Fig 1.
Phylogenetic tree of Taxillus and other Loranthaceae.
This ML tree derives from analysis of the 67 gene sequence dataset (63 PCGs and four rRNAs). Only bootstrap values < 100% are labeled and Schoepfia jasminodora was used as the outgroup. Triangles at the branch tips represent multiple accessions of the same species and the number of accessions used is shown in parentheses. Four morphological characters and their states are shown to the right of the phylogenetic tree. The grey shading marks the five major clades of Taxillus (see text).
Fig 2.
Comparison of plastome and nuclear rDNA ML gene trees for Taxillus species.
A. ML tree derived from an analysis of the whole plastome dataset. This tree is generally congruent with the one obtained from mitochondrial rDNA sequences. The Maximum Likelihood Bootstrap values (MLBS) and Maximum Parsimony Bootstrap (MPBS) values are indicated above and below the branches, respectively. B. Tree inferred from the ML analysis of the nuclear rDNA sequences. MLBS and MPBS values are indicated above and below the branches, respectively.
Fig 3.
Nucleotide variability in 29 Taxillus plastomes.
Sequence diversity was calculated using a sliding window analysis (window size = 500 bp, step size = 100 bp). The six most variable regions are labeled.
Fig 4.
Proportion of parsimony informative sites and gene lengths for 29 Taxillus plastomes.
Intergenic spacer regions (IGS), protein coding genes (PCG) and rrn genes (rRNA) are plotted by length (empty vertical bars, length from the sequence alignment) and proportion of parsimony informative sites (vertical filled bars).
Table 1.
Simple phylogenetic utility test scoresa for the 29 Taxillus plastid gene regions.
Fig 5.
A heatmap of pairwise genetic distance values of the plastome and nuclear rDNA sequences.
The upper right portion of the matrix contains genetic distances calculated from the nuclear rDNA sequence while the lower left portion contains genetic distance computed from whole plastome sequences. All the analyses were performed using the Kimura 2-parameter (K2P) model.