BoNT/E9 extracted from culture supernatants of strain CDC66177 was subjected to tryptic digestion and the products were analyzed by mass spectrometry to confirm that the toxin’s amino acid sequence was indeed unique based on the predicted translation of the DNA sequence. The amino acid sequence of

BoNT/E9 was determined with 94.5% coverage (Figure 3B). DNA microarray analysis of strain CDC66177 A Group II C. botulinum subtyping DNA microarray [16] was used to evaluate gene content in a panel of 21 Group II CB-839 research buy strains from the CDC culture collection. Briefly, this array featured 495 probes targeting ~15% of the annotated genes in the C. botulinum type E strain Alaska E43 and 5 additional probes targeting genes present on the bont/B-encoding plasmid (pCLL) in C. botulinum type B strain 17B. Genomic DNA isolated from 15 type E strains (not including KPT 330 CDC66177) hybridized with 90.5% of the probes on this array while DNA isolated from type B strains (N=4) and type F strains (N=2) hybridized with 71.9% and 71.0% of the probes, respectively. Genomic DNA from strain CDC66177 hybridized with 66.8% of the probes present on the array. Comparison of the profile of present or absent genes demonstrated the presence of two clusters of strains (Figure 4). Cluster 1 consisted entirely of type E strains. Interestingly, strain CDC66177 grouped with cluster 2 which included the Group II type

QNZ clinical trial B and type F strains examined in this study. Figure 4 Microarray analysis of Group II C. botulinum strains. Microarray hybridization profiles of Group II type B, E, and F strains were compared with a enough UPGMA dendrogram. Type E strains are shown in red, type B strains are shown in blue, and type F strains are shown in green. Cluster 1 consists

entirely of type E strains, however, strain CDC66177 groups with Cluster 2. Southern hybridization of the split rarA gene in strain CDC66177 In order to determine if the toxin gene cluster in CDC66177 inserted into the rarA operon as described for other type E strains [11, 13], we performed Southern hybridization using a probe that binds to the larger split rarA gene fragment in type E strains or the intact rarA gene in the type B strain 17B. Genomic DNA isolated from CDC66177, Beluga, and 17B was digested with XbaI and hybridized with the probe. The presence of XbaI sites flanking the intact rarA gene in strain 17B generated a ~2.8 kb fragment that hybridized the rarA probe shown in Figure 5. A ~7.4 kb fragment hybridized with the rarA probe in DNA isolated from strain Beluga. These results were expected based on analysis of the C. botulinum type E strain Beluga genome sequence (Genbank accession number: ACSC01000002) which demonstrated the presence of separate XbaI sites flanking the larger split rarA than found at the corresponding intact rarA gene in strain 17B (Genbank accession number: NC_010674).