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Related Experiment Videos

Selection-driven transcriptome polymorphism in Escherichia coli/Shigella species.

Tony Le Gall1, Pierre Darlu, Patricia Escobar-Páramo

  • 1Institut National de la Santé et de la Recherche Médicale (INSERM) E0339, Faculté de Médecine Xavier Bichat, 75018, Paris, France.

Genome Research
|February 3, 2005
PubMed
Summary
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Transcriptome polymorphism plays a key role in bacterial adaptation. Gene expression patterns in Escherichia coli/Shigella species reveal that similar lifestyles, like intracellular pathogenicity in Shigella and enteroinvasive E. coli (EIEC), drive convergent evolution in gene expression.

Area of Science:

  • Microbiology
  • Evolutionary Biology
  • Genomics

Background:

  • The Escherichia coli/Shigella species comprises diverse phylogenetic groups with varying lifestyles, from commensalism to intracellular pathogenicity.
  • Understanding transcriptome polymorphism is crucial for elucidating organismal adaptation to environmental pressures.

Purpose of the Study:

  • To investigate the role of transcriptome polymorphism in the adaptation of the Escherichia coli/Shigella species.
  • To analyze gene content and gene expression patterns across different phylogenetic groups and lifestyles within this species.

Main Methods:

  • Evaluated genomic content and transcriptome of 10 representative E. coli/Shigella strains using macroarrays of 4290 K12-MG1655 open reading frames (ORFs).
  • Performed phylogenetic analysis on binary gene content (presence/absence) and adjusted transcript abundance data.

Related Experiment Videos

  • Focused on a core genome of 2880 genes common to all strains for transcript variation analysis.

    • Main Results:

    • Phylogenetic analysis of gene content showed Shigella and enteroinvasive E. coli (EIEC) grouping together due to shared gene absence patterns.
    • Analysis of transcript abundance revealed nonrandom changes in gene expression during species evolution.
    • Transcriptome data phylogenetic analysis demonstrated that Shigella and EIEC strains converge in gene expression, involving functionally coherent gene groups.

    Conclusions:

    • Strains with similar lifestyles, such as the intracellular pathogens Shigella and EIEC, exhibit convergent gene expression patterns.
    • This convergence highlights the role of natural selection in shaping transcriptome polymorphism within the E. coli/Shigella species.
    • Transcriptome polymorphism is a significant factor in the adaptation of bacteria to their specific ecological niches.