Fig. 5: Phylogenetic analysis and gene consistent of spider nrEVEs.

a A maximum-likelihood phylogenetic tree built from PIF-0 sequences (478 amino acid positions, LG + I + R10 model). Branches with an average branch length distance to their leaves below 0.5 were auto-collapsed. Several branches with abnormal length were pruned. b A maximum-likelihood phylogenetic trees built from concatenated PIFs (PIF-0, PIF-1, PIF-2, PIF-3, PIF-4, and PIF-5, 2233 amino acid positions, LG + I + R8 model). c A maximum-likelihood phylogenetic tree built from concatenated LEFs (LEF-9, P47, LEF-8, LEF-5, and LEF-4, 2407 amino acid positions) using the Q.yeast + F + I + R8 model. Values at the nodes in (a–c) indicate the branch supports calculated by the Shimodaira–Hasegawa-like approximate likelihood ratio test (aLRT) and ultrafast bootstrap approximation (UFBoot) methods with 1000 replicates. d The conserved gene composition between NALDVs and spider nrEVEs. Proteins are classed into two group based on their function. The solid circles indicate the protein is conserved in all the viruses of this group, semicircles indicate that the protein presence in some but not all of the viruses of the group, and the open circles indicate that the protein is absent. FEN-1 flap endonuclease 1, DBP DNA-binding protein, NUDIX nudix hydrolases; e Heatmap of the spider nrEVE-specific conserved proteins based on structure comparison. f Predicted structures of two conserved proteins in spider nrEVEs and their homologous structures in AFDB50. Proteins are colored based on secondary structure properties.