Fig 1.
Distribution map of the Poicephalus species (and P. robustus subspecies) included in the study (maps redrawn from Perrin 2012, photos used with permission from Cyril Laubscher).
Table 1.
Sample details and genetic diversity for each Poicephalus species and subspecies analysed.
Number of individuals sampled, observed heterozygosity, expected heterozygosity, mean number of alleles and number of private alleles are provided.
Fig 2.
The estimated population genetic structure of the Poicephalus species/subspecies used in the current study (K = 7).
Each individual is represented by a vertical line, and coloured according to each individual’s estimated membership probability (Q-values). Average Q-values for each cluster is depicted above the figure.
Fig 3.
A 3D principal coordinate analysis (PCoA), generated in XLSTAT 2014.
The pairwise FST values estimated between species/subspecies of the Poicephalus species included in the study were used to generate the figure. The first three axes explained 70.3% of the estimated variation.
Fig 4.
Maximum likelihood phylogeny retrieved of the Poicephalus specimens from the current study.
The analyses were performed using (left) concatenated data (COI, 16S rRNA and β-fib) and (right) mitochondrial DNA data. Values given above the branches represent maximum likelihood bootstrap values and Bayesian posterior probabilities (in that order). Dated nodes are indicated by numbers next to each node in b) and correspond to Table 2. Species/subspecies were highlighted according to the microsatellite clustering analyses. Psittacus erithacus was used as an outgroup.
Table 2.
Divergence dates of the seven Poicephalus species, with Psittacus erithacus as outgroup, analysed with a Bayesian lognormal relaxed-clock model.
The mean estimated values and the 95% highest posterior density (HPD) ranges are given for the two dataset partitions. The node numbers correspond to Fig 4B. See S1 Fig for the corresponding maximum clade probability trees.
Table 3.
The average pairwise genetic distances estimated in RAxML using the concatenated dataset of all three gene regions (below diagonal) and using COI data only (above diagonal) from the Poicephalus specimens from the current study.