Fully resolved mammalian heme peroxidase phylogeny with duplication and loss events depicted. (a) Resolved ML tree for mammalian heme peroxidases. The bootstrap support values from 1000 replicates are shown on all nodes. The TPO primate clade appears here as a polytomy as the branch lengths are extremely short, however, this is in fact resolved with a low Bootstrap of 56%. The star symbol denotes those branches that were treated as foreground in the selection analysis. (b) The analysis of the resolved phylogeny using gene tree species tree reconciliation method implemented in GeneTree. The large filled circles represent gene duplication events, and the red branches indicate gene losses.