Supplementary Figure S3

FIGURE S3. Performance of the maximum parsimony (MP) criterion for phylogenetic estimation with UCE data. The topology of the single most parsimonious tree of 50929 steps recovered when UCE data were analyzed (A) was identical to the ML tree for those data. Minimum branch lengths for UCEs (i.e., the number of unambiguous synapomorphies) are shown above branches and bootstrap support is presented below branches. An MP analysis of combined UCEs+introns+mitochondrial data also yielded a single tree (of 59964 steps) with an identical topology. Bootstrap support for both analyses is reported as a percentage of 500 replicates. Full (100%) support is indicated using an asterisk (*). MP and ML branch lengths for the UCE data were strongly correlated (B), suggesting that the MP criterion is likely to have reconstructed character state transformations accurately. The graph was limited to internal branches.图S3：基于超保守元件（Ultraconserved Elements, UCE）数据开展系统发育估计时，最大简约法（maximum parsimony, MP）准则的应用表现。对UCE数据进行分析后，得到一棵步长为50929的唯一最简约树，其拓扑结构（A）与该数据的最大似然（Maximum Likelihood, ML）树完全一致。分支上方标注UCE的最小分支长度（即明确共源性状的数量），分支下方则标注自举支持值。针对UCE、内含子与线粒体数据的联合数据集开展MP分析，同样得到一棵步长为59964的唯一树，其拓扑结构与前述结果一致。两项分析的自举支持值均以500次重复抽样的百分比形式报告，完全支持（100%）以星号（*）标注。UCE数据的MP与ML分支长度呈现强相关性（B），表明MP准则大概率准确重建了性状状态转变过程。本图仅展示内部分支。