Table 1.
Epidemiological information for the 47 Salmonella genomes used in this study (source: human).
Figure 1.
WGS typing results for the set of 34 genomes.
(A) pan-genome tree, (B) K-mer tree, (C) nucleotide difference tree and (D) SNP tree. The tested set consists of outbreak-related strains displayed with color label and non-related outbreak strains shown without coloring. The outbreak strains were labeled according to the six different outbreak sources.
Figure 2.
WGS typing results for the set of 47 genomes.
(A) pan-genome tree, (B) K-mer tree, (C) nucleotide difference tree and (D) SNP tree. The labeled color was displayed the same as Figure 1.
Table 2.
Evaluation results.
Figure 3.
Percentage of concordance of k-mer tree on various size of k.
This evaluation was conducted on the set of 34 S. Typhimurium.
Figure 4.
Distribution of SNPs across Salmonella core genes.
Black bars represent number of SNPs at each core gene. Red and green small circles are core genes in the form of DNA and protein sequences respectively. The seven black dots represent house-keeping genes for MLST analysis of Salmonella.
Figure 5.
Minimum and maximum number of SNP difference.
Green shaded bars show the minimum and maximum number of SNP difference between isolates within outbreaks and red shaded bars represent the number of SNP difference between outbreak-related isolates and background isolates.
Figure 6.
This is the average number of SNP difference between strains within outbreaks and between outbreak-related strains and background strains from the four published dataset.