Principal investigator
Name:
Hisashi TadakumaAssistant Professor , PhD, Assistant Professor
Position:
Affiliation:
School of Life Science and Technology
Honor:
Education Background:
- 1991/04-1995/03, Waseda University(Japan), Bachelor
- 1995/04-1997/03, Waseda University(Japan), Master
- 1997/04-2001/03, Waseda University(Japan), Graduate
- 2004/03-2004/03, Waseda University(Japan), Doctor
Working Experience:
- 2001-2003, Waseda University, Takashi Funatsu lab, Assistant Professor
- 2003-2008, University of Tokyo, MichioTomishige lab, Assistant Professor
- 2008-2010, University of Tokyo, Takuya Ueda / Hideki Taguchi lab, Postdoc
- 2010-2014/12, University of Tokyo， Takuya Ueda lab, Assistant Professor
- 2015/01-2016, Kyoto University, Yoshie Harada lab, Postdoct
- 2016-2019, Osaka University, Yoshie Harada lab, Assistant Professor
- 2019/11-Present, ShanghaiTech University, School of Life Science and Technology, Assistant Professor (TENURE-TRACK)
Group Introduction
Research Area:
Nanobiology based on Synthetic Biology and Biophysics
Research Interests:
Transcription is the first step of gene expression and thus quite important. Our lab focuses on understanding the basic mechanism of transcription and applies the knowledge to develop novel gene expression control nano-devices. To do that, we will combine a synthetic biology approach (reconstitution of biological systems) and a biophysical approach (single molecule imaging), and will build up unique nano-chips. With the nano-chips, we will mimic the transcription system and will understand the underlying mechanism. Furthermore, we will develop autonomous nano-devices that can sense the environment, compute information and output product, allowing us the precise control of cell fate. In the future, programmable gene expression system will open the way to autonomously cure our body.
Research Achievement
In synthetic biology, the control of gene expression requires a multistep processing of biological signals. The key steps are sensing the environment, computing information and outputting products. To achieve such functions, the laborious, combinational networking of enzymes and substrate-genes is required, and to resolve problems, sophisticated design automation tools have been introduced. However, the complexity of genetic circuits remains low because it is difficult to completely avoid crosstalk between the circuits. To overcome these problems, we have combined a synthetic biology approach (EMBO J. 2010) and a biophysical approach (Nature 2015, Mol Cell 2015, 2018, 2019), making a unique nano-chip by integrating an actuator (enzyme) and sensors onto a DNA origami-based nanochip (Nature Nanotechnology 2018). This gene nanochip allows us to rationally design the chemical reaction and precise gene expression control in vitro and in vivo. Our approach to component integration on a nanochip may provide a basis for large-scale, integrated genetic circuits.
Representative Publications (*First Author, # Corresponding Author)
- 1. Fukumoto, Kodai*; Miyazono, Yuya; Ueda, Takuya; Harada, Yoshie#; Tadakuma, Hisashi#.Evaluating the effect of two-dimensional molecular layout on DNA origami-based transporters.NANOSCALE ADVANCES. 19 Apr 2023. 5(9).
- 2. Shuting Shen*; Masahiro Naganuma*; Yukihide Tomari; Hisashi Tadakuma#.Revisiting the Glass Treatment for Single-Molecule Analysis of ncRNA Function.METHODS IN MOLECULAR BIOLOGY. 08 Jul 2022. 2509:209-231.
- 3. Abdellatef, Shimaa A.*; Tadakuma, Hisashi; Yan, Kangmin; Fujiwara, Takashi; Fukumoto, Kodai; Kondo, Yuichi; Takazaki, Hiroko; Boudria, Rofia; Yasunaga, Takuo; Higuchi, Hideo; Hirose, Keiko#; Carter, Andrew P..Oscillatory movement of a dynein-microtubule complex crosslinked with DNA origami.ELIFE. 24 Jun 2022. 11:e76357.
- 4. Masahiro Naganuma*; Hisashi Tadakuma#; Yukihide Tomari#.Single-molecule analysis of processive double-stranded RNA cleavage by Drosophila Dicer-2.NATURE COMMUNICATIONS. 13 Jul 2021. 12:4268.
- 5. Ivana Duic*; Hisashi Tadakuma; Yoshie Harada; Ryo Yamaue; Katashi Deguchi; Yuki Suzuki; Shige H. Yoshimura; Hiroki Kato; Kunio Takeyasu; Takashi Fujita#.Viral RNA recognition by LGP2 and MDA5, and activation of signaling through step-by-step conformational changes.NUCLEIC ACIDS RESEARCH. 18 Nov 2020. 48(20):11664-11674.
- 6. Yokoyama, Takeshi*; Machida, Kodai*; Iwasaki, Wakana*; Shigeta, Tomoaki; Nishimoto, Madoka; Takahashi, Mari; Sakamoto, Ayako; Yonemochi, Mayumi; Harada, Yoshie; Shigematsu, Hideki; Shirouzu, Mikako; Tadakuma, Hisashi#; Imataka, Hiroaki#; Ito, Takuhiro#.HCV IRES Captures an Actively Translating 80S Ribosome.MOLECULAR CELL. 2019. 74(6):1205+.
- 7. Masubuchi, Takeya*; Endo, Masayuki#; Iizuka, Ryo; Iguchi, Ayaka; Yoon, Dong Hyun; Sekiguchi, Tetsushi; Qi, Hao; Iinuma, Ryosuke; Miyazono, Yuya; Shoji, Shuichi; Funatsu, Takashi; Sugiyama, Hiroshi#; Harada, Yoshie; Ueda, Takuya#; Tadakuma, Hisashi#.Construction of integrated gene logic-chip.NATURE NANOTECHNOLOGY. 2018. 13(10):933+.
- 8. Tsuboyama, Kotaro*; Tadakuma, Hisashi#; Tomari, Yukihide#.Conformational Activation of Argonaute by Distinct yet Coordinated Actions of the Hsp70 and Hsp90 Chaperone Systems.MOLECULAR CELL. 2018. 70(4):722+.
- 9. Tadakuma, Hisashi#*; Masubuchi, Takeya; Ueda, Takuya.RNA Study Using DNA Nanotechnology.PROGRESS IN MOLECULAR BIOLOGY AND TRANSLATIONAL SCIENCE. 2016. 139:121-163.
- 10. Yao, Chunyan*; Sasaki, Hiroshi M.; Ueda, Takuya; Tomari, Yukihide#; Tadakuma, Hisashi#.Single-Molecule Analysis of the Target Cleavage Reaction by the Drosophila RNAi Enzyme Complex.MOLECULAR CELL. 2015. 59(1):125-132.
- 11. Iwasaki, Shintaro*; Sasaki, Hiroshi M.*; Sakaguchi, Yuriko; Suzuki, Tsutomu; Tadakuma, Hisashi#; Tomari, Yukihide#.Defining fundamental steps in the assembly of the Drosophila RNAi enzyme complex.NATURE. 2015. 521(7553):533-U274.
- 12. Miyazono, Yuya*; Hayashi, Masahito; Karagiannis, Peter; Harada, Yoshie; Tadakuma, Hisashi#.Strain through the neck linker ensures processive runs: a DNA-kinesin hybrid nanomachine study.EMBO JOURNAL. 2010. 29(1):93-106.
Group Member and Photo
-
Name：Ruixuan WANG
Position：Doctoral Student
Duration：2020/03-Now
Email：wangrx@@shanghaitech
-
Name：Yuxiang LIU
Position：Doctoral Student
Duration：2020/03-Now
Email：liuyx1@@shanghaitech
-
Name：Changfeng LUO
Position：Doctoral Student
Duration：2021/01-Now
Email：luochf@@shanghaitech
-
Name：Bingxun WANG
Position：Doctoral Student
Duration：2021/01-Now
Email：wangbx1@@shanghaitech
-
Name：Jiayuan MA
Position：Postgraduate Student
Duration：2021/01-Now
Email：majy1@@shanghaitech
-
Name：Chenglin SONG
Position：Doctoral Student
Duration：2022/08-Now
Email：songchl@@shanghaitech
-
Name：Zonghao LI
Position：Postgraduate Student
Duration：2020/07-Now
Email：lizh1@@shanghaitech
-
Name：Jianchen YU
Position：Doctoral Student
Duration：2022/01-Now
Email：yujch@@shanghaitech
-
Name：Peiqi HUANG
Position：Doctoral Student
Duration：2022/01-Now
Email：huangpq@@shanghaitech
-
Name：Chenxu TAN
Position：Doctoral Student
Duration：2023/1-Now
Email：tanchx2022@@shanghaitech
-
Name：Wenyue ZHANG
Position：Doctoral Student
Duration：2021/09-Now
Email：zhangwy@@shanghaitech
-
Name：Yuanzhe SONG
Position：Undergraduate Student
Duration：2021/06-Now
Email：songyzh1@@shanghaitech
-
Name：Kaijun WANG
Position：Undergraduate Student
Duration：2021/11-Now
Email：wangkj@@shanghaitech
-
Name：Jielin WANG
Position：Undergraduate Student
Duration：2022/02-Now
Email：wangjl3@@shanghaitech
alumni: 2021/07 Dongmin XUN(Undergraduate, CAS)
2023/06 Qi CHEN(MA, Biorutus), Yunsi ZHENG(Undergraduate, ShanghaiTech, Shang-Min Zhang lab) 2024/03 Xiaoxia CHEN(RAP, The First Affiliated Hospital, Zhejiang University) 
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