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Early eukaryote evolution based on mitochondrial gene order breakpoints.

D Sankoff·D Bryant·M Deneault·B F Lang·G Burger
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Abstract

The comparison of the gene orders in a set of genomes can be used to infer their phylogenetic relationships and to reconstruct ancestral gene orders. For three genomes this is done by solving the "median problem for breakpoints"; this solution can then be incorporated into a routine for estimating optimal gene orders for all the ancestral genomes in a fixed phylogeny. For the difficult (and most prevalent) case where the genomes contain partially different sets of genes, we present a general heuristic for the median problem for induced breakpoints. A fixed-phylogeny optimization based on this is applied in a phylogenetic study of a set of completely sequenced protist mitochondrial genomes, confirming some of the recent sequence-based groupings which have been proposed and, conversely, confirming the usefulness of the breakpoint method as a phylogenetic tool even for small genomes.

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Biological EvolutionComputational BiologyDNA, MitochondrialEukaryotic CellsModels, GeneticPhylogenyJournal ArticleResearch Support, Non-U.S. Gov't

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D Sankoff, D Bryant, M Deneault, B F Lang, G Burger. 2000. Early eukaryote evolution based on mitochondrial gene order breakpoints.. https://doi.org/10.1089/106652700750050925

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