MEMBERS

  • Dr.Junichi Ikenouchi

    Junichi Ikenouchi

    Web site

    Professor
    Faculty of Sciences
    Kyushu University

    Title

    Elucidation of organizing principles of living cell membrane

    Standard type Period：3years

    Summary

    Lipids are main components of cellular membrane. However, the physiological significance of their diversity and their dynamic behavior were not well understood. In this research project, I will elucidate the organizing principles of living cell membrane by combining synthetic biological approaches and cell biological approaches.

    Research Results

    18/Aug/2015
    Ryo Shiomi, Kenta Shigetomi, Tetsuichiro Inai, Masami Sakai & Junichi Ikenouchi."CaMKII regulates the strength of the epithelial barrier." 　Scientific Reports 2015 Aug 18;5:13262.
    21/May/2015
    AritaY, Nishimura S, Ishitsuka R, Kishimoto T, Ikenouchi J,Ishii K, Umeda M, Matsunaga S, Kobayashi T, Yoshida M. "Targeting cholesterol in a liquid-disordered environment by theonellamides modulates cell membrane order and cell shape". Chemistry and Biology 2015 May 21;22(5):604-10
    15/Feb/2015
    Atsuko Ohoka,Mihoko Kajita,Junichi Ikenouchi,Yuta Yako,Sho Kitamoto,Shunsuke Kon,Masaya Ikegawa,Takashi Shimada,Susumu Ishikawa and Yasuyuki Fujita. "EPLIN is a crucial regulator for extrusion of RasV12-transformed cells" Journal of Cell Science 2015 Feb 15;128(4):781-9. doi: 10.1242.
    5/Aug/2014
    Oda Y, Otani T, Ikenouchi J, Furuse M."Tricellulin regulates junctional tension of epithelial cells at tricellular contacts via Cdc42." Journal of Cell Science, 2014 Oct 1;127(Pt 19):4201-12
    15/Apr/2014
    Dr.Junichi Ikenouchi was awarded the Young Scientists' Prize on the Commendation for Science and Technology by the Minister of Education, Culture, Sports, Science and Technology.
    15/Aug/2013
    Ikenouchi J, Hirata M, Yonemura S, Umeda M.　"Sphingomyelin clustering is essential for the formation of microvilli."Journal of Cell Science., 126(Pt 16):3585-92.
  • Dr.Keiichi Inoue

    Keiichi Inoue

    Associate Professor
    Graduate School of Engineering
    Nagoya Institute of Technology

    Title

    Challenge for the "Creative" Optogenetics

    Standard type Period：3years

    Summary

    In recent years, optogenetics technology which regulates the excitation and inhibition of neuronal cells by light is achieving a revolution in neural science as novel technique to study the neural circuits. In optogenetics, several photoreceptors as rhodopsins are playing the pivotal role. In this research, rhodopsins with new functions will be designed to enable the control of gene expression by light in specific cells and I will challenge to develop novel “creative” optogenetics.

    Research Results

    18/Dec/2015
    Oral Presentation: "Spectroscopic and Structural Studies on the Sodium Transporting Mechanism of Sodium Pump Rhodopsin"at the 2015 International Chemical Congress of Pacific Basin Societies (PACIFICHEM 2015),Honolulu, Hawaii, USA.
    17/Dec/2015
    Kato Y, Inoue K, Kandori H "Kinetic Analysis of H(+)-Na(+) Selectivity in a Light-Driven Na(+)-Pumping Rhodopsin." The Journal of Physical Chemistry Letters 2015 Dec 17;6(24):5111-5. doi: 10.1021/acs.jpclett.5b02371.
    14/Dec/2015
    Konno M, Kato Y, Kato HE, Inoue K, Nureki O, Kandori H. "Mutant of a Light-Driven Sodium Ion Pump Can Transport Cesium Ions." The Journal of Physical Chemistry Letters 2015 Dec 17;6(24):5111-5. doi: 10.1021/acs.jpclett.5b02371
    30/Oct/2015
    Tahara S, Takeuchi S, Abe-Yoshizumi R, Inoue K, Ohtani H, Kandori H, Tahara T. "Ultrafast Photoreaction Dynamics of a Light-Driven Sodium-Ion-Pumping Retinal Protein from Krokinobacter eikastus Revealed by Femtosecond Time-Resolved Absorption Spectroscopy." The Journal of Physical Chemistry Letters 2015 Nov 19;6(22):4481-6. doi: 10.1021/acs.jpclett.5b01994.
    13/Oct/2015
    Oral Presentation: "Spectroscopic study on the photo-reaction dynamics of sodium pump rhodopsin "at the seminar of the SFB 1078, Freie Universitat Berlin, Berlin, Germany.
    12/Oct/2015
    Oral Presentation: "Photochemistry of sodium pump rhodopsin" at the DFG-Rundgesprach Photoreceptors, Frauenchiemsee, Germany.
    28/Sep/2015
    Oral Presentation: "Infrared spectroscopic study on the structure and dynamics of sodium pump rhodopsin" at the SCIX 2015, The Great Scientific Exchange Meeting, Providence, RI, USA
    14/Sep/2015
    Oral Presentation: "The role of the proton on the function of sodium pump rhodopsin" at the 53th Annual Meeting of the Biophysical Society of Japan, Kanazawa, Japan
    7/Aug/2015
    Andrew Harris,Milena Ljumovic, Ana-Nicoleta Bondar, Yohei Shibata, Shota Ito, Keiichi Inoue, Hideki Kandori, Leonid S. Brown "A New Group of Eubacterial Light-driven Retinal-binding Proton Pumps with an Unusual Cytoplasmic Proton Donor." Biochimica et Biophysica Acta (BBA) - Bioenergetics 2015 Dec;1847(12):1518-29.
    24/Jul/2015
    Keiichi Inoue, Masae Konno,　Rei Abe-Yoshizumi, Hideki Kandori "The Role of the NDQ-motif in Sodium Pump Rhodopsin" Angewandte Chemie International Edition 2015 Sep 21;54(39):11536-9
    29/May/2015
    Oral Presentation: "Microbial rhodopsins: Light-driven biological proton, chloride and sodium transporters" at the BIT's 4th Annual World Congress of Advanced Materials 2015, Chongqing, China
    7/May/2015
    Kato HE, Inoue K, Abe-Yoshizumi R, Kato Y, Ono H, Konno M, Hososhima S, Ishizuka T, Hoque MR, Kunitomo H, Ito J, Yoshizawa S, Yamashita K, Takemoto M, Nishizawa T, Taniguchi R, Kogure K, Maturana AD, Iino Y, Yawo H, Ishitani R, Kandori H, Nureki O. "Structural basis for Na(+) transport mechanism by a light-driven Na(+) pump." Nature
    25/Feb/2015
    Keiichi Inoue, Takashi Tsukamoto, Kazumi Shimono, Yuto Suzuki, Seiji Miyauchi, Hideki Kandori, Yuki Sudo. "Converting a Light-driven Proton Pump into a Light-gated Proton Channel" Journal of the American Chemical Society 2015 Mar 11;137(9):3291-9. doi: 10.1021/ja511788f. Epub 2015 Feb 25.
    11/Dec/2014
    Hikaru Ono, Keiichi Inoue, Hideki Kandori. "Na+ Transport by Sodium Ion Pump Rhodopsin is Resistant to Environmental Change-A Comparison of Photocycles of Na+ and Li+ Transport Processes" Chemistry Letters.Vol. 44 (2015) No. 3 P 294-296
    25/Nov/2014
    Keiichi Inoue, Yoshitaka Kato,Hideki Kandori. "Light-driven ion-translocating rhodopsins in marine bacteria" Trends in Microbiology 2014 Nov 25. pii: S0966-842X(14)00224-8. doi: 10.1016/j.tim.2014.10.009. [Epub ahead of print]
    12/Nov/2014
    Presentation: "Microbial rhodopsins of marine bacteria: Nano-scale biological light-driven ion pumps" at the 25th 2014 International Symposium on Micro-NanoMechatronics and Human Science, Nagoya
    7/Oct/2014
    Presentation: "Function and mechanism of sodium pump rhodopsin" at the 16th International Conference on Retinal Proteins, Nagahama
    25/Sep/2014
    Keiichi Inoue, Faisal Hammad Mekky Koua, Yoshitaka Kato, Rei Abe-Yoshizumi, Hideki Kandori. "Spectroscopic tudy of a Light-Driven Chloride Ion Pump from Marine Bacteria" The Journal of Physical Chemistry B 2014 Sep 25;118(38):11190-9. doi: 10.1021/jp507219q. Epub 2014 Sep 11.
    8/May/2014
    Hikaru Ono, Keiichi Inoue, Rei Abe-Yoshizumi, Hideki Kandori "FTIR Spectroscopy of a Light-Driven Compatible Sodium Ion-Proton Pumping Rhodopsin at 77 K" The Journal of Physical Chemistry B; 118(18):4784-92.2014
    15/Apr/2014
    Dr. Keiichi Inoue was awarded the Young Scientists' Prize on the Commendation for Science and Technology by the Minister of Education, Culture, Sports, Science and Technology.
    12/Mar/2014
    Kengo Sasaki,Takahiro Yamashita,Kazuho Yoshida,Keiichi Inoue,Yoshinori Shichida,Hideki Kandori"Chimeric Proton-Pumping Rhodopsins Containing the Cytoplasmic Loop of Bovine Rhodopsin" PLOS ONE 9(3)e91323 (2014)
    2/Sep/2013
    Oral Presentation: "Mechanism of light-driven sodium ion pump" at the IGER International Symposium on Cell Surface Structures and Functions in Nagoya.
    2/Sep/2013
    Oral Presentation: "Differences of Photo Reaction Dynamics of Sensory Rhodopsin I in Acidic- and Alkaline forms" at the IGER International Symposium on Cell Surface Structures and Functions in Nagoya.
    5/Jun/2013
    Takashi Tsukamoto, Keiichi Inoue, Hideki Kandori, Yuki Sudo. "Thermal and spectroscopic characterization of a proton pumping rhodopsin from an extreme thermophile" The Journal of Biological Chemistry., 288(30):21581-92.
    25/May/2013
    Oral Presentation: "Design of new chimeric proteins for optical activation of G proteins" at the IMS Workshop on "Hierarchical Molecular Dynamics: From Ultrafast Spectroscopy to Single Molecule Measurements" in Okazaki.
    20/May/2013
    Oral Presentation: "Time-resolved FTIR study of a light-driven sodium pump rhodopsin" at the International Conference on Time-Resolved Vibrational Spectroscopy (Beppu・Japan)
    18/May/2013
    Yuki Sudo, Ayako Okazaki, Hikaru Ono, Jin Yagasaki, Seiya Sugo, Motoshi Kamiya, Louisa Reissig, Keiichi Inoue, Kunio Ihara, Hideki Kandori, Shin Takagi, Shigehiko Hayashi."A blue-shifted light-driven proton pump for neural silencing" The Journal of Biological Chemistry., 288(28):20624-32.
    9/Apr/2013
    Keiichi Inoue, Hikaru Ono, Rei Abe-Yoshizumi, Susumu Yoshizawa, Hiroyasu Ito, Kazuhiro Kogure, Hideki Kandori.“A light-driven sodium ion pump in marine bacteria”Nature Communications., 4:1678.
    24/Feb/2013
    Hayato Yamashita, Keiichi Inoue, Mikihiro Shibata, Takayuki Uchihashi, Jun Sakai, Hideki Kandori, Toshio Ando."Role of trimer-trimer interaction of bacteriorhodopsin studied by optical spectroscopy and high-speed atomic force microscopy"Journal of Structural Biology., 184(1):2-11.
    22/Feb/2013
    Makoto Sakai, Keiichi Inoue, Masaaki Fujii."IR Super-resolution Microspectroscopy and Its Application to Single Cells" Current Pharmaceutical Biotechnology. 2013;14(2):159-66.
  • Dr.Takanari Inoue

    Takanari Inoue

    Web site

    Associate Professor
    Department of Cell Biology
    Johns Hopkins University School of Medicine

    Title

    Reconstituting Chemotaxis

    Standard type Period：3years

    Summary

    This proposal aims to elucidate molecular mechanism of chemotaxis using newly developed molecular probes. Based on the obtained knowledge, we will reconstitute chemotaxis both in vitro and in silico. In the long run, our research will offer insights into progression mechanisms of chemotaxis-related diseases.

    Research Results

    9/Dec/2015
    Oral Presentation: "Total synthesis of cell functions: Deconstructing and constructing chemotaxis and phagocytosis"at the 1st Pearl Seiden International Meeting in Life Sciences: From synthetic biology to discovery and applications, Haifa, Israel.
    7/Dec/2015
    Oral Presentation: "Total synthesis of cell functions: Deconstructing and constructing chemotaxis and phagocytosis" at the Department of Neurobiology, Tel Aviv University, Tel Aviv, Israel.
    10/Nov/2015
    Oral Presentation: "Total synthesis of cell functions: Deconstructing and constructing chemotaxis and phagocytosis"at the Chemical Biophysics Mini-Symposia Series, selected by students of the Chemistry, Biochemistry and Biophysics Departments, University of Pennsylvania, PA.
    13/Oct/2015
    Oral Presentation: "Total synthesis of cell functions: Deconstructing and constructing chemotaxis and phagocytosis"at the Mayo Clinic Cancer Center, Department of Biochemistry and Molecular Biology, Rochester, MN.
    30/Sep/2015
    Oral Presentation: "Total synthesis of cell functions: Deconstructing and constructing chemotaxis and phagocytosis."at the Eindhoven University of Technology, Biomedical Engineering, Eindhoven, Netherland.
    1/Oct/2015
    Oral Presentation: "Total synthesis of cell functions: Deconstructing and constructing chemotaxis and phagocytosis."at the Delft University of Technology, Bionanoscience, Delft, Netherland.
    28/Sep/2015
    Invited Lecture: "Total synthesis of cell functions: Deconstructing and constructing chemotaxis and phagocytosis."at the Dutch Biophysics 2015, Plenary Speaker, Veldhoven, Netherland.
    24/Aug/2015
    Garcia-Gonzalo F.R., Phua S.C., Roberson E.C., Galo Garcia III, Abedin M., Schurmans S., Inoue T.*, Jeremy F. Reiter “Ciliary Phosphoinositides Modulate Hedgehog Signaling” Developmental Cell 34, 400-409 (2015)
    16/Apr2015
    Miyamoto T., Rho E, Sample V., Akano H., Magari M., Ueno T., Chen M., Tokumitsu H., Zhang J., and Inoue T.“Compartmentalized AMPK Signaling Illuminated by Genetically Encoded Molecular Sensors and Actuators” Cell Reports 11, 657-670 (2015)
    8/Apr/2015
    Lin B., Yin T., Wu Y.I., Inoue T.* and Levchenko A.(*Corresponding authors) “Interplay between chemotaxis and contact inhibition of locomotion determines exploratory cell migration”Nature Communications 2015 Apr 8;6:6619.
    3/Jul/2015
    Oral Presentation: “Total synthesis of cell functions:Deconstructing and constructing chemotaxis and phagocytosis”at the Shanghai Jiao Tong University, Department of Biomedical Engineering, Shanghai, China
    2/Jul/2015
    Oral Presentation:“Total synthesis of cell functions:Deconstructing and constructing chemotaxis and phagocytosis”at the East China University of Science and Technology, College of Bioengineering, Shanghai, China
    Jul/2015
    Oral Presentation: “Illuminating ciliary signaling by molecular sensors and actuators”at the FASEB, The Biology of Cilia and Flagella, Aspen, CO
    26/Jun/2015
    Oral Presentation: “Total synthesis of cell functions:Deconstructing and constructing chemotaxis and phagocytosis”at the National Tsing Hua University, Department of Medical Science, Hsinchu, Taiwan
    28/Apr/2015
    Oral Presentation: “Synthetic Cell Biology: Deconstructing and constructing chemotaxis and phagocytosis”at the New Jersey Institute of Technology, Department of Mathematical Sciences, Newark
    11-13/Apr/2015
    Oral Presentation: “Chemical switching of phosphoinositide lipids”at the Korean Society for Biochemistry and Molecular Biology (KSBMB), Plenary Speaker, Seoul, Korea
    11-13/Apr/2015
    Oral Presentation: “Chemical switching of phosphoinositide lipids”at the Korea Advanced Institute of Science & Technology, Daejeon, Korea
    11-13/Apr/2015
    Oral Presentation:“Chemical switching of phosphoinositide lipids”at the Ulsan National institute of Science and Technology, Department of Chemistry, Ulsan, Korea
    1/Apr/2015
    Oral Presentation:“Membrane lipids in migrating cells illuminated by molecular sensors and chemical actuators”at the EB2015 ASBMB Annual Meeting, Boston, MA
    6/Apr/2015
    Oral Presentation:“Toward Total Synthesis of Cell Functions: Deconstructing and constructing chemotaxis and phagocytosis”at the Department of Chemical and Biomolecular Engineering, North Carolina State University, Raleigh, NC
    3/Mar/2015
    Oral Presentation:“Synthetic Cell Biology; Deconstructing and constructing dynamic cell functions”at the 15th International Membrane Dynamics Forum, Kyoto University, Japan
    8/Apr/2015
    Lin B., Yin T., Wu Y.I., Inoue T. and Levchenko A. "Interplay between chemotaxis and contact inhibition of locomotion determines exploratory cell migration" Nature Communications 2015 Apr 8;6:6619. doi: 10.1038/ncomms7619.
    Jan/2015
    Presentation: "Toward Total Synthesis of Cell Functions: Chemotaxis and Phagocytosis" at the Department of Chemistry and Chemical Biology, University of New Mexico, US (Albuquerque)
    25-30/Jan/2015
    Presentation:"Interplay between chemotaxis and contact inhibition of locomotion determines exploratory cell migration" at the Gordon Conference,"Directed Cell Migration",(Galveston, TX USA )
    Oct/2014
    Presentation: "Toward Total Synthesis of Cell Functions: Chemotaxis and Phagocytosis" at the Memorial Sloan Kettering Cancer Center, Department of Cell Biology, US (NY)
    Sep/2014
    Oral Presentation: "Synthetic cell devour: turning cells into garbage collectors" at the Department of Pharmacology, University of Colorado (Denver, CO, USA)
    15/Jul/2014
    Onuma H1, Komatsu T2, Arita M1, Hanaoka K1, Ueno T1, Terai T1, Nagano T3, Inoue T4."Rapidly rendering cells phagocytic through a cell-surface display technique and concurrent Rac activation" Science Signaling, 7, rs4, 1-7 (2014)
    7/Jul/2014
    Razavi S1, Su S, Inoue T."Cellular Signaling Circuits Interfaced with Synthetic, Post-Translational, Negating Boolean Logic Devices" SACS Synthetic Biology ;3(9):676-85. (2014)
    Jun/2014
    Oral Presentation: "Probing Ca2+ signaling inside primary cilia with molecular sensors and actuators" at the FASEB Summer Conference, Calcium & Cell Function (Nassau, Bahamas)
    6/May/2014
    Suarez A, Ueno T, Huebner R, McCaffery JM, Inoue T."Bin/Amphiphysin/Rvs (BAR) family members bend membranes in cells"Scientific Reports 4 (4693) 1-6 (2014)
    29/Apr/2014
    Dr.Takanari Inoue was awarded the R.R. Bensley Award in Cell Biology, American Association of Anatomists. R.R. Bensley Award in Cell Biology, American Association of Anatomists
    Apr/2014
    Oral Presentation: "Synthetically rerouting phagocytosis by rapidly turning inert cells into "Eat you" mode" at the Award Lecture at EB2014 (San Diego, USA)
    16/Jul/2014
    Onuma H, Komatsu T, Arita M, Hanaoka K, Ueno T, Terai T, Nagano T, Inoue T.,"Rapidly rendering cells phagocytic through a cell-surface display technique and concurrent Rac activation" Science Signaling doi: 10.1126/scisignal.2005123.
    15/Apr/2014
    Dr.Takanari Inoue was awarded the Young Scientists' Prize on the Commendation for Science and Technology by the Minister of Education, Culture, Sports, Science and Technology.
    15-19/Feb/2014
    Oral Presentation: "Calcium Signaling inside Primary Cilia upon Mechanical Bending" at the 58th Annual Meeting, Plat Form Session, Biophysical Society,San Francisco, California,USA
    14-18/Dec/2013
    Oral Presentation: "Total synthesis of cellular functions using chemical dimerizers: chemotaxis and phagocytosis" at the 2013 ASCB Annual Meeting, Subgroup "Molecular Sensors and Actuators", New Orleans, LA ,USA
    6/Nov/2013
    Inoue T. “The Auther File”Nature method VOL.10 NO.11 1039 NOVEMBER 2013
    23/Sep/2013
    Oral Presentation: "Visualizing and manipulating signaling inside primary cilia" at the 2nd PKD Symposium, University of Baltimore Maryland, (Baltimore, MD)
    8/Sep/2013
    Oral Presentation: "Visualizing and manipulating signaling inside primary cilia" at the 246th ACS National Meeting, "Breakthrough" session, (Indianapolis, IN)
    20/Aug/2013
    Su S, Phua SC, Derose R, Chiba S, Narita K, Kalugin PN, Katada T, Kontani K, Takeda S, Inoue T."Genetically encoded calcium indicator illuminates calcium dynamics in primary cilia"Nature Methods 2013 Nov;10(11):1105-7.
    Jul/2013
    Y.C. Lin, P. Niewiadomski, B. Lin, H. Nakamura, S.C. Phua, J. Jiao, A. Levchenko, T. Inoue, R. Rohatgi, and T. Inoue."Chemically-inducible diffusion trap reveals molecular sieve-like barrier at primary cilia" Nature Chemical Biology., 9(7):437-43.
    26/Jun/2013
    Oral Presentatoin: "Visualizing and manipulating signaling inside primary cilia" at the FASEB Summer Conference, Biology of Cilia & Flagella, (Niagara Falls, New York)
    17/Jun/2013
    Lin YC, Liu T-Y, Razavi S. and Inoue T."Rapidly reversible manipulation of molecular activities with dual chemical dimerizers." Angewandte Chem Int., 52(25):6450-4.
    13/May/2013
    Oral Presentatoin: "Total Synthesis of Chemotaxis" at the ACS Regional Meeting, "Frontiers in Chemical Biology", University of Maryland College Park, MD
    29/Apr/2013
    Oral Presentation: "Visualizing and manipulating signaling inside primary cilia" at the Department of Physiology, University of Texas Health Science Center (San Antonio, TX)
    3/Apr/2013
    Oral Presentation: "Synthetic cell biology: total synthesis of cellular functions" at the 7th INBT Nanobiotechnology Symposium, (Baltimore, MD)
    Apr/2013
    Miyamoto T., Razavi S., DeRose R., and Inoue T."Synthesizing Biomolecule-based Boolean Logic Gates" ACS Synthetic Biology 2, (2), 72-82, 2013
    Apr/2013
    DeRose R. Miyamoto T. and Inoue T."Manipulating signaling at will: chemically-inducible dimerization (CID) techniques resolve problems in cell biology" Pfülgers Archiv 465, 409-417, 2013
    03/Apr/2013
    Oral Presentation:"Synthetic cell biology: total synthesis of cellular functions"at the 7th INBT Nanobiotechnology Symposium. (Baltimore, MD)
    03/Feb/2013
    Oral Presentation:"Illuminating passive permeability barrier of primary cilia by chemically inducible diffusion trap technique" at the 57th Biophysics Society Annual Meeting. (Philadelphia, USA)
    Nov/2012
    Lin B., Wang J., Ueno T., Harwell A., Inoue T. and Levchenko A "Synthetic spatially graded Rac activation drives cell polarization and movement" PNAS 109, E3668 2012
  • Dr.Takashi Umehara

    Takashi Umehara

    Unit Leader
    Life Science Center
    RIKEN

    Title

    Analysis of gene expression regulation through precise reconstitution of ‘epi-nucleosome’

    Standard type Period：3years

    Summary

    Expression of human genes is not simply regulated by their DNA sequence information but also by their epigenetic information. However, reconstitution of a genomic DNA complex containing epigenetic information (i.e. an epigenome) has been technologically difficult thus far. This study aims to precisely reconstitute ‘epi-nucleosome’ containing a variety of designed epigenetic information in vitro, through technological innovation of biochemistry and genetic engineering. Through the reconstitution of ‘epi-nucleosome’, I aim to understand biochemical nature of an epigenome and its effect on gene expression in a quantitative manner.

    Research Results

    20/Mar/2016
    Oral Presentation: Keystone Symposia:Chromatin and Epigenetics ,"Studying combinatorial histone modifications.","Involvement of hyper-acetylated chromatin in transcriptional epigenomics of human glioblastoma."at the Whistler, BC, Canada
    26/Feb/2016
    Oral Presentation: "Structure-based development of inhibitors for epigenetic targets" at the Cambridge Workshop Series: Epigenetics in Drug Discovery (Cambridge, UK)　
    21/Feb/2016
    Oral Presentation: "Genome-wide mapping of hyper-acetylated chromatin with a novel antibody in lung cancer cells" at the Keystone Symposia: Enhancer Malfunction in Cancer (Santa Fe, NM, USA)
    15/Feb/2016
    Oral Presentation: "Effect of lysine acetylation of histone H4 tails on the chromatin structure" at the International Symposium for RIKEN: Epigenetics Program 2016: Epigenetic Response to Environmental Stimuli. (Wako,Japan)
    26/Nov/2015
    Wakamori, M., Fujii, Y., Suka, N., Shirouzu, M., Sakamoto, K.,Umehara, T., Yokoyama, S."Intra- and inter-nucleosomal interactions of the histone H4 tail revealed with a human nucleosome core particle with genetically-incorporated H4 tetra-acetylation" Scientific Reports, 5, 17204 (2015)
    16/Nov/2015
    Oral Presentation: "Unraveling histone H4-mediated hyper-acetylated chromatin in human glioblastoma" at the IHEC2015, Conference of International Human Epigenome Consortium (Tokyo, Japan).
    5/Nov/2015
    Oral Presentation: "Analysis of gene expression regulation through precise reconstitution of “epi-nucleosome”" at the JST CREST-PRESTO Joint International Symposium (Tokyo, Japan).
    14/Sep/2015
    Oral Presentation: "Structure-based Development of Inhibitors for Chromatin Modifiers" at the RIKEN Symposium on Epigenetic Regulation through Chemicals and Metabolite Analogues. Yokohama, Japan.
    5/Sep/2015
    Hayashi-Takanaka, Y., Maehara, K., Harada, A., Umehara, T., Yokoyama, S., Ohkawa, Y., Obuse, C., Nozaki, N., Kimura, H. "Distribution of histone H4 modifications as revealed by a panel of specific monoclonal antibodies"　Chromosome Research 2015 Dec;23(4):753-66.
    24/Mar/2015
    Tochio, N., Umehara, T., Nakabayashi, K., Yoneyama, M., Tsuda, K., Shirouzu, M., Koshiba, S., Watanabe, S., Kigawa, T., Sasazuki, T., Shirasawa, S., Yokoyama, S. "Solution structures of the DNA-binding domains of immune-related zinc-finger protein ZFAT" J. Struct. Funct. Genomics,2015 Jun;16(2):55-65. doi: 10.1007/s10969-015-9196-3.
    26/Jan/2015
    Nagaoka, K., Hino, S., Sakamoto, A., Anan, K., Takase, R., Umehara, T., Yokoyama, S., Sasaki, Y., Nakao, M.　"Lysine-specific demethylase LSD2 suppresses lipid influx and metabolism in hepatic cells " Mol Cell Biol. 35 (7): 1068-1080 (2015).
    5/Nov/2014
    Higo, T., Suka, N., Ehara, H., Wakamori, M., Sato, S., Maeda, H., Sekine, S.I., Umehara, T., Yokoyama, S. "Development of a hexahistidine-3xFLAG-tandem affinity purification method for endogeneous protein complexes in Pichia pastoris" J. Struct. Funct. Genomics 15 (4): 191-199 (2014)
    13/Oct/2014
    Yanagisawa, T., Umehara, T., Sakamoto, K., Yokoyama, S. "Expanded genetic code technologies for incorporating modified lysine at multiple sites" ChemBioChem 15 (15): 2181-2187 (2014).
    24/Aug/2014
    Oral Presentation: "Functional and structural analyses of H4-acetylated nucleosome core particles” at the 11th EMBL Conference of Transcription and Chromatin (Heidelberg, Germany)
    18/Aug/2014
    Yanagisawa, T., Takahashi, M., Mukai, T., Sato, S., Wakamori, M., Shirouzu, M., Sakamoto, K., Umehara, T., Yokoyama, S."Multiple site-specific installation of N-monomethyl-L-lysine into histone proteins by cell-based and cell-free protein synthesis" ChemBioChem 15 (12): 1830-1838 (2014)
    7/Jul/2014
    Oral Presentation: “Synthesis of histone proteins containing multiple and site-specific monomethyl-lysines” at the FASEB Science Research Conference on Biological Methylation: Regulation of Chromatin, Epigenetics, and Disease (Nassau, The Bahamas)
    4/Oct/2013
    Oral Presentation:"Reconstitution of epigenetic nucleosomes through genetic code expansion" at the 65th Fujihara Seminar: International Symposium on Synthetic Biology of Unnatural Base Pairs and Amino Acids,Tomakomai
    31/Jul/2013
    Oral Presentation: "Structure-based Development of Epigenetics-regulating Inhibitors and ‘Epi-nucleosomes’" at the 7th International Conference on Structural Genomics (Sapporo, Japan)
    Mar/2013
    Niwa, H., Handa, N., Tomabechi, Y., Honda, K., Toyama, M., Ohsawa, N., Shirouzu, M., Kagechika, H., Hirano, T., Umehara, T., Yokoyama, S."Crystal structures of histone methyltransferase SET7/9 in complexes with adenosylmethionine derivatives" Acta Cryst. D, 69(Pt 4):595-602, 2013
    01/Mar/2013
    Oral Presentation:“Structure Analysis and Drug Development of Transcription Factor Complexes”at the 3rd International Synposium on Development of Medical Technologies for Treating Intractable Cancers and Cardiovascular Diseases. (Tokyo, Japan)
    Nov/2012
    Umehara, T., Shirouzu, M., Yokoyama, S."Structural biology toward rational drug development in collaboration with molecular imaging" Curr. Med. Imaging Rev, 2013, Vol8, 4, Nov.2012, pp. 308-313(6)
  • Dr.Miki Ebisuya

    Miki Ebisuya

    Web site

    Unit Leader
    QBiC Cell Dynamics Research Core
    RIKEN

    Title

    Reconstitution of cell-cell feedback circuits that regulate cell fate determination

    Standard type Period：3years

    Summary

    In developmental processes of multicellular organisms, initially identical cells have to choose different cell fates. One of the mechanisms to generate asymmetry between homogeneous cells is a positive feedback loop between adjacent cells. Such a cell-cell positive feedback loop amplifies a slight difference between adjacent cells and generates a stable difference between the cells. In this study, I will reconstitute the cell-cell positive feedback loop in mammalian cultured cells and identify quantitative conditions and minimal requirements for genesis of asymmetry. Furthermore, I will try to control the ratio of different cell types using the cell-cell positive feedback loop.

    Research Results

    6/Feb/2015
    Mitsuhiro Matsuda, Makito Koga,Knut Woltjen, Eisuke Nishida & Miki Ebisuya"Synthetic lateral inhibition governs cell-type bifurcation with robust ratios"Nature Communications 6, Article number: 6195 doi:10.1038/ncomms7195
    5/Feb/2015
    Matsuda M, Koga M, Woltjen K, Nishida E & Ebisuya M.　"Synthetic lateral inhibition governs cell-type bifurcation with robust ratios" Nature Communications 2015 Feb 5;6:6195. doi: 10.1038.
    22/Dec/2014
    Imajo M, Ebisuya M & Nishida E.　"Dual role of YAP and TAZ in renewal of the intestinal epithelium" Nature Cell Biology 2015 Jan;17(1):7-19. doi: 10.1038.
    5/Feb/2014
    Koga M, Matsuda M, Kawamura T, Sogo T, Shigeno A, Nishida E & Ebisuya M."Foxd1 is a mediator and indicator of the cell reprogramming process."Nature Communications 5:3197
    15/Sep/2013
    Takashima S, Hirose M, Ogonuki N, Ebisuya M, Inoue K, Kanatsu-Shinohara M, Tanaka T, Nishida E, Ogura A & Shinohara T."Regulation of pluripotency in male germline stem cells by Dmrt1."Genes & Development 27(18)1949-58
    10/Apr/2013
    Invitaion Lecture: "Imaging of temperature in a living cell using a fluorescent polymeric thermometer and fluorescence lifetime imaging microscopy" at the 1st Computational Approaches to Networks, Cells and Tissues (Barcelona, Spain)
    16/Apr/2013
    Dr.Miki Ebisuya was awarded the Young Scientists' Prize on the Commendation for Science and Technology by the Minister of Education, Culture, Sports, Science and Technology.
  • Dr.Kouki Okabe

    Kohki Okabe

    Assistant Professor
    Graduate School of Pharmaceutical Sciences
    University of Tokyo

    Title

    Investigating the contribution of intracellular local temperature on cell functions

    High Impact type Period：3years

    Summary

    In this study we investigate the contribution of intracellular local temperature on cell functions by using the method for imaging intracellular temperature and mRNA that we have developed and the technique for local heating in living cells. The comprehension of the connection between intracellular temperature and various cell activities will be beneficial in life science and medical field.

    Research Results

    2-7/Jul/2016
    Oral Presentation: "Imaging and manipulation of temperature in single living cells for thermal biology" at the 19th European Bioenergetics Conference (EBEC2016). Riva del Gardn Italy.
    22/Mar/2016
    Oral Presentation: "IMAGING AND MANIPULATION OF TEMPERATURE IN LIVING SINGLE CELLS" at the Focus on Microscopy 2016.Taipei, Taiwan.
    10/Feb/2015
    Presentation: "IMAGING OF THERMOGENESIS IN LIVING CELLS USING FLUORESCENT POLYMERIC THERMOMETER" at the 59th Annual Meeting of Biophysical Society,Baltimore USA
    10/Nov/2014
    Presentation: "Intracellular temperature imaging using polymeric thermometer and quantitative microscopy" at the Advances in Live Single-Cell Thermal Imaging and Manipulation (ALSCTIM) in Okinawa,Japan
    5/Aug/2014
    Oral Presentation: "Imaging of temperature in a living cell using a fluorescent polymeric thermometer" at the International Biophysics Congress 2014 (Brisbane, Australia)
    20/Jun/2014
    Shin-nosuke Uno, Mako Kamiya, Toshitada Yoshihara, Ko Sugawara, Kohki Okabe, Mehmet C. Tarhan, Hiroyuki Fujita, Takashi Funatsu, Yasushi Okada, Seiji Tobita and Yasuteru Urano"A spontaneously blinking fluorophore based on intramolecular spirocyclization for live-cell super-resolution imaging." Nature Chemistry, 6(8), 681-689, 2014.
    18/Feb/2014
    Oral Presentation: "Real-Time Monitoring of mRNA Decay in Living Cells" at the 58th Annual Meeting,Biophysical Society,San Francisco, California,USA
    8/Oct/2013
    Oral Presentation: "Real-Time Monitoring of mRNA Decay in Living Cells" at the International Symposium on Nanomedicine Molecular Science 2013 (NMMS2013),Tokyo
    6/Sep/2013
    Oral Presentation: "Imaging of temperature in a living cell using a fluorescent polymeric thermometer and fluorescence lifetime imaging microscopy" at the 19th International Workshop on "Single Molecule Spectroscopy and Ultrasensitive Analysis in the Life Sciences" (Berlin, Germany)
    04/Feb/2013
    Oral Presentation:"IMAGING OF TEMPERATURE DISTRIBUTION IN A LIVING CELL" at the Biophysical Society 57th Annual Meeting. (Philadelphia, USA)
    31/Jan/2013
    Invitation Lecture:"Imaging of Temperature Distribution in a Living Cell" at the RSC Publishing-iCeMS Joint International Symposium "Cell-Material Integration and Biomaterials Science". (Kyoto, Japan)
  • Dr.Masaaki Sato

    Masaaki Sato

    Web site

    Associate Professor
    Saitama Univercity Brain Science Institute

    Title

    Imaging and manipulating the dynamics of cell assemblies that represent neural information within the brain

    Standard type Period：3years

    Summary

    How is information about the external world and the organism's internal cognitive state represented within the brain? In 1940s, the Canadian psychologist Donald Hebb proposed the theory of “cell assembly”, in which he postulated neurons acting together are arranged into groups to form a perception. My research program aims to elucidate the principle of how such cell assembly-like functional circuits emerge, operate and change during memory formation and retrieval. To this end, I use in vivo two-photon deep brain microscopy that visualizes and manipulates the activity of large-scale hippocampal neuronal networks in animals performing learning tasks in highly flexible virtual reality environments.

    Research Results

    21/May/2015
    Satoshi Manita1, Takayuki Suzuki,10 Chihiro Homma Takashi Matsumoto Maya Odagawa Kazuyuki Yamada Keisuke Ota1, Chie Matsubara Ayumu Inutsuka Masaaki Sato, Masamichi Ohkura, Akihiro Yamanaka Yuchio Yanagawa, Junichi Nakai, Yasunori Hayashi Matthew E. Larkum and Masanori Murayama1, "A top-down cortical circuit for accurate sensory perception" Neuron 86(5), 1304-1316, 2015
    6/May/2015
    Masaaki Sato(corresponding author), Masako Kawano, Masamichi Ohkura, Keiko Gengyo-Ando, Junichi Nakai, Yasunori Hayashi, "Generation and imaging of transgenic mice that express G-CaMP7 under a tetracycline response element" PLoS ONE 10(5), e015354, 2015
    13/Nov/2013
    Oral Presentation: "Hippocampal CA1 network dynamics during locomotion in virtual reality" at the 43rd Annual Meeting of the Society for Neuroscience,San Diego,USA
  • Dr.Yuta Shimamoto

    Yuta Shimamoto

    Associate Professor
    Center for Frontier Research
    The National Institute of Genetics

    Title

    In vitro reconstitution of a force-generating system using purified components of the mitotic spindle

    Standard type Period：3years

    Summary

    The mitotic spindle is a micron-sized chromosome segregation apparatus that is crucial for cell proliferation and differentiation. In this study, I will reconstitute in vitro a minimal force-generating system that can recapitulate spindle assembly and function using cytoskeletal filaments and motor proteins, and quantitatively analyze its micromechanical properties. Through this approach I aim to link the molecular-level mechanics to the spindle’s system-level function, and reveal the underlying physical mechanism that ensures high-fidelity chromosome segregation during cell division.

    Research Results

    7/Oct/2015
    Invited Lecture: "Motor protein mechanics and spindle size regulation" at the Japanese Society for Quantitative Biology (Japan Q-Bio Week), NIG International Symposium (Mishima symposium)
    28/Sep/2015
    Yuta Shimamoto, Scott Forth (Rockefeller Univ.), Tarun M Kapoor (Rockefeller Univ.) "Measuring pushing and braking forces generated by ensembles of kinesin-5 crosslinking two microtubules" Developmental Cell, 2015 Sep 28;34(6):669-81.
    15/Apr/2015
    Dr.Yuta Shimamoto was awarded the Young Scientists' Prize on the Commendation for Science and Technology by the Minister of Education, Culture, Sports, Science and Technology.
    4/Feb/2014
    Jun Takagi, Takeshi Itabashi, Kazuya Suzuki, Yuta Shimamoto, Tarun M Kapoor, Shin’ichi Ishiwata "Micromechanics of the vertebrate meiotic spindle examined by stretching along the pole-to-pole axis"Biophysical Journal 106(3)735-40
    05/Feb/2013
    Oral Presentation:"Insights into the micromechanical properties of the metaphase spindle" at the Biophysical Society 50th Annual Meeting in Philadelphia. (Pennsylvania, USA)
  • Dr.Takuma Sugi

    Takuma Sugi

    Web site

    Associate Professor
    Molecular Neuroscience Research Center
    Shiga University of Medical Science

    Title

    Reconstruction of Memory

    Standard type Period：3years

    Summary

    Reconstruction of memory in a model animal could be a promising approach to define the molecules fundamentally encoding memory from a huge number of previously identified components. C. elegans is a potentially ideal model animal to examine such a synthetic approach because of the ease with which genetic manipulations can be conducted at single neuronal resolution within neural circuit. In this study, I will reconstruct behavioral memory in C. elegans neural circuit on the basis of molecular and neuronal level parameters measured during and after memory formation. This study is a first challenge for applying synthetic approach to the model animal.

    Research Results

    27/Apr/2015
    Oral Presentation: "Neural Circuit encoding mechanosensory habituation in C. elegans" at the BIT’s 5th Annual World Congress of Molecular & Cell Biology-2015 Nanjing China.
    2015
    Yohsuke Yoshinari, Shigeyuki Mori, Ryuji Igarashi, Takuma Sugi, Hiroaki Yokota, Kazuhiro Ikeda, Hitoshi Sumiya, Ikue Mori, Hidehito Tochio, Yoshie Harada, Masahiro Shirakawa. "Optically Detected Magnetic Resonance of Nanodiamonds In Vivo; Implementation of Selective Imaging and Fast Sampling " Journal of Nanoscience and Nanotechnology 2015, 15(2), 1014-1021 (DOI: 10.1116/jnn.2015.9739).
    2015
    Takuma Sugi. "Targeted Genome Editing Using Site-specific Nucleases: ZFNs, TALENs, and the CRISPR/Cas9 System (Editor: Takashi Yamamoto)" Springer Japan.
    2/Dec/2014
    Takuma Sugi,(Corresponding author), Yasuko Ohtani, Yuta Kumiya, Ryuji Igarashi, Masahiro Shirakawa. "High-throughput optical quantification of mechanosensory habituation reveals neurons encoding memory in Caenorhabditis elegans " Proceedings of the National Academy of Sciences of the USA　2014, 111(48), 17236-17241 (DOI: 10.1073/pnas.1414867111).
    3/Nov/2014
    Presentation: "Regulation of gene expression and behavior by genome editing technology in C. elegans" at the MicroRNAs & Single Molecule/Genome Editing Symposia-2014, Cambridge, UK
    18/Jul/2014
    Takuma Sugi, Yasuko Ohtani"Simplified method for cell-specific gene expression analysis in Caenorhabditis elegans" Biochemical and Biophysical Research Communications 2014, 450(1), 330-334 (DOI: 10.1016/j.bbrc.2014.05.124)
    17/Dec/2013
    Takuma Sugi,Tetsushi Sakuma, Yasuko Ohtani, Takashi Yamamoto "Versatile strategy for isolating transcription activator-like effector nuclease-mediated knockout mutants in Caenorhabditis elegans" Development, growth & differentiation 56(1):78－85
    27/Jun/2013
    Oral Presentation: "High-throughput behavioral imaging reveals the neurons responsible for mechanosensory memory in C. elegans" at the 19th international C. elegans meeting (California, USA)
    Nov/2012
    Igarashi R, Yoshinari Y, Yokota H, Sugi T, Sugihara F, Ikeda K, Sumiya H, Tsuji S, Mori I, Tochio H, Harada Y, Shirakawa M."Real-Time Background-Free Selective Imaging of Fluorescent Nanodiamonds in Vivo" Nano Letters 12 (11), pp 5726–5732, 2012
    15/Oct/2012
    Ryuji Igarashi, Yohsuke Yoshinari , Hiroaki Yokota, Takuma Sugi, Fuminori Sugihara, Kazuhiro Ikeda , Hitoshi Sumiya , Shigenori Tsuji , Ikue Mori , Hidehito Tochio , Yoshie Harada,and Masahiro Shirakawa,“Real-Time Background-Free Selective Imaging of Fluorescent Nanodiamonds in Vivo“Nano Lett., DOI: 10.1021/nl302979d
  • Dr.Tadashi Nomura

    Tadashi Nomura

    Web site

    Associate Professor
    Graduate School of Medicine
    Kyoto Prefectural University of Medicine

    Title

    Re-assembling of a mammalian neocortical laminar structure by evolutionary and conctitutive approaches

    Standard type Period：3years

    Summary

    The mammalian neocortex has a remarkable six-layred laminar structure, which is thought to be derived from a simple reptilian type cortex. However, changes in developmental programs provided the neocortical lamination remain to be elucidated. In this study, I will manipulate cellular and molecular components of the reptilian cortex, and create a mammalian-type neocortical laminar structure in vitro and in vivo. These new experimental approaches will shed light on the origin and evolutionary process of the mammalian neocortex.

    Research Results

    5/Jan/2016
    Tadashi Nomura, Chiaki Ohtaka-Maruyama, Wataru Yamashita, Yoshio Wakamatsu, Yasunori Murakami, Federico Calegari, Kunihiro Suzuki, Hitoshi Gotoh and Katsuhiko Ono "Evolution of basal progenitors in the developing non-mammalian brain" Development 2016 Jan 1;143(1):66-74. doi: 10.1242/dev.127100.
    5/Jun/2015
    Oral Presentation: "Evolution of progenitor dynamics and transcriptional regulation in amniote brains" at the 48th Annual Meeting for the Japanese Society of Developmental Biologists (JSDB). Tsukuba, Ibaragi Japan.
    24/Feb/2015
    Tadashi Nomura, Wataru Yamashita, Hitoshi Gotoh, Katsuhiko Ono. "Genetic manipulation of reptilian embryos: toward an understanding of cortical development and evolution" Frontiers in Neuroscience 2015 Feb 24;9:45. doi: 10.3389/fnins.
    8/Jul/2014
    Invited Lecture: "Regulation of neural stem cells and brain evolution in amniotes" at the "Neural Stem Cells in Evolution" Satellite Symposium of International Congress on Stem Cells and Tissue Formation, CRTD (Dresden, Germany)
    15/Nov/2013
    Dr.Tadashi Nomura was awarded the funniest title prize of presentatin at the 43rd German-Japanese bilateral event on neural stem cells and mammalian neurogenesis.
    25/Jul/2013
    Tadashi Nomura, Hitoshi Gotoh, Katsuhiko Ono."Changes in the regulation of cortical neurogenesis contribute to encephalization during aminote brain evolution" Nature Communications 4 2206 (2013).
    06/Mar/2013
    Oral Presentation:"Changes in the regulation of neurogenesis contributed to parallel encephalisation during amniote brain evolution." at the CDB Symposium 2013 The making of a vertebrate. (Kobe, Japan)
  • Dr.Shigeyuki Betsuyaku

    Shigeyuki Betsuyaku

    Associate Professor
    Faculty of Life and Environmental Sciences
    The University of Tsukuba

    Title

    A constructive approach to understanding plant hypersensitive response through analysis of individual cellular activities

    Standard type Period：3years

    Summary

    The hypersensitive response (HR) in plants is a strong and important mechanism of disease resistance. However, its precise regulation still remains unclear. In this study, I aim to redefine the HR as a result of interaction among cells with different activities observed in a leaf undergoing HR. Through combining live tissue imaging of plant immune responses with targeted single-cell gene expression, I will reconstitute the minimized HR, enabling quantitative studies, such as mathematical modeling, of HR development. Thus, I aim to unravel the mechanism controlling HR development using a constructive approach.

    Research Results

    7-9/Jul/2014
    Oral Presentation: "LIVE IMAGING-BASED DISSECTION OF ARABIDOPSIS IMMUNE RESPONSES" at the International Congress on Molecular Plant-Microbe Interactions (XVI) (Rhodes, Greece)

Researchers

  • 1st Phase
  • 2nd Phase
  • 3rd Phase