東京大学物性研究所・井上研究室

原著論文

1. [Preprint] Apusomonad Rhodopsins, a New Family of Ultraviolet to Blue Light Absorbing Rhodopsin Channels
   Luis Javier Galindo†,*, Shunki Takaramoto†, Takashi Nagata†, Andrey Rozenberg†, Hiroto Takahashi, Oded Béjà, Keiichi Inoue*. (2025) bioRxiv, 2025.04.02.646541.
   DOI: 10.1101/2025.04.02.646541
2. Weak Organic Acid Effect of Bacterial Light-Driven Proton-Pumping Rhodopsin
   Zikun Lyu, Shunki Takaramoto, Keiichi Inoue*. (2025) The Journal of Physical Chemistry B, 129, Issue 12, pp 3198-3206.
   DOI: 10.1021/acs.jpcb.4c06891
3. Chemical-state Imaging of a Mammalian Cell through Multi-elemental Soft X-ray Spectro-ptychography
   Kai Sakurai*, Yoko Takeo, Shunki Takaramoto, Noboru Furuya, Kyota Yoshinaga, Takenori Shimamura, Jordan T. O’Neal, Yu Nakata, Satoru Egawa, Kazuyoshi Yoshimi, Haruhiko Ohashi, Hidekazu Mimura, Yoshihisa Harada, Keiichi Inoue, Mari Shimura, Takashi Kimura. (2025) Applied Physics Letters,126, Issue 4, 043702.
   DOI: 10.1063/5.0237804
4. [Preprint] Spin Polarization Driven by Molecular Vibrations Leads to Enantioselectivity in Chiral Molecules
   Shinji Miwa*, Tatsuya Yamamoto, Takashi Nagata, Shoya Sakamoto, Kenta Kimura, Masanobu Shiga, Weiguang Gao, Hiroshi M. Yamamoto, Keiichi Inoue, Taishi Takenobu, Takayuki Nozaki, Tatsuhiko Ohto* . (2024) arXiv,2024.11.08.622755.
   DOI: 10.48550/arXiv.2412.03082
5. Archaerhodopsin 3 is an Ideal Template for the Engineering of Highly Fluorescent Optogenetic Reporters
   Krystyna Herasymenko, Danushka Walisinghe, Masae Konno, Leonardo Barneschi, Isabelle de Waele, Michel Sliwa, Keiichi Inoue*, Massimo Olivucci*, Stefan Haacke*.(2024) Chemical Science, 16, Issue 2, pp 761-774.
   DOI: 10.1039/D4SC05120C
6. [Preprint] Carotenoid Pigments Enhance Rhodopsin-Mediated Phototrophy by Light-Harvesting and Photocycle-Accelerating
   Takayoshi Fujiwara, Toshiaki Hosaka, Masumi Hasegawa-Takano, Yosuke Nishimura, Kento Tominaga, Kaho Mori, Satoshi Nishino, Yuno Takahashi, Tomomi Uchikubo-Kamo, Kazuharu Hanada, Takashi Maoka, Shinichi Takaichi, Keiichi Inoue*, Mikako Shirouzu*, Susumu Yoshizawa*.(2024, November 9) bioRxiv,2024.11.08.622755.
   DOI: 10.1101/2024.11.08.622755
7. HulaCCR1, a Pump-Like Cation Channelrhodopsin Discovered in a Lake Microbiome
   Shunki Takaramoto, Shai Fainsod, Takashi Nagata, Andrey Rozenberg, Oded Béjà, Keiichi Inoue*. (2024) Journal of Molecular Biology, 436, issue 23, 168844
   DOI: 10.1016/j.jmb.2024.168844
8. Light-driven Anion-Pumping Rhodopsin with Unique Cytoplasmic Anion-release Mechanism
   Tomohiro Ishizuka, Kano Suzuki, Masae Konno, Keisei Shibata, Yuma Kawasaki, Hidefumi Akiyama, Takeshi Murata*, Keiichi Inoue*. (2024) Journal of Biological Chemistry, 300, issue 10, 107797
   DOI: 10.1016/j.jbc.2024.1077972
9. [Preprint] Light-harvesting by Antenna-containing Rhodopsins in Pelagic Asgard Archaea
   Gali Tzlil, María del Carmen Marín, Yuma Matsuzaki, Probal Nag, Shota Itakura, Yosuke Mizuno, Shunya Murakoshi, Tatsuki Tanaka, Shirley Larom, Masae Konno, Rei Abe-Yoshizumi, Ana Molina-Márquez, Daniela Bárcenas-Pérez, José Cheel , Michal Koblížek, Rosa León, Kota Katayama, Hideki Kandori, Igor Schapiro, Wataru Shihoya*, Osamu Nureki*, Keiichi Inoue*, Andrey Rozenberg*, Ariel Chazan*, Oded Béjà*. (2024) bioRxiv,2024.09.18.613612
   DOI: 10.1101/2024.09.18.613612
10. Gilbert Damping of NiFe Thin Films Grown on Two-Dimensional Chiral Hybrid Lead-Iodide Perovskites
    Tempei Hatajiri, Shoya Sakamoto*, Hidetoshi Kosaki, Zikang Tian, Miuko Tanaka, Toshiya Ideue, Keiichi Inoue, Daigo Miyajima, Shinji Miwa*. (2024) Physical Review B, 10, issue 5, 054435
    DOI: 10.1103/PhysRevB.110.054435
11. Hydrogen-Bonding and Hydrophobic Interaction Networks as Structural Determinants of Microbial Rhodopsin Function
    Éva Bertalan†, Masae Konno†, María del Carmen Marín, Reza Bagherzadeh, Takashi Nagata, Leonid Brown, Keiichi Inoue*, Ana-Nicoleta Bondar*. (2024) The Journal of Physical Chemistry B, 128, issue 30, pp 7407-7426
    DOI: 10.1021/acs.jpcb.4c02946
12. Molecular Mechanisms behind Circular Dichroism Spectral Variations between Channelrhodopsin and Heliorhodopsin Dimers
    Kazuhiro J. Fujimoto*, Yuta A. Tsuzuki, Keiichi Inoue, Takeshi Yanai*. (2024) The Journal of Physical Chemistry Letters, 15, issue 21, pp 5788-5794
    DOI: 10.1021/acs.jpclett.4c00879
13. Chromophore–Protein Interactions Affecting the Polyene Twist and π–π* Energy Gap of the Retinal Chromophore in Schizorhodopsins
    Taito Urui, Tomomi Shionoya, Misao Mizuno, Keiichi Inoue, Hideki Kandori, Yasuhisa Mizutani*. (2024) The Journal of Physical Chemistry B, 128, issue 10, pp 2389-2397
    doi: 10.1021/acs.jpcb.3c07510
14. Cis–Trans Reisomerization Preceding Reprotonation of the Retinal Chromophore is Common to the Schizorhodopsin Family: A Simple and Rational Mechanism for Inward Proton Pumping
    Taito Urui, Kouhei Hayashi, Misao Mizuno, Keiichi Inoue, Hideki Kandori, Yasuhisa Mizutani*. (2023) The Journal of Physical Chemistry B, 128, issue 3, pp 744-754
    doi: 10.1021/acs.jpcb.3c07510
15. Functional Characterization of Four Opsins and Two G Alpha Subtypes Co-Expressed in the Molluscan Rhabdomeric Photoreceptor
    Ryota Matsuo*, Mitsumasa Koyanagi, Tomohiro Sugihara, Taishi Shirata, Takashi Nagata, Keiichi Inoue, Yuko Matsuo, Akihisa Terakita*. (2023) BMC Biology, 21, issue 1, Article number: 291
    doi: 10.1186/s12915-023-01789-7
16. Multiple Roles of a Conserved Glutamate Residue for Unique Biophysical Properties in a New Group of Microbial Rhodopsins Homologous to TAT Rhodopsin
    Kentaro Mannen, Takashi Nagata, Andrey Rozenberg, Masae Konno, María del Carmen Marín, Reza Bagherzadeh, Oded Béjà, Takayuki Uchihashi, Keiichi Inoue*. (2023) Journal of Molecular Biology, 20, issue 5, Article number: 168331
    doi: 10.1016/j.jmb.2023.168331
17. Structural Basis for Color Tuning and Ion Selectivity in Potassium-Selective Channelrhodopsins
    Seiya Tajima, Yoon Seok Kim, Masahiro Fukuda, YoungJu Jo, Peter Y. Wang, Joseph M. Paggi, Eamon F.X. Byrne, Koichiro E. Kishi, Seiwa Nakamura, Charu Ramakrishnan, Syunki Takaramoto, Takashi Nagata, Masae Konno, Masahiro Sugiura, Kota Katayama, Toshiki E. Matsui, Keitaro Yamashita, Suhyang Kim, Hisako Ikeda, Masatoshi Inoue, Hideki Kandori, Ron O. Dror, Keiichi Inoue, Karl Deisseroth*, Hideaki E. Kato*. (2023) Cell, 186, issue 20, pp 4325-4344
    doi: 10.1016/j.cell.2023.08.009
    
    【新聞報道】
    東京大学新聞「光によるカリウムイオン輸送の仕組み解明」
18. Effects of the Unique Chromophore–Protein Interactions on the Primary Photoreaction of Schizorhodopsin
    Chun-Fu Chang, Masae Konno, Keiichi Inoue*, and Tahei Tahara*. (2023) The Journal of Physical Chemistry Letters, 14, issue 31, pp 7083-7091
    doi: 10.1021/acs.jpclett.3c01133
19. Converting a Natural-Light-Driven Outward Proton Pump Rhodopsin into an Artificial Inward Proton Pump
    María del Carmen Marín, Masae Konno, Hiromu Yawo, Keiichi Inoue*. (2023) Journal of the American Chemical Society, 145, issue 20, pp 10938-10942
    doi: 10.1021/acs.biochem.3c00084
20. Twisting and Protonation of Retinal Chromophore Regulate Channel Gating of Channelrhodopsin C1C2
    Keisei Shibata, Kazumasa Oda, Tomohiro Nishizawa, Yuji Hazama, Ryohei Ono, Shunki Takaramoto, Reza Bagherzadeh, Hiromu Yawo, Osamu Nureki, Keiichi Inoue*, Hidefumi Akiyama*. (2023) Journal of the American Chemical Society, 145, issue 19, pp 10779-10789
    doi: 10.1021/jacs.3c01879
21. Time-Resolved Detection of Light-induced Conformational Changes of Heliorhodopsin
    Yusuke Nakasone, Yuma Kawasaki, Masae Konno, Keiichi Inoue, Masahide Terazima*. (2023) Physical Chemistry Chemical Physics, 25, issue 18, pp 12833-12840
    doi: 10.1039/D3CP00711A
22. Reversible Photoreaction of a Retinal Photoisomerase, Retinal G-Protein-Coupled Receptor RGR
    Naoya Morimoto†, Takashi Nagata†, Keiichi Inoue*. (2023) Biochemistry, 62, issue 9, pp 1429-1432
    doi: 10.1021/acs.biochem.3c00084 (†: Equally contributed)
23. Difference FTIR Spectroscopy of Jumping Spider Rhodopsin‑1 at 77 K
    Shunpei Hanai, Takashi Nagata, Kota Katayama, Shino Inukai, Mitsumasa Koyanagi, Keiichi Inoue, Akihisa Terakita, and Hideki Kandori*. (2023) Biochemistry, 62, issue 8, pp 1347-1359
    doi: 10.1021/acs.biochem.3c00022
24. Biophysical Characterization of Microbial Rhodopsins with DSE Motif
    María del Carmen Marín†, Alexander L. Jaffe†, Patrick T. West, Masae Konno†, Jillian F. Banfield*, Keiichi Inoue*. (2023) Biophysics and Physicobiology, 20, Special Issue, Article number: e201023
    doi: 10.2142/biophysico.bppb-v20.s023 (†: Equally contributed)
25. Characterization of Retinal Chromophore and Protonated Schiff Base in Thermoplasmatales Archaeon Heliorhodopsin Using Solid-State NMR Spectroscopy
    Shibuki Suzuki†, Sari Kumagai†, Toshio Nagashima, Toshio Yamazaki, Takashi Okitsu, Akimori Wada, Akira Naito, Kota Katayama, Keiichi Inoue, Hideki Kandori, Izuru Kawamura*. (2023) Biophysical Chemistry, 296, Article number: 106991
    doi: 10.1016/j.bpc.2023.106991 (†: Equally contributed)
26. Phototrophy by Antenna-Containing Rhodopsin Pumps in Aquatic Environments
    Ariel Chazan†, Ishita Das†, Takayoshi Fujiwara†, Shunya Murakoshi†, Andrey Rozenberg, Ana Molina-Marquez, Fumiya K. Sano, Tatsuki Tanaka, Patricia Gomez-Villegas, Shirley Larom, Alina Pushkarev, Partha Malakar, Masumi Hasegawa, Yuya Tsukamoto, Tomohiro Ishizuka, Masae Konno, Takashi Nagata, Yosuke Mizuno, Kota Katayama, Rei Abe-Yoshizumi, Sanford Ruhman, Keiichi Inoue, Hideki Kandori, Rosa M. Leon, Wataru Shihoya*, Susumu Yoshizawa*, Mordechai Sheves*, Osamu Nureki*, and Oded Béjà*. (2023) Nature, 615, issue 7952, pp 535-540
    doi: 10.1038/s41586-023-05774-6 (†: Equally contributed)
27. Protein Dynamics of a Light-Driven Na⁺ Pump Rhodopsin Probed Using a Tryptophan Residue Near the Retinal Chromophore
    Akihiro Otomo, Misao Mizuno, Keiichi Inoue, Hideki Kandori, Yasuhisa Mizutani*. (2023) Biophysics and Physicobiology, 20, Special Issue, Article number: e201016
    doi: 10.2142/biophysico.bppb-v20.s016
28. Kinetic Study on The Molecular Mechanism of Light-driven Inward Proton Transport by Schizorhodopsins
    Yuma Kawasaki, Masae Konno, Keiichi Inoue*. (2022) Biochimica et Biophysica Acta (BBA) - Biomembranes, 1864, issue 11, Article number: 184016
    doi: 10.1016/j.bbamem.2022.184016
29. Rhodopsin-bestrophin Fusion Proteins from Unicellular Algae form Gigantic Pentameric Ion Channels
    Andrey Rozenberg†, Igor Kaczmarczyk†, Donna Matzov†, Johannes Vierock†, Takashi Nagata, Masahiro Sugiura, Kota Katayama, Yuma Kawasaki, Masae Konno, Yujiro Nagasaka, Mako Aoyama, Ishita Das, Efrat Pahima, Jonathan Church, Suliman Adam, Veniamin A. Borin, Ariel Chazan, Sandra Augustin, Jonas Wietek, Julien Dine, Yoav Peleg, Akira Kawanabe, Yuichiro Fujiwara, Ofer Yizhar, Mordechai Sheves, Igor Schapiro, Yuji Furutani, Hideki Kandori, Keiichi Inoue, Peter Hegemann, Oded Béjà*, Moran Shalev-Benami*. (2022) Nature Structural & Molecular Biology, 29, issue 6, pp 592-603
    doi: 10.1038/s41594-022-00783-x (†: Equally contributed)
30. Saccharibacteria Harness Light Energy Using Type-1 Rhodopsins That May Rely on Retinal Sourced from Microbial Hosts
    Alexander L. Jaffe†, Masae Konno†, Yuma Kawasaki, Chihiro Kataoka, Oded Béjà, Hideki Kandori, Keiichi Inoue*, Jillian F. Banfield*. (2022) The ISME Journal, 16, issue 3, pp 2056-2059
    doi: 10.1038/s41396-022-01231-w (†: Equally contributed)
31. Structural Characterization of Proton-pumping Rhodopsin Lacking a Cytoplasmic Proton Donor Residue by X-ray Crystallography
    Kano Suzuki†, María del Carmen Marín†, Masae Konno†, Reza Bagherzadeh, Takeshi Murata*, Keiichi Inoue*. (2022) Journal of Biological Chemistry, 298, No. 8, pp 101722
    doi: 10.1016/j.jbc.2022.101722 (†: Equally contributed)
32. Structural Basis for Channel Conduction in the Pump-like Channelrhodopsin ChRmine
    Koichiro E. Kishi†, Yoon Seok Kim†, Masahiro Fukuda†, Masatoshi Inoue†, Tsukasa Kusakizako†, Peter Y. Wang†, Charu Ramakrishnan, Eamon F.X. Byrne, Elina Thadhani, Joseph M. Paggi, Toshiki E. Matsui, Keitaro Yamashita, Takashi Nagata, Masae Konno, Sean Quirin, Maisie Lo, Tyler Benster, Tomoko Uemura, Kehong Liu, Mikihiro Shibata, Norimichi Nomura, So Iwata, Osamu Nureki, Ron O. Dror, Keiichi Inoue, Karl Deisseroth*, Hideaki E. Kato*. (2022) Cell, 185, issue 4, pp 672-689.e23
    doi: 10.1016/j.cell.2022.01.007 (†: Equally contributed)
33. Diverse Heliorhodopsins Detected via Functional Metagenomics in Freshwater Actinobacteria, Chloroflexi and Archaea
    Ariel Chazan†, Andrey Rozenberg†, Kentaro Mannen, Takashi Nagata, Ran Tahan, Shir Yaish, Shirley Larom, Keiichi Inoue, Oded Béjà, Alina Pushkarev*. (2022) Environmental Microbiology, 24, issue 1, pp 110-121
    doi: 10.1111/1462-2920.15890 (†: Equally contributed)
34. Heliorhodopsin Evolution Is Driven by Photosensory Promiscuity in Monoderms
    Paul-Adrian Bulzu, Vinicius Silva Kavagutti, Maria-Cecilia Chiriac, Charlotte D. Vavourakis, Keiichi Inoue, Hideki Kandori, Adrian-Stefan Andrei, Rohit Ghai*. (2021) mSphere, 6, Article number: e00661-21
    doi: 10.1128/mSphere.00661-21
35. Pro219 is an Electrostatic Color Determinant in the Light-driven Sodium Pump KR2
    Yuta Nakajima†, Laura Pedraza-González†, Leonardo Barneschi, Keiichi Inoue, Massimo Olivucci*, Hideki Kandori*. (2021) Communications Biology, 4, Article number: 1185
    doi: 10.1038/s42003-021-02684-z (†: Equally contributed)
36. Thermostable Light-Driven Inward Proton Pump Rhodopsins
    Yuma Kawasaki, Masae Konno, Keiichi Inoue*. (2021) Chemical Physics Letters, 779, Article number: 138868
    doi: 10.1016/j.cplett.2021.138868
    
37. Crystal Structure of Schizorhodopsin Reveals Mechanism of Inward Proton Pumping
    Akimitsu Higuchi, Wataru Shihoya, Masae Konno, Tatsuya Ikuta, Hideki Kandori, Keiichi Inoue*, Osamu Nureki*. (2021) Proceedings of the National Academy of Sciences of the United States of America, 118, issue 14, Article number: e2016328118
    doi: 10.1073/pnas.2016328118
    Press release
    
38. Exploration of Natural Red-shifted Rhodopsins Using a Machine Learning-based Bayesian Experimental Design
    Keiichi Inoue*, Masayuki Karasuyama, Ryoko Nakamura, Masae Konno, Daichi Yamada, Kentaro Mannen, Takashi Nagata, Yu Inatsu, Hiromu Yawo, Kei Yura, Oded Béjà, Hideki Kandori, Ichiro Takeuchi*. (2021) Communications Biology, 4, Article number: 362
    doi: 10.1038/s42003-021-01878-9
39. TAT Rhodopsin is an Ultraviolet-Dependent Environmental pH Sensor
    Chihiro Kataoka, Teppei Sugimoto, Shunta Shigemura, Kota Katayama, Satoshi P. Tsunoda, Keiichi Inoue, Oded Béjà, Hideki Kandori*. (2021) Biochemistry, in press
    doi: 10.1021/acs.biochem.0c00951
40. Active Learning for Level Set Estimation under Input Uncertainty and Its Extensions
    Yu Inatsu, Masayuki Karasuyama, Keiichi Inoue, Ichiro Takeuchi*. (2020) Neural Computation, 32, issue 12, pp 2486-2531
    doi: 10.1162/neco_a_01332
41. Active Learning of Bayesian Linear Models with High-Dimensional Binary Features by Parameter Confidence-Region Estimation
    Yu Inatsu, Masayuki Karasuyama, Keiichi Inoue, Hideki Kandori, Ichiro Takeuchi*. (2020) Neural Computation, 32, issue 10, pp 1998-2031
    doi: 10.1162/neco_a_01310
42. Excitonic Coupling Effect on the Circular Dichroism Spectrum of Sodium-pumping Rhodopsin KR2
    Kazuhiro J. Fujimoto*, Keiichi Inoue. (2020) Journal of Chemical Physics, 153, Article number: 045101
    doi: 10.1063/5.0013642
43. Gate-keeper of Ion Transport ―A Highly Conserved Helix-3 Tryptophan in A Channelrhodopsin Chimera, C1C2/ChRWR
    Yujiro Nagasaka†, Shoko Hososhima†, Naoko Kubo, Takashi Nagata, Hideki Kandori, Keiichi Inoue and Hiromu Yawo*. (2020) Biophysics and physicobiology (BPPB), 17, pp 59-70
    doi: 10.2142/biophysico.BSJ-2020007 (†: Equally contributed)
44. Schizorhodopsins: A Family of Rhodopsins from Asgard Archaea that Function as Light-driven Inward H⁺ Pumps
    Keiichi Inoue*, Satoshi P. Tsunoda, Manish Singh, Sahoko Tomida, Shoko Hososhima, Masae Konno, Ryoko Nakamura, Hiroki Watanabe, Paul-Adrian Bulzu, Horia L. Banciu, Adrian-Ştefan Andrei, Takayuki Uchihashi, Rohit Ghai, Oded Béjà, Hideki Kandori*. (2020) Science Advances, 6, No. 15, Article number: eaaz2441
    doi: 10.1126/sciadv.aaz2441
45. Infrared Spectroscopic Analysis on Structural Changes around the Protonated Schiff base upon Retinal Isomerization in Light-driven Sodium Pump KR2
    Sahoko Tomida, Shota Ito, Tomoya Mato, Yuji Furutani, Keiichi Inoue, Hideki Kandori*. (2020) Biochimica et Biophysica Acta (BBA) - Bioenergetics, 1861, issue 7, Article number: 148190
    doi: 10.1016/j.bbabio.2020.148190
46. Physical Disuse Contributes to Widespread Chronic Mechanical Hyperalgesia, Tactile Allodynia, and Cold Allodynia through Neurogenic Inflammation and Spino-Parabrachio-Amygdaloid Pathway Activation
    Yusuke Ohmichi†,*, Mika Ohmichi†, Ryoichi Tashima, Koji Osuka, Kaori, Fukushige, Dominika Kanikowska, Yugo Fukazawa, Hiromu Yawo, Makoto Tsuda, Munekazu Naito, Takashi Nakano. (2020) Pain, 161, issue 8, pp 1808-1823
    doi: 10.1097/j.pain.0000000000001867. (†: Equally contributed)
47. Allosteric Communication to the Retinal Chromophore upon Ion Binding in a Light-driven Sodium Ion Pumping Rhodopsin
    Akihiro Otomo, Misao Mizuno, Keiichi Inoue, Hideki Kandori, Yasuhisa Mizutani*. (2020) Biochemistry, 59, issue 4, pp 520-529
    doi: 10.1021/acs.biochem.9b01062
48. Optogenetic Analysis of Respiratory Neuronal Networks in The Ventral Medulla of Neonatal Rats Producing Channelrhodopsin in Phox2b-Positive Cells
    Keiko Ikeda, Hiroyuki Igarashi, Hiromu Yawo, Kazuto Kobayashi, Satoru Arata, Kiyoshi Kawakami, Masahiko Izumizaki, Hiroshi Onimaru. (2019) Pflügers Arch, 471, issue 11-12, pp 1419-1439
    doi: 10.1007/s00424-019-02317-9
49. Crystal Structure of Heliorhodopsin
    Wataru Shihoya, Keiichi Inoue, Manish Singh, Masae Konno, Shoko Hososhima, Keitaro Yamashita, Kento Ikeda, Akimitsu Higuchi, Tamaki Izume, Sae Okazaki, Masanori Hashimoto, Ritsu Mizutori, Sahoko Tomida, Yumeka Yamauchi, Rei Abe-Yoshizumi, Kota Katayama, Satoshi P. Tsunoda, Mikihiro Shibata, Yuji Furutani, Alina Pushkarev, Oded Béjà, Takayuki Uchihashi, Hideki Kandori*, Osamu Nureki*. (2019) Nature, 574, issue 7776, pp 132-136
    doi: 10.1038/s41586-019-1604-6
50. Unique Photochemistry Observed in a New Microbial Rhodopsin
    Chihiro Kataoka, Keiichi Inoue, Kota Katayama, Oded Béjà, Hideki Kandori*. (2019) The Journal of Physical Chemistry Letters, 10, pp 5117-5121
    doi: 10.1021/acs.jpclett.9b01957
51. X-ray Crystallographic Structure and Oligomerization of Gloeobacter Rhodopsin
    Takefumi Morizumi†, Wei-Lin Ou†, Ned Van Eps, Keiichi Inoue, Hideki Kandori, Leonid S. Brown, Oliver P. Ernst*. (2019) Scientific Reports, 9, Article number: 11283
    doi: 10.1038/s41598-019-47445-5 (†: Equally contributed)
52. Engineered Functional Recovery of Microbial Rhodopsin without Retinal-Binding Lysine
    Yumeka Yamauchi, Masae Konno, Daichi Yamada, Kei Yura, Keiichi Inoue, Oded Béjà, Hideki Kandori*. (2019) Photochemistry and Photobiology, 95, pp 1116-1121
    doi: 10.1111/php.13114
53. Red-shifting Mutation of Light-driven Sodium Pump Rhodopsin
    Keiichi Inoue, María del Carmen Marín, Sahoko Tomida, Ryoko Nakamura, Yuta Nakajima, Massimo Olivucci, Hideki Kandori*. (2019) Nature Communications, 10, Article number: 1993
    doi: 10.1038/s41467-019-10000-x
54. Casting Light on Asgardarchaeota Metabolism in a Sunlit Microoxic Niche
    Paul-Adrian Bulzu†, Adrian-Ştefan Andrei†, Michaela M. Salcher, Maliheh Mehrshad, Keiichi Inoue, Hideki Kandori, Oded Béjà, Rohit Ghai*, Horia L. Banciu. (2019) Nature Microbiology, 4, issue 7, pp 1129-1137
    doi: 10.1038/s41564-019-0404-y (†: Equally contributed)
55. Ultrafast Dynamics of Heliorhodopsins
    Shinya Tahara, Manish Singh, Hikaru Kuramochi, Wataru Shihoya, Keiichi Inoue, Osamu Nureki, Oded Béjà, Yasuhisa Mizutani, Hideki Kandori, Tahei Tahara*. (2019) The Journal of Physical Chemistry B, 123, issue 11, pp 2507-2512
    doi: 10.1021/acs.jpcb.9b00887
56. Heliorhodopsins are Absent in Diderm (Gram-negative) Bacteria: Some Thoughts and Possible Implications for Activity
    José Flores-Uribe†, Gur Hevroni†, Rohit Ghai, Alina Pushkarev, Keiichi Inoue, Hideki Kandori, Oded Béjà*. (2019) Environmental Microbiology Reports, 11, issue 3, pp 419-424
    doi: 10.1111/1758-2229.12730 (†: Equally contributed)
57. Resonance Raman Investigation of the Chromophore Structure of Heliorhodopsins
    Akihiro Otomo, Misao Mizuno, Manish Singh, Wataru Shihoya, Keiichi Inoue, Osamu Nureki, Oded Béjà, Hideki Kandori, Yasuhisa Mizutani*. (2018) The Journal of Physical Chemistry Letters, 9, issue 22, pp 6431-6436
    doi: 10.1021/acs.jpclett.8b02741
58. Understanding Colour Tuning Rules and Predicting Absorption Wavelengths of Microbial Rhodopsins by Data-Driven Machine-Learning Approach
    Masayuki Karasuyama†, Keiichi Inoue†, Ryoko Nakamura, Hideki Kandori*, Ichiro Takeuchi*. (2018) Scientific Reports, 8, Article number:15580
    doi: 10.1038/s41598-018-33984-w (†: Equally contributed)

総説論文

1. Photochemistry of the Retinal Chromophore in Microbial Rhodopsins
   Keiichi Inoue*. (2023) The Journal of Physical Chemistry B, 127, pp 9215-9222
   doi: 10.1021/acs.jpcb.3c05467
2. Rhodopsins at a Glance
   Takashi Nagata*, Keiichi Inoue*. (2021) Journal of Cell Science, 134, Article number: jcs258989
   doi: 10.1242/jcs.258989
3. Microbial Rhodopsins: The Last Two Decades
   Andrey Rozenberg†, Keiichi Inoue†, Hideki Kandori, Oded Béjà. (2021) Annual Review of Microbiology, 75, Published on the web
   doi: 10.1146/annurev-micro-031721-020452 (†: Equally contributed)

著書

1. ロドプシンを用いた光受容と新奇シゾロドプシンファミリー
   井上 圭一 (2023) 未培養微生物研究の最新動向 (青柳秀紀 修) pp 74-81 (シーエムシー出版)
   ISBN: 978-4-7813-1732-8
2. ロドプシンが拓くタンパク質科学の地平
   井上 圭一 (2021) 未来探究2050 東大30人の知性が読み解く世界 (東京大学未来ビジョン研究センター 編集) pp 74-83 (日本経済新聞出版)
   ISBN: 978-4-532-35878-5
3. Diversity, Mechanism, and Optogenetic Application of Light-Driven Ion Pump Rhodopsins
   Keiichi Inoue* (2021) in Optogenetics − Light-Sensing Proteins and Their Applications in Neuroscience and Beyond (eds. Hiromu Yawo, Hideki Kandori, Amane Koizumi, Ryoichiro Kageyama) pp 89-126 (Springer Nature)
   doi: 10.1007/978-981-15-8763-4_6
4. Application of Optogenetics for Muscle Cells and Stem Cells
   Toshifumi Asano, Daniel Boon Loong Teh, Hiromu Yawo* (2021) in Optogenetics − Light-Sensing Proteins and Their Applications in Neuroscience and Beyond (eds. Hiromu Yawo, Hideki Kandori, Amane Koizumi, Ryoichiro Kageyama) pp 359-375 (Springer Nature)
   doi: 10.1007/978-981-15-8763-4_23

プロトコル論文

1. Ion transport assay of SzRs in E. coli cells
   Masae Konno, Keiichi Inoue*, Hideki Kandori*. (2021) Bio-protocol, bio-protocol.org/prep800
   

解説記事

1. 磁場による生体操作：Magnetogeneticsへの挑戦
   寳本 俊輝、八尾 寛、井上 圭一 (2024) 日本磁気学会　第249回研究会資料, pp 19-22
2. ゲノム時代に変わりゆくロドプシン観
   井上 圭一 (2023) 酵素工学ニュース・「トピックス」 , 第90号, pp 6-12
3. Iron-limitation Light Switch
   Oded Béjà, Keiichi Inoue* (2023) Nature Microbiology, 295, issue 11, pp 1942-1943
   doi: 10.1038/s41564-023-01491-y
4. アスガルドアーキアの持つ内向きプロトンポンプ型ロドプシン：シゾロドプシン
   井上 圭一 、今野 雅恵 、川﨑 佑真 、María del Carmen Marín (2023) 日本生物物理学会誌・「総説」 , 第63巻, 第5号, pp 257-260
   doi: 10.2142/biophys.63.257
5. アスガルドアーキアの持つ光受容膜タンパク質ロドプシン
   井上 圭一 (2022) 極限環境生物学会誌・「ミニレヴュー」 , 第21巻, 第1号, pp 13-23
6. ロドプシンを用いたオプトジェネティクスの最前線
   井上 圭一 (2022) 生物工学会誌　創立100周年特別企画～バイオテクノロジーが拓く未来社会～　特集　「光」がもたらす生物学の新たな革新（後編）～光操作～, 第100巻, 第8号, pp 420-424
7. 特集によせて　―Mehr Licht!―
   井上 圭一 (2022) 生物工学会誌　創立100周年特別企画～バイオテクノロジーが拓く未来社会～　特集　「光」がもたらす生物学の新たな革新（前編）～イメージング～, 第100巻, 第7号, pp 354
8. 第３のロドプシン：ヘリオロドプシン
   井上 圭一 (2021) 日本化学会誌　化学と工業「ディビジョン・トピックス」, 第74巻, 第4号, pp 307
9. 光駆動タンパク質ロドプシンの分子機能エンジニアリング
   井上 圭一 (2020) 生物工学会誌　生物工学「特集　ボトムアップ生物工学」, 第98巻, 第12号, pp 664-668
10. Shining Light on Rhodopsin Selectivity: How Do Proteins Decide Whether to Transport H⁺ or Cl^–?
    Keiichi Inoue* (2020) The Journal of Biological Chemistry, 295, issue 44, pp 14805-14806
    doi: 10.1074/jbc.H120.016032
11. A Series of Commentaries for A Symposium Entitled “Session 3SDA - Optogenetics: Applying Photoreceptor for Understanding Biological Phenomena”
    Satoshi P. Tsunoda*, Keiichi Inoue (2020) Biophysical Reviews, 12, issue 2, pp 295-296
    doi: 10.1007/s12551-020-00674-9
12. ラットを用いたオプトジェネティクス（光遺伝学）
    八尾 寛、深澤有吾、冨田浩史、五十嵐敬幸 (2020) 日本実験動物協会情報誌　LABIO 21, in press
13. 光で細胞を制御する―多様な微生物型ロドプシンとオプトジェネティクス―
    井上 圭一 (2020) 日本光学会誌　光学「光で細胞のはたらきを見る・操る」, 第49巻, 第1号, pp 2-7
14. ハエトリグモにおける視覚機能とオプシンの吸収波長特性の関係
    永田 崇、寺北 明久 (2019) 日本比較生理生化学会誌　比較生理生化学 総説, 第36巻, 第3号, pp 175-181
15. オプトジェネティクス触覚モデルによる異種感覚間可塑性の定量的解析
    阿部 健太、八尾 寛 (2019) 日本生物物理学会誌　生物物理誌「トピックス」, 第59巻, 第6号, pp 317-319
16. 微生物型ロドプシンのもたらす新たな生物と光の関係とその応用
    井上 圭一 (2019) 生物工学会誌　生物工学「バイオミディア」, 第97巻, 第10号, pp 616
17. 第３のロドプシン：ヘリオロドプシンの発見
    井上 圭一, 神取 秀樹 (2019) バイオサイエンスとインダストリー (B&I), 第77巻, 第1号, pp 42-43

受賞

1. 国際光生物学協会（IUPB） Finsen Lecture Award
   井上 圭一 2024年8月27日
2. IUPAB2024 Student and Early Career Researcher Poster Award
   「Exploration of the Diversity of Absorption Spectra in Vertebrate Retinal Photo-isomerase, RGR」
   Li Chunyangguang, Takashi Nagata, Naoya Morimoto, Keiichi Inoue 2024年6月29日
3. 第17回分子科学討論会優秀講演賞
   「レチナール発色団のねじれとプロトン化によるチャネルロドプシンC1C2のチャネル開閉制御」
   柴田桂成、小田和正、西澤知宏、挾間優治、小野稜平、寳本俊輝、Reza Bagherzadeh、八尾寛、濡木理、井上圭一、秋山英文 2023年10月23日
4. 第23回日本光生物学協会年会ポスター賞
   「レチナール発色団のねじれとプロトン化によるチャネルロドプシンC1C2のチャネル開閉メカニズム」
   柴田桂成、小田和正、西澤知宏、挾間優治、小野稜平、寳本俊輝、Reza Bagherzadeh、八尾寛、濡木理、井上圭一、秋山英文 2023年8月30日
5. 第6回日本光生物学協会奨励賞
   「クモのロドプシン類の分子生理学的研究に基づく動物の光受容の多様性」
   永田 崇 2022年8月10日
6. 第30回日本比較生理生化学会吉田奨励賞
   「クモ類の光受容タンパク質オプシンに基づく動物の光受容の多様性研究」
   永田 崇 2021年12月5日
7. 日本生体エネルギー研究会第46回討論会学生ポスター発表優秀賞
   「TATロドプシンのpK_aと多量体形成の制御における保存されたグルタミン酸の役割」
   ○萬年 健太郎、永田 崇、戸叶 貴也、内橋 貴之、Oded Béjà、井上 圭一 2020年12月15日
8. 第5回分子科学国際学術賞
   「微生物型ロドプシンの光機能発現メカニズムの研究」
   井上 圭一 2020年9月17日
9. 第2回晝馬輝夫光科学賞
   「新奇な微生物型ロドプシンの光機能およびその光反応メカニズム」
   井上 圭一 2020年3月5日
10. 第21回サー・マーティン・ウッド賞
    「光受容型膜タンパク質微生物型ロドプシンの生体機能発現メカニズム研究
    （The study on the mechanism of biological function of photoreceptive membrane protein, microbial rhodopsin）」
    井上 圭一 2019年11月23日
11. 第4回日本光生物学協会奨励賞
    「微生物型ロドプシンの機能・構造・メカニズム研究と新奇分子デザイン」
    井上 圭一 2018年8月9日