Fig. 1

Lineage-divergence and genome structure comparisons of three Capsicum species. a The reconstructed phylogenetic tree of eight plant genomes indicates their evolutionary relationships and estimated divergence times. b The circular diagram shows the distribution of repeats, genes, genomic variations, and genome rearrangements in the pepper genomes. The subcategories indicate the density of repeats (A), genes (B), species-specific blocks (C), and SNPs (D) in the pepper genomes. The subcategory (E) depicts collinear and translocated blocks among the pepper genomes. c A linear comparison of the rearranged blocks in the pepper genomes. Colors in the bars indicate translocated regions when comparing to tomato and potato genomes. The line colors indicate translocations in the ancestral lineage leading to Annuum and Chinense (red), in Baccatum (green), and in the ancestor of Annuum and Chinense or Baccatum (dark gray)