Fig 3. Maximum likelihood nuclear phylogeny of coffee trees.

The molecular tree was based on 22,800 SNPs as described in [18] and a larger set of species (see S1 Table). Branch lengths are proportional to inferred nucleotide substitutions. The values at the nodes indicate the bootstrap support of each branch in percent. The main clades are shaded, i.e., blue for Psilanthus, pink for Coffea and among this latter group the main geographic areas are shaded pale green for Africa, yellow for Mascarenes and pale grey for Madagascar and Comoros (yellowish branch).