(A) A maximum likelihood phylogeny of marsupials based on the reduced-bias mitochondrial DNA matrix that places Thylacinidae inside Dasyuromorphia. Didelphimorphia was used as the outgroup, based on results of published nuclear and mitochondrial studies (Amrine-Madsen et al. 2003; Nilsson et al. 2004; Phillips et al. 2006). Bootstrap support values followed by Bayesian posterior probabilities (BPP) are shown above respective nodes. The first bootstrap value is derived from the reduced-bias matrix used to generate the tree, and the second bootstrap value is based on the unmodified sequence of the coding mitochondrial genes. The first and second BPP values correspond to the RY-coded and non-RY-coded (mixed model) analyses. Nodes with 100% bootstrap values and 1.0 posterior probability are marked with asterisks. Branch lengths were estimated under the general-time-reversible + gamma + invariants model of sequence evolution. (ns) Not significant, with bootstrap support below 50. (B,C) Maximum likelihood phylogeny derived from (B) 12S rRNA and (C) cytb sequences. Note the large divergence between the sequences from this study (labeled ThylacinusNew) and those previously published (ThylacinusKre) (Krajewski et al. 1997, 2000).
