Orthology assignment was performed using normalized bit scores and later verified using d_S values. Lineage-specific duplications have only been recorded in the D. melanogaster subgroup.

^aTree reconciliation was performed without considering pseudogenes. Because tree reconciliation only considers tree topology, the number of lineage-specific duplications can rise in one lineage, when an orthologous pseudogene in a second lineage is removed.

NA, Not applicable.