Team Leader
Hiroki Ueda
M.D., Ph.D.
Laboratory for Synthetic Biology
LocationOsaka / Osaka University BioSystems Building
E-mailuedah-tky[at]umin.ac.jp
Please replace [at] with @.
A paradigm shift in biological research from reductionistic to synthetic approach has been undertaken in recent years. Even though the synthetic approach has been acknowledged as a central strategy of life science over the next few decades, basic technologies required in the synthetic approach, such like designing, controlling and manipulating biological molecules (DNAs, proteins and lipids) is remained to be established. The main tasks for laboratory for synthetic biology are to develop basic technologies for synthetic biology through close collaborative study within this center and to present pioneer studies in this new field.
Research Theme
- Design of chemicals that can control and create dynamic protein behaviour.
- Design of molecular interactions in circadian clocks.
- Development of high-throughput genome engineering system.
- Gene synthesis for the design and construction of biological systems.
- Design and measurement of protein network dynamics at a single-cell level
Selected Publications
Susaki EA, Shimizu C, Kuno A, et al.
Versatile whole-organ/body staining and imaging based on electrolyte-gel properties of biological tissues.
Nature Communications
11, 1982 Tue Dec 01 00:00:00 JST 2020
doi: 10.1038/s41467-020-15906-5
Funano SI, Tone D, Ukai H, et al.
Rapid and easy-to-use ES cell manipulation device with a small groove near culturing wells.
BMC research notes
13(1), 453 Mon Oct 05 00:00:00 JST 2020
doi: 10.1186/s13104-020-05294-w
Ota N, Kanda GN, Moriguchi H, et al.
A Microfluidic Platform Based on Robust Gas and Liquid Exchange for Long-term Culturing of Explanted Tissues.
Analytical sciences : the international journal of the Japan Society for Analytical Chemistry
35(10), 1141-1147 Sun Dec 01 00:00:00 JST 2019
doi: 10.2116/analsci.19P099
Matsumoto K, Mitani TT, Horiguchi SA, et al.
Advanced CUBIC tissue clearing for whole-organ cell profiling.
Nature Protocols
14, 3506-3537 Sun Dec 01 00:00:00 JST 2019
doi: 10.1038/s41596-019-0240-9
Niwa Y, Kanda GN, Yamada RG, et al.
Muscarinic Acetylcholine Receptors Chrm1 and Chrm3 Are Essential for REM Sleep.
Cell reports
24(9), 2231-2247 Tue Aug 28 00:00:00 JST 2018
doi: 10.1016/j.celrep.2018.07.082
Tainaka K, Murakami TC, Susaki EA, et al.
Chemical Landscape for Tissue Clearing Based on Hydrophilic Reagents.
Cell reports
24(8), 2196-2210 Tue Aug 21 00:00:00 JST 2018
doi: 10.1016/j.celrep.2018.07.056
Ukai H, Kiyonari H, Ueda HR.
Production of knock-in mice in a single generation from embryonic stem cells.
Nature Protocol
12, 2513-2530 Fri Dec 01 00:00:00 JST 2017
doi: 10.1038/nprot.2017.110
Shinohara Y, Koyama YM, Ukai-Tadenuma M et al.
Temperature-Sensitive Substrate and Product Binding Underlie Temperature-Compensated Phosphorylation in the Clock.
Molecular Cell
67, 783-798 Wed Nov 01 00:00:00 JST 2017
doi: 10.1016/j.molcel.2017.08.009
Kubota SI, Takahashi K, et al.
Whole-Body Profiling of Cancer Metastasis with Single-Cell Resolution.
Cell Reports
20, 236-250 Sun Oct 01 00:00:00 JST 2017
doi: 10.1016/j.celrep.2017.06.010
Ode KL, Ukai H, Susaki EA, et al.
Knockout-rescue embryonic stem cell-derived mouse reveals circadian-period control by quality and quantity of CRY1.
Molecular Cell
65, 176-190 Fri Sep 01 00:00:00 JST 2017
doi: 10.1016/j.molcel.2016.11.022
Narumi R, Shimizu Y, et al.
Mass spectrometry-based absolute quantification reveals rhythmic variation of mouse circadian clock proteins.
Proceedings National Academy of Sciences of the United States of America
133, E3461-E3467 Thu Dec 01 00:00:00 JST 2016
doi: 10.1073/pnas.1603799113
Tatsuki F, Sunagawa GA, Shi S, et al.
Involvement of Ca2+-Dependent Hyperpolarization in Sleep Duration in Mammals.
Neuron
90(1), 70-85 Tue Nov 01 00:00:00 JST 2016
doi: 10.1016/j.neuron.2016.02.032
Sunagawa GA.
Mammalian Reverse Genetics without Crossing Reveals Nr3a as a Short-Sleeper Gene.
Cell Reports
14(3), 662-677 Sat Oct 01 00:00:00 JST 2016
doi: 10.1016/j.celrep.2015.12.052
Susaki EA, Tainaka K, Perrin D, et al.
Advanced CUBIC protocols for whole-brain and whole-body clearing and imaging.
Nature Protocol
10(11), 1709-1727 Tue Dec 01 00:00:00 JST 2015
doi: 10.1038/nprot.2015.085
Tainaka K, Kubota SI, Suyama TQ, et al.
Whole-Body Imaging with Single-Cell Resolution by Tissue Decolorization.
Cell
159(4), 911-924 Mon Dec 01 00:00:00 JST 2014
doi: 10.1016/j.cell.2014.10.034
Susaki EA, Tainaka K, Perrin D, et al.
Whole-Brain Imaging with Single-Cell Resolution Using Chemical Cocktails and Computational Analysis.
Cell
157(3), 726-739 Sat Nov 01 00:00:00 JST 2014
doi: 10.1016/j.cell.2014.03.042
Members
Hiroki Ueda
Team Leader
Rikuhiro Yamada
Senior Scientist
Hideki Ukai
Senior Scientist
Yohei Koyama
Research Scientist
Katsuhiko Matsumoto
Research Scientist
Genki Kanda
Special Postdoctoral Researcher
Hiroko Yukinaga
Special Postdoctoral Researcher
Arthur Robert Millius
Foreign Postdoctoral Researcher
Yuta Shinohara
Postdoctoral Researcher
Daisuke Tone
Postdoctoral Researcher
Maki Ukai
Technical Staff I
Hiroshi Fujishima
Technical Staff I
Chika Shimizu
Technical Staff I
Junko Garcon
Technical Staff I