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Asymmetric directional mutation pressures in bacteria.

Jean R Lobry1, Noboru Sueoka

  • 1Laboratoire BBE CNRS UMR 5558, Université Claude Bernard, 43 Bd du 11 Novembre 1918, F-69622 Villeurbanne cedex, France. lobry@biomserv.univ-lyon1.fr

Genome Biology
|October 10, 2002
PubMed
Summary

Bacterial DNA replication shows directional mutation pressures, leading to unequal nucleotide composition (A=T, G=C) in weakly selected regions. This asymmetry, observed across many bacterial chromosomes, is linked to DNA replication processes.

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Area of Science:

  • Molecular Biology
  • Genomics
  • Evolutionary Biology

Background:

  • Theoretical expectation: equal nucleotide composition (A=T, G=C) in DNA strands without mutation/selection bias.
  • Deviations indicate strand-specific mutation or selection asymmetries.
  • Weakly selected regions in bacterial chromosomes are key to detecting these pressures.

Purpose of the Study:

  • To detect asymmetric directional mutation pressures in bacterial chromosomes.
  • To investigate the relationship between nucleotide composition and DNA replication.
  • To understand the evolutionary implications of mutation biases.

Main Methods:

  • Analysis of 43 bacterial chromosomes, focusing on weakly selected regions (intergenic, third codon positions).
  • Comparison of nucleotide composition between leading and lagging DNA strands.

Related Experiment Videos

  • Correlation analysis of nucleotide deviations (A=T, G=C) across different genomic regions.

    • Main Results:

    • Leading strand enriched in G over C and T over A compared to lagging strand in weakly selected regions.
    • Slight depletion of G+C content observed on the leading strand.
    • Deviations from A=T and G=C were correlated between third codon positions and intergenic regions.

    Conclusions:

    • Asymmetric directional mutation pressures are common in bacterial chromosome evolution, affecting weakly selected sites.
    • The observed asymmetry is generally consistent with increased cytosine deamination on single-stranded DNA during replication.
    • Species-specific variations in G+C content are influenced by factors beyond asymmetric mutation pressure.