Functional Control by Modulating the Nucleic Acid Structure Based on Mismatch Base Pair Stabilization

• Project/Area Number: 18105006
• Research Category: Grant-in-Aid for Scientific Research (S)
• Allocation Type: Single-year Grants
• Research Field: Chemistry related to living body
• Research Institution: Osaka University
• Principal Investigator: NAKATANI Kazuhiko Osaka University, 産業科学研究所, 教授 (70237303)
• Co-Investigator(Kenkyū-buntansha): DOHNO Chikara 大阪大学, 産業科学研究所, 准教授 (60420395) ; HAGIHARA Masaki 大阪大学, 産業科学研究所, 助教 (40403000) ; TAKEI Fumie 大阪大学, 産業科学研究所, 助教 (30252711) ; ZHOU Daーyang 大阪大学, 産業科学研究所, 助教 (00324848)
• Project Period (FY): 2006 – 2010
• Project Status: Completed (Fiscal Year 2010)
• Budget Amount: ¥113,100,000 (Direct Cost: ¥87,000,000、Indirect Cost: ¥26,100,000); Fiscal Year 2010: ¥6,110,000 (Direct Cost: ¥4,700,000、Indirect Cost: ¥1,410,000); Fiscal Year 2009: ¥12,350,000 (Direct Cost: ¥9,500,000、Indirect Cost: ¥2,850,000); Fiscal Year 2008: ¥17,940,000 (Direct Cost: ¥13,800,000、Indirect Cost: ¥4,140,000); Fiscal Year 2007: ¥45,890,000 (Direct Cost: ¥35,300,000、Indirect Cost: ¥10,590,000); Fiscal Year 2006: ¥30,810,000 (Direct Cost: ¥23,700,000、Indirect Cost: ¥7,110,000)
• Keywords: 核酸 / 光制御 / ミスマッチ / 分子認識 / DNAナノ構造 / ナノテクノロジー / DNA / 分子 / 高次構造 / 制御 / ヘアピンループ / 会合体 / 光異性化 / 核酸構造 / 機能発現 / 生体認識 / 機能化学 / 光応答 / RNA / 塩基対 / スイッチ / 機能制御

Research Abstract

We have established novel concept that small synthetic ligand, which selectively binds to DNA mismatch, could control higher order structures of DNA. DNA hybridization could be reversibly controlled by newly developed photoresponsive mismatch binding ligand, which allowed us to modulate various DNA-based functions depending on the ligand-specified DNA structures.

Research Products

• [Journal Article] Ligand-Assisted Complex of Two DNA Hairpin Loops. (2011)
  • Author(s): Hong, C.; Hagihara, M.; Nakatani, K.Angew.
  • Journal Title: Chem.Int.Ed. 50 Pages: 4390-4393
  • Peer Reviewed
• [Journal Article] Ligand Inducible Assembly of a DNA Tetrahedron. (2011)
  • Author(s): Dohno, C.; Atsumi, H.; Nakatani, K.
  • Journal Title: Chem.Commun. 47 Pages: 3499-3501
  • Peer Reviewed
• [Journal Article] Ligand-Assisted Complex of Two DNA Hairpin Loops. (2011)
  • Author(s): Hong, C.; Hagihara, M.; Nakatani, K.
  • Journal Title: Angewandte Chemi International Edition Volume: (印刷中)
  • Peer Reviewed
• [Journal Article] Ligand Inducible Assembly of a DNA Tetrahedron. (2011)
  • Author(s): Dohno, C.; Atsumi, H.; Nakatani, K.
  • Journal Title: Chemical Communication Volume: (印刷中)
  • Peer Reviewed
• [Journal Article] Antisense-Induced Guanine Quadruplexes Inhibit Reverse Transcription by HIV-1 Reverse Transcriptase. (2010)
  • Author(s): Hagihara, M.; Yamauchi, L.; Seo, A.; Yoneda, K.; Senda, M.; Nakatani, K.
  • Journal Title: J.Am.Chem.Soc. 132 Pages: 11171-11178
  • Peer Reviewed
• [Journal Article] Non-covalent assembly of TEMPO radicals pair-wise embedded on a DNA duplex. (2010)
  • Author(s): Atsumi, H.; Maekawa, K.; Nakazawa, S.; Shiomi, D.; Sato, K.; Kitagawa, M.; Takui, T., Nakatani, K.
  • Journal Title: Chem.Lett.(Editor's Choice) 39 Pages: 556-557
  • NAID: 10027181105
  • Peer Reviewed
• [Journal Article] Fluorescent Indicator-Displacement Assay for Ligand-RNA Interactions (2010)
  • Author(s): Zhang, J.; Umemoto, S.; Nakatani, K.
  • Journal Title: J.Am.Chem.Soc. 132 Pages: 3660-3661
  • Peer Reviewed
• [Journal Article] Programmed Assembly of Organic Radicals on DNA. (2010)
  • Author(s): Maekawa, K.; Nakazawa, S.; Atsumi, H.; Shiomi, D.; Sato, K.; Kitagawa, M.; Takui, T.; Nakatani, K.
  • Journal Title: Chem.Commun. 46 Pages: 1247-1249
  • Peer Reviewed
• [Journal Article] Non-covalent assembly of TEMPO radicals pair-wise embedded on a DNA duplex. (2010)
  • Author(s): Atsumi, H.; Maekawa, K.; Nakazawa, S.; Shiomi, D.; Sato, K.; Kitagawa, M.; Takui, T., Nakatani, K.
  • Journal Title: Chemistry Letters Volume: (印刷中) Pages: 556-557
  • NAID: 10027181105
  • Peer Reviewed
• [Journal Article] Recognition of Mismatched Base Pairs in DNA (2009)
  • Author(s): Nakatani, K.
  • Journal Title: Bull.Chem.Soc.Jpn.(総説) 82 Pages: 1055-1069
  • NAID: 10025321391
  • Peer Reviewed
• [Journal Article] Secondary Structure-Inducible Ligand Fluorescence Coupled with PCR (2009)
  • Author(s): Takei, F.; Igarashi, M.; Hagihara, M.; Oka, Y.; Soya, Y.; Nakatani, K.
  • Journal Title: Angew.Chem.Int.Ed. 48 Pages: 7822-7824
  • Peer Reviewed
• [Journal Article] A Light-Driven, Supramolecular Optical Switch (2009)
  • Author(s): Uno, S.; Dohno, C.; Bittermann, H.; Malinovskii, V.L.; Haner, R.; Nakatani, K.
  • Journal Title: Angew.Chem.Int.Ed. 48 Pages: 7362-7365
  • Peer Reviewed
• [Journal Article] Small molecule affecting the replication of trinucleotide repeat d(GAA)n (2009)
  • Author(s): He, H.; Hagihara, M.; Nakatani, K.
  • Journal Title: Chem.Eur.J. 15 Pages: 10641-10648
  • Peer Reviewed
• [Journal Article] Photoswitchable Unsymmetrical Ligand for DNA Hetero-Mismatches (2009)
  • Author(s): Dohno, C.; Yamamoto, T.; Nakatani, K.
  • Journal Title: Eur.J.Org.Chem. Pages: 4051-4058
  • Peer Reviewed
• [Journal Article] RNA Aptamers That Reversibly Bind Photoresponsive Azobenzene-Containing Peptides (2009)
  • Author(s): Hayashi, G.; Hagihara, M.; Nakatani, K.
  • Journal Title: Chem.Eur.J. 15 Pages: 424-432
  • Peer Reviewed
• [Journal Article] The effect of linker length on binding affinity of a photoawitchable molecular glue for DNA (2009)
  • Author(s): C.Dohno, et.al.
  • Journal Title: Bioorg.Med.Chem. 17 Pages: 2536-2543
  • Peer Reviewed
• [Journal Article] Photoawitchable Unaymmetrical Ligand for DNA Hetero-Miamatches (2009)
  • Author(s): C.Dohno, et.al.
  • Journal Title: Eur.J.Org.Chem. Pages: 4051-4058
  • Peer Reviewed
• [Journal Article] A Light-Driven, Supramolecular Optical Switch (2009)
  • Author(s): S.Uno, et.al.
  • Journal Title: Angew.Chem.Int.Ed. 48 Pages: 7362-7365
  • Peer Reviewed
• [Journal Article] Small Molecule Affecting the Replication of Trinucleotide Repeat d(GAA)n. (2009)
  • Author(s): Hanging He, Masaki Hagihara, Kazuhiko Nakatani
  • Journal Title: Chemistry-A European Journal 15巻 Pages: 10641-10648
  • Peer Reviewed
• [Journal Article] Secondary Structure-Inducible Ligand Fluorescence Coupled with PCR (2009)
  • Author(s): Fumie Takei, Masako Igarashi, Masaki Hagihara, Yoshimi Oka, Yoehihiro Soya, Kazuhiko Nakatani
  • Journal Title: Angewandte Chemie International Edition 48巻 Pages: 7822-7824
  • Peer Reviewed
• [Journal Article] RNA Aptamers That Reversibly Bind Photoresponsive Azobenzene Containing Peptides (2009)
  • Author(s): Hayashi G.; Hagihara M.; Nakatani K.
  • Journal Title: Chem. Eur. J. 15 Pages: 424-432
• [Journal Article] DNA Labeling by Ligand Inducible Secondary Structure (2008)
  • Author(s): Peng T.; He H.; Hagihara M.; Nakatani K.
  • Journal Title: ChemBioChem 9 Pages: 1893-1897
• [Journal Article] Photoswitchable Molecular Glue for DNA (2007)
  • Author(s): Dohno, C.; Uno, S.; Nakatani
  • Journal Title: K.J.Am.Chem.Soc. 129 Pages: 11898-11899
  • Peer Reviewed
• [Journal Article] Photoregulation of a Peptide-RNA Interaction on a Gold Surface (2007)
  • Author(s): Hayashi, G.; Hagihara, M.; Dohno, C.; Nakatani, K.
  • Journal Title: J.Am.Chem.Soc. 129 Pages: 8678-8679
  • Peer Reviewed
• [Journal Article] Photoswitchable Molecular Glue for DNA (2007)
  • Author(s): Dohno C.; Uno S.; Nakatani K.
  • Journal Title: J. Am. Chem. Soc. 129 Pages: 11898-11899
• [Journal Article] Photoregulation of a Peptide RNA Interaction on a Gold Surface (2007)
  • Author(s): Hayashi G.; Hagihara M.; Dohno C.; Nakatani K.
  • Journal Title: J. Am. Chem. Soc. 129 Pages: 8678-8679
• [Journal Article] Photoswichable Molecular Glue for DNA (2007)
  • Author(s): Dohno, C., Uno, S., Nakatani, K
  • Journal Title: J. Am. Chem. Soc 129 Pages: 11898-11899
  • Peer Reviewed
• [Journal Article] Photoregulation of a Peptide-RNA Interaction on a Gold Surface (2007)
  • Author(s): Hayashi, G., Hagihara, M., Dohno, C., Nakatani, K.
  • Journal Title: J. Am. Chem. Soc 129 Pages: 8678-8679
  • Peer Reviewed
• [Journal Article] Detection of L-DNA-Tagged PCR Products by Surface Plasmon Resonance Imaging (2007)
  • Author(s): Hayashi, G., Hagihara, M., Kobori, A., Nakatani,K.
  • Journal Title: ChemBioChem 8 Pages: 169-169
• [Journal Article] Evaluation of mismatch-binding ligands as inhibitors for Rev-RRE interaction (2006)
  • Author(s): Nakatani, K., Horie, S., Goto, Y., Kobori, A., Hagihara,S.
  • Journal Title: Bioorg.Med.Chem. 14 Pages: 5384-5384
• [Journal Article] Mismatch binding ligands function as molecular glue for DNA (2006)
  • Author(s): Peng, T., Dohno, C., Nakatani,K
  • Journal Title: Angew.Chem.Int.Ed. 45 Pages: 5623-5623
• [Journal Article] Control of DNA hybridization by photoswitchable molecular glue.
  • Author(s): Dohno, C.; Nakatani, K.
  • Journal Title: Chem.Soc.Rev.(総説) in press.
  • Peer Reviewed
• [Journal Article] Bidirectional Control of Gold Nanoparticle Assembly by Turning On and Off DNA Hybridization with Thermally Degradable Molecular Glue
  • Author(s): Peng, T., Dohno, C., Nakatani, K.
  • Journal Title: ChemBioChem (in press)
• [Journal Article] Allele Specific C-Bulge Probes with One Unique Fluorescent Molecule Discriminate the Single Nucleotide Polymorphism in DNA
  • Author(s): Takei, F., Suda, H., Hagihara, M., Zhang, J., Kobori, A., Nakatani,K.
  • Journal Title: Chem.Eur.J. (in press)
• [Journal Article] Exploiting Small Molecule Binding to DNA for the Detection of Single-Nucleotide Mismatches and Their Base Environment
  • Author(s): Li, X., Song, H., Nakatani, K., Kraatz, H.-B.
  • Journal Title: Anal.Chem. (in press)
• [Presentation] DNA・RNA に結合する小分子現状と課題 (2011)
  • Author(s): 中谷和彦
  • Organizer: 第13回生命化学研究会「分子で拓く生命化学」
  • Place of Presentation: 仙台(招待講演)
  • Year and Date: 2011-01-08
• [Presentation] A Light-Driven, Light-switching DNA Device (2010)
  • Author(s): 中谷和彦
  • Organizer: DNA Photonics Symposium at the PacifiChem2010
  • Place of Presentation: Honolulu, USA(招待講演)
  • Year and Date: 2010-12-17
• [Presentation] Small molecules binding to the hairpin secondary structure of trinucleotide repeat sequences, Nucleic Acid Based (2010)
  • Author(s): 中谷和彦
  • Organizer: Therapeutics Symposium at the PacifiChem2010
  • Place of Presentation: Honolulu, USA(招待講演)
  • Year and Date: 2010-12-16
• [Presentation] Small molecules binding to the hairpin secondary structure of trinucleotide repeat sequences (2010)
  • Author(s): Kazuhiko Nakatani
  • Organizer: Nucleic Acid Based Therapeutics Pacifichem, Honolulu
  • Place of Presentation: Honolulu, Hawaii
  • Year and Date: 2010-12-06
• [Presentation] ホルミル基含有修飾核酸によるDNAメチル化の識別 (2010)
  • Author(s): 柴田知範
  • Organizer: 日本化学会第90春季年会
  • Place of Presentation: 近畿大学(大阪府)
  • Year and Date: 2010-03-28
• [Presentation] RNA四重鎖構造を介した遺伝子発現制御 (2010)
  • Author(s): 萩原正規、中谷和彦
  • Organizer: 日本化学会第90春季年会
  • Place of Presentation: 近畿大学 大阪
  • Year and Date: 2010-03-27
• [Presentation] DNA cross-link generated by a novel modified DNA containing a formyl group (2009)
  • Author(s): 柴田知範
  • Organizer: The sixth International Symposium on Nucleic Acids Chemistry
  • Place of Presentation: 高山市民文化会館(岐阜県)
  • Year and Date: 2009-09-27
• [Presentation] 核酸二次構造安定性を大きく変化させる新規光応答性小分子リガンド (2009)
  • Author(s): 堂野主税
  • Organizer: 第24回生体機能関連化学シンポジウム
  • Place of Presentation: 九州大学(福岡県)
  • Year and Date: 2009-09-13
• [Presentation] mRNAの非翻訳領域に存在する四重鎖構造 (2009)
  • Author(s): 萩原正規、中谷和彦
  • Organizer: 日本ケミカルバイオロジー研究会 第4回年会
  • Place of Presentation: 神戸市産業振興センター
  • Year and Date: 2009-05-19
• [Presentation] Controlling Hybridization by Molecular Glue for DNA (2008)
  • Author(s): 中谷和彦
  • Organizer: 17^<th> International Conference on Organic Synthesis
  • Place of Presentation: Dejon, Korea
• [Book] ゲノム化学 (2007)
  • Author(s): 齋藤烈、杉山弘、中谷和彦編
  • Total Pages: 214
  • Publisher: 化学同人
• [Book] ゲノム化学 (2007)
  • Author(s): 齋藤烈、杉山弘、中谷和彦
  • Publisher: 化学同人
• [Remarks] ホームページ
  • URL: http://www.sanken.osaka-u.ac.jp/labs/rbc/
• [Remarks] 第25回日本化学会学術賞 中谷和彦
• [Remarks] 第40回市村学術賞貢献賞 中谷和彦
• [Remarks] 第26回大阪科学賞 中谷和彦
• [Remarks]
  • URL: http://www.sanken.osaka-u.ac.jp/labs/rbc
• [Patent(Industrial Property Rights)] 一塩基多型を検出する方法および一塩基多型を検出するための試薬キット (2010)
  • Inventor(s): 中谷和彦、武井史恵、萩原正規
  • Industrial Property Rights Holder: 大阪大学
  • Industrial Property Number: 2010-054658
  • Filing Date: 2010-03-11
• [Patent(Industrial Property Rights)] 核酸と被験物質との結合親和性を測定するための組成物及びその利用 (2008)
  • Inventor(s): 中谷和彦、張 錦華、梅本詩織、笹岡眞一、和崎隆博
  • Industrial Property Rights Holder: 大阪大学、日東化成株式会社
  • Industrial Property Number: 2009-519347
  • Filing Date: 2008-07-30
• [Patent(Industrial Property Rights)] DNA二本鎖形成制御 (2006)
  • Inventor(s): 中谷和彦、Peng Tao、堂野主税
  • Industrial Property Rights Holder: 大阪大学
  • Industrial Property Number: 2006-162265
  • Filing Date: 2006-06-12
• [Patent(Industrial Property Rights)] DNA二本鎖形成制御 (2006)
  • Inventor(s): 中谷ほか
  • Industrial Property Rights Holder: 大阪大学
  • Filing Date: 2006-06-12
• [Patent(Industrial Property Rights)] 核酸の増幅反応に用いるプライマ-の5'末端に結合して用いるDNA 断片およびその利用
  • Inventor(s): 中谷和彦、武井史恵、萩原正規
  • Industrial Property Rights Holder: 大阪大学
• [Patent(Industrial Property Rights)] 核酸の増幅反応に用いる繰り返し配列結合プライマ-及びその利用
  • Inventor(s): 中谷和彦、Peng Tao、萩原正規
  • Industrial Property Rights Holder: 大阪大学