Takumi Ishizuka

04/2016 - Present	Assistant Professor, Division of Chemistry, Department of Medical Sciences, Faculty of Medicine, University of Miyazaki
01/2013 - 3/2016	Project Assistant Professor, Division of Chemistry, Department of Medical Sciences, Faculty of Medicine, University of Miyazaki
04/2011 - 12/2012	The Japan Society for the Promotion of Science (JSPS) Research Fellow (Chemistry, PD) JSPS Research Fellow, Nucleic Acid Synthetic Biology Research Team (Dr. Ichiro Hirao), Systems and Structural Biology Center (SSBC), RIKEN
04/2009 - 03/2011	The Japan Society for the Promotion of Science (JSPS) Research Fellow (Chemistry, DC2)
09/2008 - 12/2008	Internship Program in the Global COE "Chemistry Innovation through Cooperation of Science and Engineering" Prof. Stefano Sforza, Department of Organic and Industrial Chemistry, University of Parma, Italy

04/2008 - 03/2011	Ph.D., Department of Chemistry and Biotechnology, Graduate School of Engineering, The University of Tokyo (Prof. Makoto Komiyama)
04/2006 - 03/2008	M.Sc., Department of Bioengineering, Graduate School of Engineering, The University of Tokyo (Prof. Makoto Komiyama)
04/2004 - 03/2006	B.Sc., School of Bioscience and Biotechnology, Tokyo Institute of Technology (Prof. Hirokazu Urabe)

<Publication List>

Characterization of Structure and Catalytic Activity of a Complex between Heme and an All Parallel-stranded Tetrameric G-quadruplex Formed from DNA/RNA Chimera Sequence d(TTA)r(GGG)dT
K. Hayasaka, T. Shibata, A. Sugahara, A. Momotake, T. Matsui, S. Neya, T. Ishizuka, Y. Xu, Y. Yamamoto
Bull. Chem. Soc. Jpn. 2020 , 93 , 621-629. (DOI)
Influenza Virus Z-RNAs Induce ZBP1-Mediated Necroptosis
T. Zhang, C. Yin, D. F. Boyd, G. Quarato, J. P. Ingram, M. Shubina, K. B. Ragan, T. Ishizuka, J. C. Crawford, B. Tummers, D. A. Rodriguez, J. Xue, S. Peri, W. J. Kaiser, C. B. Lopez, Y. Xu, J. W. Upton, P. G. Thomas, D. R. Green, S. Balachandran
Cell 2020 , 180 , 1115-1129. (DOI) (Cell Press)
A Nucleoside Derivative 5-Vinyluridine (VrU) for Imaging RNA in Cells and Animals
H.S. Liu, T. Ishizuka, M. Kawaguchi, R. Nishii, H. Kataoka, Y. Xu
Bioconjugate Chem. 2019 , 30 , 2958-2966. (DOI)

Selected as a Cover Picture
¹⁹F NMR Spectroscopy for the Analysis of DNA G-quadruplex Structures using ¹⁹F-labeled Nucleobase
T. Ishizuka, H. -L. Bao, Y. Xu
Methods Mol. Biol. 2019 , 2035 , 407-433. (DOI)
Stability and Properties of Z-DNA Containing Artificial Nucleobase 2’-O-methyl-8-methyl Guanosine
T. Balasubramaniyam, T. Ishizuka, Y. Xu
Bioorg. Med. Chem. 2019 , 27 , 364-369. (DOI)
2’-O-Methyl-8-methylguanosine as a Z-Form RNA Stabilizer for Structural and Functional Study of Z-RNA
T. Balasubramaniyam, T. Ishizuka, C. -D. Xiao, H. -L. Bao, Y. Xu
Molecules 2018 , 23 , 2572. (DOI)
Studying DNA G-quadruplex Aptamer by ¹⁹F NMR
T. Ishizuka, A. Yamashita, Y. Asada, Y. Xu
ACS Omega 2017 , 2 , 8843-8848. (DOI)
A Multi-functional Guanine Derivative for Studying DNA G-quadruplex Structure
T. Ishizuka, P. Y. Zhao, H. L. Bao, Y. Xu
Analyst 2017 , 142 , 4083-4088. (DOI)

Selected as a Back Cover
Antiparallel RNA G-quadruplex Formed by Human Telomere RNA Containing 8-Bromoguanosine
C. D. Xiao, T. Ishizuka, Y. Xu
Sci. Rep. 2017 , 7 , 6695. (DOI)
Structure-dependent Binding of hnRNPA1 to Telomere RNA
X. Liu, T. Ishizuka, H. L. Bao, K. Wada, Y. Takeda, K. Iida, K. Nagasawa, D. Yang, Y. Xu
J. Am. Chem. Soc. 2017 , 139 , 7533-7539. (DOI)
A Simple and Sensitive ¹⁹F NMR Approach for Studying the Interaction of RNA G-Quadruplex with Ligand Molecule and Protein
H. L. Bao, T. Ishizuka, A. Iwanami, T. Oyoshi, Y. Xu
ChemistrySelect 2017 , 2 , 4170-4175. (DOI)

Selected as a Cover Picture
Unusual Topological RNA Architecture with an Eight-Stranded Helical Fragment Containing A-, G-, and U-Tetrads
C. D. Xiao, T. Ishizuka, X. Q. Zhu, Y. Li, H. Sugiyama, Y. Xu
J. Am. Chem. Soc. 2017 , 139 , 2565-2568. (DOI)
Characterization of Human Telomere RNA G-Quadruplex Structures in vitro and in Living Cells using ¹⁹F NMR Spectroscopy
H. L. Bao, T. Ishizuka, T. Sakamoto, K. Fujimoto, T. Uechi, N. Kenmochi, Y. Xu
Nucleic Acids Res. 2017 , 45 , 5501-5511. (DOI)
Click Chemistry Takes a Snapshot of DNA-RNA Hybrid G-Quadruplex in Living Cells
T. Ishizuka, Y. Xu
J. Nat. Sci. 2016 , 2 , e237. (DOI)
Fluorescence Imaging of Chromosomal DNA using Click Chemistry
T. Ishizuka, H. S. Liu, K. Ito, Y. Xu
Sci. Rep. 2016 , 6 , 33217. (DOI)
Clipping of Telomere from Human Chromosomes using Chemistry-based Artificial Restriction DNA Cutter
T. Ishizuka, Y. Xu, M. Komiyama
Curr. Protoc. Nucleic Acid Chem. 2015 , Unit6.13 , 1-13. (DOI)
Finding a Human Telomere DNA-RNA Hybrid G-Quadruplex Formed by Human Telomeric 6-mer RNA and 16-mer DNA using Click Chemistry: A Protective Structure for Telomere End
Y. Xu, Y. Suzuki, T. Ishizuka, C. D. Xiao, X. Liu, T. Hayashi, M. Komiyama
Bioorg. Med. Chem. 2014 , 22 , 4419-4421. (DOI)
Conjugation of Peptide Nucleic Acid with Pyrrole-Imidazole Polyamide to Specifically Recognize and Cleave DNA
W. Kameshima, T. Ishizuka, M. Minoshima, M. Yamamoto, H. Sugiyama, Y. Xu, M. Komiyama
Angew. Chem., Int. Ed. 2013 , 52 , 13681-13684. (DOI)
A Chemistry-Based Method to Detect Individual Telomere Length at a Single Chromosome Terminus
T. Ishizuka, Y. Xu, M. Komiyama
J. Am. Chem. Soc. 2013 , 135 , 14-17. (DOI)
Oligonucleotide Models of Telomeric DNA and RNA Form a Hybrid G-quadruplex Structure as a Potential Component of Telomeres
Y. Xu, T. Ishizuka, J. Yang, K. Ito, H. Katada, M. Komiyama, T. Hayashi
J. Biol. Chem. 2012 , 287 , 41787-41796. (DOI)
Site-Specific Functionalization of RNA Molecules by an Unnatural Base Pair Transcription System via Click Chemistry
T. Ishizuka, M. Kimoto, A. Sato, I. Hirao
Chem. Commun. 2012 , 48 , 10835-10837. (DOI)
Selected as a Back Cover
G-rich Sequence-Specific Recognition and Scission of Human Genome by PNA/DNA Hybrid G-quadruplex Formation
T. Ishizuka, J. Yang, M. Komiyama, Y. Xu
Angew. Chem., Int. Ed. 2012 , 51 , 7198-7202. (DOI)
A U-Tetrad Stabilizes Human Telomeric RNA G-Quadruplex Structure
Y. Xu, T. Ishizuka, T. Kimura, M. Komiyama
J. Am. Chem. Soc. 2010 , 132 , 7231-7233. (DOI)
SSB-Assisted Duplex Invasion of Preorganized PNA into Double-Stranded DNA
T. Ishizuka, T. Tedeschi, R. Corradini, M Komiyama, S. Sforza, R. Marchelli
ChemBioChem 2009 , 10 , 2607-2612. (DOI)
Consecutive Formation of G-Quadruplexes in Human Telomeric-Overhang DNA: A Protective Capping Structure for Telomere Ends
Y. Xu, T. Ishizuka, K Kurabayashi, M. Komiyama
Angew. Chem., Int. Ed. 2009 , 48 , 7833-7836. (DOI)
Featured on NPG Asia Materials Selected as the top one most viewed research highlights on NPG Nature Asia-Pacific
Origin of High Fidelity in Target-Sequence Recognition by PNA Ce(IV)/EDTA Combinations as Site-Selective DNA Cutters
Y. Miyajima, T. Ishizuka, Y. Yamamoto, J. Sumaoka, M. Komiyama
J. Am. Chem. Soc. 2009 , 131 , 2657-2662. (DOI)
Strand Invasion of Conventional PNA to Arbitrary Sequence in DNA Assisted by Single-Stranded DNA Binding Protein
T. Ishizuka, K. Otani, J. Sumaoka, M. Komiyama
Chem. Commun. 2009 , 1225-1227. (DOI)
Solid-Phase Synthesis of Pseudo-Complementary Peptide Nucleic Acids
M. Komiyama, Y. Aiba, T. Ishizuka, J. Sumaoka
Nat. Protoc. 2008 , 3 , 646-654. (DOI)
Chiral Introduction of Positive Charges to PNA for Double-Duplex Invasion to Versatile Sequences
T. Ishizuka, J. Yoshida, Y. Yamamoto, J. Sumaoka, T. Tedeschi, R. Corradini, S. Sforza, M. Komiyama
Nucleic Acids Res. 2008 , 36 , 1464-1471. (DOI)
Iron-Catalyst-Switched Selective Conjugate Addition of Grignard Reagents: α,β,γ,δ-Unsaturated Amides as Versatile Templates for Asymmetric Three-Component Coupling Processes
S. Okada, K. Arayama, R. Murayama, T. Ishizuka, K. Hara, N. Hirone, T. Hata, H. Urabe
Angew. Chem., Int. Ed. 2008 , 47 , 6860-6864. (DOI)

<Conference and Symposium>

Fluorescence Imaging in Cell and in vivo by Bioorthogonal Reaction
T. Ishizuka, H.-S. Liu, M. Kawaguchi, R. Nishii, H. Kataoka, Y. Xu
The 46th International Symposium on Nucleic Acid Chemistry , Tokyo, Japan (Oct. 29, 2019, Poster Presentation)

RNA Imaging in vivo with 8-position Modified Guanosine Derivatives
T. Ishizuka, C. -D, Xiao, P. -Y. Zhao, R. Nishii, Y. Xu
The 45th International Symposium on Nucleic Acid Chemistry , Kyoto, Japan (Nov. 8, 2018, Poster Presentation)

Chemical Probe for Studying Human Telomere RNA G-quadruplex
T. Ishizuka, M. Otatsume, Y. Xu
The 44th International Symposium on Nucleic Acid Chemistry , Tokyo, Japan (Nov. 15, 2017, Poster Presentation)

A Multi-functional Guanine Derivative for Studying DNA G-quadruplex Structure in vitro and in living cells
T. Ishizuka, Y. Xu
6th International Meeting on Quadruplex Nucleic Acids , Prague, Czech Republic (May. 31, 2017, Poster Presentation)

Conformationally Restricted Guanosine Analogues Induce Topological Change in Human Telomeric DNA G-Quadruplexes
T. Ishizuka, Y. Xu
The 43th International Symposium on Nucleic Acid Chemistry , Kumamoto, Japan (Sep. 27, 2016, Poster Presentation)

A Fluorine-labeled Method for the Investigation of G-Quadruplex Structure
T. Ishizuka, Y. Xu
The 42th International Symposium on Nucleic Acid Chemistry , Himeji, Hyogo, Japan (Sep. 23, 2015, Poster Presentation)

Effects of 8,2'-O-Cycloguanosine on G-Quadruplex Structure
T. Ishizuka, Y. Xu
The 41th International Symposium on Nucleic Acid Chemistry , Kitakyushu, Fukuoka, Japan (Nov. 5, 2014, Poster Presentation)

Chromosome Painting by Using Click Chemistry: A Light-Up Approach
T. Ishizuka, Y. Xu
The 40th International Symposium on Nucleic Acid Chemistry , Yokohama, Kanagawa, Japan (Nov. 13, 2013, Poster Presentation)

PNA/DNA Hybrid G-Quadruplex Formation as a Novel Approach to Recognize and Cleave Guanine-Rich Sequence of Human Genome
T. Ishizuka, Y. Xu, M. Komiyama
The 39th International Symposium on Nucleic Acid Chemistry , Nagoya, Aichi, Japan (Nov. 15, 2012, Poster Presentation)

Site-Specific Labeling of RNA Molecules by an Unnatural Base Pair Transcription System Coupled with Click Chemistry
T. Ishizuka, M. Kimoto, A. Sato, S. Yokoyama, I. Hirao
Fluorescent Biomolecules and their Building Blocks-Design and Applications (FB3) , Chalmers University of Technology, Göteborg, Sweden (Jul. 6, 2012, Poster Presentation)

Site-Specific Labeling of RNA by an Unnatural Base Pair Transcription System via Click Chemistry
T. Ishizuka, M. Kimoto, A. Sato, S. Yokoyama, I. Hirao
The 38th International Symposium on Nucleic Acid Chemistry , Hokkaido University, Sapporo, Japan (Nov. 9, 2011, Poster Presentation)

G-Rich Sequence-Specific Cleaving by PNA/DNA Hybrid G-Quadruplex Formation
T. Ishizuka, Y. Xu, M. Komiyama
Pacifichem 2010 , Honolulu, Hawaii, USA (December 15-20, 2010, Oral Presentation)

Promotion of Strand Invasion by Utilizing Entropically-Favored PNA
T. Ishizuka, S. Sforza, M. Komiyama
Nucleic Acids Symp. Ser. 2009 , 53 , 161-162. (DOI)

Strand Invasion of Conventional PNA to Arbitrary Sequence in DNA Assisted by Single-Stranded DNA Binding Protein
T. Ishizuka, J. Sumaoka, M. Komiyama
The University of Tokyo-Yonsei University Joint Symposium, P-44, The University of Tokyo, Tokyo, Japan (January 19-21, 2009, Poster Presentation)

Single-Strand Binding Protein Enhances Invasion of a PNA Strand to Double-Stranded DNA
T. Ishizuka, M. Komiyama
Nucleic Acids Symp. Ser. 2008 , 52 , 141-142. (DOI)

Mismatch Recognition in PNA Double-Duplex Invasion
Y. Miyajima, T. Ishizuka, M. Komiyama
Nucleic Acids Symp. Ser. 2008 , 52 , 125-126. (DOI)

Chiral Introduction of Positive Charges to PNA for Double-Duplex Invasion to Versatile Sequences
T. Ishizuka, J. Yoshida, Y. Yamamoto, S. Sforza, M. Komiyama
Todai/Tsinghua Symposium on Frontier Chemistry, Tsinghua University, Beijing, China (May 19-21, 2008, Poster Presentation)

Chiral Introduction of Positive Charges to PNAs Facilitates Invasion into Double-Stranded DNA
T. Ishizuka, J. Yoshida, Y. Yamamoto, M. Komiyama
International Symposium Series of NanoBio Molecular Assemblies, Yonsei University-The University of Tokyo Joint Symposium, P-2, Yonsei University, Seoul,
Korea (August 7-9, 2007, Poster Presentation)