System-level analysis of cell signaling perturbation by high-resolution mass spectrometry

2013 Fiscal Year Final Research Report

• Project/Area Number: 23510254
• Research Category: Grant-in-Aid for Scientific Research (C)
• Allocation Type: Multi-year Fund
• Section: 一般
• Research Field: Living organism molecular science
• Research Institution: The University of Tokyo
• Principal Investigator: OYAMA Masaaki 東京大学, 医科学研究所, 准教授 (30422398)
• Co-Investigator(Kenkyū-buntansha): HATA Hiroko 東京大学, 医科学研究所, 技術専門職員 (80401256)
• Project Period (FY): 2011 – 2013
• Keywords: プロテオミクス / シグナル伝達 / システムバイオロジー / リン酸化 / 定量生物学

Research Abstract

The signal transduction system regulates fundamental biological events such as cell growth and differentiation. Dysregulation of this machinery is known to be closely associated with various types of diseases including cancer. In this research project, we performed a system-level analysis of signaling network perturbation in H. pylori-infected gastric epithelial cells using high resolution nanoLC-MS/MS system coupled with SILAC technology. Here, we report time-resolved description of the phosphoproteome dynamics upon H. pylori infection as well as the interactome of the major virulence factor, CagA.

Research Products

• [Journal Article] Rice-based oral antibody fragment prophylaxis and therapy against rotavirus infection (2013)
  • Author(s): Tokuhara D, Alvarez B, Mejima M, Hiroiwa T, Takahashi Y, Kurokawa S, Kuroda M, Oyama M, Kozuka-Hata H, Nochi T, Sagara H, Aladin F, Marcotte H, Frenken LG, Iturriza-Gomara M, Kiyono H, Hammarstrom L, and Yuki Y
  • Journal Title: J. Clin. Invest Volume: 123 Pages: 3829-3838
  • DOI: 10.1172/JCI70266
  • Peer Reviewed
• [Journal Article] Phosphoproteomics-based characterization of cancer cell signaling networks (2013)
  • Author(s): Kozuka-Hata H, Goto Y, and Oyama M
  • Journal Title: In Oncogenomics and Cancer Proteomics - Novel Approaches in Biomarkers Discovery and Therapeutic Targets in Cancer (ed. Cesar Lopez-Camarillo and Elena Arechaga-Ocampo), InTech Pages: 185-206
  • DOI: 10.5772/52915
  • Peer Reviewed
• [Journal Article] FBXL21 regulates oscillation of the circadian clock through ubiquitination and stabilization of cryptochromes (2013)
  • Author(s): Hirano A, Yumimoto K, Tsunematsu R, Matsumoto M, Oyama M, Kozuka-Hata H, Nakagawa T, Lanjakornsiripan D, Nakayama KI, and Fukada Y
  • Journal Title: Cell Volume: 152 Pages: 1106-1118
  • DOI: 10.1016/j.cell.2013.01.054
  • Peer Reviewed
• [Journal Article] p47 negatively regulates IKK activation by inducing the lysosomal degradation of polyubiquitinated NEMO (2012)
  • Author(s): Shibata Y, Oyama M, Kozuka-Hata H, Han X, Tanaka Y, Gohda J, and Inoue J
  • Journal Title: Nat. Commun Volume: 3 Pages: 1061
  • DOI: 10.1038/ncomms2068
  • Peer Reviewed
• [Journal Article] Phosphoproteome of human glioblastoma initiating cells reveals novel signaling regulators encoded by the transcriptome (2012)
  • Author(s): Kozuka-Hata H, Nasu-Nishimura Y, Koyama-Nasu R, Ao-Kondo H, Tsumoto K, Akiyama T, and Oyama M
  • Journal Title: PLoS One Volume: 7 Pages: e43398
  • DOI: 10.1371/journal.pone.0043398
  • Peer Reviewed
• [Journal Article] Global proteome analysis of glioblastoma stem cells by high-resolution mass spectrometry (2012)
  • Author(s): Kozuka-Hata H, Nasu-Nishimura Y, Koyama-Nasu R, Ao-Kondo H, Tsumoto K, Akiyama T, and Oyama M
  • Journal Title: Current Topics in Peptide & Protein Research Volume: 13 Pages: 1-47
  • URL: http://www.researchtrends.net/tia/abstract.asp?in=0&vn=13&tid=26&aid=3579&pub=2012&type=3
  • Peer Reviewed
• [Journal Article] Tks5-dependent formation of circumferential podosomes/invadopodia mediates cell-cell fusion (2012)
  • Author(s): Oikawa T, Oyama M, Kozuka-Hata H, Uehara S, Udagawa N, Saya H, and Matsuo K
  • Journal Title: J. Cell Biol Volume: 197 Pages: 553-568
  • DOI: 10.1083/jcb.201111116
  • Peer Reviewed
• [Journal Article] F-type proton-translocating ATPase, at the plasma membrane is critical for efficient influenza virus budding (2012)
  • Author(s): Gorai T, Goto H, Noda T, Watanabe T, Kozuka-Hata H, Oyama M, Takano R, Neumann G, Watanabe S, and Kawaoka Y. F1Fo-ATPase
  • Journal Title: Proc. Natl. Acad. Sci. U S A Volume: 109 Pages: 4615-4620
  • DOI: 10.1073/pnas.1114728109
  • Peer Reviewed
• [Journal Article] Phosphoproteomics-based systems analysis of signal transduction networks (2011)
  • Author(s): Kozuka-Hata H, Tasaki S, and Oyama M
  • Journal Title: Front. Physiol Volume: 2 Pages: 113
  • DOI: 10.3389/fphys.2011.00113
  • Peer Reviewed
• [Journal Article] Attenuated CagA oncoprotein in Helicobacter pylori from Amerindians in Peruvian Amazon (2011)
  • Author(s): Suzuki M, Kiga K, Kersulyte D, Cok J, Hooper CC, Mimuro H, Sanada T, Suzuki S, Oyama M, Kozuka-Hata H, Kamiya S, Zou QM, Gilman RH, Berg DE, and Sasakawa C
  • Journal Title: J. Biol. Chem Volume: 286 Pages: 29964-29972
  • DOI: 10.1074/jbc.M111.263715
  • Peer Reviewed
• [Presentation] Global Characterization of the Proteome and Phosphoproteome in Human Glioblastoma Initiating Cells by High-Resolution Mass Spectrometry (2013)
  • Author(s): Hiroko Kozuka-Hata, Ryo Koyama-Nasu, Yumi Goto, Yukiko Nasu-Nishimura, Hiroko Ao-Kondo, Kouhei Tsumoto, Tetsu Akiyama, Masaaki Oyama
  • Organizer: HUPO 12th Annual World Congress
  • Place of Presentation: Pacifico Yokohama, Japan
  • Year and Date: 2013-09-16
• [Presentation] SILAC-Based Quantitative Phosphoproteome Analysis of Glioblastoma Stem Cell Differentiation by High-Resolution nanoLC-MS/MS (2013)
  • Author(s): Yuta Narushima, Hiroko Kozuka-Hata, Yumi Goto, Tomoko Hiroki, Ryo Koyama-Nasu, Kouhei Tsumoto, Tetsu Akiyama, Masaaki Oyama
  • Organizer: HUPO 12th Annual World Congress
  • Place of Presentation: Pacifico Yokohama, Japan
  • Year and Date: 2013-09-16
• [Presentation] ショットガンプロテオミクスが解き明かす高解像度シグナル伝達ダイナミクス (2013)
  • Author(s): 尾山 大明、秦 裕子
  • Organizer: 第86回日本生化学会大会
  • Place of Presentation: パシフィコ横浜
  • Year and Date: 2013-09-12
• [Presentation] ショットガンリン酸化プロテオーム解析によるグリオブラストーマ幹細胞新規制御因子の同定 (2012)
  • Author(s): 秦 裕子、那須 亮、後藤 友美、西村 教子、近藤 裕子、津本 浩平、秋山 徹、尾山 大明
  • Organizer: 第35回日本分子生物学会年会
  • Place of Presentation: 福岡国際会議場・マリンメッセ福岡
  • Year and Date: 2012-12-13
• [Presentation] 定量プロテオミクスによるリン酸化シグナルネットワークの統合システム解析 (2011)
  • Author(s): 尾山 大明
  • Organizer: 第84回日本生化学会大会
  • Place of Presentation: 国立京都国際会館
  • Year and Date: 2011-09-24
• [Presentation] 生命システム解析を指向したプロテオミクス研究の新展開 (2011)
  • Author(s): 尾山 大明
  • Organizer: 日本プロテオーム学会2011年会
  • Place of Presentation: 朱鷺メッセ
  • Year and Date: 2011-07-28
• [Presentation] ピロリ菌感染応答における宿主シグナル伝達系のシステム解析 (2011)
  • Author(s): 秦 裕子、鈴木 仁人、氣駕 恒太朗、田崎真哉、津本 浩平、井上 純一郎、山本 雅、笹川 千尋、尾山 大明
  • Organizer: 日本プロテオーム学会2011年会
  • Place of Presentation: 朱鷺メッセ
  • Year and Date: 2011-07-28