Phylogeny of 61 chlorophytes inferred using nucleotide data sets assembled from 79 cpDNA-encoded genes. The tree presented here is the best-scoring ML tree inferred using the degen1 data set under the GTR + Γ4 model. Support values are reported on the nodes: from top to bottom, or from left to right, are shown the BS values for the analyses of the degen1 and nt1 + 2 data sets. Black dots indicate that the corresponding branches received BS values of 100% in the two analyses. Shaded areas identify the trebouxiophycean lineages uncovered in this study. Open and filled squares denote aquatic and terrestrial/aeroterrestrial habitats, respectively; an open square containing a star indicates that the taxon is a symbiont. The scale bar denotes the estimated number of nucleotide substitutions per site.