Figure 3

Species delimitation based on the Generalized Mixed Yule Coalescent model. Summary of species delimitation analyses using maximum likelihood and Bayesian implementations of the Generalized Mixed Yule Coalescent model for saxicolous lizards of the Tropidurus semitaeniatus species group. The phylogeny is the maximum clade credibility tree from BEAST. The five ML entities identified by the GMYC method are outlined with continuous contours and microendemic lineages (expect for Seridó) are depicted with dashed lines. Numbers are the posterior probability of species identities calculated from a posterior distribution of trees generated in BEAST. The histogram represents uncertainty in coalescent units recovered in bGMYC analysis and grayscale plot is a sequence-by-sequence matrix colored by pair-wise posterior probabilities of conspecificity, where off-diagonal patterns indicate uncertainty of species limits owing to topological variation of phylogenetic tree.