Genome sequence analyses of C. showae tumor strain CC57C. (A) Sequence alignments between the assemblies of the CRC tumor-associated C. showae CC57C genome and that of its closest known relative reference, C. showae RM3277. Velvet contigs from the CC57C strain were aligned to the HMP reference strain (NCBI Reference Sequence: NZ_ACVQ00000000.1) using cross_match (http://www.phrap.org), ordered and oriented based on the sequence alignments. The black and grey rectangles represent each genome sequences and indicate the absence and presence of alignments, in that order. Co-linear and inverted sequence alignment blocks are shown in blue and pink, respectively. In average, the CC57C genome assembly is 92.5% identical to that of the RM3277 strain, with 85.4% sequence coverage (represented by the dark blue and lack of bars in the histogram above the alignment, respectively). (B) Gene organization of the type IV secretion system (T4SS) operon in A. tumefaciens (plasmid pTiAB2/73 vir region AF329849), H. pylori strain 26695 (NC_000915.1), C. rectus (NZ_ACFU0100008) and C. showae CC57C (AOTD01000166). Components of the T4SS found in the CC57C strain are color-coded in other organisms and include VirB4 (red), VirB8 (blue), VirB9 (green), VirB10 (orange), VirB11 (yellow) and VirD4 (purple). Other annotated genes within the CC57C operon and with homologs in C. rectus are shown using a dark grey scale. Annotated genes in C. rectus, H. pylori and A. tumefaciens are shown in light grey. Hypothetical protein coding genes are depicted in white. CC57C contig AOTD01000166 with the T4SS shown in (B) does not have any similarity to the C. showae RM3277 strain and thus is not represented in the alignment shown in (A).