Phylogenomic Analysis of Marine Roseobacters
Figure 2
Plot of the two first axes of the principal coordinates analysis (PCoA) made from ML trees compared with Robinson and Foulds distance.
The other 69 data points are outside the axis limits. The same experiment with NJ trees gave very similar results. Different genes are color coded based on their respective functions. For example, red dots correspond to genes coding conserved ribosomal proteins and other orange dots correspond to genes coding ABC transporter families that are present in the core. The ellipse depicts 868 orthologs in the densest region. The ellipse contains the 694 orthologs (core genes) retained through statistic tests for organismal tree reconstruction (see Table S1). The first (x) axis 1 expresses 46.1% of the total variation, and axis 2 represents 45.8% of the total variation.