研究業績

原著論文

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, published on the web
doi: 10.2142/biophysico.bppb-v20.s023 (†: Equally contributed)
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)
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, published on the web
doi: 10.1038/s41586-023-05774-6 (†: Equally contributed)
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, published on the web
doi: 10.2142/biophysico.bppb-v20.s016
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
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)
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)
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)
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)
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)
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
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)
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
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
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
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
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
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
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
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)
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
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
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)
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
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
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
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
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)
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
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
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)
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
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)
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
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

Rhodopsins at a Glance
Takashi Nagata*, Keiichi Inoue*. (2021) Journal of Cell Science, 134, Article number: jcs258989
doi: 10.1242/jcs.258989
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

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, 2021)
doi: 10.1007/978-981-15-8763-4_6
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, 2021)
doi: 10.1007/978-981-15-8763-4_23

プロトコル論文

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

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
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
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
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
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
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
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
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
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
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
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
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
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

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
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
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
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
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
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
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