NAKATANI Laboratory, ISIR, Osaka Univ.

Kazuhiko NAKATANI

Chikara DOHNO

staff

student

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Name Chikara Dohno

cdohno@ sanken.osaka-u.ac.jp

Education
1997 B.S., Department of Industrial Chemistry, Faculty of Engineering, Kyoto University
1999 M.S., Department of Synthetic Chemistry and Biological Chemistry, Faculty of Engineering, Kyoto University
2002 Ph.D., Department of Synthetic Chemistry and Biological Chemistry, Faculty of Engineering, Kyoto University (Prof. Isao Saito)

Academic Career
2002-2003 Postdoctoral fellow, Department of Chemistry, California Institute of Technology (Prof. Jacqueline K. Barton)
2003-2005 Postdoctoral fellow, Department of Synthetic Chemistry and Biological Chemistry, Faculty of Engineering, Kyoto University (Prof. Isao Saito), and Department of Chemistry, Graduate School of Science, Kyoto University (Prof. Hiroshi Sugiyama)
2005-2011 Assistant professor, The Institute of Scientific and Industrial Research, Osaka University (Prof. Kazuhiko Nakatani)
2010.10-2014.3 PRESTO Researcher, Japan Science and Technology Agency (concurrent post)
2011.3-present Associate professor, The Institute of Scientific and Industrial Research, Osaka University (Prof. Kazuhiko Nakatani)

List of Papers

2011 -

(63) Premature translation termination mediated non-ER stress induced ATF6 activation by a ligand-dependent ribosomal frameshifting circuit, Hsu, H. T.; Murata, A.; Dohno, C.; Nakatani, K.; Chang, K. Nucleic Acids Res. 2022,50, 5369-5383. doi.org/10.1093/nar/gkac257.

(62) HT-SELEX based identification of binding pre-miRNA hairpin-motif for small molecule, Mukherjee, S.; Murata, A.; Ishida, R.; Sugai, A.; Dohno, C.; Hamada, M.; Krishna, S.; Nakatani, K. Mol. Ther. Nucleic Acids 2022, 27, 165-174. doi.org/10.1016/j.omtn.2021.11.021.

(61) Short Tandem Repeat Contractions during in vitro DNA Synthesis by Repeat-Binding Molecules, Hagihara, M.; Dohno, C.; Saito, K.; Sugimoto, K.; Hishinuma, Y.; Sohma, Y.; Shibata, T.; Nakatani, K. Chem. Lett. 2021,50, 1848-1851. doi:10.1246/cl.210415.

(60) Cyclic mismatch binding ligands interact with disease-associated CGG trinucleotide repeats in RNA and suppress their translation, Konieczny, P.; Mukherjee, S.; Stepniak-Konieczna, E.; Taylor, K.; Niewiadomska, D.; Piasecka, A.; Walczak, A.; Baud, A.; Dohno, C.; Nakatani, K.; Sobczak, K. Nucleic Acids Res. 2021,49, 9479-9495. doi.org/10.1093/nar/gkab669.

(59) Rational Design of a Photoswitchable DNA Glue Enabling High Regulatory Function and Supramolecular Chirality Transfer, Simeth, N.; Kobayashi, S.; Kobauri, P.; Crespi, S.; Szymański, W.; Nakatani, K.; Dohno, C.; Feringa, B. Chem. Sci. 2021, 12, 9207-9220. DOI: 10.1039/D1SC02194J.

(58) Small molecule-induced trinucleotide repeat contractions during in vitro DNA synthesis, Dohno, C.; Hagihara, M.; Binti Mohd Zaifuddin, N.; Nihei, M.; Saito, K.; Nakatani, K. Chem. Commun. 2021, 57, 3235-3238. DOI: 10.1039/D1CC00349F.

(57) The dimeric form of 1,3‐diaminoisoquinoline derivative rescued the mis‐splicing of Atp2a1 and Clcn1 genes in myotonic dystrophy type 1 mouse model, Matsumoto, J.; Nakamori, M.; Okamoto, T.; Murata, A.; Dohno, C.; Nakatani, K. Chem. Eur. J. 2020, 26, 14305-14309. doi: 10.1002/chem.202001572.

(56) Recognition of expanded GGGGCC hexanucleotide repeat by synthetic ligand through interhelical binding, Lu, Y.; Dohno, C.; Nakatani, K. Biochem. Biophys. Res. Commun. 2020, 531, 56-61. doi: 10.1016/j.bbrc.2020.03.107.

(55) Novel Naphthyridine Tetramer that Recognizes Tandem G－G Mismatches by Formation of Interhelical Complex, Lu, Y.; Dohno, C.; Nakatani, K. Chem. Commun. 2020, 56, 754-757. 10.1039/C9CC08111A.

(54) Structural insights into synthetic ligands targeting A－A pairs in disease-related CAG RNA repeats, Mukherjee, S.; Błaszczyk, L.; Rypniewski, W.; Falschlunger, C.; Micura, R.; Murata, A.; Dohno, C.; Nakatani, K.; Kiliszek, A. Nucl. Acids Res. 2019,47, 10906-10913. doi.org/10.1093/nar/gkz832.

(53) Molecular glue for RNA: Regulating RNA structure and function through a synthetic RNA binding molecule. Dohno, C.; Nakatani, K. ChemBioChem 2019, 20, 2903-2910. doi: 10.1002/cbic.201900223.

(52) A dimeric 2,9-diamino-1,10-phenanthroline derivative improves alternative splicing in myotonic dystrophy type 1 cell and mouse models. Li, J.; Nakamori, M.; Matsumoto, J.; Murata, A.; Dohno, C.; Kiliszek, A.; Taylor, K.; Sobczak, K.; Nakatani, K. Chem. Eur. J. 2018, 24, 18115-18122. 10.1002/chem.201804368.

(51) Restoration of Ribozyme Tertiary Contact and Function by Using a Molecular Glue for RNA. Dohno, C.; Kimura, M.; Nakatani, K. Angew. Chem. Int. Ed. 2018, 57, 506-510, DOI: 10.1002/anie.201709041.

(50) Design and synthesis of cyclic mismatch binding ligands (CMBLs) with variable linkers by ring closing metathesis and their photophysical and DNA repeat binding properties, Mukherjee, S.; Dohno, C.; Nakatani, K. Chem. Eur. J. 2017, 23, 11385-11396, DOI: 10.1002/chem.201702064.

(49) Amphiphilic DNA tiles for controlled insertion and 2D assembly on fluid lipid membranes: Effect on mechanical properties, Dohno, C.; Makishi, S.; Nakatani, K.; Contera, S. Nanoscale. 2017, 9, 3051-3058. DOI: 10.1039/C6NR07084A.

(48) A Ligand that Targets CUG Trinucleotide Repeats, Li. J.; Matsumoto, J.; Bai, L.-P.; Murata, A.; Dohno, A.; Nakatani, K. Chem. Eur. J. 2016, 22, 14881-14889. doi: 10.1002/chem.201602741. selected as cover picture.

(47) Cyclic mismatch binding ligand CMBL4 binds to the 5'-T-3'/5'-GG-3' site by inducing the flipping out of thymine base, Mukherjee, S.; Dohno, C.; Asano, K.; Nakatani, K. Nucl. Acids Res. 2016, 44, 7090-7099. doi: 10.1093/nar/gkw672.

(46) Synthesis of 1H-pyrrolo[3,2-h]quinoline-8-amine derivatives that target CTG trinucleotide repeats, Matsumoto, J.; Li, J.; Dohno, C.; Nakatani, K. Bioorg. Med. Chem. Lett. 2016, 26, 3761-3764. doi:10.1016/j.bmcl.2016.05.062.

(45) Naphthyridine-Benzoazaquinolone: Evaluation of tricyclic system for the binding to (CAG)n Repeat DNA and RNA, Li, J.; Sakata, A.; He, H.; Bai, L.-P.; Murata, A.; Dohno, C.; Nakatani, K. Chem. Asian. J. 2016, 11, 1971-1981. doi: 10.1002/asia.201600527.

(44) A hybridisation-dependent membrane-insertable amphiphilic DNA, Dohno, C.; Matsuzaki, K.; Yamaguchi, H.; Shibata, T.; Nakatani, K. Org. Biomol. Chem. 2015, 13, 10117-10121. doi: 10.1039/C5OB01761K.

(43) 2-Aminophenanthroline dimer stabilized the C-C mismatched duplex DNA, Li, J.; Matsumoto, J. Otabe, T.; Dohno, C.; Nakatani, K. Bioorg. Med. Chem. 2015, 23, 753-758. doi: 10.1016/j.bmc.2014.12.062.

(42) Cytosine-bulge dependent fluorescence quenching for real-time hairpin primer PCR, Takei, F.; Chen, X.; Yu, G.; Shibata, T.; Dohno, C.; Nakatani, K. Chem. Commun. 2014, 50, 15195-15198. doi: 10.1039/c4cc06780k.

(41) Modulation of binding properties of amphiphilic DNA containing multiple dodecyl phosphotriester linkages to lipid bilayer membrane, Makishi, S.; Shibata, T.; Okazaki, M.; Dohno, C.; Nakatani, K. Bioorg. Med. Chem. Lett., 2014, 24, 3578-3581. doi: 10.1016/j.bmcl.2014.05.042.

(40) Formation of Ligand-Assisted Complex of Two RNA Hairpin Loops, Hong, C.; Otabe, T.; Matsumoto, S.; Dohno, C.; Murata, A.; Hagihara, M.; Nakatani, K. Chem. Eur. J., 2014, 20, 5244-5252.

(39) A synthetic riboswitch that operates using a rationally designed ligand-RNA pair. Dohno, C.; Kohyama, I.; Kimura, M.; Hagihara, M.; Nakatani, K. Angew. Chem. Int. Ed. 2013, 52, 9976-9979.

(38) G-quadruplex formation of entirely hydrophobic DNA in organic solvents. Shibata, T.; Dohno, C.; Nakatani, K. Chem. Commun. 2013, 49, 5501-5503.

(37) Ligand-induced electron spin-assembly on a DNA tile. Atsumi, H.; Nakazawa, S.; Dohno, C.; Sato, K.; Takui, T.; Nakatani, K. Chem. Commun. 2013, 49, 6355-6458. Front Cover.

(36) Triethynylmethane: A Molecular Unit Inducing Excimer-Like Emission in Aggregated States of Hydrocarbon Fluorophores. Otabe, T.; Matsumoto, S.; Nakagawa, H.; Hong, C.; Dohno, C.; Nakatani, K. Tetrahedron. Lett. 2013, 54, 143-146.

(35) Assembly of a small DNA rectangular parallelepiped block into higher order nanostructures. Nakagawa, H.; Toda, M.; Atsumi, H.; Hagihara, M.; Hayashi-Nishino, M.; Dohno, C.; Nakatani, K. Chem. Lett. 2012, 41, 1550-1552.

(34) Amphiphilic DNA duplex stabilized by hydrophobic zipper. Dohno, C.; Shibata, T.; Okazaki, M.; Makishi, S.; Nakatani, K. Eur. J. Org. Chem. 2012, 5317-5323.

(33) Naphthyridine tetramer with a preorganized structure for 1:1 binding to a CGG/CGG sequence. Dohno, C.; Kohyama, I.; Hong, C.; Nakatani, K. Nucleic. Acids. Res. 2012, 40, 2771-2781.

(32) Interstrand Cross-Link for Discrimination of Methylated Cytosines. Dohno, C.; Shibata, T.; Nakatani, K. Chem. Lett. 2011, 40, 852-854.

(31) Control of DNA hybridization by photoswitchable molecular glue, Dohno, C.; Nakatani, K. Chem. Soc. Rev. 2011, 40, 5718-5729.

(30) Molecular-Glue-Triggered DNA Assembly to Form a Robust and Photoresponsive Nano-Network, Wang, C.; Pu, F.; Lin, Y.; Ren, J.; Dohno, C.; Nakatani K.; Qu, X. Chem. Eur. J. 2011, 17, 8189-8197.

(29) Ligand Inducible Assembly of a DNA Tetrahedron. Dohno, C.; Atsumi, H.; Nakatani, K. Chem. Commun. 2011, 47, 3499-3501.

2006 - 2010

(28) Discrimination of N6-methyl adenine in a specific DNA sequence. Dohno, C.; Shibata, T.; Nakatani, K. Chem. Commun. 2010, 46, 5530-5532.

(27) A Light-Driven, Supramolecular Optical Switch, Uno, S.; Dohno, C.; Bittermann, H.; Malinovskii, V. L.; Häner, R.; Nakatani, K. Angew. Chem. Int. Ed. 2009, 48, 7362-7365.

(26) Photoswitchable Unsymmetrical Ligand for DNA Hetero-Mismatches, Dohno, C.; Yamamoto, T.; Nakatani, K. Eur. J. Org. Chem. 2009, 4051-4058.

(25) The effect of linker length on binding affinity of a photoswitchable molecular glue for DNA, Dohno, C.; Uno, S.; Sakai, S.; Oku, M.; Nakatani, K. Bioorg. Med. Chem. 2009, 17, 2536-2543.

(24) Synthesis of Dimeric 2-Amino-1,8-naphthyridine and Related DNA-Binding Molecules, Nakatani, K.; He, H.; Uno, S.; Yamamoto, T.; Dohno, C. Current Protocols in Nucleic Acid Chemistry 2008, Unit 8.6, 1-21.

(23) Photoswitchable Molecular Glue for DNA, Dohno, C.; Uno, S.; Nakatani, K. J. Am. Chem. Soc. 2007, 129, 11898-11899.

(22) Photoregulation of a Peptide-RNA Interaction on a Gold Surface, Hayashi, G.; Hagihara, M.; Dohno, C.; Nakatani, K. J. Am. Chem. Soc. 2007, 129, 8678-8679.

(21) Bidirectional Control of Gold Nanoparticle Assembly by Turning On and Off DNA Hybridization with Thermally Degradable Molecular Glue, Peng, T.; Dohno, C.; Nakatani, K. ChemBioChem 2007, 8, 483－485.

(20) Highly selective fluorescent nucleobases for designing base-discriminating fluorescent probes Saito, I.; Saito, Y.; Hanawa, K.; Hayashi, K.; Motegi, K.; Bag, S. S.; Dohno, C.; Ichiba, T.; Tainaka, K.; Okamoto, A. Pure Appl. Chem. 2006, 78 (12), 2305－2312.

(19) Mismatch binding ligands function as molecular glue of DNA, Peng, T.; Dohno, C.; Nakatani, K. Angew. Chem. Int. Ed. 2006, 45, 5623－5626.

(18) Efficient DNA Alkylation by a Pyrrole-Imidazole CBI Conjugate with an Indole Liker: Sequence-Specific Alkylation with Nine-Base-Pair Recognition, Bando, T.; Sasaki, S.; Minoshima, M.; Dohno, C.; Shinohara, K.; Narita, A.; Sugiyama, H. Bioconjugate Chem. 2006, 17, 715－720.

2003 - 2005

(17) Stable, Specific and Reversible Base Pairing via Schiff Base. Dohno, C.; Okamoto, A.; Saito, I. J. Am. Chem. Soc. 2005, 127, 16681－16684.

(16) Discrimination of Single Nucleotide Alterations Based on G-Specific Fluorescence Quenching Dohno, C.; Saito, I. ChemBioChem. 2005, 6, 1075－1081.

(15) Effects of the Photooxidant on DNA-Mediated Charge Transport Williams, T. T.; Dohno, C.; Stemp, E. D. A.; Barton, J. K. J. Am. Chem. Soc. 2004, 126, 8148－8158.

(14) Chemical Evidence for Charge Transfer between Photoexcited 2-Aminopurine and Guanine in Duplex DNA O’Neill, M. A.; Dohno, C.; Barton, J. K. J. Am. Chem. Soc. 2004, 126, 1316－1317.

(13) Fast Back Electron Transfer Prevents Guanine Damage by Photoexcited Thionine Bound to DNA Dohno, C.; Stemp, E. D. A.; Barton, J. K. J. Am. Chem. Soc. 2003, 125, 9586－9587.

(12) Hole Trapping at N6-Cyclopropyldeoxyadenosine Suggests a Direct Contribution of Adenine Bases to Hole Transport through DNA, Dohno, C.; Ogawa, A.; Nakatani, K.; Saito, I. J. Am. Chem. Soc. 2003, 125, 10154－10155.

- 2002

(11) Guanine of the Third Strand of C.G*G Triplex Serves as an Effective Hole Trap, Dohno, C.; Nakatani, K.; Saito, I. J. Am. Chem. Soc. 2002, 124, 14580－14585.

(10) N2-Phenyldeoxyguanosine: Modulation of the Chemical Property of Deoxyguanosine toward One Electron Oxidation in DNA, Nakatani, K.; Dohno, C.; Saito, I. J. Am. Chem. Soc. 2002, 124, 6802－6803.

(9) Suppression of DNA-Mediated Charge Transport by BamH I Binding, Nakatani, K.; Dohno, C.; Ogawa, A.; Saito, I. Chem. Biol. 2002, 9, 361－366.

(8) Modulation of remote DNA oxidation by hybridization with peptide nucleic acids (PNA) Okamoto, A.; Tanabe, K.; Dohno, C.; Saito, I. Bioorg. Med. Chem. 2002, 10, 713－718.

(7) Design of Hole-Trapping Nucleobase: Termination of DNA Mediated Hole Transport at N2-Cyclopropyldeoxyguanosine, Nakatani, K.; Dohno, C.; Saito, I. J. Am. Chem. Soc. 2001, 123, 9681－9682.

(6) Site Selective Generation of Guanine Cation Radical inDuplex DNA: Modulation of the Direction of Hole Transport, Nakatani, K.; Dohno, C.; Saito, I. Tetrahedron Lett. 2000, 41, 10041－10045.

(5) Modulation of DNA-Mediated Hole Transport Efficiency by Changing Superexchange Electronic Interaction, Nakatani, K.; Dohno, C.; Saito, I. J. Am. Chem. Soc. 2000, 122, 5893－5894.

(4) Chemistry of Sequence Dependent Remote Guanine Oxidation: Photoreaction of Duplex DNA containing Cyanobenzophenone Substituted Uridine, Nakatani, K.; Dohno, C.; Saito, I. J. Am. Chem. Soc. 1999, 121, 10854－10855.

(3) Synthesis of DNA Oligomers Containing Modified Uracil Possessing Electron-Accepting Benzophenone Chromophore, Nakatani. K.; Dohno, C.; Saito, I. J. Org. Chem. 1999, 64, 6306－6311.

(2) p-Cyano Substituted 5-Benzoyldeoxyuridine as a Novel Electron-Accepting Nucleobase for One-Electron Oxidaiton of DNA, Nakatani, K.; Fujisawa, K.; Dohno, C.; Nakamura, C.; Saito, I. Tetrahedron Lett. 1998, 39, 5995－5998.

(1) p-Cyano Substituted Benzophenone as an Excellent Photophore for One-Electron Oxidation of DNA, Nakatani, K.; Dohno, C.; Nakamura, T.; Saito, I. Tetrahedron Lett. 1998, 39, 2779－2782.