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How sequence populations persist inside bacterial genomes.

Hye Jin Park1,2,3, Chaitanya S Gokhale4, Frederic Bertels5

  • 1Department of Evolutionary Theory, Max Planck Institute for Evolutionary Biology, Plön, 24306, Germany.

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Summary
This summary is machine-generated.

Bacterial genomes can stably maintain repetitive sequences like REPINs. This occurs when sequences provide a benefit that decreases with population size and replication incurs host costs, even with high horizontal gene transfer rates.

Keywords:
REPINsevolutionmobile elementstransposons

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Area of Science:

  • Genomics
  • Computational Biology
  • Evolutionary Biology

Background:

  • Bacterial genomes are compact with rare repetitive sequences.
  • REPINs (repetitive element populations) are a common repeat family capable of replication and long-term persistence.
  • Understanding intragenomic sequence population dynamics is crucial for bacterial genome evolution.

Purpose of the Study:

  • To model the interactions between bacterial host genomes and intragenomic sequence populations.
  • To identify conditions promoting the stable maintenance of repetitive sequences in bacterial genomes.
  • To investigate the role of horizontal gene transfer (hgt) in these dynamics.

Main Methods:

  • Mathematical modeling of sequence population dynamics within bacterial genomes.
  • Analysis of scenarios with and without horizontal gene transfer (hgt).
  • Simulation of sequence replication, host cost, and benefit parameters.

Main Results:

  • Sequence populations either expand to extinction or are purged without specific conditions.
  • Stable maintenance is achieved when sequence benefits decrease with population size and replication is costly to the host.
  • High hgt rates allow stable maintenance even when sequence-induced damage exceeds benefits.

Conclusions:

  • A model is presented for the stable persistence of sequence populations in bacterial genomes.
  • The findings suggest a balance between sequence benefits, replication costs, and host interactions.
  • Future experiments can test the hypothesized biologically relevant parameter range for sequence benefits.