Citrobacter rodentium is an Unstable Pathogen Showing Evidence of Significant Genomic Flux
Figure 4
Genetic organisation of the C. rodentium prophages showing transcriptionally active genes.
The genomes of each of the five intact prophages in the C. rodentium genome are shown aligned with mapped sequence reads for the whole genome transcriptome. The prophage remnant CRPr20 is also included due to its high similarity to CRP38 and the difficulty in mapping repetitive sequences. The RNA-seq data are represented as a plot showing the depth of sequences mapped to the forward strand (blue) and reverse strand (red) above each genome (window size = 200 bp). The majority of prophage genes, including those predicted to encode phage structural and lysis genes (see key), are expressed. Putative cargo genes can be identified by their relatively high levels of expression (numbered CDSs; see Table 4 for details). The scale bar indicates genome length. This figure was produced using Easyfig [67] and Artemis [68].