Fig. 2

ML phylogenetic tree (JTT model, with MEGA6) of the gene family containing some of the most highly abundant transcripts in the phylloxera transcriptome (both for radicicoles and gallicoles libraries). The phylogeny includes 6 identified copies from the phylloxera transcriptome (“comp” prefix), three homologs from the pea aphid genome (“ACYPI” prefix) and three homologs from a transcriptome of Acyrthosiphon svalbardicum (“ASV” prefix). Grapevine phylloxera specific branches are colored in green, while branches for true aphids are in purple (ancestral branches), blue (A. pisum) or pink (A. svalbardicum). The two subgroups would correspond to an ancestral duplication (pre-dating the split between true aphids and phylloxera), while further lineage-specific duplications would have occurred in subgroup 1, as pointed by arrows at two nodes. Bootstrap values (above 80) are given at the nodes. On the right, class percentage of the mapped reads for different libraries (whole individuals, different morphs) – for detailed counts, see Table 4