Direct observation of single particle movements in the cytoplasm

• Project/Area Number: 25600051
• Research Category: Grant-in-Aid for Challenging Exploratory Research
• Allocation Type: Multi-year Fund
• Research Field: Nanobioscience
• Research Institution: The Institute of Physical and Chemical Research
• Principal Investigator: SAKO Yasushi 独立行政法人理化学研究所, 佐甲細胞情報研究室, 主任研究員 (20215700)
• Project Period (FY): 2013-04-01 – 2015-03-31
• Project Status: Completed (Fiscal Year 2014)
• Budget Amount: ¥4,030,000 (Direct Cost: ¥3,100,000、Indirect Cost: ¥930,000); Fiscal Year 2014: ¥1,820,000 (Direct Cost: ¥1,400,000、Indirect Cost: ¥420,000); Fiscal Year 2013: ¥2,210,000 (Direct Cost: ¥1,700,000、Indirect Cost: ¥510,000)
• Keywords: １粒子追跡 / ナノプローブ / 細胞内環境

Outline of Final Research Achievements

Movements and collision of the particles in the cytoplasm regulate chemical reactions inside cells. Because of complicated structure and environments in the cytoplasm, the movements of cytoplasmic particles must be largely deviated from simple thermal diffusion. Here, we analyzed movements of 50-nm single fluorescent particles introduced in living cell cytoplasm. The results indicated that the viscous drag in the cytoplasm is only ten times larger than that in water, however, 40% trajectories of the particles were confined within ~100 nm regions, suggesting fine compartmentalization of the cytoplasm.

Research Products

• [Journal Article] Dynamic and unique nucleolar microenvironment revealed by fluorescence correlation spectroscopy (2015)
  • Author(s): Park, H., Han, S.-S., Sako, Y., and Pack, C.-G.
  • Journal Title: FASEB J. Volume: 29 Issue: 3 Pages: 837-848
  • DOI: 10.1096/fj.14-254110
  • Peer Reviewed
• [Journal Article] Power law relationship between cell cycle duration and cell volume in the early embryonic development of Caenorhabditis elegans (2015)
  • Author(s): Arata, Y., Takagi, H., Sako, Y., and Sawa. H.
  • Journal Title: Frontiers in Physiology Volume: 28 Pages: 529-529
  • DOI: 10.3389/fphys.2014.00529
  • Peer Reviewed / Open Access / Acknowledgement Compliant
• [Journal Article] Positive feedback within a kinase signaling complex functions as a switch mechanism for NF-B activation (2014)
  • Author(s): Shinohara, H., Behar, M., Inoue, K., Hiroshima, M., Yasusda, T., Nagashima, T., Kimura, S., Sanjo, H., Maeda, S., Yumoto, N., Ki, S., Akira, S., Sako, Y., Hoffman, A., Kurosaki, T., and Okada-Hatakeyama, M.
  • Journal Title: Science Volume: 344 Issue: 10 Pages: 760-764
  • DOI: 10.1016/j.bpj.2014.10.002
  • Peer Reviewed
• [Journal Article] Photosystem II antenna phosphorylation-dependent protein diffusion determined by fluorescence correlation spectroscopy (2013)
  • Author(s): Iwai, M., Pack, C.-G., Takenaka, Y., Sako, Y., and Nakano, A.
  • Journal Title: Sci. Rep. Volume: 3
  • Peer Reviewed
• [Journal Article] Optimality conditions for cell-fate heterogeneity that lead to the ability to maximize effects of growth factors in PC12 cells (2013)
  • Author(s): Mouri, K. and Sako, Y.
  • Journal Title: PLoS Comp. Biol. Volume: 9 Issue: 11 Pages: e1003320-e1003320
  • DOI: 10.1371/journal.pcbi.1003320
  • Peer Reviewed
• [Journal Article] Clearance of yeast eRF-3 prion [PSI+] by amyloid enlargement due to the imbalance between chaperone Ssa1 and cochaperone Sgt2 (2013)
  • Author(s): Arai, C., Kurahashi, H., Pack, C.-G.., Sako, Y., and Nakamura, Y.
  • Journal Title: Translation. Volume: 1 Issue: 2 Pages: e26574-e26574
  • DOI: 10.4161/trla.26574
  • Peer Reviewed
• [Presentation] 細胞内反応ネットワークの1分子計測 (2014)
  • Author(s): 佐甲靖志
  • Organizer: 日本学術会議フォーラム「生命情報ビッグデータ時代における新しい生命科学」
  • Place of Presentation: 日本学術会議（東京）
  • Year and Date: 2014-08-29
  • Invited
• [Presentation] Experimental aspects of intracellular dynamics of cell fate decision (2014)
  • Author(s): Sako, Y.
  • Organizer: The Joint Annual Meeting of The Japanese Society for Mathematical Biology and The Society for Mathematical Biology 2014
  • Place of Presentation: Osaka Interanational Convention Center (Osaka)
  • Year and Date: 2014-07-30
  • Invited
• [Presentation] Single-molecule analysis of cell signaling reactions (2014)
  • Author(s): Sako, Y.
  • Organizer: Single Protein Dynamics in Cellulo SPDC 2014
  • Place of Presentation: OIST (Okinawa, Onna)
  • Year and Date: 2014-04-25
  • Invited
• [Presentation] Single molecule imaging of signal transduction in living cells
  • Author(s): Sako, Y.
  • Organizer: 3rd McGill-RIKEN Scientific Workshop
  • Place of Presentation: Montreal, Canada
  • Invited
• [Presentation] Single-molecule imaging of intracellular reactions
  • Author(s): Sako, Y.
  • Organizer: Kyoto University Cell Biology, Developmental Biology, and Systems Biology Course Meeting
  • Place of Presentation: Kyoto
  • Invited
• [Presentation] Single-molecule analysis of intracellular reaction networks
  • Author(s): Sako, Y.
  • Organizer: KHUPO 14th Annual International Proteomics Conference
  • Place of Presentation: Busan, Korea
  • Invited