Fig. 2

Comparisons between the different organ samples in each species. a, b Ephedra californica. a PCA and b Hierarchical clustering. c UpSet plot showing shared and unique DE genes for all tissues in E. californica, as an alternative to a Venn diagram. Each bar corresponds to a set, and on top is shown the size of the set, in number of genes and percentage. Filled-in circles at the bottom show which set is part of an intersection, lines connecting the filled-in cells show the intersection between the groups. In E. californica, 3 genes (0.1%) are shared between all the samples. d Ephedra antisyphilitica PCA, e Hierarchical clustering. f UpSet plot showing shared and unique DE genes for all tissues in E. antisyphilitica, 10 genes (0.2%) are shared between all the samples