Fig. 5
From: Comparative genomic analyses reveal broad diversity in botulinum-toxin-producing Clostridia
Group I core genome phylogeny. Core genome phylogeny of C. botulinum Group I inferred with RAxML v8.1.1 [63] using the ASC_GTRGAMMA model on an alignment of 200,641 core genome SNPs produced with NASP [61] using C. botulinum strain Kyoto-F [GenBank:CP001581] as a reference genome. The consistency index is 0.57, and the retention index is 0.91. Gray circles indicate bootstrap values over 95 %. The phylogeny was rooted with the clade that includes Clostridium sporogenes and C. botulinum B serotypes (bottom of Figure) using FigTree [55]. Strains are color-coded by botulinum neurotoxin serotype. Additional information regarding bont gene cluster characteristics is included in Table 1