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Identification and characterizatioon of mobile genetic elements carrying xenobiotics-degrading genes from soil bacteria

Research Project

Project/Area Number 12558065
Research Category

Grant-in-Aid for Scientific Research (B)

Allocation TypeSingle-year Grants
Section展開研究
Research Field 環境保全
Research InstitutionTohoku University

Principal Investigator

TSUDA Masataka  Tohoku University, Graduate School of Life Sciences, Professor, 大学院・生命科学研究科, 教授 (90172022)

Co-Investigator(Kenkyū-buntansha) MINAMISAWA Kiwamu  Tohoku University, Graduate School of Life Sciences, Professor, 大学院・生命科学研究科, 教授 (70167667)
Project Period (FY) 2000 – 2003
Project Status Completed (Fiscal Year 2003)
Budget Amount *help
¥12,900,000 (Direct Cost: ¥12,900,000)
Fiscal Year 2003: ¥2,500,000 (Direct Cost: ¥2,500,000)
Fiscal Year 2002: ¥2,500,000 (Direct Cost: ¥2,500,000)
Fiscal Year 2001: ¥3,200,000 (Direct Cost: ¥3,200,000)
Fiscal Year 2000: ¥4,700,000 (Direct Cost: ¥4,700,000)
KeywordsXenobiotics / Soil bacteria / Microbial biodegradation / DNA rearrangements / Mobile generic element / Plasmid / Transposon / Site-specific recombination / 難分解性化合物分解 / 分解遺伝子群 / 遺伝学的相補 / 微生物分子生態学 / 環境浄化細菌分子育種 / 微生物遺伝資源
Research Abstract

ABSTRACT
Various xenobiotics-degrading activities of soil bacteria are often encoded by mobile genetic elements such as plasmids and transposons, and this property allows the rapid dissemination and dynamic properties of the degradation genes in the environmental bacterial strains. The aim of this study is the identification and entrapment of such mobile elements and their detailed characterization.
1.A broad-host-range plasmid, pUO1, carries two haloacetate dehalogenase genes, dehH1, and dehH2. The latter gene was located in an IS1071-composite transposon, TnHad1, and dehH1 and TnHad1 transposon were located in a Tn21-type transposon, TnHad2. The terminal nucleotide sequences essential for the TnHad2 transposition was further clarified.
2.Transposition of toluene transposon Tn4651 requires the site-specific resolution between the duplicated copies of Tn4651 on the same molecule. This reaction was mediated at a defined res site in the presence of TnpS, and TnpT greatly enhanced the resolu … More tion frequency. TnpS also showed the site-specific integration activity without the involvement of TnpT. The Tn465l-type resolution systems were widely distributed among various soil bacterial strains.
3.The toluene-degrading gene cluster on plasmid pWW53 was located on an 80-kb transposon, Tn4657. A 41-kb region of Tn4657 containing the pWW53-specified replication genes was flanked by two copies of the res sites in an inverted configuration. The Tn4657 TnpR-mediated site-specific inversion between the two res sites generated another toluene transposon, Tn4656.
4.A naphthalene transposon Tn4655 carried several remnant segments of different transposons, suggesting that the present structure of Tn4655 was formed by repeated insertion of several transposons and their subsequent rearrangements. The Tn4655 TnpR protein also had the site-specific integration activity.
5.A soil bacterial strain was constructed that carried a chromosomal copy of the Tn4655 derivative defective in one gene for the naphthalene degradation. Use of this strain as a recipient in the conjugation experiments with soil samples gave rise to the transconjugants able to degrade naphthalene. The transconjugants contained broad-host-range plasmids that carried the genes for the degradation of naphthalene. Less

Report

(5 results)
  • 2003 Annual Research Report   Final Research Report Summary
  • 2002 Annual Research Report
  • 2001 Annual Research Report
  • 2000 Annual Research Report
  • Research Products

    (37 results)

All Other

All Publications (37 results)

  • [Publications] Masataka Tsuda: "Identification and characterization of Tn4656, a novel class II transposon carrying a set of toluene-degrading genes from TOL plasmid pWW53"Journal of Bacteriology. 183. 6215-6224 (2001)

    • Description
      「研究成果報告書概要(和文)」より
    • Related Report
      2003 Final Research Report Summary
  • [Publications] Masahiro Sota: "Characterization of a class II defective transposon carrying two haloacetate dehalogenase genes from Delftia acidovorans plasmid pUO1"Applied and Environmental Microbiology. 68. 2307-2315 (2002)

    • Description
      「研究成果報告書概要(和文)」より
    • Related Report
      2003 Final Research Report Summary
  • [Publications] Hiroyuki Genka: "Site-specific recombination system encoded by toluene catabolic transposon Tn4651"Journal of Bacteriology. 184. 4757-4767 (2002)

    • Description
      「研究成果報告書概要(和文)」より
    • Related Report
      2003 Final Research Report Summary
  • [Publications] Masahiro Sota: "Structure of haloacetate-catabolic IncP-1β plasmid pUO1 and genetic mobility of its residing haloacetate-catabolic transposon"Journal of Bacteriology. 185. 6741-6745 (2003)

    • Description
      「研究成果報告書概要(和文)」より
    • Related Report
      2003 Final Research Report Summary
  • [Publications] R.Chaloupkova: "Modification of activity and specificity of haloalkane dehalogenase from Sphingomonas paucimobilis UT26 by engineering of its entrance tunnel"Journal of Biological Chemistry. 278. 52622-52628 (2003)

    • Description
      「研究成果報告書概要(和文)」より
    • Related Report
      2003 Final Research Report Summary
  • [Publications] 津田雅孝: "環境細菌ゲノムと環境DNA"Journal of Environmental Biotechnology. 3. 69-78 (2004)

    • Description
      「研究成果報告書概要(和文)」より
    • Related Report
      2003 Final Research Report Summary
  • [Publications] 津田雅孝: "遺伝情報のダイナミズムとその分子機構"東北大学遺伝生態研究センター. 13 (2001)

    • Description
      「研究成果報告書概要(和文)」より
    • Related Report
      2003 Final Research Report Summary
  • [Publications] Tsuda, M.: "Identification and characterization of Tn4656, a novel class II transposon carrying a set of toluene-degrading genes from TOL plasmid pWW53"Journal of Bacteriology. 183. 6215-6224 (2001)

    • Description
      「研究成果報告書概要(欧文)」より
    • Related Report
      2003 Final Research Report Summary
  • [Publications] Sota, M.: "Characterization of a class II defective transposon carrying two haloacetate dehalogenase genes from Delftia acidovorans plasmid pUO1"Applied and Environmental Microbiology. 68. 2307-2315 (2002)

    • Description
      「研究成果報告書概要(欧文)」より
    • Related Report
      2003 Final Research Report Summary
  • [Publications] Genka, H.: "Site-specific recombination system encoded by toluene catabolic transposon Tn4651"Journal of Bacteriology. 184. 4757-4767 (2002)

    • Description
      「研究成果報告書概要(欧文)」より
    • Related Report
      2003 Final Research Report Summary
  • [Publications] Sosa, M.: "Structure of haloacetate-catabolic IncP-1β plasmid pUO1 and genetic mobility of its residing haloacetate-catabolic transposon"Journal of Bacteriology. 185. 6741-6745 (2003)

    • Description
      「研究成果報告書概要(欧文)」より
    • Related Report
      2003 Final Research Report Summary
  • [Publications] Chaloupkova, R.: "Modification of activity and specificity of haloalkane dehalogenase from Sphingomonas paucimobilis UT26 by engineering of its entrance tunnel"Journal of Biological Chemistry. 278. 52622-52628 (2003)

    • Description
      「研究成果報告書概要(欧文)」より
    • Related Report
      2003 Final Research Report Summary
  • [Publications] Tsuda, M.: "Genome biology of environmental bacteria and environmental DNA (in Japanese)"Journal of Environmental Biotechnology. 3. 69-78 (2004)

    • Description
      「研究成果報告書概要(欧文)」より
    • Related Report
      2003 Final Research Report Summary
  • [Publications] Tsuda, M.: "Structural and functional dynamisms of genetic information and their molecular mechanisms (in Japanese)"Institute of Genetic Ecology, Tohoku University. 13 (2001)

    • Description
      「研究成果報告書概要(欧文)」より
    • Related Report
      2003 Final Research Report Summary
  • [Publications] Yuji Nagata: "Re-construction of mycobacterial dehalogenase Rv2579 by cumulaive mutagenesis of haloalkane dehalogenase LinB"Applied and Environmental Microbiology. 69. 2349-2355 (2003)

    • Related Report
      2003 Annual Research Report
  • [Publications] Harunobu Komatsu: "Distribution and organization of auxotrophic genes on the multichromosomal genome of Burkholderia multivorans ATCC17616"Journal of Bacteriology. 185. 3333-3343 (2003)

    • Related Report
      2003 Annual Research Report
  • [Publications] Masahiro Sota: "Structure of haloacetate-catabolic IncP-1β plasmid pUO1 and genetic mobility of its residing haloacetate-catabolic transposon"Journal of Bacteriology. 185. 6741-6745 (2003)

    • Related Report
      2003 Annual Research Report
  • [Publications] R.Chaloupkova: "Modification of activity and specificity of haloalkane dehalogenase from Sphingomonas paucimobilis UT26 by engineering of its entrance tunnel"Journal of Biological Chemistry. 278. 52622-52628 (2003)

    • Related Report
      2003 Annual Research Report
  • [Publications] 津田 雅孝: "環境細菌ゲノムと環境DNA"Journal of Environmental Biotechnology. 3(in press). (2004)

    • Related Report
      2003 Annual Research Report
  • [Publications] Masahiro Sota: "Characterization of a class II defective transposon carrying two haloacetate dehalogenase genes from Delftia acidovorans plasmid pUO1"Applied and Environmental Microbiology. 68. 2307-2315 (2002)

    • Related Report
      2002 Annual Research Report
  • [Publications] Hiroyuki Sawada: "Phylogenomic study of the OCTase genes in Pseudomonas syringae pathovars : horizontal transfer of argK-tox cluster and the evolutionary history of OCTase genes on their genomes"Journal Molecular Evolution. 54. 437-457 (2002)

    • Related Report
      2002 Annual Research Report
  • [Publications] Kiwamu Minamisawa: "Horizontal transfer of nodulation genes in soil and microcosm from Bradyrhizobium japonicum to B. elkanii"Microbes and Environment. 17. 82-90 (2002)

    • Related Report
      2002 Annual Research Report
  • [Publications] Michal Bohac: "Halide-stabilizing residues of haloalkane dehalogenases studied by quantum mechanic calculations and site-directed mutagenesis"Biochemistry. 41. 14272-14280 (2002)

    • Related Report
      2002 Annual Research Report
  • [Publications] Hiroyuki Genka: "Site-specific recombination system encoded by toluene catabolic transposon Tn4651"Journal of Bacteriology. 184. 4757-4767 (2002)

    • Related Report
      2002 Annual Research Report
  • [Publications] Harunobu Komatsu: "Distribution and organization of auxotrophic genes on the multichromosomal genome of Burkholderia multivorans ATCC17616"Journal of Bacteriology. 185(in press). (2003)

    • Related Report
      2002 Annual Research Report
  • [Publications] Takashi Shigematsu: "Iron-mediated regulation of alkaline proteinase production in Pseudomonas aeruginosa"Microbiology and Immunology. 45. 579-590 (2001)

    • Related Report
      2001 Annual Research Report
  • [Publications] Masataka Tsuda: "Identification and characterization of Tn4656, a novel class II transposon carrying a set of toluene-degrading genes from TOL plasmid pWW53"Journal of Bacteriology. 183. 6215-6224 (2001)

    • Related Report
      2001 Annual Research Report
  • [Publications] T.Yasuta: "DNA sequence and mutational analysis of rhizobitoxine biosynthesis genes in Bradyrhizobium elkanii"Applied and Environmental Microbiology. 67. 4999-5009 (2001)

    • Related Report
      2001 Annual Research Report
  • [Publications] Masahiro Sota: "Characterization of a class II defective transposon carrying two haloacetate dehalogenase genes from Delftia acidovorans plasmid pUO1"Applied and Environmental Microbiology. in press. (2002)

    • Related Report
      2001 Annual Research Report
  • [Publications] Hiroyuki Sawada: "Phylogenomic study of the OCTase genes in Pseudomonas syringae pathovars : horizontal transfer of argK-tox cluster and the evolutionary history of OCTase genes on their genomes"Journal Molecular Evolution. in press. (2002)

    • Related Report
      2001 Annual Research Report
  • [Publications] Kiwamu Minamisawa: "Horizontal transfer of nodulation genes in soil and microcosm from Bradyrhizobium japonicum to B. elkanii"Microbe and Environment. in press. (2002)

    • Related Report
      2001 Annual Research Report
  • [Publications] Junko K.Akada: "Identification of urease operon in Helicobacter pylori and its control by mRNA decay in response to pH"Molecular Microbiology. 36. 1071-1084 (2000)

    • Related Report
      2000 Annual Research Report
  • [Publications] 南澤究: "土壌細菌の遺伝生態研究の現状:ダイズ根粒菌の実例をまじえて"土と微生物. 54. 121-127 (2000)

    • Related Report
      2000 Annual Research Report
  • [Publications] Ken-Ichi Yuhashi: "Rhizobitoxine production of Bradyrhizobium elkanii enhances nodulation competitiveness in Macroptilium atropurpureum"Applied and Environmental Microbiology. 66. 2658-2663 (2000)

    • Related Report
      2000 Annual Research Report
  • [Publications] Yukie Ono: "Two RpoH homologs responsible for the expression of heat shock protein genes in Sinorhizobium meliloti"Molecular and General Genetics. 264. 202-212 (2001)

    • Related Report
      2000 Annual Research Report
  • [Publications] Kiwamu Minamisawa: "Genetic ecology of soybean bradyrhizobia"Marcel Dekker Inc.. 28 (2000)

    • Related Report
      2000 Annual Research Report
  • [Publications] 津田雅孝: "遺伝情報のダイナミズムとその分子機構"東北大学遺伝生態研究センター. 13 (2001)

    • Related Report
      2000 Annual Research Report

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Published: 2000-04-01   Modified: 2016-04-21  

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