Domain gains and losses during eukaryote evolution. (a) Inferred domainome sizes for ancestral genomes on the path from the LECA to mammals are shown on the left. (b) The numbers of gained protein domains per branch (edge), inferred by Dollo parsimony, are shown in green, whereas inferred losses are shown in red. (c) The numbers of distinct domains per genome in extant species are shown on the right side; for groups of species represented as triangles, these numbers are averages. Species, or groups of species, that are mostly parasitic are shown in grey. For more detailed data see Additional files 3 and 4. This figure was made using 'gathering' cutoffs provided by Pfam; for a corresponding figure using a E-value cutoff of 10-8, see Additional file 13.