A computational knowledge-base elucidates the response of Staphylococcus aureus to different media types
Fig 2
Break down of the novel content in iYS854 by metabolic sub-module and COG category.
(A) We compared the gene content in iYS854 to that of the four previous GEMs of S. aureus and categorized them by their metabolic sub-modules. For purposes of clarity we only show a subset of the sub-modules across three COG categories: cofactor and prosthetic group metabolism, transport, and cell wall metabolism. The color scale represents the percentage of novel genes in iYS864 with respect to previous GEMs (columns) by each metabolic sub-module (rows). We highlight the date for the most recent reference that was added in iYS854 for each metabolic sub-module (see S3 Table in S2 Appendix for more details). Genes may have different annotations in previous reconstructions (for example the staphylopine biosynthesis pathway was only uncovered in 2016). Note that “h” represents a metabolic sub-module that was added based on gene homology. (B) We compared the most recently published GEM with iYS854 and highlighted the new additions in reaction content per COG module.