京都大学 物質-細胞統合システム拠点

Sugiyama Laboratory, Kyoto University

Publications :2022

2022 (Highlighted Articles Representing International Collaboration Project)

513. Catalytic RNA Oligomers Formed by co-Oligomerization of a Pair of Bimolecular RNase P Ribozymes
Siddika, M. A.; Yamada, T.; Aoyama, R.; Hidaka, K.; Sugiyama, H.; Endo, M.; Matsumura, S.; Ikawa, Y.
Molecules, in press

512. 12 Colors of Streptavidin-Fluorescent Proteins (SA-FP): A Versatile Tool to Visualize Genetic Information in Single-Molecule DNA
Jin, Y.; Bae, J.; Kim, T.; Hwang, H.; Kim, T.; Yu, M.; Oh, H.; Hashiya, K.; Bando, T.; Sugiyama, H.; Jo, K.
Analytical Chemistry, in press

511. Mitochondria and G-quadruplex Evolution: An Intertwined Relationship
Sahayasheela, V. J.; Yu, Z.; Hidaka, T.; Pandian, G. N.; Sugiyama, H.
Trends in Genetics, in press

510. Chemical Probe-based Nanopore Sequencing to Selectively Assess the RNA Modifications
Ramasamy, S.; Sahayasheela, V. J.; Sharma, S.; Yu, Z.; Hidaka, T.; Cai, L.; Thangavel, V.; Sugiyama, H.; Pandian, G. N.
ACS Chem. Biol., in press

509. A RUNX-targeted Gene Switch-off Approach Modulates the BIRC5/PIF1-p21 Pathway and Reduces Glioblastoma Growth in Mice
Hattori, E. Y.; Arakawa, Y.; Mineharu, Y.; Mikami, M.; Terada, Y.; Matsui, Y.; Masuda, T.; Kubota, H.; Hidemasa Matsuo, H.; Masahiro Hirata, M.; Kataoka, T. R.; Nakahata, T.; Ikeda, S.; Sugiyama, H.; Souichi Adachi, S.; Miyamoto, S.; Kamikubo, Y.
Communications Biology, 2022, 5, 939.

508. Artificial Intelligence in Microbial Natural Product Drug Discovery: Current and Emerging Role
Sahayasheela, V. J.; Lankadasari, M. B.; Dan, V. M.; Dastager, S. G.; Pandian, G. N.; Sugiyama, H.
Natural Product Reports, in press

507. DNA-Based Daisy Chain Rotaxane Nanocomposite Hydrogels as Dual-Programmable Dynamic Scaffolds for Stem Cell Adhesion
Yao, S.; Chang, Y.; Zhai, Z.; Sugiyama, H.; Endo, M.; Zhu, W.; Xu, Y.; Yang, Y.; Qian, X.
ACS Appl. Mater. Interfaces, 2022, 14, 20739-20748.

506. RUNX1-Survivin Axis as a Novel Therapeutic Target for Malignant Rhabdoid Tumor
Mikami, M.; Masuda, T.; Kanatani, T.; Noura, M.; Umeda, K.; Hiramatsu, H.; Kubota, H.; Daifu, T.; Iwai, A.; Hattori, E.; Furuichi, K.; Takasaki, S.; Tanaka, S.; Matsui, Y.; Matsuo, H.; Hirata, M.; Kataoka, T. R.; Nakahata, T.; Kuwahara, Y.; Iehara, T.; Hosoi, H.; Takita, J.; Sugiyama, H.; Adachi, S.; Kamikubo, Y.
Molecules and Cells, in press

505. Chlorambucil-conjugated PI-polyamides (Chb-M’), a Transcription Inhibitor of RUNX Family, Has an Anti-tumor Activity Against SHH-type Medulloblastoma with p53 Mutation
Matsui, Y.; Mineharu, Y.; Noguchi, Y.; Yamamoto-Hattori, E.; Kubota, H.; Hirata, M.; Miyamoto, S.; Sugiyama, H.; Kamikubo, Y.
BBRC, 2022, 620, 150-157.

504. Box-shaped ribozyme octamer formed by face-to-face dimerization of a pair of square-shaped ribozyme tetramers
Islam, M. D.; Hidaka, K.; Suzuki, Y.; Sugiyama, H,; Endo, M.; Matsumura, S.; Ikawa, Y.
Biosci. Bioeng., 2022, 134, 195-202.

503. N-terminal Cationic Modification of Linear Pyrrole-Imidazole Polyamide Improves its Binding
Hatanaka, J.; Hirose, Y.; Hashiya, K.; Bando, B.; Sugiyama, H.
ChemBioChem, in press

502. Characterization of 2-Fluoro-2’-deoxyadenosine in Duplex, G-quadruplex and I-motif
Hirashima, S.; Sugiyama, H.; Park, S.
ChemBioChem, in press

501. An Informatics Approach to Distinguish RNA Modifications in Nanopore Direct RNA Sequencing
Ramasamy, S.; Mishra, S.; Sharma, S.; Parimalam, S. S.; Thangavel, V.; Fujita, Y.; Kovi, B.; Sugiyama, H.; Pandian, G. N.
Genomics, 2022, 114, 110372.

500. Targeting Chemoresistance in Xp11.2 Translocation Renal Cell Carcinoma using a Novel Polyamide-chlorambucil Conjugate
Funasaki, S.; Mehanna, S.; Ma, W.; Nishizawa, H.; Kamikubo, Y.; Sugiyama, H.; Ikeda, S.; Motoshima, T.; Hasumi, H.; Linehan, W. M.; Schmit, L.S.; Ricketts, C.; Suda, T.; Oike, Y. Kamba, T.; Baba, M.
Cancer Science, 2022, 113, 2352-2367.

499. Harnessing DNA as a Designable Scaffold for Asymmetric Catalysis: Recent Advances and Future Perspectives
Yum, J. H.; Sugiyama, H.; Park, S.
Chemical Record, 2022, 22, e202100333.

498. Inhibition of GLI-mediated Transcription by Cyclic Pyrrole-Imidazole Polyamide in Cancer Stem Cells
Sahayasheela, V. J.; Yu, Z.; Hirose, Y.; Pandian, G. N.; Bando, T.; Sugiyama, H.
Bull. Chem. Soc. J., 2022, 95, 693-699.

497. Tumor Accumulation of PIP-based KRAS Inhibitor KR12 Evaluated by the Use of a Simple, Versatile Chicken Egg Tumor Model
Higashi, Y.; Ikeda, S.; Matsumoto, K.; Satoh, S.; Komatsu, A.; Sugiyama, H.; Tamanoi, F.
Cancers, 2022, 14,951.

496. A Hexameric Ribozyme Nanostructure Formed by Double-Decker Assembly of a Pair of Triangular Ribozyme Trimers
Yu, K.; Hidaka, K.; Sugiyama, H.; Endo, M.; Matsumura, S.; Ikawa, Y.
ChemBioChem., 2022, 23, e202100573.

495. Photo-Cross-Linking between BrU and Pyrene Residues in an RNA/DNA Hybrid
Tashiro, R.; Yum, J. H.; Park, S.; Sugiyama, H.
ChemBioChem., 2022, 23, e202100626.

494. Single Base-Modification Reports and Locates Z-DNA Conformation on a Z-B-Chimera Formed by Topological Constraint
Liu, M.; Cui, Y.; Zhang, Y.; An, R.; Li, L.; Park, S.; Sugiyama, H.; Liang, X.
Bull. Chem. Soc. J, 2022, 95, 433-439.

493. Dissection of Nanoconfinement and Proximity Effects on the Binding Events in DNA Origami Nanocavity
Jonchhe, S.; Pandey, S.; Beneze, C.; Emura, T.; Sugiyama, H.; Endo, M.; Mao, H.
Nucleic Acids Res., 2022, 50, 697-703.

492. Enhanced Immunostimulatory Activity of Covalent DNA Dendrons
Kawamoto, Y.; Liu, W.; Yum, J. H.; Park, S.; Sugiyama, H.; Takahashi, Y.; Takakura, Y.
ChemBioChem., 2022, 23, e202100583.

491. RUNX1 Transactivates BCR-ABL1 Expression in Philadelphia Chromosome Positive Acute Lymphoblastic Leukemia
Masuda, T.; Maeda, S.; Shimada, S. ; Sakuramoto, N.; Morita, K.; Koyama, A.; Suzuki, K.; Mitsuda, Y.; Matsuo, H.; Kubota, H.; Kato, I.; Tanaka, K.; Takita, J.; Hirata, M.; Karaoke, T.; Nakahata, T.; Adachi, S.; Hirai, H.; Mizuta, S.; Naka, K.; Imai, Y.; Kimura, S.; Sugiyama, H.; Kamikubo, Y.
Cancer Science, 2022, 113, 529-539.

490. Strong and Specific Recognition of CAG/CTG Repeat DNA (5’-dWGCWGCW-3’) by a Cyclic Pyrrole–Imidazole Polyamide
Hirose, Y.; Ohno, T.; Asamitsu, S.; Hashiya, K.; Bando, T.; Sugiyama, H.
ChemBioChem., 2022, 23, e202100533 (1-5).

489. Biomimetic DNA Nanotechnology to Understand and Control Cellular Responses
Sethi, S.; Sugiyama, H.; Endo, M.
ChemBioChem., 2022, 23, e202100446.

488. Single-Molecule Visualization of B-Z Transition in DNA Origami using High-Speed AFM
Endo, M; Sugiyama H.
Z-DNA Methods and Protocols. Methods in Molecular Biology K. Kim and V. Subramani Ed., in press

487. Photoreaction of DNA Containing 5-Halouracil and its Products
Tashiro, R.; Sugiyama, H.
Photochemistry and Photobiology, 2022, 98, 532-545.

486. Targeted Epigenetic Induction of Mitochondrial Biogenesis Enhances Antitumor Immunity in Mouse Model
Malinee M.; Pandian, G. N.; Sugiyama, H.
Cell Chem. Biol., 2022, 29, 463-475.

485. Targeted Elimination of Mutated Mitochondrial DNA by a Multi-functional Conjugate Capable of Sequence-specific Adenine Alkylation
Hidaka, T.; Hashiya, K.; Bando, T.; Pandian, G. N.; Sugiyama, H.
Cell Chem. Biol., 2022, 29, 1-6.