Supplementary Figures
Figure S1. Homology-based search across different ecdysozoa
species. Pie chart showing the taxonomic distribution of positive BLAST
hits of the structural annotation of D. silvatica (n =
33,275 genes) across the Araneae species illustrated in Figure 1 and the
rest of the arachnida, arthropoda and ecdysozoa also analysed in
Sánchez-Herrero et al. (2019).
Figure S2. Genome organization and relationships between
physical and evolutionary distances of the members of the Gr andIr families on the D. silvatica pseudochromosomes. A and
C) Heatmaps illustrating the distribution of physical distances (in
units of 100 kb) along the pseudochromosome. B and D) Plots comparing
pairwise amino acid and physical (on a logarithmic scale) distances
between Gr or Ir copies in the D. silvaticapseudochromosome. Colored and grey points show distances within and
outside genomic clusters, respectively. Different clusters are depicted
in different colors.
Figure S3. Phylogenetic relationships and node support in the
Gr family. A) Phylogenetic tree among all sequences encoding members of
the Gr family (including both complete and incomplete or partial genes).
Incomplete genes are marked with asterisks. The tree was rooted in its
midpoint. The outer ring indicates the chromosome (Chr) in which the
genes included in the tree are located. The inner ring shows information
about genomic clusters (chromosome, in the same color scale that in
outer ring, genomic cluster number: member number in the cluster). The
scale bar refers to 1 amino acid substitution per site. Minor SC, minor
scaffolds. Red and green terminal branches correspond to D.
silvatica and D. melanogaster Gr, respectively. B) Cladogram of
the phylogenetic tree in Figure 6 with bootstrap node support values
>90%.
Figure S4. Phylogenetic relationships and node support in the
Ir/iGluR family. A) Phylogenetic tree among all sequences encoding
members of the Ir/iGluR family (including both complete and incomplete
or partial genes). Incomplete genes are marked with asterisks. The light
blue, dark blue and purpura shading of gene names designate the members
of the iGluR, Ir25a/8a and Ir subfamilies, respectively. The tree was
rooted considering NMDAR clade as the outgroup (Croset et al. 2010). The
outer ring indicates the chromosome (Chr) in which the genes included in
the tree are located. The inner ring shows information about genomic
clusters (chromosome, in the same color scale that in outer ring,
genomic cluster number: member number in the cluster). The scale bar
refers to 1 amino acid substitution per site. Minor SC, minor scaffolds.
Red and green terminal branches correspond to D. silvatica andD. melanogaster Gr, respectively. The red triangles mark theD. silvatica genes with putative distant homologs in D.
melanogaster . B) Cladogram of the phylogenetic tree in figure 7 with
bootstrap node support values >90%. C) Phylogenetic
relationships among the sequences encoding the LBD domain of D.
silvatica and D. melanogaster . The tree only includes the LBD
domains classified as complete in this work.