Fig. 1

Phylogenetic tree depicting relationship between 912 groups of genomes representing 13,612 serovar I 4,[5],12:i:- strain sequences from the NCBI Pathogens database compared to genome sequences of Salmonella serovar I 4,[5],12:i:- (TW-STM6, USDA15WA-1, L-4234, and SO4698–09), serovar Typhimurium (LT2 and SL1344), and serovar Enteritidis (92–0392) reference strains. The number of cluster representatives in clades 1, 2, and 3 was 447, 96, and 364, respectively. Successive rings on the tree from outside to inside were propagated from metadata in Supplemental Table 1 and indicate continent of origin (continent), source (source), percent presence of specific genetic elements (sopE gene (targ_presence_SO4698_sopE_mTmV), MDR module (targ_presence_MDR), and SGI-4 (targ_presence_SGI4)), and accessory genome cluster. The center area of the figure indicates strain sequences associated with clades 1 (blue), 2 (purple), and 3 (green)