Additional file 2: Figure S1.
Maximum likelihood tree of vertebrate NATs obtained using PhyML after removing all regions affected by gene conversion from the multiple nucleotide alignment (converted fragments were replaced by ‘?’ characters in the alignment). A general time reversible model with a proportion of invariant sites and gamma distributed among-site rate variation (GTR + I + G) was used, as selected by Akaike information criterion in Modeltest 3.04. The tree is rooted with the three fish species (Danio rerio, Gasterosteus aculeatus, Oryzias latipes) and bootstrap values of 1,000 replicates are shown as percentages at nodes. Bootstrap values are only shown for nodes with greater than 50% support. The clades of Afrotheria, Laurasiatheria, Lagomorpha, Rodentia and Primates are shown in aqua blue, purple, green, blue and red, respectively.
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Sabbagh et al. BMC Evolutionary Biology 2013 13:62 doi:10.1186/1471-2148-13-62