
  • [Presentation] そうだ、光を、くすりにしよう2017

    • Author(s)
      須藤雄気
    • Organizer
      生化学若手の会 中四国支部 主催セミナー “オモロイ研究の極め方 2017夏”
    • Related Report
      2017 Annual Research Report
    • Invited
  • [Presentation] Diversity and Applicability of Microbial Rhodopsins2017

    • Author(s)
      Yuki Sudo
    • Organizer
      The 8th Asia and Oceania Conference for Photobiology (AOCP)
    • Related Report
      2017 Annual Research Report
    • Int'l Joint Research / Invited
  • [Presentation] Diversity of Microbial Rhodopsins and their Applicability for Optogenetics2017

    • Author(s)
      Yuki Sudo
    • Organizer
      The 39th Annual Meeting of the Japanese Society for Comparative Physiology and Biochemistry (JSCPB2017)
    • Related Report
      2017 Annual Research Report
    • Invited
  • [Presentation] レチナールタンパク質を基盤とした光遺伝学ツール開発2017

    • Author(s)
      須藤雄気
    • Organizer
      日本薬学会第137年会
    • Place of Presentation
      宮城県・仙台市
    • Related Report
      2016 Annual Research Report
    • Invited
  • [Presentation] 光受容レチナールタンパク質の 分子機能から考える オプトジェネティクス研究の10年後2016

    • Author(s)
      須藤雄気
    • Organizer
      2015年度 第2回バイオ単分子研究会
    • Place of Presentation
      いわき市
    • Year and Date
      2016-03-30
    • Related Report
      2015 Annual Research Report
    • Invited
  • [Presentation] Towards production of retinal protein-based optogenetic tools2016

    • Author(s)
      須藤雄気
    • Organizer
      第54回日本生物物理学会年会
    • Place of Presentation
      茨城県・つくば市
    • Related Report
      2016 Annual Research Report
    • Invited
  • [Presentation] Comparative study of the ion flux pathway in stator units of proton- and sodium-driven flagellar motors2016

    • Author(s)
      須藤雄気
    • Organizer
      第54回日本生物物理学会年会
    • Place of Presentation
      茨城県・つくば市
    • Related Report
      2016 Annual Research Report
    • Invited
  • [Presentation] 発色団に着目したロドプシンの機能変換による光操作ツールの開発2016

    • Author(s)
      須藤雄気
    • Organizer
      第8回光操作研究会
    • Place of Presentation
      東京都・港区
    • Related Report
      2016 Annual Research Report
    • Invited
  • [Presentation] 温泉微生物が持つ光受容レチナールタンパク質の機能・構造解析2016

    • Author(s)
      須藤雄気、塚本卓
    • Organizer
      第19回日本光生物学協会年会
    • Place of Presentation
      東京都・文京区
    • Related Report
      2016 Annual Research Report
    • Invited
  • [Presentation] 山あり谷ありの光受容ロドプシンタンパク質研究2016

    • Author(s)
      須藤雄気
    • Organizer
      金沢大学バイオAFM先端研究センターセミナー
    • Place of Presentation
      石川県・金沢市
    • Related Report
      2016 Annual Research Report
    • Invited
  • [Presentation] A rich diversity of microbial photoactive retinal proteins with a wide variety of biological functions2015

    • Author(s)
      Sudo Y.
    • Organizer
      The 7th Asia and Oceania Conference for Photobiology (AOCP)
    • Place of Presentation
      Taipei, Taiwan
    • Year and Date
      2015-11-18
    • Related Report
      2015 Annual Research Report
    • Int'l Joint Research / Invited
  • [Presentation] 微生物光受容レチナールタンパク質の多様性と可能性を探る2015

    • Author(s)
      須藤雄気
    • Organizer
      光化学討論会 光生物関係シンポジウム, 光・生物学:光を感じ、光で操る
    • Place of Presentation
      大阪市
    • Year and Date
      2015-09-09
    • Related Report
      2015 Annual Research Report
    • Invited
  • [Presentation] 光を薬へ!?:レチナールタンパク質を「知る」「変える」「役立てる」2015

    • Author(s)
      須藤雄気
    • Organizer
      第55回 生物物理学会若手の会 夏の学校
    • Place of Presentation
      琵琶湖
    • Year and Date
      2015-08-23
    • Related Report
      2015 Annual Research Report
    • Invited
  • [Presentation] 光があれば何でもできる!?レチナールタンパク質の分子機能と共役した生命機能の光操作2015

    • Author(s)
      須藤雄気
    • Organizer
      先端光科学若手研究会
    • Place of Presentation
      東京
    • Year and Date
      2015-06-14
    • Related Report
      2015 Annual Research Report
    • Invited
  • [Book] 光エネルギー変換の新常識! -光駆動2価多原子アニオン輸送体の発見とその分光特性-2017

    • Author(s)
      仁保亜希子、須藤雄気
    • Publisher
      academist Journal
    • Related Report
      2017 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
      2017 Annual Research Report 2016 Annual Research Report 2015 Annual Research Report

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Published: 2015-04-16   Modified: 2023-03-16  

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