Fig. 3

Core Vertebrate Genes (CVG). a Flowchart showing selection procedure of the CVG from the chordate ortholog groups of eggNOG v4.0 (ChorNOGs). The 26 core species were specified by the eggNOG. Components of the CVG were shown in Additional file 5. b Taxonomic ranges of CEG (on a light blue background) and CVG (on a magenta background). The CEG consists of the six the species with asterisks, and the CVG set for CEGMA consists of the eight species in magenta. Tunicate orthologs were used as outgroup in order to distinguish one-to-one orthologs conserved in vertebrates from those with additional paralogs duplicated in the vertebrate lineage. Those with no additional vertebrate paralog were included in CVG. c Completeness scores of the transcriptome assemblies assessed by CEGMA referring to the 248 CEGs and 233 CVGs. The scores indicate proportions of the genes recognized as ‘complete’ in individual assemblies by CEGMA out of 248 CEGs and 233 CVGs. See Additional file 8 for the results of an equivalent assessment with BUSCO