Fig. 6: The core SNP tree shown in the circular.
The tip text for cattle, pig, and pig production environment isolates is print in black, blue, and red, respectively. The format is “isolate id—year of collection” for cattle isolates and “isolate id –associated farm (if available) –associated plant (if available)-year of collection” for pig and environment isolates, respectively. The seven phylogenetic groups formed by pig and environment isolates are highlighted with different colors and labeled with text. The presence of Shiga toxin-producing genes stx1a, stx2a, and stx2c is shown as a red, black, and green star, respectively. The resistance to classes of antibiotics for each isolate, including aminoglycoside, beta-lactam, phenicol, sulfonamide, tetracycline, and trimethoprim, is shown as a red, black, dark blue, light blue, orange, and purple circle, respectively.
