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in vivo RNA Imaging Toward Mapping the Dynamics of Gene Expression in the Plastic Brain

Research Project

Project/Area Number 26702038
Research Category

Grant-in-Aid for Young Scientists (A)

Allocation TypePartial Multi-year Fund
Research Field Basic / Social brain science
Research InstitutionKyoto University

Principal Investigator

Wang Dan Ohtan  京都大学, 高等研究院, 特定拠点准教授 (50615482)

Research Collaborator OOMOTO Ikumi  
MATSUO Naoki  
OKAMOTO Akimitsu  
Project Period (FY) 2014-04-01 – 2018-03-31
Project Status Completed (Fiscal Year 2017)
Budget Amount *help
¥23,270,000 (Direct Cost: ¥17,900,000、Indirect Cost: ¥5,370,000)
Fiscal Year 2016: ¥7,150,000 (Direct Cost: ¥5,500,000、Indirect Cost: ¥1,650,000)
Fiscal Year 2015: ¥6,890,000 (Direct Cost: ¥5,300,000、Indirect Cost: ¥1,590,000)
Fiscal Year 2014: ¥9,230,000 (Direct Cost: ¥7,100,000、Indirect Cost: ¥2,130,000)
KeywordsRNA imaging / synapse / neurodevelopment / RNA dynamics / motor cortex / virtual reality / spatial regulation / simulation / mathematical models / in vivo / real-time / spatiotemporal / mechanism / RNA methylation / RNA / foci dynamics / transcription
Outline of Final Research Achievements

With this support, we aimed to study the dynamics of RNA and their regulation as the molecular basis of long-term memory. By introducing a hybridization-sensitive fluorescent probe into intact animals and taking measurement which was previously impossible, we succeeded in visualizing RNA molecules at the level of single cells in vivo and to measure simultaneous changes in hundreds of cells (NAR, 2015). Furthermore, we discovered a novel mechanism of neuronal transcription factors that is not only required for gene activation but for suppressing the function of cognate microRNA. As the result, this mechanism prevents the functionally related gene products from being degraded (Front Mol. Neurosci, 2017). Finally, we defined a new layer of post-transcriptional regulation at neuronal synapses that are enriched in neurodevelopment and neuropsychiatric pathways (Nat Neurosci, in press) .

Report

(5 results)
  • 2017 Annual Research Report   Final Research Report ( PDF )
  • 2016 Annual Research Report
  • 2015 Annual Research Report
  • 2014 Annual Research Report
  • Research Products

    (47 results)

All 2017 2016 2015 2014 Other

All Int'l Joint Research (1 results) Journal Article (8 results) (of which Int'l Joint Research: 2 results,  Peer Reviewed: 8 results,  Open Access: 3 results,  Acknowledgement Compliant: 1 results) Presentation (34 results) (of which Int'l Joint Research: 15 results,  Invited: 17 results) Book (1 results) Remarks (3 results)

  • [Int'l Joint Research] The University of New Castle(オーストラリア)

    • Related Report
      2017 Annual Research Report
  • [Journal Article] Transport Granules Bound with Nuclear Cap Binding Protein and Exon Junction Complex Are Associated with Microtubules and Spatially Separated from eIF4E Granules and P Bodies in Human Neuronal Processes2017

    • Author(s)
      Wang DO, Ninomiya K, Mori C, Koyama A, Haan M, Kitabatake M, Hagiwara M, Chida K, Takahashi SI,Ohno M, Kataoka N
    • Journal Title

      frontiers in Molecular Biosciences

      Volume: 4 Pages: 1-12

    • Related Report
      2017 Annual Research Report
    • Peer Reviewed / Open Access
  • [Journal Article] miRNA Enriched in Human Neuroblast Nuclei Bind the MAZ Transcription Factor and Their Precursors Contain the MAZ Consensus Motif2017

    • Author(s)
      Belinda J. Goldie, Chantel Fitzsimmons, Judith Weidenhofer, Joshua R. Atkins, Dan O. Wang, and Murray J. Cairns
    • Journal Title

      frontiers in Molecular Neuroscience

      Volume: 10 Pages: 1-13

    • NAID

      120006936396

    • Related Report
      2017 Annual Research Report
    • Peer Reviewed / Open Access / Int'l Joint Research
  • [Journal Article] A modified single-cell electroporation method for molecule delivery into a motile protist, Euglena gracilis.2016

    • Author(s)
      Ohmachi M, Fujiwara Y, Muramatsu S, Yamada K, Iwata O, Suzuki K, Wang DO.
    • Journal Title

      J Microbiol Methods.

      Volume: 130 Pages: 106-111

    • DOI

      10.1016/j.mimet.2016.08.018

    • Related Report
      2016 Annual Research Report
    • Peer Reviewed
  • [Journal Article] ECHO-liveFISH: in vivo RNA Labeling Reveals Dynamic Regulation of Nuclear RNA Foci in Living Tissues2015

    • Author(s)
      Oomoto I, Hirano-Suzuki A, Umeshima H, Han YW, Yanagisawa H, Carlton P, Harada Y, Kengaku M, Okamoto A, Shimogori T, and Wang DO.
    • Journal Title

      Nucl Acids. Res

      Volume: 43

    • NAID

      120005619785

    • Related Report
      2015 Annual Research Report
    • Peer Reviewed / Open Access / Int'l Joint Research / Acknowledgement Compliant
  • [Journal Article] Hybridization-sensitive fluorescent oligonucleotide probe conjugated with a bulky module for compartment-specific mRNA monitoring in a living cell2015

    • Author(s)
      Hayashi G, Yanase M, Takeda K, Sakakibara D, Sakamoto R, Wang DO, Okamoto A
    • Journal Title

      Bioconjugate Chemistry

      Volume: 26 Issue: 3 Pages: 412-417

    • DOI

      10.1021/acs.bioconjchem.5b00090

    • Related Report
      2015 Annual Research Report 2014 Annual Research Report
    • Peer Reviewed
  • [Journal Article] Live-cell Imaging of Endogenous mRNAs with a Small Molecule2015

    • Author(s)
      Sato, S.*, Watanabe, M., Katsuda, Y., Murata, A., Wang, D. O., Uesugi M.
    • Journal Title

      Angew. Chem. Int. Ed.

      Volume: 54 Issue: 6 Pages: 1855-1858

    • DOI

      10.1002/anie.201410339

    • NAID

      120005619801

    • Related Report
      2014 Annual Research Report
    • Peer Reviewed
  • [Journal Article] Visualization of nucleic acids with synthetic exciton-controlled fluorescent oligonucleotide probes.2015

    • Author(s)
      Wang DO, Okamoto A
    • Journal Title

      Methods Mol Biol.

      Volume: 1262 Pages: 69-87

    • DOI

      10.1007/978-1-4939-2253-6_5

    • ISBN
      9781493922529, 9781493922536
    • Related Report
      2014 Annual Research Report
    • Peer Reviewed
  • [Journal Article] Plasma membrane translocation of a protein needle based on a triple-stranded β-helix motif.2014

    • Author(s)
      Sanghamitra. NJM, Inaba H, Arisaka F, Wang DO, Kanamaru S, Kitagawa S and Ueno T
    • Journal Title

      Mol. BioSyst

      Volume: 10 Issue: 10 Pages: 2677-2683

    • DOI

      10.1039/c4mb00293h

    • Related Report
      2014 Annual Research Report
    • Peer Reviewed
  • [Presentation] Synaptic epitranscriptomics and dynamic RNA imaging in neurodevelopmentle and neuropsychiatric diseases.2017

    • Author(s)
      王丹
    • Organizer
      第40回日本分子生物学会
    • Related Report
      2017 Annual Research Report
    • Int'l Joint Research / Invited
  • [Presentation] Synaptic Epitranscriptomics and Dynamic RNA Imaging in neurodevelopmentle and neuropsychiatric diseases.2017

    • Author(s)
      王丹
    • Organizer
      兵庫県立大学国際シンポジウム
    • Related Report
      2017 Annual Research Report
    • Int'l Joint Research / Invited
  • [Presentation] Synaptic epitranscriptomics and dynamic RNA imaging in neurodevelopmentle and neuropsychiatric diseases.2017

    • Author(s)
      王丹
    • Organizer
      留日中国人生命科学協会2017年度学術大会
    • Related Report
      2017 Annual Research Report
    • Int'l Joint Research / Invited
  • [Presentation] 生きた脳組織にRNA計測イメージングの開発2017

    • Author(s)
      王丹
    • Organizer
      アステラス病態代謝研究会第48回研究報告会
    • Related Report
      2017 Annual Research Report
  • [Presentation] in vivo RNA labelling reveals dynamic regulation of ribonucleic foci in living neurons2017

    • Author(s)
      王丹
    • Organizer
      日本生物物理学会
    • Related Report
      2017 Annual Research Report
    • Invited
  • [Presentation] Synaptic m6A Epitranscriptome Reveals Functional Partitioning of Localized Transcripts for Dynamic Tripartite Synapse Modulation.2017

    • Author(s)
      王丹
    • Organizer
      第19回日本RNA学会
    • Related Report
      2017 Annual Research Report
    • Invited
  • [Presentation] Synaptic Epitranscriptomics and Dynamic RNA Imaging2017

    • Author(s)
      王丹
    • Organizer
      International Symposium on Imaging Frontier(ISIF 2017)
    • Related Report
      2017 Annual Research Report
    • Int'l Joint Research / Invited
  • [Presentation] Synaptic epitranscriptomics and RNA imaging2016

    • Author(s)
      Dan Ohtan Wang
    • Organizer
      The 53th Annual Meeting of the Biophysical Society of Japan
    • Place of Presentation
      筑波
    • Year and Date
      2016-11-25
    • Related Report
      2016 Annual Research Report
    • Invited
  • [Presentation] Synaptic epitranscriptomics and RNA imaging2016

    • Author(s)
      Dan Ohtan Wang
    • Organizer
      Asian Pacific Society Neuroscience Annual Meeting 2016
    • Place of Presentation
      Kuala Lumpur
    • Year and Date
      2016-08-27
    • Related Report
      2016 Annual Research Report
    • Int'l Joint Research / Invited
  • [Presentation] Synaptic epitranscriptomics and dynamic RNA imaging2016

    • Author(s)
      王 丹
    • Organizer
      Development and Functions of Brain Circuit: From Molecules to Behaviour
    • Place of Presentation
      National Brain Research Center(India・Manesar)
    • Year and Date
      2016-03-29
    • Related Report
      2015 Annual Research Report
    • Int'l Joint Research / Invited
  • [Presentation] Synaptic epitranscriptomics and dynamic RNA imaging2016

    • Author(s)
      王 丹
    • Organizer
      Seminar at Bordeaux neurocampus
    • Place of Presentation
      Bordeaux neurocampus(France・Bordeaux)
    • Year and Date
      2016-03-21
    • Related Report
      2015 Annual Research Report
    • Int'l Joint Research / Invited
  • [Presentation] Synaptic epitranscriptomics and dynamic RNA imaging2016

    • Author(s)
      王 丹
    • Organizer
      Seminar at European Molecular Biology Laboratory
    • Place of Presentation
      European Molecular Biology Laboratory(Germany・Heidelberg)
    • Year and Date
      2016-03-18
    • Related Report
      2015 Annual Research Report
    • Int'l Joint Research / Invited
  • [Presentation] A m6A epitranscriptome at mouse synapse2016

    • Author(s)
      王 丹
    • Organizer
      International Symposium for RIKEN Epigenetics Program 2016
    • Place of Presentation
      理化学研究所(埼玉県・和光市)
    • Year and Date
      2016-02-15
    • Related Report
      2015 Annual Research Report
    • Int'l Joint Research
  • [Presentation] Real-time Imaging and Simulation Reveal Important Operating Factors for mRNP Spatial Regulation2016

    • Author(s)
      Ikumi Oomoto, Daniel Packwood, Dan Ohtan Wang
    • Organizer
      The 21th Annual Meeting of the RNA Society
    • Place of Presentation
      京都国際会館
    • Related Report
      2016 Annual Research Report
    • Int'l Joint Research
  • [Presentation] Activity-dependent dynamics of mRNA expression and m6A methylation in human neuronal cells2016

    • Author(s)
      Belinda Goldie, Youqi Liao, Takayuki Ohara, Dan Ohtan Wang
    • Organizer
      The 21th Annual Meeting of the RNA Society
    • Place of Presentation
      京都国際会館
    • Related Report
      2016 Annual Research Report
    • Int'l Joint Research
  • [Presentation] Toward effective detection of activity-triggered changes in gene expression in a living brain2016

    • Author(s)
      Ikumi Oomoto, Dan Ohtan Wang
    • Organizer
      第89回日本生化学大会
    • Place of Presentation
      仙台
    • Related Report
      2016 Annual Research Report
    • Invited
  • [Presentation] ECHO-liveFISH: towards "lightning up" gene expression upon learning and memory2015

    • Author(s)
      大本育実
    • Organizer
      多様性から明らかにする記憶ダイナミズムの共通原理
    • Place of Presentation
      京都ガーデンパレス(京都府・京都市)
    • Year and Date
      2015-11-04
    • Related Report
      2015 Annual Research Report
  • [Presentation] Fluorescent labeling and imaging RNA in living tissues2015

    • Author(s)
      王 丹
    • Organizer
      Paris Symposium on Integrated Cell-Material Science
    • Place of Presentation
      Institute Pierre-Gilles de Gennes(France・Paris)
    • Year and Date
      2015-10-12
    • Related Report
      2015 Annual Research Report
    • Int'l Joint Research / Invited
  • [Presentation] Real-time Imaging and Mathematical Simulation Reveal Important Operating Factors for RNP Spatial Regulation Dynamics2015

    • Author(s)
      大本育実
    • Organizer
      Hierarchical Dynamics in Soft Materials and Biological Matter
    • Place of Presentation
      京都大学(京都府・京都市)
    • Year and Date
      2015-09-23
    • Related Report
      2015 Annual Research Report
    • Int'l Joint Research
  • [Presentation] ECHO-liveFISH: in vivo RNA Labeling Reveals Dynamic Regulation of Nuclear RNA Foci in Living Tissues2015

    • Author(s)
      王 丹
    • Organizer
      Hierarchical Dynamics in Soft Materials and Biological Matter
    • Place of Presentation
      京都大学(京都府・京都市)
    • Year and Date
      2015-09-23
    • Related Report
      2015 Annual Research Report
    • Int'l Joint Research
  • [Presentation] Imaging RNA in Living Neural Circuits with Hybridization-sensitive Fluorescent Probes2015

    • Author(s)
      王 丹
    • Organizer
      Symposium on Development and Disease
    • Place of Presentation
      東北大学(宮城県・仙台市)
    • Year and Date
      2015-08-24
    • Related Report
      2015 Annual Research Report
    • Int'l Joint Research
  • [Presentation] マウス成体脳シナプスにおけるm6A-RNAのトランスクリプトーム解析2015

    • Author(s)
      Liao Youqi
    • Organizer
      第17回日本RNA学会
    • Place of Presentation
      ホテルライフォート札幌(北海道・札幌市)
    • Year and Date
      2015-07-15
    • Related Report
      2015 Annual Research Report
  • [Presentation] イメージングとシミュレーションから明らかにするRNPの出現・消失の空間作動原理2015

    • Author(s)
      大本育実
    • Organizer
      第17回日本RNA学会
    • Place of Presentation
      ホテルライフォート札幌(北海道・札幌市)
    • Year and Date
      2015-07-15
    • Related Report
      2015 Annual Research Report
  • [Presentation] ECHO-liveFISH: in vivo Labeling of RNA Reveals Dynamic Regulation of ribonuclear Foci in Living Tissues2014

    • Author(s)
      大本 育実
    • Organizer
      The 4D Nucleome 2014
    • Place of Presentation
      広島
    • Year and Date
      2014-12-17 – 2014-12-19
    • Related Report
      2014 Annual Research Report
  • [Presentation] ゲノムが導く明日の自分2014

    • Author(s)
      王 丹
    • Organizer
      第4回WPI合同シンポジウム
    • Place of Presentation
      東京
    • Year and Date
      2014-12-13
    • Related Report
      2014 Annual Research Report
    • Invited
  • [Presentation] To "Light-up" Gene Expression in the Brain2014

    • Author(s)
      王 丹
    • Organizer
      The 8th International Symposium on NanoBiotechnology
    • Place of Presentation
      北京
    • Year and Date
      2014-10-20 – 2014-10-21
    • Related Report
      2014 Annual Research Report
    • Invited
  • [Presentation] 神経可塑性におけるmRNAのシナプス局在及び発現制御2014

    • Author(s)
      王 丹
    • Organizer
      第36回日本生物学的精神医学会 第57回日本神経化学会大会
    • Place of Presentation
      奈良
    • Year and Date
      2014-09-29 – 2014-10-01
    • Related Report
      2014 Annual Research Report
    • Invited
  • [Presentation] ヒト神経細胞内における翻訳休止状態の mRNA 輸送複合体2014

    • Author(s)
      王 丹
    • Organizer
      第16回日本RNA学会
    • Place of Presentation
      名古屋
    • Year and Date
      2014-07-24 – 2014-07-25
    • Related Report
      2014 Annual Research Report
  • [Presentation] ECHO-liveFISH: in vivo Labeling of RNA Reveals Dynamic Regulation of Ribonuclear Foci in Living Tissues2014

    • Author(s)
      大本 育実
    • Organizer
      第16回日本RNA学会
    • Place of Presentation
      名古屋
    • Year and Date
      2014-07-24 – 2014-07-25
    • Related Report
      2014 Annual Research Report
  • [Presentation] ECHO-liveFISH: in vivo Labeling of RNA Reveals Dynamic Regulation of ribonuclear Foci in Living Tissues2014

    • Author(s)
      王 丹
    • Organizer
      The 37th Naito Conference "Bioimaging-a paradigm shift for the life sciences"
    • Place of Presentation
      ニセコ
    • Year and Date
      2014-07-15 – 2014-07-18
    • Related Report
      2014 Annual Research Report
  • [Presentation] Dynamic Spatial Organization of RNA in Living Cells2014

    • Author(s)
      王 丹
    • Organizer
      IGM RNA Biofunction Seminar
    • Place of Presentation
      札幌
    • Year and Date
      2014-07-14
    • Related Report
      2014 Annual Research Report
    • Invited
  • [Presentation] ECHO-liveFISH: in vivo Labeling of RNA Reveals Dynamic Regulation of ribonuclear Foci in Living Tissues2014

    • Author(s)
      王 丹
    • Organizer
      2014 FASEB Science Research Conference
    • Place of Presentation
      アメリカ モンタナ州
    • Year and Date
      2014-07-06 – 2014-07-11
    • Related Report
      2014 Annual Research Report
  • [Presentation] ECHO-liveFISH: in vivo Labeling of RNA Reveals Dynamic Regulation of ribonuclear Foci in Living Tissues2014

    • Author(s)
      LIAO Youqi
    • Organizer
      Gordon Research Seminar "Morecular & Cellular Neurobiology"
    • Place of Presentation
      香港
    • Year and Date
      2014-06-28 – 2014-06-29
    • Related Report
      2014 Annual Research Report
  • [Presentation] Cellular environment-dependent RNA methylation at synapse during learning and memory2014

    • Author(s)
      王 丹
    • Organizer
      多様性から明らかにする記憶ダイナミズムの共通原理
    • Place of Presentation
      札幌
    • Year and Date
      2014-06-16 – 2014-06-18
    • Related Report
      2014 Annual Research Report
  • [Book] RNA Detection2017

    • Author(s)
      Wang, Dan Ohtan
    • Total Pages
      489
    • Publisher
      Springer
    • ISBN
      9781493972135
    • Related Report
      2017 Annual Research Report
  • [Remarks] 王丹助教、生きたマウス脳内の細胞内RNA活動の可視化に成功

    • URL

      http://www.icems.kyoto-u.ac.jp/j/pr/2015/06/29-nr.html

    • Related Report
      2016 Annual Research Report
  • [Remarks]

    • URL

      http://www.icems.kyoto-u.ac.jp/j/pr/2015/06/29-nr.html

    • Related Report
      2015 Annual Research Report
  • [Remarks]

    • URL

      http://www.ohtan.icems.kyoto-u.ac.jp/?page_id=10

    • Related Report
      2015 Annual Research Report

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Published: 2014-04-04   Modified: 2019-03-29  

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