Bootstrap values ranged from 44 to 95%% for each population cluster.
On this phylogenetic tree, the predicted spruce MYB proteins sequences fell into several subgroups with bootstrap values ranging from 96 100%, indicating the high grouping robustness.
Based on the position in the tree and the criterion of more than 30% sequence identity in one group, we classified the nsLTP genes from angiosperms into five groups with bootstrap values ranging from 61 to 100 (Fig. 1).
Firstly, among all the 57 PabHLH members, there are 44 bHLH members of which all the bootstrap values ranged from 50 to 100 in constructed NJ, MP and ML trees.
Figure 4 shows the genetic relationships between the genotypes and the separations of Andean and Mesoamerican genepools from each other and from the wild accessions G24390 and G24404 from Mexico and Colombia, respectively, which were supported by very high bootstrap values ranging from 95 to 100%.
Although all dendrograms showed very highly supported nodes for the separation of the two main gene pools and the two wild accessions; in the combined analysis, we found very high bootstrap values (ranging from 90 to 100%) based on the strength of the total set of markers evaluated.
At four markers (2325_3, C2_At1g44575, 2819_5 and U146140) the divergent alleles were more closely related to red-fruited rather than green-fruited taxa with bootstrap values ranging from 82% – 100% (Additional file 1: Table S2), although markers 2819_5 and U146140 did not support monophyly of red-fruited alleles (Additional file 2: Figure S1).
M. intermedium on Scabiosa formed a monophyletic group, unsupported if alignment-ambiguous columns were excluded but supported by bootstrap values ranging from 88% (MAFFT) to 99% (POA), otherwise, together with M. pinguiculae and M. betonicae, parasites in the flowers of Lentibulariaceae and Lamiaceae, respectively.
