Institute for Integrated Cell-Material Sciences, Kyoto University (iCeMS) iCeMS

Sugiyama, Hiroshi PI Lab
Chemical Biology


Sugiyama, Hiroshi Professor Sugiyama, Hiroshi
Endo, Masayuki Associate Professor Endo, Masayuki
Namasivayam, Ganesh Pandian Assistant Professor  
Yang, Yang Yang Research Associate  
Sato, Shinsuke Staff  
Futamata, Takako Research Support Staff  

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Research Overview

The Sugiyama group's research interests involve the chemical biology of nucleic acids. Using the tools of organic synthesis and molecular biology, the Sugiyama group is defining the chemical principles underlying the recognition, reactivity, and structure of nucleic acids. The group utilizes a chemical approach in following areas: design of highly efficient sequence-specific DNA acting agents, design of unnatural nucleic acid for understanding of nucleic acid structure and function, design of DNA nanostructures for control and observation of the single molecular dynamic and single reaction, and development of a general method probing DNA local conformation in vivo. The long-range goal are analysis of molecular behaviors involved in epigenetic regulation, and creation of artificial genetic switches for iPS cell production and targeted cell differentiation, and treatment of various diseases.

  1. Sequence-specific DNA binder pyrrole-imidazole polyamides are developed and applied for cell biology. Using the synthetic polyamides, specific gene regulations including gene suppression and activation are carried out by conjugating with alkylating agents and transcription activating small molecules. By constructing the gene regulation system, the method is expanded to create artificial synthetic molecules for cell reprogramming and differentiation.

  2. Using the DNA self-assembly system "DNA origami" method, the research focuses on the following points: (1) Programmed assembly and functionalization of 2D and 3D DNA nanostructures; (2) Regulation of biomolecule reactions in designed nanostructures; (3) Biophysical analysis of the single molecule behavior in nanostructures. (4) Design and construction of controllable dynamic molecular system in nanostructures. Real-time AFM imaging system is employed for analysis of the single molecular dynamics and single reaction in the designed nano-space.

Selected papers

  • Endo, M., Yang, Y., Suzuki, Y., Hidaka, K., Sugiyama, H. Single-molecule observation of hybridization and dissociation of photoresponsive oligonucleotides and their reversible mechanical behavior in the designed DNA nanostructure. Angew. Chem. Int. Ed. 51, 10518-10522 (2012).
  • Endo, M., Tatsumi, K., Terushima, K., Katsuda, Y., Hidaka, K., Harada, Y., Sugiyama, H. Direct Visualization of the Movement of a Single T7 RNA Polymerase and Transcription on a DNA Nanostructure. Angew.Chem. Int. Ed. 51, 8778-8782 (2012).
  • Endo, M., Miyazaki, R., Emura, T., Hidaka, K., Sugiyama, H. Transcription Regulation System Mediated by Mechanical Operation of DNA Nanostructure. J. Am. Chem. Soc. 134, 2852−2855 (2012).
  • Wickham, S. F. J., Bath, J., Katsuda, Y., Endo, M., Hidaka, K., Sugiyama, H. Turberfield, A. J. A DNA-based molecular motor that can navigate a network of tracks. Nat. Nanotechnol. 7, 169-173 (2012).
  • Wickham, S. F. J., Endo, M., Katsuda, Y. Hidaka, K. Bath, J., Sugiyama, H., Turberfield, A. J. Direct observation of stepwise movement of a synthetic molecular transporter. Nat. Nanotechnol. 6, 166-169 (2011).

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