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Updated: Feb 14, 2026

Molecular Evolution of the Tre Recombinase

Molecular Evolution of the Tre Recombinase

Published on: May 29, 2008

Bacmeta: simulator for genomic evolution in bacterial metapopulations.

Aleksi Sipola^1,2, Pekka Marttinen², Jukka Corander^1,3

¹Department of Mathematics and Statistics, University of Helsinki, Finland.

Bioinformatics (Oxford, England)

|February 24, 2018

Summary

Bacmeta is a new software tool for simulating bacterial evolution. It allows researchers to model neutral evolution and other genetic processes in bacterial metapopulations efficiently.

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Area of Science:

Evolutionary biology
Computational biology
Genomics

Background:

Genomic data from bacterial populations necessitate advanced simulation tools.
Investigating evolutionary models requires efficient computational approaches.

Purpose of the Study:

To introduce Bacmeta, a novel software for simulating bacterial evolution.
To provide a flexible and efficient tool for investigating evolutionary hypotheses.

Main Methods:

Stochastic simulation of neutral evolution using a Wright-Fisher model.
Simulation of mutations, recombination, insertions/deletions, migration, and micro-epidemics.
Utilizes C++ objects for efficient simulation of metapopulations and metadata acquisition.

Main Results:

Bacmeta enables fast, flexible, and efficient simulation of bacterial metapopulations.
The software supports adjustable connectivity networks and explicit sequence data.
Facilitates large-scale simulations and likelihood-free inference in cluster environments.

Conclusions:

Bacmeta is a valuable tool for researchers studying bacterial evolution.
The software enhances the investigation of evolutionary models using empirical genomic data.