Laboratory for Physical Biology | RIKEN BDR

Laboratory for Physical Biology

Team Leader

Tatsuo ShibataPh.D.

Photo of principal investigator

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

Research Summary

Advances in measurement technologies have afforded us glimpses into dynamic functional processes, such as morphogenesis and information processing, in cells and tissues involved in development and regeneration. The truly organic dynamism of the biological phenomena exhibited by living cells, individually or in groups, emerges from the coordinated interaction of numerous molecular and genetic factors, and the need for integrated, systems-based approaches to the study of design and operating principles in such “living” phenomena is becoming increasingly clear. This will require not only technologies for the measurement of such elements but the development of applicable mathematical methods as well. In Laboratory for Physical Biology, we will seek to use concepts and methodology from mathematical sciences such as physics in the study and elucidation of these emerging questions in biology.

Research Theme

  • Dynamics of information processes of chemotaxis
  • Dynamics of polarization
  • Dynamics of gene regulatory networks

Main Publications List

  • Lim YW, Wen F-L, Shankar P, et al.
    A balance between antagonizing PAR proteins specifies the pattern of asymmetric and symmetric divisions in C. elegans embryogenesis.
    Cell Reports 36. 109326 (2021) doi:10.1016/j.celrep.2021.109326
  • Morita R, Sanzen N, Sasaki H, et al.
    Tracing the origin of hair follicle stem cells.
    Nature (2021) doi: 10.1038/s41586-021-03638-5
  • Hayakawa M, Hiraiwa T, Wada Y, et al.
    Polar pattern formation induced by contact following locomotion in a multicellular system.
    eLife 9. e53609 (2020)doi: 10.7554/eLife.53609
  • Kono K, Yoshiura S, Fujita I, et al.
    Reconstruction of Par-dependent polarity in apolar cells reveals a dynamic process of cortical polarization.
    eLife 8. e45559 (2019)doi: 10.7554/eLife.45559.001
  • Sekine R, Shibata T, Ebisuya M.
    Synthetic mammalian pattern formation driven by differential diffusivity of Nodal and Lefty.
    Nature communications 9(1). 5456 (2018) doi: 10.1038/s41467-018-07847-x
  • Wen FL, Wang YC, Shibata T.
    Epithelial Folding Driven by Apical or Basal-Lateral Modulation: Geometric Features, Mechanical Inference, and Boundary Effects.
    Biophysical Journal 112(12). 2683-2695 (2017) doi : 10.1016/j.bpj.2017.05.012
  • Sato K, Hiraiwa T, Maekawa E, et al.
    Left–right asymmetric cell intercalation drives directional collective cell movement in epithelial morphogenesis.
    Nature Communications 6. 10074 (2015) doi: 10.1038/ncomms10074
  • Sato K, Hiraiwa T, Shibata T.
    Cell Chirality Induces Collective Cell Migration in Epithelial Sheets.
    Physical Review Letters 115(18). 188102 (2015) doi: 10.1103/PhysRevLett.115.188102
  • Hiraiwa T, Nagamatsu A, Akuzawa N, et al.
    Relevance of intracellular polarity to accuracy of eukaryotic chemotaxis.
    Physical Biology 11(5). 056002 (2014) doi: 10.1088/1478-3975/11/5/056002
  • Nishikawa M, Horning M, Ueda M, Shibata T.
    Excitable Signal Transduction Induces Both Spontaneous and Directional Cell Asymmetries in the Phosphatidylinositol Lipid Signaling System for Eukaryotic Chemotaxis.
    Biophysical Journal 106(3). 723-734 (2014) doi: 10.1016/j.bpj.2013.12.023
  • Shibata T, Nishikawa M, Matsuoka S, Ueda M.
    Intracellular Encoding of Spatiotemporal Guidance Cues in a Self-Organizing Signaling System for Chemotaxis in Dictyostelium Cells.
    Biophysical Journal 105(9). 2199-2209 (2013) doi: 10.1016/j.bpj.2013.09.024
  • Inomata H, Shibata T, Haraguchi T, Sasai Y.
    Scaling of Dorsal-Ventral Patterning by Embryo Size-Dependent Degradation of Spemann's Organizer Signals.
    Cell 153(6). 1296-1311 (2013) doi: 10.1016/j.cell.2013.05.004
  • Hiraiwa T, Baba A, Shibata T.
    Theoretical model for cell migration with gradient sensing and shape deformation.
    European Physical Journal E 36(4). 32 9 (2013) doi: 10.1140/epje/i2013-13032-1
  • Baba A, Hiraiwa T, Shibata T.
    Directional sensing of deformed cells under faint gradients.
    Physical Review E 86(6). 060901 5 (2012) doi: 10.1103/PhysRevE.86.060901
  • Shibata T, Nishikawa M, Matsuoka S, Ueda M.
    Modeling the self-organized phosphatidylinositol lipid signaling system in chemotactic cells using quantitative image analysis.
    Journal of Cell Science 125(21). 5138-5150 (2012) doi: 10.1242/jcs.108373

All Publications