*corresponding author
†co-first author
2024
Hiroshi Nonaka, Seiji Sakamoto, Kazuki Shiraiwa, Mamoru Ishikawa, Tomonori Tamura, Kyohei Okuno, Takumi Kondo, Shigeki Kiyonaka, Etsuo A. Susaki, Chika Shimizu, Hiroki R Ueda, Wataru Kakegawa, Itaru Arai, Michisuke Yuzaki, Itaru Hamachi*. Bioorthogonal chemical labeling of endogenous neurotransmitter receptors in living mouse brains. Proceedings of the National Academy of Sciences USA, 121(6), e2313887121, 2024. LINK
Taiga Takahashi, Hong Zhang, Masakazu Agetsuma, Junichi Nabekura,, Kohei Otomo, Yosuke Okamura, and Tomomi Nemoto*. Large-scale cranial window for in vivo mouse brain imaging utilizing fluoropolymer nanosheet and light-curable resin. Communications Biology, 7(1), 232, 2024. LINK, プレスリリース.
Akira Leon Yoshikawa†, Takaki Omura†, Atsushi Takahashi-Kanemitsu, Etsuo A. Susaki*. Blueprints from plane to space: outlook of next-generation three-dimensional histopathology. Cancer Science, in press 2024. (Invited, *:equally contributed) LINK, PDF
Mitsutoshi Ataka, Kohei Otomo, Ryosuke Enoki, Hirokazu Ishii, Motosuke Tsutsumi, Yuichi Kozawa, Shunichi Sato, and Tomomi Nemoto*. Multibeam continuous axial scanning two-photon microscopy for in vivo volumetric imaging in mouse brain. Biomedical Optics Express, 15(2), 1089-1101, 2024. LINK
2023
Masanori Izumi*, Sakuya Nakamura, Kohei Otomo, Hiroyuki Ishida, Jun Hidema, Tomomi Nemoto, Shinya Hagihara. Autophagosome development and chloroplast segmentation occur synchronously for piecemeal degradation of chloroplasts. bioRxiv, 2023. LINK
Hirokazu Ishii, Kohei Otomo, Ching-Pu Chang, Miwako Yamasaki, Masahiko Watanabe, Hiroyuki Yokoyama, Tomomi Nemoto*. All-synchronized picosecond pulses and time-gated detection improve the spatial resolution of two-photon STED microscopy in brain tissue imaging. PLOS ONE, 18(8) e0290550, 2023. LINK, プレスリリース.
Ippei Kikuchi, Yusuke Iwashita, Atsushi Takahashi-Kanemitsu, Michinori Koebisu, Atsu Aiba, Masanori Hatakeyama*. Coevolution of the ileum with Brk/Ptk6 family kinases confers robustness to ileal homeostasis. Biochemical and Biophysical Research Communications, 676, 190-197, 2023. LINK
Atsushi Takahashi-Kanemitsu†, Mengxue Lu†, Christopher Takaya Knight, Takayoshi Yamamoto, Takuo Hayashi, Yusuke Mii, Takuya Ooki, Ippei Kikuchi, Akira Kikuchi, Nick Barker, Etsuo A. Susaki, Masanori Taira, Masanori Hatakeyama*. The Helicobacter pylori CagA oncoprotein disrupts Wnt/PCP signaling and promotes hyperproliferation of pyloric gland base cells. Science Signaling, 16 (794), eabp9020, 2023. LINK, COVER, プレスリリース,日経バイオテク, PressRelease, EurekAlert!, GEN, 生物通
Kohei Otomo, Takehisa Dewa, Michio Matsushita*, Satoru Fujiyoshi* Cryogenic Single-Molecule Fluorescence Detection of the Mid-Infrared Response of an Intrinsic Pigment in a Light-Harvesting Complex. The Journal of Physical Chemistry B, 2023. LINK
Kohei Otomo, Takaki Omura, Yuki Nozawa, Yuri Saito, Etsuo A Susaki*. descSPIM: Affordable and Easy-to-Build Light-Sheet Microscopy for Tissue Clearing Technique Users. bioRxiv, 2023. LINK
Kohei Otomo*, Hirokazu Ishii, Tomomi Nemoto. Improving two-photon excitation microscopy for sharper and faster biological imaging. Biophysics and Physicobiology, advance online publication, 2023. LINK
Avena Francisco Ramon†, Yuki Wada†, Hirokazu Ishii, Yuki Watakabe, Motosuke Tsutsumi, Kwangkyun Jang, Kohei Otomo, Lin Qiao, Yuki Fujii,Hirofumi Tsujino, Yasuo Tsutsumi, Tomomi Nemoto, Mitsuhiro Arisawa*. Absorption, fluorescence, and two-photon excitation ability of 5-phenyl-13-arylisoindolo[2,1-a]quinolines prepared by one-pot reaction of ring-closing metathesis and 1,3-dipolar cycloaddition. Dyes and Pigments, 212, 111118, 2023. LINK
2022
Kaori Suzuki†, Etsuo A Susaki, Isao Nagaoka. Lipopolysaccharides and cellular senescence: involvement in atherosclerosis. International Journal of Molecular Sciences, 23(19), 11148, 2022. LINK
Hiroyuki Obata, Kiyohito Naito, Ayaka Kikui, Shinji Nakamura, Kaori Suzuki, So Kawakita, Takamaru Suzuki, Kenji Goto, Nana Nagura, Yoichi Sugiyama, Isao Nagaoka, Muneaki Ishijima. Age-related differences for the nerve-specific protein expression after peripheral nerve injury. Experimental and Therapeutic Medicine, in press.
Sho Yamazaki, Keisuke Yamaguchi, Akimasa Someya, Isao Nagaoka, Masakazu Hayashida. Anti-Inflammatory Action of Dexmedetomidine on Human Microglial Cells. International Journal of Molecular Sciences, 23(17), 10096, 2022. LINK
Kamrunnesa Tahmina, Narumi Hikawa, Atsushi Takahashi-Kanemitsu, Christopher T. Knight, Kengo Sato, Fumiko Itoh, Masanori Hatakeyama. Transgenically expressed Helicobacter pylori CagA in vascular endothelial cells accelerates arteriosclerosis in mice. Biochemical and Biophysical Research Communications, 618, 79-85, 2022. LINK
Ching-Pu Chang†, Kohei Otomo†*, Yuichi Kozawa, Hirokazu Ishii, Miwako Yamasaki, Masahiko Watanabe, Shunichi Sato, Ryosuke Enoki & Tomomi Nemoto*. Single-scan volumetric imaging throughout thick tissue specimens by one-touch installable light-needle creating device, Scientific Reports, 12, 10468, 2022. LINK
Adam K. Glaser, Kevin W. Bishop, Lindsey A. Barner, Etsuo A. Susaki, Shimpei I. Kubota, Gan Gao, Robert B. Serafin, Pooja Balaram, Emily Turschak, Philip R. Nicovich, Hoyin Lai, Luciano A. G. Lucas, Yating Yi, Eva K. Nichols, Hongyi Huang, Nicholas P. Reder, Jasmine J. Wilson, Ramya Sivakumar, Elya Shamskhou, Caleb R. Stoltzfus, Xing Wei, Andrew K. Hempton, Marko Pende, Prayag Murawala, Hans-Ulrich Dodt, Takato Imaizumi, Jay Shendure, Brian J. Beliveau, Michael Y. Gerner, Li Xin, Hu Zhao, Lawrence D. True, R. Clay Reid, Jayaram Chandrashekar, Hiroki R. Ueda, Karel Svoboda & Jonathan T. C. Liu. A hybrid open-top light-sheet microscope for versatile multi-scale imaging of cleared tissues. Nature Methods, 19, 613-619 2022. LINK
Kaori Suzuki*, Mari Ohkuma, Akimasa Someya, Tomoya Mita, Isao Nagaoka. Cathelicidin peptide LL-37 induces cell death in autophagy-dysfunctional endothelial cells. Journal of Immunology, 280, 2163-2172, 2022. LINK
Lindsey A Barner, Adam K Glaser, Chenyi Mao, Etsuo A Susaki, Joshua C Vaughan, Suzanne M Dintzis, Jonathan T C Liu. Multiresolution nondestructive 3D pathology of whole lymph nodes for breast cancer staging. Journal of biomedical optics, 27, 036501, 2022. LINK
Koki Makino, Etsuo A Susaki, Motomu Endo, Hiroyuki Asanuma, Hiromu Kashida. Color-Changing Fluorescent Barcode Based on Strand Displacement Reaction Enables Simple Multiplexed Labeling. Journal of the American Chemical Society, 144, 1572-1579, 2022. LINK
Takafumi Kamada†, Kohei Otomo†*, Takashi Murata, Kaito Nakata, Shota Hiruma, Ryota Uehara, Mitsuyasu Hasebe, Tomomi Nemoto*. Low-invasive 5D visualization of mitotic progression by two-photon excitation spinning-disk confocal microscopy, Scientific Reports, 12, 809, 2022. LINK
Hirokazu Ishii†, Kohei Otomo†, Taiga Takahashi, Kazushi Yamaguchi, Tomomi Nemoto*. Focusing new light on brain functions: multiphoton microscopy for deep and super-resolution imaging, Neuroscience Research, 179, 24-30, 2022. LINK
Etsuo A. Susaki and Hiroki R. Ueda. Challenges and opportunities in hydrophilic tissue clearing methods. in “Handbook of Tissue Optical Clearing – New Prospects in Optical Imaging” Edited by Valery V. Tuchin, Dan Zhu, Elina A. Genina, Published by Routlage Taylor & Francis, 2022. ISBN: 9780367895099 LINK
2021
Kozue Sato, Yumi Kumagai, Tsuyoshi Sekizuka, Makoto Kuroda, Tetsuya Hayashi, Ai Takano, Gaowa, Kyle R. Taylor, Makoto Ohnishi, Hiroki Kawabata. Vitronectin binding protein, BOM1093, confers serum resistance on Borrelia miyamotoi, Scientific Reports, 11, 5462, 2021. LINK
Nuerbiyemu Mijiti, Akimasa Someya, Isao Nagaoka*. Effects of isoflavone derivatives on the production of inflammatory cytokines by synovial cells. Experimental and Therapeutic Medicine, 22, 1300-1300, 2021. LINK
Tomoyuki Mano, Ken Murata, Kazuhiro Kon, Chika Shimizu, Hiroaki Ono, Shoi Shi, Rikuhiro G. Yamada, Kazunari Miyamichi, Etsuo A. Susaki, Kazushige Touhara, Hiroki R. Ueda*. CUBIC-Cloud provides an integrative computational framework toward community-driven whole-mouse-brain mapping. Cell Reports Methods, 1, 100038-100038, 2021. LINK
Etsuo A Susaki*, Minoru Takasato. Perspective: Extending the Utility of Three-Dimensional Organoids by Tissue Clearing Technologies. Frontiers in Cell and Developmental Biology, 9, 679226, 2021. LINK
Taiga Takahashi, Hong Zhang, Kohei Otomo, Yosuke Okamura, Tomomi Nemoto*. Protocol for constructing an extensive cranial window utilizing a PEO-CYTOP nanosheet for in vivo wide-field imaging of the mouse brain. STAR Protocols, 2, 100542, 2021. LINK
Satoshi Imai, Takuya Ooki, Naoko Murata-Kamiya*, Daisuke Komura, Kamrunnesa Tahmina, Weida Wu, Atsushi Takahashi-Kanemitsu, Christopher T Knight, Akiko Kunita, Nobumi Suzuki, Adriana Del Valle, Mayo Tsuboi, Masahiro Hata, Yoku Hayakawa, Naomi Ohnishi, Koji Ueda, Masashi Fukayama, Tetsuo Ushiku, Shumpei Ishikawa, Masanori Hatakeyama*. Helicobacter pylori CagA elicits BRCAness to induce genome instability that may underlie bacterial gastric carcinogenesis. Cell Host & Microbe, 29, 1-18, 2021. LINK
Sho Hasegawa, Tsuyoshi Inoue, Yasuna Nakamura, Daichi Fukaya, Rie Uni, Chia-Hsien Wu, Rie Fujii, Wachirasek Peerapanyasut, Akashi Taguchi, Takahide Kohro, Shintaro Yamada, Mikako Katagiri, Toshiyuki Ko, Seitaro Nomura, Atsuko Nakanishi Ozeki, Etsuo A Susaki, Hiroki R Ueda, Nobuyoshi Akimitsu, Youichiro Wada, Issei Komuro, Masaomi Nangaku, Reiko Inagi. Activation of Sympathetic Signaling in Macrophages Blocks Systemic Inflammation and Protects against Renal Ischemia-Reperfusion Injury. Journal of the American Society of Nephrology, 32, 1599-1615, 2021. LINK
Chentao Wen, Takuya Miura, Venkatakaushik Voleti, Kazushi Yamaguchi, Motosuke Tsutsumi, Kei Yamamoto, Kohei Otomo, Yukako Fujie, Takayuki Teramoto, Takeshi Ishihara, Kazuhiro Aoki, Tomomi Nemoto, Elizabeth MC Hillman, Koutarou D Kimura*. 3DeeCellTracker, a deep learning-based pipeline for segmenting and tracking cells in 3D time lapse images. eLife, 10, 359187, 2021. LINK
Sakuya Nakamura, Shinya Hagihara, Kohei Otomo, Hiroyuki Ishida, Jun Hidema, Tomomi Nemoto, Masanori Izumi*. Autophagy Contributes to the Quality Control of Leaf Mitochondria. Plant and Cell Physiology, 62, 229-247, 2021. LINK
Kazushi Yamaguchi, Kohei Otomo, Yuichi Kozawa, Motosuke Tsutsumi, Tomoko Inose, Kenji Hirai, Shunichi Sato, Tomomi Nemoto*, Hiroshi Uji-i. Adaptive Optical Two-Photon Microscopy for Surface-Profiled Living Biological Specimens. ACS Omega, 6, 438-447, 2021. LINK
Stefan Wunderl, Ayumu Ishijima, Etsuo Susaki, Zihui Xu, Hong Song, Honghao Zha, Takashi Azuma, Ichiro Sakuma, Hiroki Fukuoka, Eiji Okada, Hiroki R Ueda, Shu Takagi, Keiichi Nakagawa*. Acoustic light-sheet microscopy. bioRxiv, 2021. LINK
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Past publications (selected by each member)
2020
Taiga Takahashi, Hong Zhang, Ryosuke Kawakami, Kenji Yarinome, Masakazu Agetsuma, Junichi Nabekura, Kohei Otomo, Yosuke Okamura, Tomomi Nemoto*. PEO-CYTOP Fluoropolymer Nanosheets as a Novel Open-Skull Window for Imaging of the Living Mouse Brain. iScience, 23, 101579, 2020. LINK
Yumi Kumagai, Taisuke Murakami, Kuwahara-Arai, Toshiaki Iba, Johannes Reich, Isao Nagaoka. Antimicrobial peptide LL-37 ameliorates a murine sepsis model via the induction of microvesicle release from neutrophils. Innate Immunity, 26, 565-579, 2020. LINK
Kohei Otomo*, Ai Goto, Yumi Yamanaka, Takashi Hori, Hiroshi Nakayama, Tomomi Nemoto. High-peak-power 918-nm laser light source based two-photon spinning-disk microscopy for green fluorophores. Biochemical and Biophysical Research Communications, 529, 238-242, 2020. LINK
Chi Ben†, Xiaojing Wu†, Atsushi Takahashi-Kanemitsu, Christopher T Knight, Takeru Hayashi, Masanori Hatakeyama*. Alternative splicing reverses the cell-intrinsic and cell-extrinsic prooncogenic potentials of YAP1. Journal of Biological Chemistry, 295, 13965-13980, 2020年8月. LINK
Yoshie Yamagishi, Akimasa Someya, Isao Nagaoka*. Citrulline cooperatively exerts an anti-inflammatory effect on synovial cells with glucosamine and N-acetylglucosamine. Biomedical reports, 13, 37-42, 2020. LINK
Etsuo A Susaki*, Chika Shimizu, Akihiro Kuno, Kazuki Tainaka, Xiang Li, Kengo Nishi, Ken Morishima, Hiroaki Ono, Koji L Ode, Yuki Saeki, Kazunari Miyamichi, Kaoru Isa, Chihiro Yokoyama, Hiroki Kitaura, Masako Ikemura, Tetsuo Ushiku, Yoshihiro Shimizu, Takashi Saito, Takaomi C Saido, Masashi Fukayama, Hirotaka Onoe, Kazushige Touhara, Tadashi Isa, Akiyoshi Kakita, Mitsuhiro Shibayama, Hiroki R Ueda*. Versatile whole-organ/body staining and imaging based on electrolyte-gel properties of biological tissues. Nature communications, 11, 1982-1982, 2020年4月27日. *co-corresponding authors LINK
Isao Nagaoka, Zhongshuang Hu, Hiroshi Hosoda, Yumi Kumagai. Therapeutic Action of Antimicrobial Cathelicidin Peptide LL-37 on a Murine Sepsis Model. Juntendo Medical Journal, 66, 297-311, 2020. LINK
Atsushi Takahashi-Kanemitsu, Christopher T Knight, Masanori Hatakeyama*. Molecular anatomy and pathogenic actions of Helicobacter pylori CagA that underpin gastric carcinogenesis. Cellular & Molecular Immunology, 17, 50-63, 2020年1月. LINK
2019
Takema Sasaki, Motosuke Tsutsumi, Kohei Otomo, Takashi Murata, Noriyoshi Yagi, Masayoshi Nakamura, Tomomi Nemoto, Mitsuyasu Hasebe, Yoshihisa Oda. A Novel Katanin-Tethering Machinery Accelerates Cytokinesis, Current Biology, 29, 4060-4070, 2019. LINK
Hirokazu Ishii, Kohei Otomo, Jui-Hung Hung, Motosuke Tsutsumi, Hiroyuki Yokoyama, Tomomi Nemoto. Two-photon STED nanoscopy realizing 100-nm spatial resolution utilizing high-peak-power sub-nanosecond 655-nm pulses. Biomedical Optics Express, 10, 3104-3113, 2019. LINK
Kaori Suzuki*, Mari Ohkuma, Isao Nagaoka. Bacterial lipopolysaccharide and antimicrobial LL-37 induce the enhanced expression of ICAM-1 and phosphorylation of NF-κB p65 in senescent endothelial cells. International Journal of Molecular Medicine, 44, 1187-1196, 2019. LINK
Masatoshi Inoue†, Atsuya Takeuchi†, Satoshi Manita†, Shin-Ichiro Horigane, Masayuki Sakamoto, Ryosuke Kawakami, Kazushi Yamaguchi, Kohei Otomo, Hiroyuki Yokoyama, Ryang Kim, Tatsushi Yokoyama, Sayaka Takemoto-Kimura, Manabu Abe, Michiko Okamura, Yayoi Kondo, Sean Quirin, Charu Ramakrishnan, Takeshi Imamura, Kenji Sakimura, Tomomi Nemoto, Masanobu Kano, Hajime Fujii, Karl Deisseroth, Kazuo Kitamura, Haruhiko Bito*. Rational Engineering of XCaMPs, a Multicolor GECI Suite for In Vivo Imaging of Complex Brain Circuit Dynamics. Cell, 177, 1346-1360, 2019. LINK
Takuya Ooki, Naoko Murata-Kamiya, Atsushi Takahashi-Kanemitsu, Weida Wu, Masanori Hatakeyama*. High-molecular-weight hyaluronan is a Hippo pathway ligand directing cell density-dependent growth inhibition via PAR1b. Developmental Cell, 49, 1-15, 2019. LINK
Ai Goto†, Kohei Otomo†*, Tomomi Nemoto. Real-Time Polarization-Resolved Imaging of Living Tissues Based on Two-Photon Excitation Spinning-Disk Confocal Microscopy. Frontiers in Physics, 7, 56, 2019. LINK
2018
Kohei Otomo, Terumasa Hibi, Yi-Cheng Fang, Hung Jui-Hung, Motosuke Tsutsumi, Ryosuke Kawakami, Hiroyuki Yokoyama, Tomomi Nemoto*. Advanced easySTED microscopy based on two-photon excitation by electrical modulations of light pulse wavefronts, Biomedical Optics Express, 9, 2671-2680, 2018. LINK
Yumi Kumagai, Kozue Sato, Kyle R Taylor, Aya Zamoto-Niikura, Koichi Imaoka, Shigeru Morikawa, Makoto Ohnishi, Hiroki Kawabata. A relapsing fever group Borrelia sp. is widely distributed among wild deer in Japan. Ticks and tick-borne diseases, 9, 465-470, 2018年3月. LINK
Chao Tang, Atsushi Takahashi-Kanemitsu, Ippei Kikuchi, Chi Ben, Masanori Hatakeyama*. Transcriptional co-activator functions of YAP and TAZ are inversely regulated by tyrosine phosphorylation status of Parafibromin. iScience, 1, 1-15, 2018. LINK
2017
Etsuo A. Susaki, Hideki Ukai, Hiroki R. Ueda*. Next-generation mammalian genetics toward organism-level systems biology. npj Systems Biology and Applications, 3, 15-, 2017. LINK
Motoko Hashiguchi, Kaori Suzuki*, Kazuo Kaneko, Isao Nagaoka. Effect of aloe‑emodin on the proliferation and apoptosis of human synovial MH7A cells; a comparison with methotrexate. Molecular Medicine Reports, 15, 4398-4404, 2017. LINK
Koji L. Ode†, Hideki Ukai†, Etsuo A. Susaki†, Ryohei Narumi, Katsuhiko Matsumoto, Junko Hara, Naoshi Koide, Takaya Abe, Masato T. Kanemaki, Hiroshi Kiyonari, Hiroki R. Ueda*. Knockout-Rescue Embryonic Stem Cell-Derived Mouse Reveals Circadian-Period Control by Quality and Quantity of CRY1. Molecular Cell, 65, 176-190, 2017. LINK
2016
Akimasa Someya, Takako Ikegami, Koji Sakamoto, Isao Nagaoka. Glucosamine Downregulates the IL-1 beta-Induced Expression of Proinflammatory Cytokine Genes in Human Synovial MH7A Cells by O-GlcNAc Modification-Dependent and – Independent Mechanisms. PLoS One, 11, -, 2016. LINK
Ippei Kikuchi, Atsushi Takahashi-Kanemitsu, Natsuki Sakiyama, Chao Tang, Pei-Jung Tang, Saori Noda, Kazuki Nakao, Hidetoshi Kassai, Toshiro Sato, Atsu Aiba, Masanori Hatakeyama*. Dephosphorylated parafibromin is a transcriptional coactivator of the Wnt/Hedgehog/Notch pathways. Nature Communications, 7, 12887-, 2016年9月. LINK
Zhongshuang Hu, Taisuke Murakami, Kaori Suzuki, Hiroshi Tamura, Johannes Reich, Kyoko Kuwahara-Arai, Toshiaki Iba, Isao Nagaoka. Antimicrobial cathelicidin peptide LL-37 inhibits the pyroptosis of macrophages and improves the survival of polybacterial septic mice. International Immunology, 28, 245-253, 2016. LINK
Fumiya Tatsuki†, Genshiro A. Sunagawa†, Shoi Shi†, Etsuo A. Susaki†, Hiroko Yukinaga†, Dimitri Perrin†, Kenta Sumiyama, Maki Ukai-Tadenuma, Hiroshi Fujishima, Rei-ichiro Ohno, Daisuke Tone, Koji L. Ode, Katsuhiko Matsumoto, Hiroki R. Ueda*. Involvement of Ca2+-Dependent Hyperpolarization in Sleep Duration in Mammals. Neuron, 90, 70-85, 2016年4月. LINK
Kaori Suzuki, Taisuke Murakami, Zhongshuang Hu, Hiroshi Tamura, Kyoko Kuwahara-Arai, Toshiaki Iba, Isao Nagaoka. Human host defense cathelicidin peptide LL-37 enhances the lipopolysaccharide uptake by liver sinusoidal endothelial cells without cell activation. Journal of Immunology, 196, 1338-1347, 2016. LINK
Saori Noda, Atsushi Takahashi, Takeru Hayashi, Sei-ichi Tanuma, Masanori Hatakeyama*. Determination of the catalytic activity of LEOPARD syndrome-associated SHP2 mutants toward parafibromin, a bona fide SHP2 substrate involved in Wnt signaling. Biochemical and Biophysical Research Communications, 469, 1133-1139, 2016. LINK
Kohei Otomo, Terumasa Hibi, Yuichi Kozawa, Sari Ipponjima, Shunichi Sato, Tomomi Nemoto: Super-Resolution Two-Photon Excitation Microscopy Utilizing Transmissive Liquid Crystal Devices in “Super-Resolution Imaging in Biomedicine” Edited by Alberto Diaspro and Marc A. M. J. van Zandvoort, published by CRC Press, Taylor & Francis Group, 2016. ISBN 9781315372884. LINK
2015
Etsuo A. Susaki, Kazuki Tainaka, Dimitri Perrin, Hiroko Yukinaga, Akihiro Kuno, Hiroki R. Ueda*. Advanced CUBIC protocols for whole-brain and whole-body clearing and imaging. Nature Protocols, 10, 1709-1727, 2015年11月. LINK
Taketomo Kido, Yuta Koui, Kaori Suzuki, Ayaka Kobayashi, Yasushi Miura, Edward Y. Chen, Minoru Tanaka, Atsushi Miyajima. CPM is a useful cell surface marker to isolate expandable bi-potential liver progenitor cells derived from human iPS cells. Stem Cell Reports, 5, 508-515, 2015. LINK
2014
Kazuki Tainaka†, Shimpei I. Kubota†, Takeru Q. Suyama, Etsuo A. Susaki, Dimitri Perrin, Maki Ukai-Tadenuma, Hideki Ukai, Hiroki R. Ueda*. Whole-Body Imaging with Single-Cell Resolution by Tissue Decolorization. Cell, 159, 911-924, 2014. LINK
Kohei Otomo, Terumasa Hibi, Yuichi Kozawa, Makoto Kurihara, Nobuyuki Hashimoto, Hiroyuki Yokoyama, Shunichi Sato, Tomomi Nemoto*. Two-photon excitation STED microscopy by utilizing transmissive liquid crystal devices. Optics Express, 22, 28215-28221, 2014. LINK
Etsuo A. Susaki†, Kazuki Tainaka†, Dimitri Perrin†, Fumiaki Kishino, Takehiro Tawara, Tomonobu M. Watanabe, Chihiro Yokoyama, Hirotaka Onoe, Megumi Eguchi, Shun Yamaguchi, Takaya Abe, Hiroshi Kiyonari, Yoshihiro Shimizu, Atsushi Miyawaki, Hideo Yokota, Hiroki R. Ueda*. Whole-Brain Imaging with Single-Cell Resolution Using Chemical Cocktails and Computational Analysis. Cell, 157, 726-739, 2014年4月. LINK
Zhongshuang Hu, Taisuke Murakami, Kaori Suzuki, Hiroshi Tamura, Kyoko Kuwahara-Arai, Toshiaki Iba, Isao Nagaoka. Antimicrobial cathelicidin peptide LL-37 inhibits the LPS/ATP-induced pyroptosis of macrophages by dual mechanism. PLOS ONE, 9, e85765, 2014. LINK
2013
Ryouhei Tsutsumi, Mohammad Masoudi, Atsushi Takahashi, Yumiko Fujii, Takeru Hayashi, Ippei Kikuchi, Yumeko Satou, Masanori Taira, Masanori Hatakeyama*. YAP and TAZ, Hippo signaling targets, act as a rheostat for nuclear SHP2 function. Developmental Cell, 26, 658-665, 2013. LINK
Masatoshi Okura, Daisuke Takamatsu, Fumito Maruyama, Takashi Nozawa, Ichiro Nakagawa, Makoto Osaki, Tsutomu Sekizaki, Marcelo Gottschalk, Yumi Kumagai, Shigeyuki Hamada. Genetic Analysis of Capsular Polysaccharide Synthesis Gene Clusters from All Serotypes of Streptococcus suis: Potential Mechanisms for Generation of Capsular Variation. APPLIED AND ENVIRONMENTAL MICROBIOLOGY, 79, 2796-2806, 2013. LINK
2011
Koshiro Miura, Junji Matsuo, M. Akhlakur Rahman, Yumi Kumagai, Xin Li, Yasuko Rikihisa. Ehrlichia chaffeensis Induces Monocyte Inflammatory Responses through MyD88, ERK, and NF-kappa B but Not through TRIF, Interleukin-1 Receptor 1 (IL-1R1)/IL-18R1, or Toll-Like Receptors INFECTION AND IMMUNITY, 79, 4947-4956, 2011. LINK
Zhihui Cheng, Koshiro Miura, Vsevolod L. Popov, Yumi Kumagai, Yasuko Rikihisa. Insights into the CtrA regulon in development of stress resistance in obligatory intracellular pathogen Ehrlichia chaffeensis MOLECULAR MICROBIOLOGY, 82, 1217-1234, 2011. LINK
Yumi Kumagai, Junji Matsuo, Zhihui Cheng, Yoshihiro Hayakawa, Yasuko Rikihisa. Cyclic Dimeric GMP Signaling Regulates Intracellular Aggregation, Sessility, and Growth of Ehrlichia chaffeensis INFECTION AND IMMUNITY, 79, 3905-3912, 2011. LINK
Atsushi Takahashi, Ryouhei Tsutsumi, Ippei Kikuchi, Chikashi Obuse, Yasuhiro Saito, Azadeh Seidl, Robert Karisch, Minerva Fernandez, Taewoo Cho, Naomi Ohnishi, Orit Rozenblatt-Rosen, Matthew Meyerson, Benjamin G. Neel, Masanori Hatakeyama*. SHP2 tyrosine phosphatase converts Parafibromin/Cdc73 from a tumor suppressor to an oncogenic driver. Molecular Cell, 43, 45-56, 2011. LINK
Kaori Suzuki, Taisuke Murakami, Kyoko Kuwahara-Arai, Hiroshi Tamura, Keiichi Hiramatsu, Isao Nagaoka. Human anti-microbial cathelicidin peptide LL-37 suppresses the LPS-induced apoptosis of endothelial cells. International Immunology, 23, 185-193, 2011. LINK
2010
Kathryn Gibson, Yumi Kumagai, Yasuko Rikihisa. Proteomic Analysis of Neorickettsia sennetsu Surface-Exposed Proteins and Porin Activity of the Major Surface Protein P51 JOURNAL OF BACTERIOLOGY, 192, 5898-5905, 2010. LINK
Akimasa Someya, Joel Moss, Isao Nagaoka. The Guanine Nucleotide Exchange Protein for ADP-ribosylation Factor 6, ARF-GEP100/BRAG2, Regulates Phagocytosis of Monocytic Phagocytes in an ARF6-dependent Process JOURNAL OF BIOLOGICAL CHEMISTRY, 285, 30698-30707, 2010. LINK
Yumi Kumagai, Junji Matsuo, Yoshihiro Hayakawa, Yasuko Rikihisa. Cyclic di-GMP Signaling Regulates Invasion by Ehrlichia chaffeensis of Human Monocytes JOURNAL OF BACTERIOLOGY, 192, 4122-4133, 2010. LINK
Etsuo Susaki, Chie Kaneko-Oshikawa, Keishi Miyata, Mitsuhisa Tabata, Tetsuya Yamada, Yuichi Oike, Hideki Katagiri, Keiichi I. Nakayama*. Increased E4 Activity in Mice Leads to Ubiquitin-containing Aggregates and Degeneration of Hypothalamic Neurons Resulting in Obesity. JOURNAL OF BIOLOGICAL CHEMISTRY, 285, 15538-15547, 2010. LINK
2009
Minoru Tanaka, Mayuko Okabe, Kaori Suzuki, Yoshiko Kamiya, Yuko Tsukahara, Shigeru Saito, Atsushi Miyajima. Mouse hepatoblasts at distinct developmental stages are characterized by expression of EpCAM and DLK1: Drastic change of EpCAM expression during liver development. Mechanisms of Development, 126, 665-676, 2009. LINK
Etsuo Susaki, Keiko Nakayama, Lili Yamasaki, Keiichi I. Nakayama*. Common and specific roles of the related CDK inhibitors p27 and p57 revealed by a knock-in mouse model. Proceedings of the National Academy of Sciences USA, 106, 5192-5197, 2009. LINK
Tzung-Huei Lai, Yumi Kumagai, Mamoru Hyodo, Yoshihiro Hayakawa, Yasuko Rikihisa. The Anaplasma phagocytophilum PleC Histidine Kinase and PleD Diguanylate Cyclase Two-Component System and Role of Cyclic Di-GMP in Host Cell Infection JOURNAL OF BACTERIOLOGY, 191, 693-700, 2009. LINK
Weichao Bao, Yumi Kumagai†, Hua Niu, Mamoru Yamaguchi, Koshiro Miura, Yasuko Rikihisa. Four VirB6 Paralogs and VirB9 Are Expressed and Interact in Ehrlichia chaffeensis-Containing Vacuoles JOURNAL OF BACTERIOLOGY, 191, 278-286, 2009. LINK
2008
Kaori Suzuki, Minoru Tanaka, Natsumi Watanabe, Shigeru Saito, Hidenori Nonaka, Atsushi Miyajima. p75 neurotrophin receptor is a marker for precursors of stellate cells and portal fibroblasts in mouse fetal liver. Gastroenterology, 135, 270-281, 2008. LINK
Daisuke Miyamoto, M Miyamoto, Atsushi Takahashi, Yasuhiro Yomogita, Hideaki Higashi, S Kondo, Masanori Hatakeyama*. Isolation of a distinct class of gain-of-function SHP-2 mutants with oncogenic RAS-like transforming activity from solid tumors. Oncogene, 27, 3508-3515, 2008. LINK
Yumi Kumagai, Haibin Huang, Yasuko Rikihisa. Expression and porin activity of p28 and OMP-1F during intracellular Ehrlichia chaffeensis development JOURNAL OF BACTERIOLOGY, 190, 3597-3605, 2008. LINK
2007
Etsuo Susaki, Keiko Nakayama, Keiichi I. Nakayama*. Cyclin D2 translocates p27 out of the nucleus and promotes its degradation at the G(0)-G(1) transition. Molecular and Cellular Biology, 27, 4626-4640, 2007. LINK
Natsumi Watanabe, Minoru Tanaka, Kaori Suzuki, Atsushi Kumanogoh, Hitoshi Kikutani, Atsushi Miyajima. Tim2 is expressed in mouse fetal hepatocytes and regulates their differentiation. Hepatology, 45, 1240-1249, 2007. LINK
Haibin Huang, Xueqi Wang, Takane Kikuchi, Yumi Kumagai, Yasuko Rikihisa. Porin activity of Anaplasma phagocytophilum outer membrane fraction and purified P44 JOURNAL OF BACTERIOLOGY, 189, 1998-2006, 2007. LINK
2006
Akimasa Someya, Joel Moss, Isao Nagaoka. Involvement of a guanine nucleotide-exchange protein, ARF-GEP(100)/BRAG2a, in the apoptotic cell death of monocytic phagocytes JOURNAL OF LEUKOCYTE BIOLOGY, 80, 915-921, 2006年10月. LINK
Yumi Kumagai, Zhihui Cheng, Mingqun Lin, Yasuko Rikihisa. Biochemical activities of three pairs of Ehrlichia chaffeensis two-component regulatory system proteins involved in inhibition of lysosomal fusion INFECTION AND IMMUNITY, 74, 5014-5022, 2006. LINK
Shigeji Matsumoto, Chikako Saiki, Shinki Yoshida, Mamoru Takeda, Yumi Kumagai. Effect of ouabain on the afterhyperpolarization of slowly adapting pulmonary stretch receptors in the rat lung BRAIN RESEARCH, 1107, 131-139, 2006. LINK
Zhihui Cheng, Yumi Kumagai, Mingqun Lin, Chunbin Zhang, Yasuko Rikihisa. Intra-leukocyte expression of two-component systems in Ehrlichia chaffeensis and Anaplasma phagocytophilum and effects of the histidine kinase inhibitor closantel CELLULAR MICROBIOLOGY, 8, 1241-1252, 2006. LINK
Toyoko Hiroi, Akimasa Someya, Walter Thompson, Joel Moss, Martha Vaughan*. GEP(100)/BRAG2: Activator of ADP-ribosylation factor 6 for regulation of cell adhesion and actin cytoskeleton via E-cadherin and alpha-catenin PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA, 103, 10672-10677, 2006. LINK
Ryouhei Tsutsumi, Atsushi Takahashi, Takeshi Azuma, Hideaki Higashi, Masanori Hatakeyama*. Focal adhesion kinase is a substrate and downstream effector of SHP-2 complexed with Helicobacter pylori CagA. Molecular and Cellular Biology, 26, 261-276, 2006. LINK
2005
Y Kumagai, H Yagishita, A Yajima, T Okamoto, K Konishi. Molecular mechanism for connective tissue destruction by dipeptidyl aminopeptidase IV produced by the periodontal pathogen Porphyromonas gingivalis INFECTION AND IMMUNITY, 73, 2655-2664, 2005. LINK
2004
XQ Wang, Y Rikihisa, TH Lai, Y Kumagai, N Zhi, SM Reed. Rapid sequential changeover of expressed p44 genes during the acute phase of Anaplasma phagocytophilum infection in horses INFECTION AND IMMUNITY, 72, 6852-6859, 2004. LINK
D Rea, AM Lambeir, Y Kumagai, De Meester, I, S Scharpe, Fulop, V. Expression, purification and preliminary crystallographic analysis of dipeptidyl peptidase IV from Porphyromonas gingivalis ACTA CRYSTALLOGRAPHICA SECTION D-BIOLOGICAL CRYSTALLOGRAPHY, 60, 1871-1873, 2004. LINK
Hideaki Higashi†, Akihiro Nakaya†, Ryouhei Tsutsumi†, Kazuyuki Yokoyama, Yumiko Fujii, Susumu Ishikawa, Megumi Higuchi, Atsushi Takahashi, Yo Kurashima, Yasuhiro Teishikata, Sinya Tanaka, Takeshi Azuma, Masanori Hatakeyama*. Helicobacter pylori CagA induces Ras-independent morphogenetic response through SHP-2 recruitment and activation. Journal of Biological Chemistry, 279, 17205-17216, 2004. LINK
2003
Lambeir AM, Rea D, Fülöp V, Kumagai Y, Augustyns K, de Meester I, Haemers A, Scharpé S: Exploration of the active site of dipeptidyl peptidase IV from Porphyromonas gingivalis. Comparison with the human enzyme in “Dipeptidyl aminopeptidase in health and disease” Edited by Hildebrandt M, Klapp B, Hoffmann T, Demuth HU, Kluwer, published by academic/Plenum publishers, 2003. ISBN 0065-2598 LINK
2002
François Niyonsaba, Kazuhisa Iwabuchi, Akimasa Someya, Michimasa Hirata, Hiroshi Matsuda, Hideoki Ogawa, Isao Nagaoka. A cathelicidin family of human antibacterial peptide LL-37 induces mast cell chemotaxis. Immunology, 106, 20-6, 2002. LINK
2001
H Yagishita, Y Kumagai*, K Konishi, Y Takahashi, T Aoba, M Yoshikawa. Histopathological studies on virulence of dipeptidyl aminopeptidase IV (DPPIV) of Porphyromonas gingivalis in a mouse abscess model: Use of a DPPIV-deficient mutant INFECTION AND IMMUNITY, 69, 7159-7161, 200. LINK
Akimasa Someya, Makoto Sata, Kazuyo Takeda, Gustavo P Rodriguez, Victor J. Ferrans, Joel Moss, and Martha Vaughan. ARF-GEP(100), a guanine nucleotide-exchange protein for ADP-ribosylation factor 6. Proceedings of the National Academy of Sciences of the United States of America, 98, 2413-8, 2001. LINK
2000
Y Kumagai*, K Konishi, T Gomi, H Yagishita, A Yajima, M Yoshikawa. Enzymatic properties of dipeptidyl aminopeptidase IV produced by the periodontal pathogen Porphyromonas gingivalis and its participation in virulence INFECTION AND IMMUNITY, 68, 716-724, 2000. LINK
1996
Y Kumagai, J Kato, K Hoshino, T Akasaka, K Sato, H Ikeda. Quinolone-resistant mutants of Escherichia coli DNA topoisomerase IV parC gene ANTIMICROBIAL AGENTS AND CHEMOTHERAPY, 40, 710-714, 1996. LINK
1993
Akimasa Someya, Isao Nagaoka, Tatsuhisa Yamashita. Purification of the 260 kDa cytosolic complex involved in the Superoxide production of guinea pig neutrophils FEBS Letters, 330, 215-218, 1993. LINK
Kazuhisa Iwabuchi, Isao Nagaoka, Akimasa Someya, Tatsuhisa Yamashita. Isolation and characterization of the neutrophil-binding proteins for platelet-derived adherence-inhibiting factor Blood, 82, 1884-1890, 1993. LINK
1991
Akimasa Someya, Tatsuhisa Yamashita. Cytosolic factors involved in the activation of NADPH oxidase from guinea pig neutrophils Archives of Biochemistry and Biophysics, 284, 17-21, 1991. LINK