Figure 2. Maximum-parsimony tree of 11 human isolates of Salmonella enterica serovar Typhimurium ST36 based on core-genome SNP analysis with an internal de novo assembled ST36 genome as the reference genome in an outbreak investigation of Salmonella Typhimurium and its monophasic variants, Denmark. Branches are labeled with number of SNP differences. One outbreak (outbreak A) was included. Isolates highlighted in blue belong to outbreak A as previously defined by MLVA; isolates inside the dotted circle are outbreak isolates as defined by the SNP analysis. MLVA, multilocus variable-number tandem-repeat analysis; SNP, single-nucleotide polymorphism; ST, sequence type.