Laboratory for Comprehensive Bioimaging | RIKEN BDR

Laboratory for Comprehensive Bioimaging

Team Leader

Tomonobu WatanabePh.D.

Photo of principal investigator

  • Location:Kobe / Developmental Biology Buildings, Hiroshima
  • E-mail:tomowatanabe[at]riken.jpPlease replace [at] with @.
  • Lab Website

Exploring the potential of light and changing biology

Research Summary

Light has been an essential modality in medical and life science for 400 years because of the availability of living specimens. When light passes through the biomaterial or when light emanates from the biomaterial, the light is modified/modulated by information inside the biomaterial. Our developmental aim is extract the biological information from the fluorescence or scattering light. We are also trying to apply the developed measurement technology to various fields such as medicine and agriculture. For example, Raman scattering light contains all the molecular information constituting a substance, and the Raman scattered light spectrum of the cell is very complicated. We exploit this complexity to make Raman scattered light spectrum into a cellular fingerprint that identifies the type and state of cells. In addition, this "cell fingerprinting technology" is developed as an evaluation method applicable without touching or damaging cells or tissues. We are conducting research and development on as many innovation seeds as possible by simultaneously developing both basic measurement principles and practical application techniques. We believe that these technologies support many biological research fields and contribute to industries and revitalize the community.

Research Theme

  • Stem cell research by utilizing single molecule measurement for transcription factors.
  • Development and application of cellular fingerprinting based on Raman spectroscopy
  • Development and application of protein structural analysis based on second harmonic generation microscopy
  • Development of whole tissue imaging
  • The others

Main Publications List

  • Kawai T, Mihara Y, Morita M, et al.
    Quantitation of Cell Membrane Permeability of Cyclic Peptides by Single-Cell Cytoplasm Mass Spectrometry.
    Analytical Chemistry (2021) doi: 10.1021/acs.analchem.0c03901
  • Germond A, Panina Y, Shiga M, et al.
    Following Embryonic Stem Cells, Their Differentiated Progeny, and Cell-State Changes During iPS Reprogramming by Raman Spectroscopy.
    Analytical Chemistry 92. 14915–14923 (2020) doi: 10.1021/acs.analchem.0c01800
  • Ali A, Abouleila Y, Shimizu Y, et al.
    Single-cell screening of tamoxifen abundance and effect using mass spectrometry and Raman-spectroscopy.
    Analytical chemistry 91(4). 2710-2718 (2019) doi: 10.1021/acs.analchem.8b04393
  • Germond A, Ichimura T, Horinouchi T, et al.
    Raman spectral signature reflects transcriptomic features of antibiotic resistance
    Communications Biology 1. 85 (2018) doi: 10.1038/s42003-018-0093-8
  • Germond A, Kumar V, Ichimura T, et al.
    Raman spectroscopy as a tool for ecology and evolution.
    Journal of the Royal Society Interface 14(131). 20170174 (2017) doi : 10.1098/rsif.2017.0174
  • Ichimura T, Chiu L, Fujita K, et al.
    Non-label immune cell state prediction using Raman spectroscopy.
    Scientific Reports 6. 37562 (2016) doi : 10.1038/srep37562
  • Germond A, Fujita H, Ichimura T, Watanabe TM.
    Design and development of genetically encoded fluorescent sensors to monitor intracellular chemical and physical parameters.
    Biophysical Reviews 8(2). 121-138 (2016) doi : 10.1007/s12551-016-0195-9
  • Morikawa TJ, Fujita H, Kitamura A, et al.
    Dependence of fluorescent protein brightness on protein concentration in solution and enhancement of it.
    Scientific Reports 6. 22342 (2016) doi : 10.1038/srep22342
  • Kaneshiro J, Watanabe TM, Fujita H, Ichimura T.
    Full control of polarization state with a pair of electro-optic modulators for polarization-resolved optical microscopy.
    Applied Optics 55(5). 1082-1089 (2016) doi : 10.1364/ao.55.001082
  • Ichimura T, Chiu L, Fujita K, et al.
    Visualizing the appearance and disappearance of the attractor of differentiation using Raman spectral imaging.
    Scientific Reports 5. 11358 (2015) doi : 10.1038/srep11358
  • Fujita H, Esaki T, Masujima T, et al.
    Comprehensive chemical secretory measurement of single cells trapped in a micro-droplet array with mass spectrometry.
    Rsc Advances 5(22). 16968-16971 (2015) doi : 10.1039/c4ra12021c
  • Higuchi S, Watanabe TM, Kawauchi K, et al.
    Culturing of mouse and human cells on soft substrates promote the expression of stem cell markers.
    Journal of Bioscience and Bioengineering 117(6). 749-755 (2014) doi : 10.1016/j.jbiosc.2013.11.011
  • Ichimura T, Chiu L, Fujita K, et al.
    Visualizing Cell State Transition Using Raman Spectroscopy.
    Plos One 9(1). e84478 (2014) doi : 10.1371/journal.pone.0084478
  • Watanabe TM, Fujii F, Jin T, et al.
    Four-Dimensional Spatial Nanometry of Single Particles in Living Cells Using Polarized Quantum Rods.
    Biophysical Journal 105(3). 555-564 (2013) doi : 10.1016/j.bpj.2013.07.001