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Insertion sequence-excision enhancer removes transposable elements from bacterial genomes and induces various genomic deletions

Author

Listed:
  • Masahiro Kusumoto

    (Safety Research Team, National Institute of Animal Health, 3-1-5 Kannondai, Tsukuba, Ibaraki 305-0856, Japan.)

  • Tadasuke Ooka

    (Faculty of Medicine, University of Miyazaki)

  • Yoshiaki Nishiya

    (Tsuruga Institute of Biotechnology, Toyobo Co., Ltd.)

  • Yoshitoshi Ogura

    (Faculty of Medicine, University of Miyazaki
    Frontier Science Research Center, University of Miyazaki)

  • Takashi Saito

    (College of Science, Rikkyo University)

  • Yasuhiko Sekine

    (College of Science, Rikkyo University)

  • Taketoshi Iwata

    (Safety Research Team, National Institute of Animal Health, 3-1-5 Kannondai, Tsukuba, Ibaraki 305-0856, Japan.)

  • Masato Akiba

    (Safety Research Team, National Institute of Animal Health, 3-1-5 Kannondai, Tsukuba, Ibaraki 305-0856, Japan.)

  • Tetsuya Hayashi

    (Faculty of Medicine, University of Miyazaki
    Frontier Science Research Center, University of Miyazaki)

Abstract

Insertion sequences (ISs) are the simplest transposable elements and are widely distributed in bacteria. It has long been thought that IS excision rarely occurs in bacterial cells because most bacteria exhibit no end-joining activity to regenerate donor DNA after IS excision. Recently, however, we found that excision of IS629, an IS3 family member, occurs frequently in Escherichia coli O157. In this paper, we describe a protein IS-excision enhancer (IEE) that promotes IS629 excision from the O157 genome in an IS transposase-dependent manner. Various types of genomic deletions are also generated on IEE-mediated IS excision, and IEE promotes the excision of other IS3 family members and ISs from several other IS families. These data and the phylogeny of IEE homologues found in a broad range of bacteria suggest that IEE proteins have coevolved with IS elements and have pivotal roles in bacterial genome evolution by inducing IS removal and genomic deletion.

Suggested Citation

  • Masahiro Kusumoto & Tadasuke Ooka & Yoshiaki Nishiya & Yoshitoshi Ogura & Takashi Saito & Yasuhiko Sekine & Taketoshi Iwata & Masato Akiba & Tetsuya Hayashi, 2011. "Insertion sequence-excision enhancer removes transposable elements from bacterial genomes and induces various genomic deletions," Nature Communications, Nature, vol. 2(1), pages 1-9, September.
    • Handle: RePEc:nat:natcom:v:2:y:2011:i:1:d:10.1038_ncomms1152
    DOI: 10.1038/ncomms1152
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