Comparison of the complete genome sequences of four c-hexachlorocyclohexane-degrading bacterial strains: insights into the evolution of bacteria able to degrade a recalcitrant man-made pesticide

Michiro Tabata, Satoshi Ohhata, Yuki Nikawadori, Kouhei Kishida, Takuya Sato, Toru Kawasumi, Hiromi Kato, Yoshiyuki Ohtsubo, Masataka Tsuda, Yuji Nagata

    Research output: Contribution to journalArticlepeer-review

    15 Citations (Scopus)

    Abstract

    c-Hexachlorocyclohexane (c-HCH) is a recalcitrant man-made chlorinated pesticide. Here, the complete genome sequences of four c-HCH-degrading sphingomonad strains, which are most unlikely to have been derived from one ancestral c-HCH degrader, were compared. Together with several experimental data, we showed that (i) all the four strains carry almost identical linA to linE genes for the conversion of c-HCH to maleylacetate (designated “specific” lin genes), (ii) considerably different genes are used for the metabolism of maleylacetate in one of the four strains, and (iii) the linKLMN genes for the putative ABC transporter necessary for c-HCH utilization exhibit structural divergence, which reflects the phylogenetic relationship of their hosts. Replicon organization and location of the lin genes in the four genomes are significantly different with one another, and that most of the specific lin genes are located on multiple sphingomonad-unique plasmids. Copies of IS6100, the most abundant insertion sequence in the four strains, are often located in close proximity to the specific lin genes. Analysis of the footprints of target duplication upon IS6100 transposition and the experimental detection of IS6100 transposition strongly suggested that the IS6100 transposition has caused dynamic genome rearrangements and the diversification of lin-flanking regions in the four strains.

    Original languageEnglish
    Pages (from-to)581-599
    Number of pages19
    JournalDNA Research
    Volume23
    Issue number6
    DOIs
    Publication statusPublished - 2016 Dec

    Keywords

    • Evolution
    • Genome
    • Mobile genetic elements
    • Sphingomonads
    • Xenobiotics

    ASJC Scopus subject areas

    • Molecular Biology
    • Genetics

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