Novel metabolic pathway discovery based on contradictions between genome data and biochemical properties

• Project/Area Number: 19310126
• Research Category: Grant-in-Aid for Scientific Research (B)
• Allocation Type: Single-year Grants
• Section: 一般
• Research Field: 基礎ゲノム科学
• Research Institution: Kyoto University
• Principal Investigator: ATOMI Haruyuki Kyoto University, 大学院・工学研究科, 教授 (90243047)
• Project Period (FY): 2007 – 2008
• Project Status: Completed (Fiscal Year 2008)
• Budget Amount: ¥20,670,000 (Direct Cost: ¥15,900,000、Indirect Cost: ¥4,770,000); Fiscal Year 2008: ¥9,880,000 (Direct Cost: ¥7,600,000、Indirect Cost: ¥2,280,000); Fiscal Year 2007: ¥10,790,000 (Direct Cost: ¥8,300,000、Indirect Cost: ¥2,490,000)
• Keywords: ゲノム情報 / 機能未知遺伝子 / 代謝 / 超好熱菌 / 補酵素A / Pantoate kinase / Phosphopantothenate synthetase / 始原菌 / 遺伝子破壊 / pantoate kinase / GHMP kinase / ゲノム / 形質 / 代謝経路 / 酵素 / 遺伝子機能 / アノテーション

Research Abstract

本研究は超好熱始原菌の一種Thermococcus kodakaraensis を対象に新規代謝酵素や経路の同定を目的としたものである.アプローチとしてはゲノム情報に基づいて推定される代謝機能と実際の形質(細胞の増殖特性)の矛盾に着目して新規酵素・代謝系を探索する方法をとった.特にペントース代謝、アミノ酸合成経路や補酵素の合成経路を中心に進めた結果、糖代謝・アミノ酸代謝・脂質代謝で中心的な役割を果たす補酵素A(coenzyme A, CoA)の新しい合成ルートを発見することができた.

Research Products

• [Journal Article] The Fur iron regulator-like protein iscryptic in the hyperthermophilic archaeon Thermococcus kodakaraensis, FEMS Microbiol (2009)
  • Author(s): Louvel H., Kanai T, Atomi, H, Reeve JN
  • Journal Title: Lett., Online early 10.1111/j Pages: 1574-6968
  • Peer Reviewed
• [Journal Article] アーケアのゲノムからみえるもの (2009)
  • Author(s): 跡見晴幸、福居俊昭、金井保、今中忠行
  • Journal Title: 蛋白質核酸酵素 54 Pages: 120-126
• [Journal Article] The Fur iron regulator-like protein is cryptic in the hyperthermophilic archaeon Thermococcus kodakaraensis (2009)
  • Author(s): Louvel, H., Kanai, T, Atomi, H, Reeve, JN
  • Journal Title: FEMS Microbiol. Lett. Online early
  • Peer Reviewed
• [Journal Article] アーケアのゲノムからみえるもの (2009)
  • Author(s): 跡見晴幸, 福居俊昭, 金井保, 今中忠行
  • Journal Title: 蛋白質核酸酵素 54 Pages: 120-126
• [Journal Article] Polarity in archaeal operon transcription in Thermococcus kodakaraensis (2008)
  • Author(s): Santangelo TJ, Cubonova L, Matsumi R, Atomi H, Imanaka T, Reeve JN
  • Journal Title: J Bacteriol 190 Pages: 2244-2248
  • Peer Reviewed
• [Journal Article] Polarity in archaeal operon transcription in Thermococcus kodakaraensis. (2008)
  • Author(s): Santangelo TJ, Cubonova L, Matsumi R, Atomi H, Imanaka T
  • Journal Title: J Bacteriol. 190 Pages: 2244-2248
  • Peer Reviewed
• [Journal Article] Crystal structures of [NiFe] hydrogenase maturation proteins HypC, HypD, and HypE : insights into cyanation reaction by thiol redox signaling (2007)
  • Author(s): Watanabe S, Matsumi R, Arai T, Atomi H, Imanaka T, Miki K
  • Journal Title: Molecular Cell 27 Pages: 29-40
  • Peer Reviewed
• [Journal Article] Engineering of a type III rubisco from a hyperthermophilic archaeon in order to enhance catalytic performance in mesophilic host cells (2007)
  • Author(s): Yoshida S, Atomi H, Imanaka T
  • Journal Title: Applied and Environmental Microbiology 73 Pages: 6254-6261
  • Peer Reviewed
• [Journal Article] A novel ADP-forming succinyl-CoA synthetase in Thermococcus kodakaraensis structurally related to the archaeal nucleoside diphosphate-forming acetyl-CoA synthetase (2007)
  • Author(s): Shikata K, Fukui T, Atomi H, Imanaka T
  • Journal Title: Journal of Biological Chemistry 282 Pages: 26963-26970
  • Peer Reviewed
• [Journal Article] Crystal structures of [NiFe] hydrogenase maturation proteins HypC, HypD, and HypE: insights into cyanation reaction by thiol redox signaling (2007)
  • Author(s): Watanabe S, Matsumi R, Arai T, Atomi H, Imanaka T, Miki K.
  • Journal Title: Molecular Cell 27 Pages: 29-40
  • Peer Reviewed
• [Journal Article] Engineering of a type III rubisco from a hyperthermophilic archaeon inorder to enhance catalytic performance in mesophilic host cells (2007)
  • Author(s): Yoshida S, Atomi H, Imanaka T.
  • Journal Title: Applied and Environmental Microbiology 73 Pages: 6254-6261
  • Peer Reviewed
• [Journal Article] A novel ADP-forming succinyl-CoA synthetase in Thermococcus kodakaraensis structurally related to the archaeal nucleoside diphosphate-forming acetyl-CoA synthetases (2007)
  • Author(s): Shikata K, Fukui T, Atomi H, Imanaka T.
  • Journal Title: Journal of Biological Chemistry 282 Pages: 26963-26970
  • Peer Reviewed
• [Presentation] The rmococcus kodakaraensis の特異なペントース代謝機構 (2008)
  • Author(s): 跡見晴幸
  • Organizer: 日本Archaea 研究会発足20 周年記念講演会
  • Place of Presentation: 沖縄県男女共同参画センター「てぃるる」
  • Year and Date: 2008-07-05
• [Presentation] Thermococcus kodakaraensisの特異なペントース代謝機構 (2008)
  • Author(s): 跡見晴幸
  • Organizer: 日本Archaea研究会発足20周年記念講演会
  • Place of Presentation: 沖縄県男女共同参画センター「てぃるる」
  • Year and Date: 2008-07-05
• [Presentation] Type III Rubisco とCalvin 回路の進化 (2008)
  • Author(s): 跡見晴幸
  • Organizer: 日本農芸化学会シンポジウム
  • Place of Presentation: 愛知県 名城大学天白キャンパス
  • Year and Date: 2008-03-29
• [Presentation] Type III RubiscoとCalvin回路の進化 (2008)
  • Author(s): 跡見晴幸
  • Organizer: 日本農芸化学会シンポジウム
  • Place of Presentation: 名城大学天白キャンパス
  • Year and Date: 2008-03-29