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2008 Fiscal Year Final Research Report

Comprehensive development of bacterial ability for the degradation ofchlorinated environmental pollutants using unexplored genetic sources

Research Project

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Project/Area Number 18380054
Research Category

Grant-in-Aid for Scientific Research (B)

Allocation TypeSingle-year Grants
Section一般
Research Field Applied microbiology
Research InstitutionTohoku University

Principal Investigator

NAGATA Yuji  Tohoku University, 大学院・生命科学研究科, 准教授 (30237531)

Co-Investigator(Kenkyū-buntansha) TSUDA Masataka  東北大学, 大学院・生命科学研究科, 教授 (90172022)
Research Collaborator OHTSUBO Yoshiyuki  東北大学, 大学院・生命科学研究科, 助教
JIRI Damborsky  マサリク大学(チェコ共和国), 教授
SENDA Toshiya  産業技術総合研究所, 主任研究員
TANOKURA Masaru  東京大学, 大学院・農学生命科学研究科, 教授
TAKEYAM Haaruko  早稲田大学, 理工学術院, 教授
Project Period (FY) 2006 – 2008
Keywords環境微生物学
Research Abstract

環境汚染が深刻な代表的な有機塩素系殺虫剤に焦点をあて、(i) 難培養性微生物の遺伝情報も含む未開拓な遺伝子資源から新規の分解酵素遺伝子の取得、(ii) 有機塩素系環境汚染物質分解の鍵酵素である脱ハロゲン酵素の機能改良、(iii) 直接の分解酵素以外で分解活性の発現に必須な細胞因子の同定、(iv) 有効な有機塩素系化合物の生分解システムの構築、を実施し、環境細菌が有する高度難分解性有機塩素系化合物の分解能力に関する重要な基礎的知見を得ると共に、実際の環境浄化へ結びつけるための基盤を整備した。

  • Research Products

    (38 results)

All 2009 2008 2007 2006

All Journal Article (22 results) (of which Peer Reviewed: 22 results) Presentation (14 results) Book (2 results)

  • [Journal Article] 環境細菌ゲノムの構造と可塑性-難分解性化合物分解の総合職と専門職の場合-2009

    • Author(s)
      大坪嘉行, 永田裕二, 津田雅孝
    • Journal Title

      化学と生物 47(1)

      Pages: 35-42

    • Peer Reviewed
  • [Journal Article] Crystallization and preliminary X-ray analysis ofa novel haloalkane dehalogenase DbeA fromBradyrhizobium elkani USDA94.2009

    • Author(s)
      Prudnikova, T. T. Mozga, P. Rezacova, R.Chaloupkova, Y. Sato, Y. Nagata, J. Brynda,M. Kuty, J. Damborsky, and I. K. Smatanova.
    • Journal Title

      Acta Crystallographica Section F 65

      Pages: 353-356

    • Peer Reviewed
  • [Journal Article] 多重染色体性のBurkholderia multivoransのゲノム構造と土壌でのゲノム情報発現2008

    • Author(s)
      津田雅孝, 西山依里, 宮腰昌利, 湯原悟志, 永田裕二, 大坪嘉行
    • Journal Title

      土と微生物 62 (2)

      Pages: 93-97

    • Peer Reviewed
  • [Journal Article] GenomeMatcher : A graphicaluser interface for DNA sequence comparison2008

    • Author(s)
      Ohtsubo, Y., W. Ikeda-Ohtsubo, Y. Nagata, and M. Tsuda
    • Journal Title

      BMC Bioinformatics 9

      Pages: 376

    • Peer Reviewed
  • [Journal Article] Characterization of the traD operonof naphthalene-catabolic plasmid NAH7 ahost-range modifier in conjugative transfer2008

    • Author(s)
      Miyazaki, R., Y. Ohtsubo, Y. Nagata, and M. Tsuda
    • Journal Title

      J. Bacteriol 190

      Pages: 6281-6289

    • Peer Reviewed
  • [Journal Article] Construction of signature-taggedmutant library in Mesorhizobium loti as apowerful tool for functional genomics2008

    • Author(s)
      Shimoda, Y., H. Mitsui, H. Kamimatsuse,K. Minamisawa, E. Nishiyama, Y. Ohtsubo, Y.Nagata, M. Tsuda, S. Shinpo, A. Watanabe, M.Kohara, M. Yamada, Y. Nakamura, S. Tabata and S. Sato
    • Journal Title

      DNAResearch 15

      Pages: 297-308

    • Peer Reviewed
  • [Journal Article] Insertion sequence-based cassette PCR cultivation-independent isolation of γ-hexachlorocyclohexane-degrading genes fromsoil DNA2008

    • Author(s)
      Fuchu, G., Y. Ohtsubo, M. Ito, R.Miyazaki, A. Ono, Y. Nagata, and M. Tsuda
    • Journal Title

      Appl. Microbiol.Biotechnol 79

      Pages: 627-632

    • Peer Reviewed
  • [Journal Article] Pleiotropic roles of iron-responsivetranscriptional regulator Fur in Burkholderiamultivorans2008

    • Author(s)
      Yuhara, S., H. Komatsu, H. Goto, Y.Otsubo, Y. Nagata, and M. Tsuda
    • Journal Title

      Microbiology 154

      Pages: 1763-1774

    • Peer Reviewed
  • [Journal Article] Complete sequencedetermination combined with analysis oftransposition/site-specific recombination eventsto explain genetic organization of IncP-7 TOLplasmid pWW53 and related mobile geneticelements2007

    • Author(s)
      Yano, H., C.E. Garruto, M. Sota, Y.Ohtsubo, Y. Nagata, G.J. Zylstra, P.A.Williams, and M. Tsuda
    • Journal Title

      J. Mol. Biol 369

      Pages: 11-26

    • Peer Reviewed
  • [Journal Article] Identification and characterization ofgenes encoding a putative ABC-type transporteressential for the utilization of γ-hexachlorocyclohexane in Sphingobiumjaponicum UT262007

    • Author(s)
      Endo, R., Y. Ohtsubo, M. Tsuda, and Y.Nagata
    • Journal Title

      J. Bacteriol 189

      Pages: 3712-3720

    • Peer Reviewed
  • [Journal Article] Degradation of β-hexachlorocyclohexane byhaloalkane dehalogenase LinB from γ-hexachlorocyclohexane-utilizing bacteriumSphingobium sp2007

    • Author(s)
      Ito, M., Z. Prokop, M. Klvana, Y. Otsubo, M. Tsuda, J. Damborsky, and Y. Nagata
    • Journal Title

      MI1205. Arch Microbiol 188

      Pages: 313-325

    • Peer Reviewed
  • [Journal Article] Aerobic degradation of lindane(γ-hexachlorocyclohexane)in bacteria and itsbiochemical and molecular basis. Appl2007

    • Author(s)
      Nagata, Y., R. Endo, M. Ito, Y. Ohtsubo and M. Tsuda
    • Journal Title

      Microbiol. and Biotechnol 76

      Pages: 741-752

    • Peer Reviewed
  • [Journal Article] The identificationof catalytic pentad in the haloalkanedehalogenase DhmA from Mycobacterium aviumN85 : reaction mechanism and molecularevolution2007

    • Author(s)
      Pavlova, M., Klavana, A. Jesenska, Z.Prokop, H. Konecna, T. Sato, M. Tsuda, Y.Nagata, and J. Damborsky
    • Journal Title

      J. Struct. Biol 157

      Pages: 384-392

    • Peer Reviewed
  • [Journal Article] Isolation andcharacterization of naphthalene-catabolic genesand plasmids from oil-contaminated soil by usingtwo cultivation-independent approaches2007

    • Author(s)
      Ono, A., R. Miyazaki, M. Sota, Y. Ohtsubo,Y. Nagata, and M. Tsuda
    • Journal Title

      Appl.Microbiol. Biotechnol 74

      Pages: 501-510

    • Peer Reviewed
  • [Journal Article] Senda.Crystallization and preliminary crystallographicanalysis of a haloalkane dehalogenase DbjA fromBradyrhizobium japonicum USDA1102007

    • Author(s)
      Sato, Y., R. Natsume, M. Tsuda, J. Damborsky, Y. Nagata and T
    • Journal Title

      ActaCryst Section F 63

      Pages: 294-296

    • Peer Reviewed
  • [Journal Article] Weak activity ofhaloalkane dehalogenase LinB with1, 2, 3-trichloropropane revealed by X-raycrystallography and microcalorimetry2007

    • Author(s)
      Monincova, M., Z. Prokop, J. Vevodova, Y.Nagata and J. Damborsky
    • Journal Title

      Appl.Envirom. Microbiol 73

      Pages: 2005-2008

    • Peer Reviewed
  • [Journal Article] 機能発現に基づく環境汚染物質分解酵素遺伝子の生態系からの直接的取得と解析2007

    • Author(s)
      津田雅孝、小野玲、宮崎亮、府中玄樹、永田裕二
    • Journal Title

      J. Environ. Biotechnol 7(2)

      Pages: 75-78

    • Peer Reviewed
  • [Journal Article] 自然環境で実際に機能する微生物遺伝子の遺伝学的手法による検索と解析2007

    • Author(s)
      津田雅孝、西山依里、永田裕二、大坪嘉行
    • Journal Title

      化学と生物 45

      Pages: 557-563

    • Peer Reviewed
  • [Journal Article] Completenucleotide sequence of an exogenously isolatedplasmid pLB1 involved in the degradation ofγ-hexachlorocyclohexane2006

    • Author(s)
      Miyazaki, R., Y. Sato, M. Ito, Y. Ohtsubo,Y. Nagata and M. Tsuda
    • Journal Title

      Appl. Envirom.Microbiol 72

      Pages: 6923-6933

    • Peer Reviewed
  • [Journal Article] Identification of a responseregulator gene for catabolite control from aPCB-degrading β-proteobacteria, Acidovorax sp. KKS1022006

    • Author(s)
      Ohtsubo, Y., H. Goto, Y. Nagata, T. Kudo,and M. Tsuda
    • Journal Title

      Mol. Microbiol 60

      Pages: 1563-1575

    • Peer Reviewed
  • [Journal Article] ハロアルカンデハロゲナーゼの構造と機能2006

    • Author(s)
      永田裕二、津田雅孝
    • Journal Title

      J. Environ. Biotechnol 6

      Pages: 87-92

    • Peer Reviewed
  • [Journal Article] 境汚染物質を分解する酵素遺伝子の土壌からの直接的取得と解析2006

    • Author(s)
      小野玲、宮崎亮、永田裕二、津田雅孝
    • Journal Title

      バイオインダストリー11月号 23(11)

      Pages: 44-49

    • Peer Reviewed
  • [Presentation] Adaptation and evolution of bacteria in naturalenvironments2008

    • Author(s)
      Nagata, Y., Y. Ohtsubo, and M. Tsuda
    • Organizer
      Memorial Symposium of the 24th International Prize for Biology -Ecology for the Changing World
    • Place of Presentation
      Sendai, Japan
    • Year and Date
      20081210-11
  • [Presentation] 分子遺伝学的手法による細菌の土壌環境適応戦略の解明2008

    • Author(s)
      大坪嘉行, 西山衣里, 宮腰昌利, 永旦裕二, 津田雅孝
    • Organizer
      2008年度日本生物工学会大会シンポジウム
    • Place of Presentation
      仙台
    • Year and Date
      20080827-29
  • [Presentation] 重染色体性のBurkholderia multivoransのゲノム構造と土壌でのゲノム情報発現日本土壌微生物学会2008

    • Author(s)
      津田雅孝多
    • Organizer
      2008年度大会シンポジウム
    • Place of Presentation
      静岡
    • Year and Date
      20080613-14
  • [Presentation] Molecular genetic approaches for elucidating adaptive strategies of bacteria in soil2008

    • Author(s)
      Nagata, Y., Y. Ohtsubo, and M. Tsuda
    • Organizer
      ISSM satellite symposium Environmental genomics
    • Place of Presentation
      Tokyo, Japan
    • Year and Date
      2008-11-15
  • [Presentation] 機能発現に基づく環境汚染物質分解酵素遺伝子の生態系からの直接的取得と解析2007

    • Author(s)
      津田雅孝, 小野玲, 宮崎亮, 府中玄樹, 永田裕二
    • Organizer
      第59回日本生物工学会大会シンポジウム「メタゲノム研究と環境バイオテクノロジー」
    • Place of Presentation
      広島大学東広島キャンパス総合科学部
    • Year and Date
      20070925-27
  • [Presentation] 培養非依存的手法による土壌環境からの環境汚染物質分解酵素遺伝子の取得2007

    • Author(s)
      永田裕二、小野玲、宮崎亮、府中玄樹、大坪嘉行、津田雅孝
    • Organizer
      日本微生物生態学会第23回大会シンポジウムI : 微生物生態学における環境ゲノミクス
    • Place of Presentation
      愛媛大学城北キャンパス
    • Year and Date
      20070915-18
  • [Presentation] 環境での微生物ゲノム情報発現2007年度日本農芸化学会中四国・西日本支部合同大会2007

    • Author(s)
      津田雅孝
    • Organizer
      シンポジウム「ゲノムからの旅立ち」
    • Place of Presentation
      山口
    • Year and Date
      20070914-15
  • [Presentation] Characterization of the traD gene cluster involved in the conjugative transfer of naphthalene-catabolic plasmid NAH72007

    • Author(s)
      Miyazaki, R., Y. Ohtsubo, Y. Nagata, M.Tsuda
    • Organizer
      ASM Conference on Pseudomonas 2007 Seattle
    • Place of Presentation
      Washington, USA
    • Year and Date
      20070826-30
  • [Presentation] Haloalkane Dehalogenases Possess Two Different Structural Bases for Their Enantioselectivity2007

    • Author(s)
      Prokop, Z., Y. Sato, T. Mozga, P. Jerabek,R. Natsume, J. Florian, M. Tsuda, Y. Nagata,T. Senda, and J. Damborsky
    • Organizer
      BIOTRANS 2007 - 8th International Symposium on Biocatalysis and Biotransformations Oviedo
    • Place of Presentation
      Spain
    • Year and Date
      20070708-13
  • [Presentation] Functional screening of genes for aromatic ring-hydroxylating oxygenases from soil metagenomic libraries Metagenomics 2007 San Diego2007

    • Author(s)
      Ono, A., Y. Ohtsubo, Y. Nagata, M. Tsuda
    • Organizer
      California
    • Place of Presentation
      USA
    • Year and Date
      20070611-13
  • [Presentation] 生態系での細菌ゲノム情報発現遺伝学的手法を用いた発現遺伝子群の探索極限環境微生物学会2007

    • Author(s)
      津田雅孝, 西山依里, 宮腰昌利, 永田裕二, 大坪嘉行
    • Organizer
      第8回シンポジウム
    • Place of Presentation
      東京
    • Year and Date
      2007-07-03
  • [Presentation] Novel ABC-type transporter genes essential for the γ-hexachlorocyclohexane utilization in Sphingobium japonicum UT262006

    • Author(s)
      Endo, R., Y. Ohtsubo, M. Tsuda, and Y.Nagata
    • Organizer
      International Symposium on Environmental Biotechnology
    • Place of Presentation
      Leipzig, Germany
    • Year and Date
      20060709-13
  • [Presentation] Direct isolation of genes and a plasmid for the degradation of γ-hexachlorocyclohexane from contaminated soil2006

    • Author(s)
      Nagata, Y., M. Ito, R. Miyazaki, G. Fuchu, Y. Ohtsubo, and M. Tsuda
    • Organizer
      International Symposium on Environmental Biotechnology
    • Place of Presentation
      Leipzig, Germany
    • Year and Date
      20060709-13
  • [Presentation] 細菌由来の脱ハロゲン酵素の構造一機能相関と応用への展望2006

    • Author(s)
      永田裕二
    • Organizer
      平成18年度日本生物工学会北日本支部七タシンポジウム「新しいバイオ技術の創製を目指して」
    • Place of Presentation
      仙台
    • Year and Date
      2006-08-05
  • [Book] 難培養性細菌も研究対象とするメタゲノム解析「バイオフィルムの基礎と制御」2008

    • Author(s)
      永田裕二、津田雅孝
    • Total Pages
      103-111
    • Publisher
      103-111株式会社エヌ・ティー・エス
  • [Book] 「比較ゲノム学から読み解く生命システム-基本概念から最新ゲノム情報まで(細胞工学別冊)」2007

    • Author(s)
      津田雅孝、永田裕二、大坪嘉行
    • Total Pages
      166-172
    • Publisher
      土壌環境細菌の比較ゲノム

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Published: 2010-06-10   Modified: 2016-04-21  

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