TOMONOBU WATANABE

Last Updated :2024/11/06

Affiliations, Positions
Research Institute for Radiation Biology and Medicine, Professor
E-mail
twatanabehiroshima-u.ac.jp

Basic Information

Academic Degrees

  • Osaka University
  • Osaka University

Educational Activity

Course in Charge

  1. 2024, Liberal Arts Education Program1, 2Term, Foundation physics for life science
  2. 2024, Undergraduate Education, Intensive, Practice for medical research
  3. 2024, Graduate Education (Master's Program) , First Semester, Seminar
  4. 2024, Graduate Education (Master's Program) , Second Semester, Seminar
  5. 2024, Graduate Education (Master's Program) , First Semester, Research
  6. 2024, Graduate Education (Master's Program) , Second Semester, Research
  7. 2024, Graduate Education (Doctoral Program) , First Semester, Advanced Seminar
  8. 2024, Graduate Education (Doctoral Program) , Second Semester, Advanced Seminar
  9. 2024, Graduate Education (Doctoral Program) , First Semester, Advanced Research
  10. 2024, Graduate Education (Doctoral Program) , Second Semester, Advanced Research
  11. 2024, Graduate Education (Doctoral Program) , First Semester, Advanced Seminar on Stem Cell Biology
  12. 2024, Graduate Education (Doctoral Program) , Second Semester, Advanced Seminar on Stem Cell Biology
  13. 2024, Graduate Education (Doctoral Program) , First Semester, Advanced Research on Stem Cell Biology
  14. 2024, Graduate Education (Doctoral Program) , Second Semester, Advanced Research on Stem Cell Biology
  15. 2024, Graduate Education (Master's Program) , 3Term, Biomedical Science Seminar A
  16. 2024, Graduate Education (Master's Program) , 3Term, Biomedical Science Seminar B
  17. 2024, Graduate Education (Doctoral Program) , 3Term, Biomedical Science Seminar C
  18. 2024, Graduate Education (Doctoral Program) , 3Term, Biomedical Science Seminar D
  19. 2024, Graduate Education (Doctoral Program) , 3Term, Biomedical Science Seminar E

Research Activities

Academic Papers

  1. Visualizing Singularity Phenomenon, Biophysics and Physicobiology, 202402
  2. Yuragi biomarker concept for evaluating human induced pluripotent stem cells using heterogeneity-based Raman finger-printing, BIOPHYSICS AND PHYSICOBIOLOGY, 21, 2024
    Link to Paper Search Results by DOI
  3. Quantitative prediction of rice starch digestibility using Raman spectroscopy and multivariate calibration analysis, FOOD CHEMISTRY, 435, 20240301
    Link to Paper Search Results by DOI
  4. Single-molecule tracking of Nanog and Oct4 in living mouse embryonic stem cells uncovers a feedback mechanism of pluripotency maintenance, EMBO JOURNAL, 42(18), 20230918
    Link to Paper Search Results by DOI
  5. Estimation of crossbridge-state during cardiomyocyte beating using second harmonic generation, LIFE SCIENCE ALLIANCE, 6(8), 202308
    Link to Paper Search Results by DOI
  6. Application of the Dynamical Network Biomarker Theory to Raman Spectra, BIOMOLECULES, 12(12), 202212
    Link to Paper Search Results by DOI
  7. Recent Advances in Raman Spectral Imaging in Cell Diagnosis and Gene Expression Prediction, GENES, 13(11), 202211
    Link to Paper Search Results by DOI
  8. Mitochondria-associated myosin 19 processively transports mitochondria on actin tracks in living cells, Journal of Biological Chemistry, 20220320
  9. Lattice-patterned collagen fibers and their dynamics in axolotl skin regeneration, ISCIENCE, 25(7), 20220715
    Link to Paper Search Results by DOI
  10. Valosin-containing protein regulates the stability of fused in sarcoma granules in cells by changing ATP concentrations, FEBS LETTERS, 596(11), 1412-1423, 202206
    Link to Paper Search Results by DOI
  11. Non-label immune cell state prediction using Raman spectroscopy., Scientific reports, 6, 2016
  12. Single- and multiple-molecule dynamics of the signaling from H-Ras to cRaf-1 visualized on the plasma membrane of living cells., Chemphyschem : a European journal of chemical physics and physical chemistry, 4(7), 2003
  13. A one-headed class V myosin molecule develops multiple large (approximately 32-nm) steps successively., Proceedings of the National Academy of Sciences of the United States of America, 101(26), 2004
  14. Single-molecule analysis of chemoattractant-stimulated membrane recruitment of a PH-domain-containing protein., Journal of cell science, 119(Pt 6), 2006
  15. Overlapping hand-over-hand mechanism of single molecular motility of cytoplasmic dynein., Proceedings of the National Academy of Sciences of the United States of America, 103(15), 2006
  16. Reduction in nonfluorescence state of quantum dots on an immunofluorescence staining., Biochemical and biophysical research communications, 351(1), 2006
  17. Input-output relationship in galvanotactic response of Dictyostelium cells., Bio Systems, 88(3), 2007
  18. Stepwise movements in vesicle transport of HER2 by motor proteins in living cells., Biophysical journal, 92(11), 2007
  19. Three-dimensional nanometry of vesicle transport in living cells using dual-focus imaging optics., Biochemical and biophysical research communications, 359(1), 2007
  20. Human myosin Vc is a low duty ratio nonprocessive motor., The Journal of biological chemistry, 283(16), 2008
  21. In vivo nano-imaging of membrane dynamics in metastatic tumor cells using quantum dots., The Journal of biological chemistry, 285(4), 2010
  22. Myosin-X induces filopodia by multiple elongation mechanism., The Journal of biological chemistry, 285(25), 2010
  23. Single molecular observation of self-regulated kinesin motility., Biochemistry, 49(22), 2010
  24. Identification of three distinct functional sites of insulin-mediated GLUT4 trafficking in adipocytes using quantitative single molecule imaging., Molecular biology of the cell, 21(15), 2010
  25. Mechanical characterization of one-headed myosin-V using optical tweezers., PloS one, 5(8), 2010
  26. Antibody-protein A conjugated quantum dots for multiplexed imaging of surface receptors in living cells., Molecular bioSystems, 6(11), 2010
  27. Real-time nanoscopy by using blinking enhanced quantum dots., Biophysical journal, 99(7), 2010
  28. Synthesis and Characterization of Anti-HER2 Antibody Conjugated CdSe/CdZnS Quantum Dots for Fluorescence Imaging of Breast Cancer Cells., Sensors (Basel, Switzerland), 9(11), 2009
  29. Chromatin plasticity as a differentiation index during muscle differentiation of C2C12 myoblasts., Biochemical and biophysical research communications, 418(4), 2012
  30. Engineering strain-sensitive yellow fluorescent protein., Chemical communications (Cambridge, England), 48(63), 2012
  31. Atg9 vesicles are an important membrane source during early steps of autophagosome formation., The Journal of cell biology, 198(2), 2012
  32. Multilayered, core/shell nanoprobes based on magnetic ferric oxide particles and quantum dots for multimodality imaging of breast cancer tumors., Biomaterials, 33(33), 2012
  33. Distinct modulated pupil function system for real-time imaging of living cells., PloS one, 7(9), 2012
  34. Improving spinning disk confocal microscopy by preventing pinhole cross-talk for intravital imaging., Proceedings of the National Academy of Sciences of the United States of America, 110(9), 2013
  35. Rab6a releases LIS1 from a dynein idling complex and activates dynein for retrograde movement., Nature communications, 4, 2013
  36. Four-dimensional spatial nanometry of single particles in living cells using polarized quantum rods., Biophysical journal, 105(3), 2013
  37. Glycine insertion makes yellow fluorescent protein sensitive to hydrostatic pressure., PloS one, 8(8), 2013
  38. Culturing of mouse and human cells on soft substrates promote the expression of stem cell markers., Journal of bioscience and bioengineering, 117(6), 2014
  39. Visualizing cell state transition using Raman spectroscopy., PloS one, 9(1), 2014
  40. Whole-brain imaging with single-cell resolution using chemical cocktails and computational analysis., Cell, 157(3), 2014
  41. Nano-scale measurement of biomolecules by optical microscopy and semiconductor nanoparticles., Frontiers in physiology, 5, 2014
  42. Gene dynamics of core transcription factors for pluripotency in embryonic stem cells., Journal of bioscience and bioengineering, 119(4), 2015
  43. Expanded palette of Nano-lanterns for real-time multicolor luminescence imaging., Proceedings of the National Academy of Sciences of the United States of America, 112(14), 2015
  44. Visualizing the appearance and disappearance of the attractor of differentiation using Raman spectral imaging., Scientific reports, 5, 2015
  45. SH3 domain of c-Src governs its dynamics at focal adhesions and the cell membrane., The FEBS journal, 282(20), 2015
  46. Predictive diagnosis of the risk of breast cancer recurrence after surgery by single-particle quantum dot imaging., Scientific reports, 5, 2015
  47. Full control of polarization state with a pair of electro-optic modulators for polarization-resolved optical microscopy., Applied optics, 55(5), 2016
  48. Dependence of fluorescent protein brightness on protein concentration in solution and enhancement of it., Scientific reports, 6, 2016
  49. Full control of polarization state with a pair of electro-optic modulators for polarization-resolved optical microscopy: erratum., Applied optics, 55(15), 2016
  50. Simultaneous nano-tracking of multiple motor proteins via spectral discrimination of quantum dots., Biomedical optics express, 7(7), 2016
  51. Activated full-length myosin-X moves processively on filopodia with large steps toward diverse two-dimensional directions., Scientific reports, 7, 2017
  52. Human myosin VIIa is a very slow processive motor protein on various cellular actin structures., The Journal of biological chemistry, 292(26), 2017
  53. Design and development of genetically encoded fluorescent sensors to monitor intracellular chemical and physical parameters., Biophysical reviews, 8(2), 2016
  54. A novel c-Src recruitment pathway from the cytosol to focal adhesions., FEBS letters, 591(13), 2017
  55. Raman spectroscopy as a tool for ecology and evolution., Journal of the Royal Society, Interface, 14(131), 2017
  56. In vivo analysis of protein crowding within the nuclear pore complex in interphase and mitosis., Scientific reports, 7(1), 2017
  57. The use of a genetically encoded molecular crowding sensor in various biological phenomena., Biophysics and physicobiology, 14, 2017
  58. Myosin X is recruited to nascent focal adhesions at the leading edge and induces multi-cycle filopodial elongation., Scientific reports, 7(1), 2017
  59. Validation of Common Housekeeping Genes as Reference for qPCR Gene Expression Analysis During iPS Reprogramming Process., Scientific reports, 8(1), 2018
  60. Cell type discrimination based on image features of molecular component distribution., Scientific reports, 8(1), 2018
  61. Single cell analysis reveals a biophysical aspect of collective cell-state transition in embryonic stem cell differentiation., Scientific reports, 8(1), 2018
  62. Raman spectral signature reflects transcriptomic features of antibiotic resistance in Escherichia coli., Communications biology, 1, 2018
  63. Kinesin-binding-triggered conformation switching of microtubules contributes to polarized transport., The Journal of cell biology, 217(12), 2018
  64. Single-Cell Screening of Tamoxifen Abundance and Effect Using Mass Spectrometry and Raman-Spectroscopy., Analytical chemistry, 91(4), 2019
  65. Theoretical modeling reveals that regulatory T cells increase T-cell interaction with antigen-presenting cells for stable immune tolerance., International immunology, 31(11), 2019
  66. Pairwise efficiency: a new mathematical approach to qPCR data analysis increases the precision of the calibration curve assay., BMC bioinformatics, 20(1), 2019
  67. Second harmonic generation polarization microscopy as a tool for protein structure analysis., Biophysics and physicobiology, 16, 2019
  68. Linking substrate and nucleus via actin cytoskeleton in pluripotency maintenance of mouse embryonic stem cells., Stem cell research, 41, 2019
  69. Advanced CUBIC tissue clearing for whole-organ cell profiling., Nature protocols, 14(12), 2019
  70. In vivo real-time tracking of single quantum dots conjugated with monoclonal anti-HER2 antibody in tumors of mice., Cancer research, 67(3), 2007
  71. An improved fluorescent protein-based expression reporter system that utilizes bioluminescence resonance energy transfer and peptide-assisted complementation, CHEMICAL COMMUNICATIONS, 56(25), 3625-3628, 20200328
    Link to Paper Search Results by DOI
  72. Multiplexed 129 Xe HyperCEST MRI Detection of Genetically Reconstituted Bacterial Protein Nanoparticles in Human Cancer Cells, Contrast Media & Molecular Imaging, 2020
    Link to Paper Search Results by DOI
  73. Following Embryonic Stem Cells, Their Differentiated Progeny, and Cell-State Changes During iPS Reprogramming by Raman Spectroscopy, ANALYTICAL CHEMISTRY, 92(22), 14915-14923, 20201117
    Link to Paper Search Results by DOI
  74. Quantitation of Cell Membrane Permeability of Cyclic Peptides by Single-Cell Cytoplasm Mass Spectrometry, ANALYTICAL CHEMISTRY, 93(7), 3370-3377, 20210223
    Link to Paper Search Results by DOI
  75. Activation probability of a single naive T cell upon TCR ligation is controlled by T cells interacting with the same antigen-presenting cell, FEBS LETTERS, 595(11), 1512-1524, 202106
    Link to Paper Search Results by DOI
  76. Glycine insertion modulates the fluorescence properties of Aequorea victoria green fluorescent protein and its variants in their ambient environment, BIOPHYSICS AND PHYSICOBIOLOGY, 18, 145-158, 2021
    Link to Paper Search Results by DOI
  77. Improvement in image quality via the pseudo confocal effect in multidirectional digital scanned laser light-sheet microscopy, OPTICS EXPRESS, 29(15), 24278-24288, 20210719
    Link to Paper Search Results by DOI
  78. Pressure-induced changes on the morphology and gene expression in mammalian cells, BIOLOGY OPEN, 10(7), 202107
    Link to Paper Search Results by DOI
  79. Exploring rare cellular activity in more than one million cells by a transscale scope, SCIENTIFIC REPORTS, 11(1), 20210816
    Link to Paper Search Results by DOI

Invited Lecture, Oral Presentation, Poster Presentation

  1. "Raw foods" biophysics, Tomonobu M Watanabe, Annual Meeting of the Biophysical Society of Japan, 2023/11/13, With Invitation, English

Patented

  1. Patent, 7566322, 2024/10/04

External Funds

Acceptance Results of Competitive Funds

  1. KAKENHI(Grant-in-Aid for Challenging Research (Pioneering)), 2023, 2025
  2. KAKENHI(Grant-in-Aid for Scientific Research (B)), 2021, 2023

Social Activities

Organizing Academic Conferences, etc.

  1. IUPAB Symposium "Correlative Bioimaging"
  2. RIKEN Symposium "Challnes in Bioimaging: Beyond the scales and Beyond the Borders"