Figure 7

Parallelism and functional relevance of molecular evolution. Gene Ontology (GO) functional annotations were mapped to the corresponding evolution-specific co-expression networks and examined for commonalities in the co-expressed entities representing functional related categories. Each node represents a GO functional category, and the area of a node is proportional to the number of genes in the network matrix to the corresponding GO category. Statistically and significantly over-represented categories are color coded based on the hypergeometric test P value, which was corrected by Benjamini & Hochberg false discovery rate (a false discovery rate-controlled P value cutoff of ≤ 0.05). Gray nodes are not significantly over-represented. (a-c) GO annotations were mapped to the evolution-specific co-expression networks, namely Adp (panel a), AdpGal (panel b), and Stat (panel c). (d-f) GO annotations mapped evolution-specific intersection co-expression networks, namely (d) Adp intersection, (e) AdpGal intersection, and (f) Stat intersection. Not all over-represented categories are labeled because of the interdependency of functional categories in the GO hierarchy. Definitions of numbers: 1, membrane; 2, cell wall (sensu bacteria); 3, inner membrane; 4, transporter activity; 5, transport; 6, catabolism; 7, cellular catabolism; 8, amino acid metabolism; 9, nitrogen compound metabolism; 10, carbohydrate metabolism; 11, energy derivation by oxidation of organic compounds.