Figure 5

Phylogeny of 92 genotypes from the concatenated alignment. a) Bayesian phylogeny of 92 unique genotypes from the concatenated rDNA and ATPSb-iII alignment rooted with the populations from the Indian Ocean. Highly supported branches with >95% posterior probability from Bayesian analysis and >70% Maximum Likelihood non-parametric bootstrap proportions are indicated by a grey circle; numbers at branches are given if the values were less than the above. Terminal branches are collapsed for clarity of presentation. See Additional Figure 4 for a fully resolved phylogeny and detailed support values. Numbers with a "G" prefix indicate genotype number (compare with Additional Table 1). Larger clades are color-coded as in Figures 2 and 3. b) Unrooted phylogeny with the same color-coding of clades as in a) showing only the main branches. c) The map displays the area of apparent overlap of two of the deepest diverging clades that have their main geographic distribution in the NW Pacific (blue) and the Southern Pacific (green) in the area of Papua New Guinea and the Great Barrier Reef (GBR). Map also shows subdivision of GBR populations that follows the sections of the Great Barrier Reef Marine Park, as defined for population genetic analyses (see text for details).