Fig. 5

Pathway. Visualization of pathway coverage of one or multiple genomes. a Search for pathway maps. b Search for genomes: One or more groups of genomes can be added. In this example, the first group includes all genomes that belong to the taxonomic group Actinobacteria, the second group all Firmicutes. c Output: Coverage visualized on the KEGG citrate cycle pathway. d Color scale: The color of the reaction boxes indicates how many of the selected genomes cover the reaction (white: no genomes, yellow to red: one to all genomes). e Grouping: The left part of each box corresponds to the first group, the right part to the second. In this example, all Actinobacteria genomes (3 out of 3) in the database cover the entire citrate cycle, whereas not all Firmicutes (6 out of 19) do. f Context menu of a reaction box: It shows which annotations are behind the reaction and which genomes cover the reaction. (⚙) Settings sidebar: Change the colors, export the information in the plot as a table, download the pathway map in PNG or SVG format. Copyright permission for publication of this modified image of KEGG pathway map ID 00020 “Citrate cycle (TCA cycle)” (copyright Kanehisa Laboratories) was obtained from Kanehisa Laboratories