Measurements and analysis of fluctuations in cellular systems

• Project/Area Number: 19207012
• Research Category: Grant-in-Aid for Scientific Research (A)
• Allocation Type: Single-year Grants
• Section: 一般
• Research Field: Biophysics
• Research Institution: The Institute of Physical and Chemical Research
• Principal Investigator: SAKO Yasushi The Institute of Physical and Chemical Research, 佐甲細胞情報研究室, 主任研究員 (20215700)
• Project Period (FY): 2007 – 2010
• Project Status: Completed (Fiscal Year 2010)
• Budget Amount: ¥51,350,000 (Direct Cost: ¥39,500,000、Indirect Cost: ¥11,850,000); Fiscal Year 2010: ¥9,880,000 (Direct Cost: ¥7,600,000、Indirect Cost: ¥2,280,000); Fiscal Year 2009: ¥9,880,000 (Direct Cost: ¥7,600,000、Indirect Cost: ¥2,280,000); Fiscal Year 2008: ¥9,880,000 (Direct Cost: ¥7,600,000、Indirect Cost: ¥2,280,000); Fiscal Year 2007: ¥21,710,000 (Direct Cost: ¥16,700,000、Indirect Cost: ¥5,010,000)
• Keywords: 1分子計測 / 顕微計測 / ノイズ / 細胞内情報処理 / 細胞分化 / 細胞増殖

Research Abstract

Fluctuations of biological reactions were measured and analyzed for dynamics of proteins, reactions of molecular systems, and cell behaviors in the EGF-Ras-MAPK system, which is a cell signaling network. Intramolecular dynamics and translational movements of EGF receptor and RAF ; reaction dynamics between EGF receptor and Grb2, Ras and RAF, and MAPKK and MAPK ; and fluctuations of cell fate decision that occurred spontaneously and in response to EGF and NGF have been studied.

Research Products

• [Journal Article] [PSI^+] aggregate enlargement in rnq1 non-prion domain mutants, leading to a loss-of-prion yeast. (2011)
  • Author(s): Kurahashi H., Park C.-G., Shibata S., Oishi K., Sako Y., Nakamura Y.
  • Journal Title: Genes to Cells. 16
  • Peer Reviewed
• [Journal Article] [PSI^+]aggregate enlargement in rng1 non-prion domain mutants, leading to a loss-of-prion yeast. (2011)
  • Author(s): Kurahashi, H., et al.
  • Journal Title: Genes to Cells. Volume: (印刷中)
  • Peer Reviewed
• [Journal Article] 細胞内1分子計測とシステムズバイオロジー (2010)
  • Author(s): 日比野佳代, 他
  • Journal Title: 細胞工学 Volume: 29 Pages: 344-348
• [Journal Article] Reduction-triggered fluorescent amplification probe for detection of endogenous RNAs in living human cells. (2009)
  • Author(s): Furukawa K., Abe H., Hibino K., Sako Y., Tsuneda S., Ito Y.
  • Journal Title: Bioconj.Chem. 20 Pages: 1026-1036
  • Peer Reviewed
• [Journal Article] A RasGTP-induced conformational change in C-RAF is essential for accurate molecular recognition. (2009)
  • Author(s): Hibino K., Shibata T., Yanagida T., Sako Y.
  • Journal Title: Biophys.J. 97 Pages: 1277-1287
  • Peer Reviewed
• [Journal Article] Single-molecule imaging of fluorescent proteins expressed in living cells. (2009)
  • Author(s): Hibino K., Hiroshima M., Takahashi M., Sako Y.
  • Journal Title: Methods Mol.Biol.(Lee, J.W.ed.)(Humana Press) 48 Pages: 451-460
  • Peer Reviewed
• [Journal Article] A RasGTP-induced conformational change in C-RAF is essential for accurate molecular recognition (2009)
  • Author(s): K. Hibino, T. Shibata, T. Yanagida, Y. Sako
  • Journal Title: Biophys.J. 97 Pages: 1277-87
  • Peer Reviewed
• [Journal Article] Reduction-triggered fluorescent amplication probe for detection of endogenous RNAs in living human cells (2009)
  • Author(s): Furukawa, K., et al.
  • Journal Title: Bioconj.Chem. 20 Pages: 1026-1036
  • Peer Reviewed
• [Journal Article] A RasGTP-induced conformational change in C-RAF is essential for accurate molecular recognition (2009)
  • Author(s): Hibino K., et al.
  • Journal Title: Biophys.J. 97 Pages: 1227-1287
  • Peer Reviewed
• [Journal Article] 細胞内情報伝達反応の1分子キネティクス (2009)
  • Author(s): 佐甲靖志
  • Journal Title: 生物物理 49 Pages: 184-191
  • NAID: 10025975747
  • Peer Reviewed
• [Journal Article] Multiple mechanisms for accumulation of myosin II filaments at the equator during cytokinesis. (2008)
  • Author(s): Yumura S., Ueda M., Sako Y., Kitanishi-Yumura T., Yanagida T.
  • Journal Title: Traffic 9 Pages: 2089-2099
  • Peer Reviewed
• [Journal Article] Construction of two color semiconductor Quantum dots wire by utilizing the complementarity of DNA. (2008)
  • Author(s): Tanaka S.-i., Miyata T., Kato T., Namba K., Yanagida T., Sako Y., Kawata S., Inouye Y.
  • Journal Title: AIP Conference Proceedings 1062 "DNA-Based Nanodevices" Pages: 116-122
  • Peer Reviewed
• [Journal Article] Multiple mechanisms for accumulation of myosin II filaments at the equator during cytokinesis (2008)
  • Author(s): Yumura, S., et al.
  • Journal Title: Traffic 9 Pages: 2089-2099
  • Peer Reviewed
• [Journal Article] Construction of two color semiconductor Quantum dots wire by utilizing the complementarity of DNA (2008)
  • Author(s): Tanaka, S.-i., et al.
  • Journal Title: AIP Conference Proceedings 1062 Pages: 116-122
  • Peer Reviewed
• [Journal Article] 細胞内シグナル伝達システムの1分子イメージング (2008)
  • Author(s): 佐甲靖志
  • Journal Title: 実験医学増刊 26 Pages: 2718-2723
• [Journal Article] Multiple-state reactions between the epidermal growth factor receptor and Grb2 as observed using single-molecule analysis. (2007)
  • Author(s): Morimatsu M., Takagi H., Ota K.G., Iwamoto R., Yanagida T., Sako Y.
  • Journal Title: Proc.Natl.Acad.Sci.USA 104 Pages: 18013-18018
  • Peer Reviewed
• [Journal Article] Rho small GTPase regulates the stability of individual focal adhesions : a FRET-based visualization of GDP/GTP exchange on small GTPases. (2007)
  • Author(s): Miyauchi T., Yanagida T., Sako Y.
  • Journal Title: Biophysics 3 Pages: 63-73
  • NAID: 130000091813
  • Peer Reviewed
• [Journal Article] Multiple-state reactions between the epidermal growth factor receptor and Grb2 as observed using single-molecule analysis (2007)
  • Author(s): M. Morimatsu, H.Takagi, K. Ota, K. Nishida, T. Yanagida, Y. Sako
  • Journal Title: Proc.Natl.Acad.Sci.USA 104 Pages: 18013-18
  • Peer Reviewed
• [Journal Article] Rho small GTPase regulates the stability of individual focal adhesions : a FRET-based visualization of GDP/GTP exchange on small GTPases (2007)
  • Author(s): T. Miyauchi, T. Yanagida, Y. Sako
  • Journal Title: Biophyscs 3 Pages: 63-73
  • NAID: 130000091813
  • Peer Reviewed
• [Journal Article] Multiple-state reactions between the epidermal growth factor receptor and Grb2 as observed using single-molecule analysis. (2007)
  • Author(s): M.Morimatsu, H.Takagi, et. al.
  • Journal Title: Proc.Natl.Acad.Sci.USA 104 Pages: 18013-18018
  • Peer Reviewed
• [Journal Article] Rho small GTPase regulates the stability of individual focal adhesions:a FRET-based visualization of GDP/GTP exchange on small GTPases. (2007)
  • Author(s): T.Miyauchi, et. al.
  • Journal Title: Biophysics 3 Pages: 63-73
  • Peer Reviewed
• [Journal Article] 細胞内情報伝達分子間相互作用の1分子可視化解析 (2007)
  • Author(s): 佐甲 靖志
  • Journal Title: 顕微鏡 42 Pages: 166-169
  • NAID: 10020010120
  • Peer Reviewed
• [Presentation] 細胞情報蛋白質の分子間相互作用 (2010)
  • Author(s): 佐甲靖志
  • Organizer: 大阪大学蛋白質研究所セミナー
  • Place of Presentation: 吹田市
  • Year and Date: 2010-10-21
• [Presentation] EGF受容体の1分子動態と会合体形成メカニズム (2010)
  • Author(s): 廣島通夫、佐甲靖志
  • Organizer: 生理学研究所研究会
  • Place of Presentation: 岡崎市
  • Year and Date: 2010-09-17
• [Presentation] Single-molecule dynamics of cell signaling proteins (2009)
  • Author(s): Sako Y.
  • Organizer: 第61回日本細胞生物学会大会
  • Place of Presentation: 愛知県 名古屋市
  • Year and Date: 2009-06-02
• [Presentation] Single-molecule kinetics of protein recognition in cell signaling. (2008)
  • Author(s): Sako Y.
  • Organizer: The IPR seminar on New Approaches to Complexity of Protein Dynamics by Single Molecule Measurements : Experiments and Theories.
  • Place of Presentation: Suita
  • Year and Date: 2008-12-08
• [Presentation] Single-molecule kinetics of protein recognition in cell signaling (2008)
  • Author(s): Sako, Y.
  • Organizer: The IPR seminar on New Approaches to Complexity of Protein Dynamics by Single Molecule Measurements
  • Place of Presentation: Suita
  • Year and Date: 2008-12-08
• [Presentation] Single-molecule analysis of EGF-Ras-MAPK pathway. (2008)
  • Author(s): Sako Y.
  • Organizer: OIST Workshop on Systems Biology of MAPK pathways.
  • Place of Presentation: Onna
  • Year and Date: 2008-03-10
• [Presentation] Single-molecule kinetic analysis of cell signaling reactions (2008)
  • Author(s): Y. Sako
  • Organizer: Conference on Systems Biology of Mammalian Cells (SBMC2008)
  • Place of Presentation: Dresden
• [Presentation] Single-molecule imaging of dynamics and kinetics of cell signaling proteins (2007)
  • Author(s): Sako Y.
  • Organizer: 10th workshop on Fluorescence Correlation Spectroscopy and related methods.
  • Place of Presentation: Sapporo(Special lecture)
  • Year and Date: 2007-11-27
• [Book] Biosensors for Health, Environment and Biosecurity/Book1(How to make FRET biosensors for Rab family GTPases.) (2011)
  • Author(s): Ishido N., Kobayashi H., Sako Y., Arai T., Fukuda M., Nakamura T.
  • Publisher: INTECH
• [Book] Cell Signaling Reactions : Single-molecule Kinetic Analyses(Sako, Y.and Ueda, M.eds.)(Single-molecule kinetic analysis of receptor protein tyrosine kinases.) (2010)
  • Author(s): Hiroshima M., Sako Y.
  • Publisher: Springer
• [Book] Cell Signaling Reactions : Single-molecule Kinetic Analyses(Sako, Y.and Ueda, M.eds.)(Single-molecule analysis of molecular recognition between signaling proteins Ras and RAF. 35)) (2010)
  • Author(s): Hibino K., Sako Y.
  • Publisher: Springer
• [Book] Cell Signaling Reactions : Single-molecule Kinetic Analyses (2010)
  • Author(s): Sako, Y., Ueda, M.eds.
  • Total Pages: 330
  • Publisher: Springer
• [Book] Single Molecule Dynamics in Life Science(Yanagida, T.and Ishii, Y.eds.)(Signal transduction across the plasma membrane.) (2009)
  • Author(s): Ueda M., Shibata T., Sako Y.
  • Publisher: WILEY-VCH
• [Book] Signal transduction across the plasma membrane. "Single Molecule Dyanmics in Life Science" (Yanagida, T., Ishii, Y. ed.) (2009)
  • Author(s): M. Ueda, T. Shibata, Y. Sako
  • Publisher: WILEY-VCH
• [Book] Single Molecule Dyanmics in Life Science. (Yanagida, T. and Ishii, Y. ed.) (2009)
  • Author(s): Ueda, et al.
  • Total Pages: 17
  • Publisher: WILEY-VCH(分担執筆)
• [Book] 全反射顕微鏡と1分子計測「生細胞蛍光イメージング」原口徳子、木村宏、平岡泰編 (2007)
  • Author(s): 佐甲 靖志
  • Total Pages: 15
  • Publisher: 共立出版
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