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2003 Fiscal Year Final Research Report Summary

Mechanisms of transposition and its regulation of bacterial transposable elements (IS and Tn) and their involvement in the genomic rearrangements

Research Project

Project/Area Number 10216202
Research Category

Grant-in-Aid for Scientific Research on Priority Areas

Allocation TypeSingle-year Grants
Review Section Biological Sciences
Research InstitutionThe University of Tokyo

Principal Investigator

OHTSUBO Eichi  The University of Tokyo, Institute of Molecular and Celular Biosciences, Professor, 分子細胞生物学研究所, 教授 (10158800)

Co-Investigator(Kenkyū-buntansha) SEKINE Yasuhiko  Rikkyo University, Cdege of Science, Assistant Professor, 理学部, 助教授 (80222074)
OHTSOBO Hisako  The University of Tokyo, Institute of Molecular and Celular Biosciences, Leclurer, 分子細胞生物学研究所, 講師 (20158801)
Project Period (FY) 1998 – 2002
KeywordsTransposon / Transposase / Genomic rearrangements / EHEC O157 / Transposition / Insertion elements / plasmid / Escherichia coli
Research Abstract

Transposons are mobile DNA elements and encode transposases required for their transposition. These elements cause various genomic rearrangements by their ability to transpose. This study is aimed at elucidation of molecular mechanisms of transposition promoted by bacterial insertion elements IS1 and IS3 and the ampicillin-resistance transposon Tn3, which are supposed to transpose in a different mode. We have previously shown that a circular IS3 molecule is generated from the IS3-carrying plasmid and is converted to a linear molecule, which is inserted into a new target site. We showed here that the IS3 transposase binds to terminal inverted repeats (IR) and that an IR end is cleaved and transferred to the other end to give a characteristic figure-8 molecule in a complex consisting of two transposases and two IRs. complex is formed by binding of each transposase to a domain (named A) in one IR, as well as to the other domain (named B) in the other IR. As for IS1, we showed that IS1 requires a host protein H-NS unlike IS3, and that IS1 transposase has a catalytic D-D-E motif in the C-terminal region, as well as two IR-binding motifs (helix-turn-helix and Zinc-finger) in the N-terminal region unlike the IS3 transposase. As for Tn3, we showed that nicking, the first reaction of transposition, at the 3' end of IR requires acyl carrier protein from the host, which promotes the formation of a transposase-IR complex. Furthermore, we identified IS elements present in the genomes of Escherichia coli strains and their plasmids and found that they are involved in generation of mutations, such as insertions, deletions, and substitutions, and that these mutations are useful to determine phylogenetic relationships among various pathogenic E. coli strains.

  • Research Products

    (36 results)

All Other

All Publications (36 results)

  • [Publications] Makino, K., Ishii, K., Yasunaga, T., Hattori, M., Yokoyama, K., Yutsudo, C., Kubota, Y., Yamaichi, Y., Iida, T., Yamamoto, K., Honda, T., Han, Ohtsubo, E., Kasamatsu, M., Hayashi, T., Kuhara, S., Shinagawa, H.: "Complete nucleotide sequences of 93-kb and 3.3-kb plasmids of an Enterohemorrhagic Eschenchia coli O157 : H7 derived from Sakai outbreak."DNA Res.. 5. 1-9 (1998)

    • Description
      「研究成果報告書概要(和文)」より
  • [Publications] Sekine, Y., Aihara, K., Ohtsubo, E.: "Linearization and transposition of IS3 circles"J.Mol.Biol.. 294. 21-34 (1999)

    • Description
      「研究成果報告書概要(和文)」より
  • [Publications] Shiga, Y., Sekine, Y., Ohtsubo, E.: "Transposition of IS1 circles"Genes Cells. 4. 551-559 (1999)

    • Description
      「研究成果報告書概要(和文)」より
  • [Publications] Tobe, T., Hayashi, T., Han, C.-G., Schoolnik, G.K., Ohtsubo, E., Sasakawa, C.: "Complete DNA sequence and structural analysis of the enteropathogenic Eschenchia coli adherence factor plasmid"Infect.Immun.. 67. 5455-5462 (1999)

    • Description
      「研究成果報告書概要(和文)」より
  • [Publications] Han, C.-G., Frank, M.J., Ohtsubo, H., Ohtsubo, E.: "New transposable elements identified as insertions in rice transposon Tnr1"Genes Genet.Syst.. 75. 69-77 (2000)

    • Description
      「研究成果報告書概要(和文)」より
  • [Publications] Cheng, C., Tsuchimoto, S., Ohtsubo, H., Ohtsubo, E.: "Tnr8, a foldback transposable element from rice"Genes Genet.Syst.. 75. 327-333 (2000)

    • Description
      「研究成果報告書概要(和文)」より
  • [Publications] Shiga, Y., Sekine, Y., Kano, Y., Ohtsubo, E.: "The involvement of H-NS in transpositional recombination mediated by IS1"J.Bacteriol.. 183. 2476-2484 (2001)

    • Description
      「研究成果報告書概要(和文)」より
  • [Publications] Han, C.-G., Shiga, Y., Tobe, T., Sasakawa, C., Ohtsubo, E.: "Structural and functional characterization of IS679 and IS66-family elements."J.Bactenol.. 183. 4296-4304 (2001)

    • Description
      「研究成果報告書概要(和文)」より
  • [Publications] Hayashi, T., Makino, K., Ohnishi, M., Kurokawa, K., Ishii, K., Yokoyama, K., Han, C.-G., Ohtsubo, E., Nakayama, K., Murata, T., Tanaka, M., Tobe, T., Iida, T., Takami, H., Honda, T., Sasakawa, C., Ogasawara, N., Yasunaga, T., Kuhara, S., Shiba, T., Hattori, M., Shinagawa, H.: "Genome sequence and comparative analysis of enterohemorrhagic E.coli O157 : H7"DNA Res.. 8. 11-22 (2001)

    • Description
      「研究成果報告書概要(和文)」より
  • [Publications] Hayashi, T., Makino, K., Ohnishi, M., Kurokawa, K., Ishii, K., Yokoyama, K., Han, C.-G., Ohtsubo, E., Nakayama, K., Murata, T., Tanaka, M., Tobe, T., Iida, T., Takami, H., Honda T, Sasakawa, C., Ogasawara, N., Yasunaga, T., Kuhara, S., Shiba, T., Hattori, M., Shinagawa, H.: "Genome sequence and comparative analysis of enterohemorrhagic E.coli O157 : H7 (Supplement)"DNA Res.. 8. 47-52 (2001)

    • Description
      「研究成果報告書概要(和文)」より
  • [Publications] Takami, H., Han, C.-G., Takaki, Y., Ohtsubo, E.: "Identification ad distribution of new insertion sequences in the genome of Alkaliphilic Bacillus halodurans C-125"J.Bacteriol.. 183. 4345-4356 (2001)

    • Description
      「研究成果報告書概要(和文)」より
  • [Publications] Ohta, S., Tsuchida, K., S.Choi, Sekine, Y., Shiga, Y., Ohtsubo, E.: "Presence of a characteristic D-D-E motif in IS1 transposase"J.Bactenol.. 184. 6146-6154 (2002)

    • Description
      「研究成果報告書概要(和文)」より
  • [Publications] Murata, T, Ohnishi, M, Ara, T., Kaneko, J., Han, C.-G., Lee, Y.-F., Takashima, K., Nojima, H., Nakayama, K, Kaji, A., Kamio, Y., Miki, T., Mori, H., Ohtsubo, E., Terawaki, Y., Hayashi, T.: "Complete nudeotide sequence of plasmid Rts1 : implication for the evolution of large plasmid"J.Bacteriol.. 184. 3194-3202 (2002)

    • Description
      「研究成果報告書概要(和文)」より
  • [Publications] Urasaki, A., Sekine, Y., Ohtsubo, E.: "Transposition of cyanobactenum insertion element ISY100 in Escherlchia coli"J.Bacteriol.. 184. 5104-5112 (2002)

    • Description
      「研究成果報告書概要(和文)」より
  • [Publications] Choi, S., Shinya Ohta, Ohtsubo, E.: "A novel IS element, IS621, of the IS110/IS492 family transposes to a specific site in repetitive extragenic palindromic sequences in Escherichia coli"J.Bacteriol.. 185. 4891-4900 (2003)

    • Description
      「研究成果報告書概要(和文)」より
  • [Publications] Kato, N., Yamazoe, K., Han, C.-G., Ohtsubo, E.: "New insertion sequence elements in the upstream region of cfiA in imipenem-resistant Bacteroides fragilis strains"Antimicrob.Agents Chemother.. 47. 979-985 (2003)

    • Description
      「研究成果報告書概要(和文)」より
  • [Publications] Ohtsubo, E., Minematsu, H., Tsuchida, K., Ohtsubo, H., Sekine, Y.: "Intermediate molecules generated by transposase in the pathways of transposition of bacterial insertion element IS3"Adv.Biophys.. 38(in press). (2004)

    • Description
      「研究成果報告書概要(和文)」より
  • [Publications] Ohta, S., Yoshimura, E., Ohtsubo, E.: "Involvement of two domains with helix-turn-helix and zinc finger motifs in the binding of IS1 transposase to terminal inverted repeats"Mol.Microbiol.. 52(in press). (2004)

    • Description
      「研究成果報告書概要(和文)」より
  • [Publications] Makino, K., Ishii, K., Yasunaga, T., Hattori, M., Yokoyama, K., Yutsudo, C., Kubota, Y., Yamaichi, Y., Iida, T., Yamamoto, K., Honda, T., Han, C.-G., Ohtsubo, E., Kasamatsu, M., Hayashi, T., Kuhara, S., Shinagawa, H.: "Complete nucleotide sequences of 93-kb and 3.3-kb plasmids of an Enterohemorrhagic Escherichia coli O157 : H7 derived from Sakai outbreak."DNA Res.. 5. 1-9 (1998)

    • Description
      「研究成果報告書概要(欧文)」より
  • [Publications] Sekine, Y., Aihara, K., Ohtsubo, E.: "Linearization and transposition of IS3 circles."J. Mol. Biol.. 294. 21-34 (1999)

    • Description
      「研究成果報告書概要(欧文)」より
  • [Publications] Shiga, Y., Sekine, Y., Ohtsubo, E.: "Transposition of IS1 circles."Genes Cells. 4. 551-559 (1999)

    • Description
      「研究成果報告書概要(欧文)」より
  • [Publications] Tobe, T., Hayashi, T., Han, C.-G., Schoolnik, G.K., Ohtsubo, E., Sasakawa, C.: "Complete DNA sequence and structural analysis of the enteropathogenic Escherichia coli adherence factor plasmid."Infect. Immun.. 67. 5455-5462 (1999)

    • Description
      「研究成果報告書概要(欧文)」より
  • [Publications] han, C.-G., Frank, M.J., Ohtsubo, H., Ohtsubo, E.: "New transposable elements identified as insertions in rice transposon Tnr1."Genes Genet. Syst.. 75. 69-77 (2000)

    • Description
      「研究成果報告書概要(欧文)」より
  • [Publications] Cheng, C., Tsuchimoto, S., Ohtsubo, H., Ohtsubo, E.: "Tnr8, a foldback transposable element from rice."Genes Genet. Syst.. 75. 327-333 (2000)

    • Description
      「研究成果報告書概要(欧文)」より
  • [Publications] Shiga, Y., Sekine, Y., Kano, Y., Ohtsubo, E.: "The involvement of H-NS in transpositional recombination mediated by IS1."J. Bacteriol.. 183. 2476-2484 (2001)

    • Description
      「研究成果報告書概要(欧文)」より
  • [Publications] Hayashi, T., Makino, K., Ohnishi, M., Kurokawa, K., Ishii, K., Yokoyama, K., Han, C.-G.Ohtsubo, E., Nakayama, K., Murata, T., Tanaka, M., Tobe, T., Iida, T., Takami, H., Honda, T., Sasakawa, C., Ogasawara, N., Yasunaga, T., Kuhara, S., Shiba, T., Hattori, M., Shinagawa, H.: "Genome sequence and comparative analysis of enterohemorrhagic E. coli O157 : H7."DNA Res.. 8. 11-22 (2001)

    • Description
      「研究成果報告書概要(欧文)」より
  • [Publications] Hayashi, T., Makino, K., Ohnishi, M., Kurokawa, K., Ishii, K., Yokoyama, K., Han, C.-G., Ohtsubo, E., Nakayama, K., Murata, T., Tanaka, M., Tobe, T., Iida, T., Takami, H., Honda, T., Sasakawa, C., Ogasawara, N., Yasunaga, T., Kuhara, S., Shiba, T., Hattori, M., Shinagawa, H.: "Genome sequence and comparative analysis of enterohemorrhagic E. coli O157 : H7 (Supplement)."DNA Res.. 8. 47-52 (2001)

    • Description
      「研究成果報告書概要(欧文)」より
  • [Publications] Takami, H., Han, C.-G., Takaki, Y., Ohtsubo, E.: "Identification and distribution of new insertion sequences in the genome of Alkaliphilic Bacillus halodurans C-125."J. Bacteriol.. 183. 4345-4356 (2001)

    • Description
      「研究成果報告書概要(欧文)」より
  • [Publications] Ohta, S., Tsuchida, K., S.Choi, Sekine, Y., Shiga, Y., Ohtsubo, E.: "Presence of a characteristic D-D-E motif in IS1 transposase."J. Bacteriol.. 184. 6146-6154 (2002)

    • Description
      「研究成果報告書概要(欧文)」より
  • [Publications] Murata, T., Ohnishi, M, Ara, T., Kaneko, J., Han, C.-G., Lee, Y.-F., Takashima, K., Nojima, H., Nakayama, K, Kaji, A., Kamio, Y., Miki, T., Mori, H., Ohtsubo, E., Terawaki, Y., Hayashi, T.: "Complete nucleotide sequence of plasmid Rts1 : implication for the evolution of large plasmid."J. Bacteriol.. 184. 3194-3202 (2002)

    • Description
      「研究成果報告書概要(欧文)」より
  • [Publications] Choi, S., Ohta, S., Ohtsubo, E.: "A novel IS element, IS621, of the IS110/IS492 family transposes to a specific site in repetitive extragenic palindromic sequences in Escherichia coli."J. Bacteriol.. 185. 4891-4900 (2003)

    • Description
      「研究成果報告書概要(欧文)」より
  • [Publications] Kato, N., Yamazoe, K., Han, C.-G., Ohtsubo, E.: "New insertionsequence elements in the upstream region of cfiA in imipenem-resistant Bacteroides fragilis strains."Antimicrob. Agents Chemother.. 47. 979-985 (2003)

    • Description
      「研究成果報告書概要(欧文)」より
  • [Publications] Urasaki, A., Sekine, Y., Ohtsubo, E.: "Transposition of cyanobacterium insertion element ISY100 in Escherichia coli."J. Bacteriol.. 184. 5104-5112 (2002)

    • Description
      「研究成果報告書概要(欧文)」より
  • [Publications] Ohtsubo, E., Minematsu, H.Tsuchida, Sekine, Y.: "Intermediate molecules generated by transposase in the pathways of transposition of bacterial insertion element IS3."Adv. Biophys.. 38. 125-139 (2004)

    • Description
      「研究成果報告書概要(欧文)」より
  • [Publications] Ohta, S., Yoshimura, E., Ohtsubo, E.: "Involvement of two domains with helix-turn-helix and zinc finger motifs in the binding of IS1 transposase to terminal inverted repeats."Mol. Microbiol.. 52. (2004)

    • Description
      「研究成果報告書概要(欧文)」より
  • [Publications] Ikeda, H., Iida, S., Ohtsubo, E.(Eds): "Novel developments on genetic recombination : DNA double-strand break and DNA end-joining"Advances in Biophysics. Vol.38. 1-234 (2004)

    • Description
      「研究成果報告書概要(欧文)」より

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Published: 2005-04-19  

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