Fig 1.
Map of Uganda (inset) and the enhanced site showing the location of West Bugwe forest and the surrounding woodlands (red mark on map) where leaf samples of T. orientalis were collected.
Fig 2.
The polymorphic information content of the a) silicoDArT and b) SNP markers.
Table 1.
Genetic diversity of T. orientalis based on silicoDArT and SNP markers.
Estimates with p indicate that these are corrected e.g. corrected Fst = Fstp.
Fig 3.
Number of clusters of the T. orientalis population using silicoDArT marker data estimated using the model-based Bayesian algorithm implemented in the STRUCTURE program.
A similar graph was obtained for the SNP markers (graph not shown).
Table 2.
Genetic divergence among (net nucleotide distance) and within (expected heterozygosity) populations, and the proportion of membership of the population samples based on silicoDArT and SNP markers.
Fig 4.
Principal coordinates analysis plot to infer group structure of T. orientalis based on a) silicoDArT b) SNP markers. Axis explained respectively 34.2% and 89.6% of the total variation in the samples based on respectively silicoDArT and SNP markers.
Fig 5.
Dendrogram based on maximum likelihood showing genetic relationships Trema orientalis SNPs in this study and published sequences of related taxa.
Sequences starting with SNP are derived from this current study while the rest are from related taxa selected from the NCBI BLAST (see methods).