TABLE 4

Distribution of replicons identified among 49 whole-genome-sequenced Salmonella Typhimurium isolates by using the PlasmidFinder Web server

RepliconaIsolate(s) with replicon (% identity)b
Col(RNAI)S2* (91.7), S4* (89.4), S8* (91.3), S9* (95.0), S11* (89.4), S16* (89.4), S17* (91.2), S18* (89.4), S19* (90.4), S20* (90.4), S32* (89.4), S33* (91.5), S37* (92.0), S39* (95.1), S40* (91.2), S41* (91.5), S43* (91.6), S44 (100), S45* (89.36), S47* (91.5), S50* (92.7)
Q1S3 (100), S6 (100), S8 (100), S9 (100), S12 (100), S20 (100), S21 (100), S22 (100), S24 (100), S26 (100), S27 (100), S28 (100), S29 (100), S30 (100), S34 (100), S36 (100), S38 (100), S44 (100)
FIB(S)S1 (99.8), S2 (100), S4 (99.8), S11 (100), S13 (100), S16 (99.8), S32 (99.8), S33 (100), S40 (100), S41 (100), S45 (99.8), S47 (100), S50 (100)
FII(S)S1 (100), S2 (100), S4 (100), S11 (100), S13 (100), S16 (199), S32 (100), S33 (100), S40 (100), S41 (100), S45 (100), S47 (100), S50 (100)
Col(pVC)S11 (100), S33* (99.2), S41* (100), S47* (100), S50 (100)
Col(8282)S5 (100), S6* (91.4), S22* (91.4), S30* (91.4), S38* (91.4)
I1S13 (100), S25 (99.3), S31 (99.3)
FIA(HI1)S25 (100), S36 (100), S38 (100)
HI1AS25 (99.8), S36 (99.8), S38 (99.8)
HI1B(R27)S25 (100), S36 (100), S38 (100)
X1S1 (98.9), S28 (98.7)
X4S28 (100), S37 (99.7)
COL(156)S39 (94.8), S40 (94.8), S49* (95.1)
F1AS49 (100)
FII(pCoo)S49 (96.2)
F(AP001918)S48 (97.7)
FII(pHN7A8)S48 (97.3)
HI1A(CIT)S14 (100)
HI1B(CIT)S14 (99.0)
HI2S39 (100)
HI2AS39 (100)
Col(BS512)S2* (100)
  • a Replicon types matching the probes in the PlasmidFinder database. Subvariants of replicons are given in parentheses.

  • b Isolate names are given in boldface if more than one replicon was identified on the same contig, indicating colocalization of the replicons on the same plasmid. Hits not in full length are marked with an asterisk. No replicons were identified in strains S7, S10, S15, S23, S42, and S46.