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Related Experiment Videos

Bacterial repetitive extragenic palindromic sequences are DNA targets for Insertion Sequence elements.

Raquel Tobes1, Eduardo Pareja

  • 1Bioinformatics Unit, Era7 Information Technologies SL, BIC Granada CEEI, Parque Tecnológico de Ciencias de la Salud-Armilla Granada 18100, Spain. rtobes@era7.com

BMC Genomics
|March 28, 2006
PubMed
Summary

Repetitive extragenic palindromic (REP) elements are hot spots for mobile element insertion, influencing bacterial genome evolution. This study identifies specific mobile elements that target REP sequences, revealing their role in genomic plasticity.

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Area of Science:

  • Microbiology
  • Genomics
  • Molecular Biology

Background:

  • Mobile elements drive bacterial genome evolution through rearrangements and virulence acquisition.
  • Specific Insertion Sequences (IS) are known to associate with repetitive extragenic palindromic (REP) elements.
  • Analyzing available genomes with known REPs can elucidate the relationship between REPs and mobile elements.

Purpose of the Study:

  • To exhaustively analyze the relationship between repetitive extragenic palindromic (REP) sequences and mobile elements.
  • To identify specific mobile elements that target REP sequences.
  • To understand the role of REPs in bacterial genome plasticity.

Main Methods:

  • Global multigenome analysis of 19 annotated microbial genomes.

Related Experiment Videos

  • Examination of DNA regions surrounding 981 Insertion Sequence (IS) elements.
  • Assessment of REP sequence positioning relative to IS elements.

    • Main Results:

    • Repetitive extragenic palindromic (REP) elements are confirmed as target sequences for transposases.
    • Specific IS elements (ISSy8, ISPa11, ISPpu9, ISPpu10, ISRm22, ISRm19) were found to insert directly into REP sequences.
    • A preference for insertion into REP sequences was observed for ISSy7, ISRm5, and ISNm1106.

    Conclusions:

    • REP elements are characterized as hot spots for transposition.
    • The study reinforces the link between REP sequences and genomic plasticity mediated by mobile elements.
    • A subset of REP-recognizing transposases with high target selectivity was identified, potentially useful for genome manipulation tools.