Figure 1

Molecular phylogenetic trees including Astatotilapia burtoni dlx genes. (A) dlx1. (B) dlx2. (C) dlx3. (D) dlx4. (E) dlx5. (F) dlx6. The trees were reconstructed with the maximum likelihood (ML) method (see Materials and methods). Bootstrap values were calculated with 100 resamplings. Support values at nodes indicate in order bootstrap probabilities in the ML and the NJ analyses. '-' indicates that the phylogenetic relationship supported by the ML was not reconstructed by the NJ method. In C, we do not show bootstrap probabilities for some nodes due to space limitations: 35 (ML) and 42 (NJ) for the node combining zebrafish dlx3b with its T. rubripes and medaka orthologs; 43 (ML) and '-' (NJ method did not support this relationship) for the node combining A. burtoni dlx3b with its orthologs of the zebrafish, T. rubripes, and medaka. For each of A-F, the orthologs of the leopard shark (Triakis semifasciata) and tetrapods were used as outgroups. The number of amino acid sites used for tree inference was as follows: (A) 239 amino acid sites (aa) (shape parameter for gamma distribution α = 0.50); (B) 174 aa (α = 0.37); (C) 137 aa (α = 0.34); (D) 128 aa (α = 0.44); (E) 216 aa (α = 0.29) and (F) 184 aa (α = 0.26). Accession numbers for the entries in GenBank and Ensembl are indicated in parentheses.