Fig. 2

Phylogeny and orthology analyses between Therioaphis trifolii and other aphid species. The phylogenetic tree was constructed based on 2,758 single-copy orthogroups obtained from the genomes of all tested aphids. The greenhouse whitefly Trialeurodes vaporariorum (not shown) was selected as the outgroup. Aphid species are colored according to their tribe. Numbers of expanded (blue) and contracted (red) gene families are presented alongside the species and nodes. The bar chart shows the comparison of orthologs between 12 aphids. ‘Single-copy universal’ refers to a single-copy ortholog that is present in all the aphids. ‘Aphid conserved’ refers to genes that can be detected in at least 11 aphid genomes. ‘Lineage-specific’ refers to  genes that do not have an ortholog in any other aphid. ‘Other’ indicates orthologs are found in some of the aphids (e.g., in 1 to 10 aphids).