Additional file 5: of Amplified fragment length polymorphism and whole genome sequencing: a comparison of methods in the investigation of a nosocomial outbreak with vancomycin resistant enterococci

Figure S3. Alignment of the assembled contigs of isolates containing the vanB gene cluster. Aligned are contigs from the outbreak isolates, the unrelated isolates U02–1 and U03 and NCBI isolates KF823968.1, VRE1400294 and E8022. Zoomed in is the vanB gene cluster only. SNPs are indicated by black lines. The vanB gene clusters of the outbreak isolates have only 8 SNPs difference with the vanB gene cluster of non-outbreak isolates U02–1 and U03 (ST80), illustrating the close relatedness of circulating VRE-isolates. Although the sub-cluster isolates H01 and S08 are 1 SNP apart from the index, the regions flanking the vanB gene are highly similar to the other outbreak clones and dissimilar to the unrelated isolates VRE1400294 and E8022, supporting inclusion of these isolates in the main outbreak cluster. Alignment was performed with mafft version 3.307 and visualized with Geneious v. 11.04. (PNG 219 kb)