Fig. 2

Rooted phylogenetic tree of the species used for PAML analysis. The tree was inferred using PhyML with 100 bootstrap replications. A GBLOCKS-filtered alignment of highly conserved coding genes was used as input (see Materials and Methods). All nodes have 100% bootstrap support. Cavefish = Astyanax mexicanus, Cod = Gadus morhua, Fugu = Takifugu rubripes, Medaka = Oryzias latipes, Molly = Poecilia formosa, Mummichog = Fundulus heteroclitus, Platyfish = Xiphophorus maculatus, Stickleback = Gasterosteus aculeatus, Tetraodon = Tetraodon nigroviridis, Tilapia = Oreochromis niloticus, Zebrafish = Danio rerio