Fig. 1

Sequence homology of the 44 scaffolds of R. ruber strain Chol-4 genome assembly (in orange) with the genome of closely related Rhodococcus bacteria. In a the comparison with the chromosome of its closest relative, R. pyridinivorans (in purple). R. ruber strain Chol-4 scaffolds are ordered and oriented according to their probable genomic location assuming a high level of synteny between these two microorganisms. The internal blue edges indicate regions of sequence homology above 70% with a minimum length of 0.5 kb. Scaffold order and orientation were computed to minimize de number of cross-overs among edges. In b comparison with the chromosomes and extrachromosomic elements of R. pyridinivorans (purple), R. equi (green), R.jostii (red) and R. opacus (blue). This color code is also use for the internal edges indicating regions of sequence homology above 70% with a minimum length of 0.5 kb. For simplicity, only the homology with extrachromosomal elements is shown. R. ruber strain Chol-4 genome scaffolds are ordered according to their length. Many of the sequences found in the large plasmids pPYR02 (R. pyridinovorans), pVAPA1037 (R. equi), pRHL1–3 (R. jostii) and pROB01–02 (R. opacus), are also present in the genome of R. ruber strain Chol-4. In both A and B, the small font numbers outside the scaffolds indicate their internal coordinate, in kb. The large font numbers indicate the chromosome, plasmid or scaffold names as they appear in the original GenBank entries