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2010 Fiscal Year Final Research Report

Exciton-controlled imaging for effective spatiotemporal analysis of nucleic acid functions

Research Project

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Project/Area Number 20350083
Research Category

Grant-in-Aid for Scientific Research (B)

Allocation TypeSingle-year Grants
Section一般
Research Field Chemistry related to living body
Research InstitutionThe Institute of Physical and Chemical Research

Principal Investigator

OKAMOTO Akimitsu  The Institute of Physical and Chemical Research, 岡本独立主幹研究ユニット, ユニットリーダー(独立主幹研究員) (60314233)

Project Period (FY) 2008 – 2010
Keywords励起子相互作用 / 蛍光イメージング / 蛍光色素 / DNA
Research Abstract

A series of near-infrared fluorescent probes was designed based on the concept of emission control caused by interdye excitonic interaction. The fluorescent probes showed very weak emission in the unhybridized state, whereas they emitted near-infrared fluorescence after hybridization with the complementary nucleic acid. The hybridization-dependent switching of fluorescence emission made it possible to monitor mRNA in a human cell in the range of near-infrared wavelengths.

  • Research Products

    (43 results)

All 2010 2009 2008

All Journal Article (18 results) (of which Peer Reviewed: 18 results) Presentation (25 results)

  • [Journal Article] ECHO-LNA Conjugates : Hybridization-sensitive Fluorescence and its Application to Fluorescent Detection of Various RNA Strands2010

    • Author(s)
      Sugizaki K.; Okamoto A.
    • Journal Title

      Bioconjugate Chem. 21(12)

      Pages: 2276-2281

    • Peer Reviewed
  • [Journal Article] Sets of RNA Repeated Tags and Hybridization-Sensitive Fluorescent Probes for Distinct Images of RNA in a Living Cell2010

    • Author(s)
      Kubota T.; Ikeda S.; Yanagisawa H.Yuki M.; Okamoto A
    • Journal Title

      PLoS ONE 5(9)

      Pages: e13003

    • Peer Reviewed
  • [Journal Article] Excitonic interaction : Another photophysical process for fluorescence-controlled nucleic acid sensing2010

    • Author(s)
      Okamoto A
    • Journal Title

      Chem.Rec. 10(3)

      Pages: 188-196

    • Peer Reviewed
  • [Journal Article] A Probe Containing Two Base-discriminating Fluorescent (BDF) Nucleosides for SNP Typing2010

    • Author(s)
      Yoshida Y.; Niwa K.; Yamada K.; Tokeshi M.; Baba Y.; Saito Y.Okamoto A.; Saito I
    • Journal Title

      Chem. Lett. 39(2)

      Pages: 116-117

    • Peer Reviewed
  • [Journal Article] Exciton-Primer Mediated SNP Detection in SmartAmp2 Reactions2010

    • Author(s)
      Lezhava A.; Ishidao T.; Ishizu Y.; Naito K.; Hanami T.; Katayama A.; Kogo Y.; Soma T.; Ikeda S.; Murakami K.; Nogawa C.; Itch M.; Mitani Y.; Harbers M.; Okamoto A.; Hayashizaki Y
    • Journal Title

      Hum.Mutat. 31(2)

      Pages: 208-217

    • Peer Reviewed
  • [Journal Article] Hybridization-sensitive fluorescent DNA probe with self-avoidance ability2010

    • Author(s)
      Ikeda S.; Kubota T.; Yuki M.; Yanagisawa H.; Tsuruma S.; Okamoto A
    • Journal Title

      Org.Biomol.Chem. 8(3)

      Pages: 546-551

    • Peer Reviewed
  • [Journal Article] Doubly thiazole orange-labeled cytidine for functional expansion of a hybridization-sensitive probe2009

    • Author(s)
      Ikeda S.; Yuki M.; Yanagisawa H.; Okamoto A
    • Journal Title

      Tetrahedron Lett. 50(51)

      Pages: 7191-7195

    • Peer Reviewed
  • [Journal Article] Exciton-Controlled Hybridization- Sensitive Fluorescent Probes : Multicolor Detection of Nucleic Acids2009

    • Author(s)
      Ikeda S.; Kubota T.; Yuki M.; Okamoto A
    • Journal Title

      Angew.Chem., Int.Ed. 48(35)

      Pages: 6480-6484

    • Peer Reviewed
  • [Journal Article] Hybridization-Sensitive Fluorescent Probe for Long-Time Monitoring of Intracellular RNA2009

    • Author(s)
      Kubota T.; Ikeda S.; Yanagisawa H.; Yuki M.; Okamoto A
    • Journal Title

      Bioconjuga to Chem. 20(6)

      Pages: 1256-1261

    • Peer Reviewed
  • [Journal Article] Photoresponsive Tandem Zinc Finger Peptide2009

    • Author(s)
      Nomura A.; Okamoto A
    • Journal Title

      Chem.Commun.

      Pages: 1906-1908

    • Peer Reviewed
  • [Journal Article] Osmium Complexation of Mismatched DNA : Effect of the Bases Adjacent to Mismatched 5-Methylcytosine2009

    • Author(s)
      Nomura A.; Tainaka K.; Okamoto A
    • Journal Title

      Bioconjugate Chem. 20(3)

      Pages: 603-607

    • Peer Reviewed
  • [Journal Article] Doubly Thiazole Orange-Labeled DNA for Live Cell RNA Imaging2009

    • Author(s)
      Kubota T.; Ikeda S.; Okamoto A
    • Journal Title

      Bull.Chem.Soc.Jpn. 82(1)

      Pages: 110-117

    • Peer Reviewed
  • [Journal Article] Chemical approach toward efficient DNA methylation analysis2009

    • Author(s)
      Okamoto A
    • Journal Title

      Org.Biomol.Chem. 7(1)

      Pages: 21-26

    • Peer Reviewed
  • [Journal Article] Heterogeneity of osmium oxidation efficiency at consecutive thymines2008

    • Author(s)
      Nomura A.; Okamoto A
    • Journal Title

      Org.Biomol.Chem. 6(21)

      Pages: 3905-3907

    • Peer Reviewed
  • [Journal Article] Sequence Dependence of Fluorescence Emission and Quenching of Doubly Thiazole Orange-Labeled DNA : Effective Design of a Hybridization-Sensitive Probe2008

    • Author(s)
      Ikeda S.; Kubota T.; Kino K.; Okamoto A
    • Journal Title

      Bioconjugate Chem. 19(8)

      Pages: 1719-1725

    • Peer Reviewed
  • [Journal Article] Hybridization-Sensitive On-Off DNA Probe : Application of the Exciton Coupling Effect to Effective Fluorescence Quenching2008

    • Author(s)
      Ikeda S.; Okamoto A
    • Journal Title

      Chem.Asian J. 3(6)

      Pages: 958-968

    • Peer Reviewed
  • [Journal Article] Synthesis and characterization of the 5-methyl-2'-deoxycytidine glycol-dioxoosmium-bipyridine ternary complex in DNA2008

    • Author(s)
      Umemoto T.; Okamoto A
    • Journal Title

      Org.Biomol.Chem. 6(2)

      Pages: 269-271

    • Peer Reviewed
  • [Journal Article] Design of a pyrene-containing fluorescence probe for labeling of RNA poly(A) tracts2008

    • Author(s)
      Tanaka K.; Okamoto A
    • Journal Title

      Bioorg.Med.Chem. 16(1)

      Pages: 400-404

    • Peer Reviewed
  • [Presentation] Photochemical design for live cell RNA imaging2010

    • Author(s)
      Akimitsu Okamoto
    • Organizer
      International Chemical Congress of Pacific Basin Societies (PACIFICHEM 2010)
    • Place of Presentation
      Honolulu, USA(Invited)
    • Year and Date
      20101200
  • [Presentation] DNA-osmium complex : Pinpoint detection of methylated cytosines2010

    • Author(s)
      Akimitsu Okamoto
    • Organizer
      International Chemical Congress of Pacific Basin Societies (PACIFICHEM 2010)
    • Place of Presentation
      Honolulu, USA(Invited)
    • Year and Date
      20101200
  • [Presentation] Artificial Zinc Finger Peptide for Recognition of Methylated DNA Duplex2010

    • Author(s)
      Akiko Nomura, Akimitsu Okamoto
    • Organizer
      The 5th Asian Biological Inorganic Chemistry Conference
    • Place of Presentation
      Kaohsiung, Taiwan
    • Year and Date
      20101100
  • [Presentation] Fluorescent Nucleotides for Efficient Nucleic Acid Sensin2010

    • Author(s)
      Akimitsu Okamoto
    • Organizer
      11th International Chemistry Conference and Exhibition in Africa (11 ICCA)
    • Place of Presentation
      Luxor, Egypt(Invited)
    • Year and Date
      20101100
  • [Presentation] A short talk on ICON and ECHO probes2010

    • Author(s)
      Akimitsu Okamoto
    • Organizer
      Asian 3 Roundtable on Nucleic Acids (A3RONA 2010 JAPAN)
    • Place of Presentation
      Osaka, Japan(Invited)
    • Year and Date
      20101000
  • [Presentation] Application of artificial DNA probes in genome-scale DNA methylation analysis and evaluation of nucleic acid functions2010

    • Author(s)
      Akimitsu Okamoto
    • Organizer
      BIG-CAS Seminar
    • Place of Presentation
      Beijing, China(Invited)
    • Year and Date
      20101000
  • [Presentation] Hybridization-Sensitive Fluorescent Nucleic Acids for Live Cell RNA Imaging2010

    • Author(s)
      Akimitsu Okamoto
    • Organizer
      2nd Workshop on Fluorescence Chemosensor and Bio-imaging
    • Place of Presentation
      Dalian, China(Invited)
    • Year and Date
      20100900
  • [Presentation] Exciton-controlled Hybridization-sensitive Fluorescent Oligonucleotides2010

    • Author(s)
      Takeshi Kubota, Shuji Ikeda, Hiroyuki Yanagisawa, Mizue Yuki, Kaori Sugizaki, Akimitsu Okamoto
    • Organizer
      29th International Round Table on Nucleosides, Nucleotides and Nucleic Acids (IRT 2010)
    • Place of Presentation
      Lyon, France
    • Year and Date
      20100800
  • [Presentation] Thiazole Orange Dimer on a Nucleotide : Application to Live Cell RNA Imaging2010

    • Author(s)
      Akimitsu Okamoto, Shuji Ikeda, Takeshi Kubota
    • Organizer
      23th IUPAC Symposium on Photochemistry
    • Place of Presentation
      Ferrara, Italy
    • Year and Date
      20100700
  • [Presentation] Hybridization-Sensitive Fluorescent Nucleic Acids for Effective RNA Imaging2010

    • Author(s)
      Shuji Ikeda, Takeshi Kubota, Akimitsu Okamoto
    • Organizer
      Challenges in Organic Chemistry and Chemical Biology (ISACS1)
    • Place of Presentation
      San Francisco, USA
    • Year and Date
      20100700
  • [Presentation] ICON Probe : Osmium Complexation for Pinpoint Detection of Methylated Cytosines2009

    • Author(s)
      Akimitsu Okamoto
    • Organizer
      BIT Life Sciences' 2nd Annual Congress and Expo of Molecular Diagnostics (CEMD-2009)
    • Place of Presentation
      Beijing, China(Invited)
    • Year and Date
      20091000
  • [Presentation] Photochemical Probe Design for Multicolor RNA Imaging in Living Cells2009

    • Author(s)
      Takeshi Kubota, Shuji Ikeda, Akimitsu Okamoto
    • Organizer
      11th International Kyoto Conference on New Aspects of Organic Chemistry (IKCOC-11)
    • Place of Presentation
      Kyoto, Japan
    • Year and Date
      20091000
  • [Presentation] Exciton-controlled fluorescence : Application to hybridization-sensitive fluorescent DNA probe2009

    • Author(s)
      Akimitsu Okamoto, Shuji Ikeda, Takeshi Kubota, Mizue Yuki, Hiroyuki Yanagisawa
    • Organizer
      The 6th International symposium on Nucleic Acid Chemistry (61SNAC2009)
    • Place of Presentation
      Takayama, Japan
    • Year and Date
      20090900
  • [Presentation] Doubly Dye-Labeled Nucleotide : Toward Efficient RNA Imaging2009

    • Author(s)
      Akimitsu Okamoto
    • Organizer
      The 13th Asian Chemical Congress
    • Place of Presentation
      Shanghai, China(Invited)
    • Year and Date
      20090900
  • [Presentation] Exciton-controlled probes for live cell RNA imaging2009

    • Author(s)
      Akimitsu Okamoto
    • Organizer
      42nd IUPAC Congress
    • Place of Presentation
      Glasgow, UK(Invited)
    • Year and Date
      20090800
  • [Presentation] Addition of Osmium to DNA Pyrimidine Bases2009

    • Author(s)
      Akimitsu Okamoto
    • Organizer
      14th International Conference on Biological Inorganic Chemistry
    • Place of Presentation
      Nagoya, Japan(Invited)
    • Year and Date
      20090700
  • [Presentation] Excitonic Interaction : New Photochemical Control for Nucleic Acid Imaging2009

    • Author(s)
      Akimitsu Okamoto
    • Organizer
      The Fifth iCeMS International Symposium
    • Place of Presentation
      Kyoto, Japan(Invited)
    • Year and Date
      20090700
  • [Presentation] Doubly Dye-Labeled Nucleotide: Synthesis, Photochemistry, and Application to RNA Imaging2009

    • Author(s)
      Akimitsu Okamoto, Shuji Ikeda, Mizue Yuki, Takeshi Kubota
    • Organizer
      Tenth Tetrahedron Symposium
    • Place of Presentation
      Paris, France
    • Year and Date
      20090600
  • [Presentation] Control of DNA binding by a zinc finger peptide having and azobenzene photo-switch2008

    • Author(s)
      Akiko Nomura, Akimitsu Okamoto
    • Organizer
      4th Asian Biological Inorganic Chemistry Conference
    • Place of Presentation
      Jeju, Korea
    • Year and Date
      20081100
  • [Presentation] Reactivity of Thymine Doublet in Single Strand DNA with Osmium Reagent2008

    • Author(s)
      Akiko Nomura, Akimitsu Okamoto
    • Organizer
      joint Symposium of 18th International Roundtable on Nucleosides, Nucleotides and Nucleic Acids and 35th International Symposium on Nucleic Acids Chemistry
    • Place of Presentation
      Kyoto, Japan
    • Year and Date
      20080900
  • [Presentation] Intracellular mRNA imaging with a hybridization sensitive fluorescent nucleotide2008

    • Author(s)
      Takeshi Kubota, Shuji Ikeda, Akimitsu Okamoto
    • Organizer
      joint Symposium of 18th International Roundtable on Nucleosides, Nucleotides and Nucleic Acids and 35th International Symposium on Nucleic Acids Chemistry
    • Place of Presentation
      Kyoto, Japan
    • Year and Date
      20080900
  • [Presentation] Design of a fluorescent probe for DNA/RNA imaging2008

    • Author(s)
      Akimitsu Okamoto, Takeshi Kubota, Shuji Ikeda
    • Organizer
      joint Symposium of 18th International Roundtable on Nucleosides, Nucleotides and Nucleic Acids and 35th International Symposium on Nucleic Acids Chemistry
    • Place of Presentation
      Kyoto, Japan
    • Year and Date
      20080900
  • [Presentation] Doubly Thiazole Orange-Labeled Nucleotide Application to Hybridization-Sensitive DNA Probe2008

    • Author(s)
      Takeshi Kubota, Shuji Ikeda, Akimitsu Okamoto
    • Organizer
      2008 Korea-Japan Symposium on Frontier Photoscience (KJFP 2008)
    • Place of Presentation
      Jeju, Korea(Invited)
    • Year and Date
      20080900
  • [Presentation] DNA-Osmium Complex for DNA Methylation Analysis2008

    • Author(s)
      Akimitsu Okamoto
    • Organizer
      31st National Medicinal Chemistry Symposium, American Chemical Society
    • Place of Presentation
      Pittsburgh, USA(Invited)
    • Year and Date
      20080600
  • [Presentation] Synthesis of bipyridine-adenine conjugates for DNA methylation analysis2008

    • Author(s)
      Kazuki Tainaka, Akimitsu Okamoto
    • Organizer
      14th Symposium on Chemistry of Nucleic Acid Components
    • Place of Presentation
      Cesky Krumlov, Czech
    • Year and Date
      20080600

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Published: 2012-01-26   Modified: 2016-04-21  

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