Phyletic patterns and inferred gene gain patterns in Archaea. The most frequent phyletic patterns are shown to the right of the tree as blocks of genomes where the gene is present. The inferred number of gene gains is indicated for the tree branches. The most frequent gain patterns are shown as green dots associated with tree branches. The pattern within the Methanosarcinales clade refers to the Methanosarcina genus. The fuzzy pattern to the left of the tree root refers to the “zero-gain” inference without a confident assignment to any particular clade.