Figure 4. The antimicrobial resistance genes (ARGs) carried by S. Gallinarum.

(a) The phylogenetic tree was constructed using core-genome single nucleotide polymorphism sites (cgSNPs), revealing three S. Gallinarum biovars: S. Gallinarum biovar Pullorum (bvSP), S. Gallinarum biovar Duisburg (bvSD), and S. Gallinarum biovar Gallinarum (bvSG). Additionally, Salmonella serovar Enteritidis (SE) is represented by a gray line. Further, bvSP can be subdivided into five lineages: fuchsia (L1), orange (L2a), pink (L2b), red (L3b), and green (L3c). The heatmap on the right indicates the resistome carried by the corresponding Salmonella. (b) The dominant resistome types in different regions of China. The y-axis represents the percentage of each dominant resistome. The total sample size for each bar is indicated at the top. (c) The average number of resistome carried by bvSP is from different regions of China.

Figure 4—figure supplement 1. The carriage of four predominant mobilome.

(a) The phylogenetic tree of S. Gallinarum was constructed using core-genome single nucleotide polymorphism sites (cgSNPs), with distinct colors representing each S. Gallinarum biovar; Salmonella serovar Enteritidis (SE) is depicted in gray. Furthermore, different colors are assigned to represent various lineages of bvSP: fuchsia for L1, orange for L2a, pink for L2b, red for L3b, and green for L3c. Heatmaps on the right side illustrate the presence of integrons, transposons, plasmids, and prophages carried by the corresponding Salmonella strains. (b) Predominant types of mobilomes prevalent among bvSP are depicted. The x-axis of the bar graph illustrates the top four mobilome types in bvSP based on the total count within each category.

Figure 4—figure supplement 2. Types of predominant mobile genetic elements carried by various regions.

(a–d) presents integron, transposon, plasmid, and prophage, respectively.