ODoSE: A Webserver for Genome-Wide Calculation of Adaptive Divergence in Prokaryotes

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Abstract

Quantifying patterns of adaptive divergence between taxa is a major goal in the comparative and evolutionary study of prokaryote genomes. When applied appropriately, the McDonald-Kreitman (MK) test is a powerful test of selection based on the relative frequency of non-synonymous and synonymous substitutions between species compared to non-synonymous and synonymous polymorphisms within species. The webserver ODoSE (Ortholog Direction of Selection Engine) allows the calculation of a novel extension of the MK test, the Direction of Selection (DoS) statistic, as well as the calculation of a weighted-average Neutrality Index (NI) statistic for the entire core genome, allowing for systematic analysis of the evolutionary forces shaping core genome divergence in prokaryotes. ODoSE is hosted in a Galaxy environment, which makes it easy to use and amenable to customization and is freely available at www.odose.nl. © 2013 Vos et al.

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Vos, M., te Beek, T. A. H., van Driel, M. A., Huynen, M. A., Eyre-Walker, A., & van Passel, M. W. J. (2013). ODoSE: A Webserver for Genome-Wide Calculation of Adaptive Divergence in Prokaryotes. PLoS ONE, 8(5). https://doi.org/10.1371/journal.pone.0062447

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