Figure 3.

Phylogenetic tree reconstruction of 23 taxa using MEGA7 based on concatenated sequences of 40 protein-coding genes in the plastome. Maximum likelihood (ML) topology is shown with the bootstrap support values (MP/ML) given at nodes. Forty protein-coding sequences were extracted from annotated plastomes found in GenBank [21] (http://www.ncbi.nlm.nih.gov) (Table S2). The nucleotide sequences for each gene were translated into amino acids, aligned in MEGA7 and manually adjusted. Nucleotide sequences were aligned by constraining them to the amino acid sequence alignment. Individual gene alignments were then assembled into a single dataset.