Networks reconstructed using EGN. a. Principal connected component of the genome network (e-value ≤ 1E-05, identities ≥ 30%, with “best reciprocity” option). Node colors are reported below the component. Borrelia’s plasmids (pink) are tightly packed together and relatively isolated from the rest of the network. b. Detail of the genome network showing only nodes linked with Borrelia’s plasmids. Borrelia’s plasmids are directly only connected to Borrelia’s chromosomes. c. Schematic connected components, same color code as above. “Full homology” edges are indicated by solid lines, other similarity edges are indicated by dashes. Components with a majority of nodes corresponding to genes on chromosomes were significantly richer in “full homology” edges than connected components with a majority of nodes corresponding to genes on plasmids.