The 50% majority-rule consensus Bayesian genealogy from the total evidence analysis of six nuclear protein-coding loci (3160 bp) in Daphnia pulex (solid), D. pulicaria (open), and D. arenata (shaded). Numbers at nodes are posterior probabilities (PP) and are not shown if they are <0.85. The tree is rooted with the outgroup species, D. obtusa (hatched). Labels consist of the population name, followed by the individual number (if more than one individual was sampled), and the allele number (either 1 or 2). D. pulex is paraphyletic with respect to D. pulicaria, which is a monophyletic group (PP = 0.99). D. arenata is also monophyletic (PP = 1.0) and is a sister group to D. pulex + D. pulicaria; support for this branch is low (PP = 0.65).