Physiological and biochemical studies on an obligately autotrophic and thermophilic hydrogen oxidizing bacterium based on the genome information

2013 Fiscal Year Final Research Report

• Project/Area Number: 21248010
• Research Category: Grant-in-Aid for Scientific Research (A)
• Allocation Type: Single-year Grants
• Section: 一般
• Research Field: Applied microbiology
• Research Institution: The University of Tokyo
• Principal Investigator: ISHII Masaharu 東京大学, 農学生命科学研究科, 教授 (30193262)
• Co-Investigator(Kenkyū-buntansha): ARAI Hiroyuki 東京大学, 大学院・農学生命科学研究科, 助教 (70291052) ; MATSUMOTO Norio 電力中央研究所, 環境科学研究所, 上席研究員 (40371512) ; HIRANO Shin-ichi 電力中央研究所, 環境科学研究所, 主任研究員 (20392748)
• Project Period (FY): 2009-04-01 – 2014-03-31
• Keywords: 水素細菌 / ヒドロゲナーゼ / 活性酸素除去 / 硫黄代謝 / アミノ酸代謝

Research Abstract

Clarification of the phylogenetic position of the strain TK-6 based on the genome information, clarification of the molecular basis of the obligate autotrophy of the strain, clarification of the thermophilic nature of the strain, clarification of the molecular basis of the newly discovered nitrogen compound metabolism of the strain, clarification of the molecular basis of the varieties of respitration metabolism of tne strain, clarification of and search for the new metabolism; we did our best in terms of the above mentioned items. In fact, we published 15 original papers, made 27 presentations in Annual Meetings, and asked for 1 patent. We are very proud that we did much more than we promised.

Research Products

• [Journal Article] Structural Units Important for Activity of a Novel-type Phosphoserine Phosphatase from Hydrogenobacter thermophilus TK-6 Revealed by Crystal Structure Analysis (2013)
  • Author(s): Chiba, Y., Horita, S., Ohtsuka, J., Arai, H., Nagata, K., Igarashi, Y., Tanokura, M., and Ishii, M
  • Journal Title: J Biol Chem Volume: 288 Pages: 11448-11458
  • DOI: 10.1074/jbc.M112.449561
  • Peer Reviewed
• [Journal Article] Transcriptome Analyses of Metabolic Enzymes in Thiosulfate- and Hydrogen-Grown Hydrogenobacter thermophilus Cells (2012)
  • Author(s): Sato, Y., Kanbe, H., Miyano, H., Sambongi, Y., Arai, H., Ishii, M., and Igarashi, Y
  • Journal Title: Biosci Biotech Bioch Volume: 76 Pages: 1677-1681
  • DOI: 10.1271/bbb.120210
  • Peer Reviewed
• [Journal Article] A Novel Enzymatic System against Oxidative Stress in the Thermophilic Hydrogen-Oxidizing Bacterium Hydrogenobacter thermophilus (2012)
  • Author(s): Sato, Y., Kameya, M., Fushinobu, S., Wakagi, T., Arai, H., Ishii, M., and Igarashi, Y
  • Journal Title: Plos One Volume: 7 Pages: e34825
  • DOI: 10.1371/journal.pone.0034825
  • Peer Reviewed
• [Journal Article] Mechanism for folate-independent aldolase reaction catalyzed by serine hydroxymethyltransferase (2012)
  • Author(s): Chiba, Y., Terada, T., Kameya, M., Shimizu, K., Arai, H., Ishii, M., and Igarashi, Y
  • Journal Title: Febs J Volume: 279 Pages: 504-514
  • DOI: 10.1111/j.1742-4658.2011.08443.x
  • Peer Reviewed
• [Journal Article] Discovery and Analysis of Cofactor-dependent Phosphoglycerate Mutase Homologs as Novel Phosphoserine Phosphatases in Hydrogenobacter thermophilus (2012)
  • Author(s): Chiba, Y., Oshima, K., Arai, H., Ishii, M., and Igarashi, Y
  • Journal Title: J Biol Chem Volume: 287 Pages: 11934-11941
  • DOI: 10.1074/jbc.M111.330621
  • Peer Reviewed
• [Journal Article] Crystallization and preliminary X-ray diffraction analysis of a novel type of phosphoserine phosphatase from Hydrogenobacter thermophilus TK-6 (2012)
  • Author(s): Chiba, Y., Horita, S., Ohtsuka, J., Arai, H., Nagata, K., Igarashi, Y., Tanokura, M., and Ishii, M
  • Journal Title: Acta Crystallogr F Volume: 68 Pages: 911-913
  • DOI: 10.1107/S1744309112025213
  • Peer Reviewed
• [Journal Article] Phylogenetic Position of Aquificales Based on the Whole Genome Sequences of Six Aquificales Species (2012)
  • Author(s): Oshima, K., Chiba, Y., Igarashi, Y., Arai, H., and Ishii, M
  • Journal Title: Int J Evol Biol Volume: 2012 Pages: 859264
  • DOI: 10.1155/2012/859264
  • Peer Reviewed
• [Journal Article] Detecting weak protein-protein interactions by modified far-western blotting (2011)
  • Author(s): Sato, Y., Kameya, M., Arai, H., Ishii, M., and Igarashi, Y
  • Journal Title: J Biosci Bioeng Volume: 112 Pages: 304-307
  • DOI: 10.1016/j.jbiosc.2011.05.011
  • Peer Reviewed
• [Journal Article] Carboxylation reaction catalyzed by 2-oxoglutarate : ferredoxin oxidoreductases from Hydrogenobacter thermophilus (2010)
  • Author(s): Yamamoto, M., Ikeda, T., Arai, H., Ishii, M., and Igarashi, Y
  • Journal Title: Extremophiles Volume: 14 Pages: 79-85
  • DOI: 10.1007/s00792-009-0289-4
  • Peer Reviewed
• [Journal Article] Thiosulfate Oxidation by a Thermo-Neutrophilic Hydrogen-Oxidizing Bacterium, Hydrogenobacter thermophilus (2010)
  • Author(s): Sano, R., Kameya, M., Wakai, S., Arai, H., Igarashi, Y., Ishii, M., and Sambongi, Y
  • Journal Title: Biosci Biotech Bioch Volume: 74 Pages: 892-894
  • DOI: 10.1271/bbb.90948
  • Peer Reviewed
• [Journal Article] Purification of three aminotransferases from Hydrogenobacter thermophilus TK-6-novel types of alanine or glycine aminotransferase (2010)
  • Author(s): Kameya, M., Arai, H., Ishii, M., and Igarashi, Y
  • Journal Title: Febs J Volume: 277 Pages: 1876-1885
  • DOI: 10.1111/j.1742-4658.2010.07604.x
  • Peer Reviewed
• [Journal Article] Enzymatic and electron paramagnetic resonance studies of anabolic pyruvate synthesis by pyruvate : ferredoxin oxidoreductase from Hydrogenobacter thermophilus (2010)
  • Author(s): Ikeda, T., Yamamoto, M., Arai, H., Ohmori, D., Ishii, M., and Igarashi, Y
  • Journal Title: Febs J Volume: 277 Pages: 501-510
  • DOI: 10.1111/j.1742-4658.2009.07506.x
  • Peer Reviewed
• [Journal Article] Complete Genome Sequence of the Thermophilic, Obligately Chemolithoautotrophic Hydrogen-Oxidizing Bacterium Hydrogenobacter thermophilus TK-6 (2010)
  • Author(s): Arai, H., Kanbe, H., Ishii, M., and Igarashi, Y
  • Journal Title: J Bacteriol Volume: 192 Pages: 2651-2652
  • DOI: 10.1128/JB.00158-10
  • Peer Reviewed
• [Journal Article] Dissimilatory Fe (III) reduction by cytochrome c-552 in a thermophilic, obligately chemolithoautotrophic bacterium, Hydrogenobacter thermophilus TK-6 (2010)
  • Author(s): Yoshida, N., Ohmura, N., Matsumoto, N., Sasaki, K., Saiki, H., Arai, H., Ishii, M. and Igarashi, Y
  • Journal Title: J Jpn Soc Extr Volume: 9 Pages: 61-66
  • DOI: 10.3118/jjse.9.61
  • Peer Reviewed
• [Journal Article] Ferredoxin-NADP(+) reductase from the thermophilic hydrogen-oxidizing bacterium, Hydrogenobacter thermophilus TK-6 (2009)
  • Author(s): Ikeda, T., Nakamura, M., Arai, H., Ishii, M., and Igarashi, Y
  • Journal Title: Fems Microbiol Lett Volume: 297 Pages: 124-130
  • DOI: 10.1111/j.1574-6968.2009.01667.x
  • Peer Reviewed
• [Presentation] 電子の流れを基に, 微生物代謝を紐解く (2014)
  • Author(s): 石井 正治, 佐藤 由也
  • Organizer: 日本農芸化学会
  • Place of Presentation: 日本農芸化学会
  • Year and Date: 2014-03-30
• [Presentation] 好熱性水素細菌 Hydrogenobacter thermophilus TK-6 の持つHeterodisulfide reductase の機能に関する研究 (2013)
  • Author(s): 石崎 優, 佐藤 由也,新井 博之, 石井 正治, 五十嵐 泰夫
  • Organizer: 日本農芸化学会
  • Place of Presentation: 日本農芸化学会
  • Year and Date: 2013-03-26
• [Presentation] 新規 phosphoserine phosphatase の性状解析と生物内分布 (2012)
  • Author(s): 千葉 洋子, 堀田 彰一朗, 大塚 淳, 新井 博之, 永田 宏次, 石井 正治, 田之倉 優, 五十嵐 泰夫
  • Organizer: 日本農芸化学会
  • Place of Presentation: 日本農芸化学会
  • Year and Date: 2012-03-23
• [Presentation] Hydrogenobacter thermophilus のphosphoserine phosphatase の精製と性状解析 (2011)
  • Author(s): 千葉 洋子, 新井 博之, 石井 正治, 五十嵐 泰夫
  • Organizer: 日本農芸化学会
  • Place of Presentation: 日本農芸化学会
  • Year and Date: 2011-03-26
• [Presentation] 好熱性水素細菌Hydrogenobacter thermophilus TK-6 株の酸素耐性について (2010)
  • Author(s): 佐藤 由也, 神邊 悠奈, 亀谷 将史, 新井 博之, 石井 正治, 五十嵐 泰夫
  • Organizer: 日本農芸化学会
  • Place of Presentation: 日本農芸化学会
  • Year and Date: 2010-03-29
• [Patent(Industrial Property Rights)] 微生物の遺伝子発現制御方法 (2014)
  • Inventor(s): 平野伸一, 松本伯夫
  • Industrial Property Rights Holder: 電力中央研究所
  • Industrial Property Rights Type: 特許
  • Industrial Property Number: 特許2014-04082
  • Filing Date: 2014-03-03