Table 1 Characteristics and Simpson’s diversity (SD) of sequence types (STs) and plasmid replicon profiles of E. coli (n = 1,343) and E. coli with typeable ESC-R gene-carrying plasmids (n = 313) harbouring the five major ESC-R genes
Main ESC-R gene genome dataset | Typeable ESC-R plasmids subset | ||||||||
|---|---|---|---|---|---|---|---|---|---|
Main ESC-R gene | # of isolates (% of total 1,343)a | SD of STs (95% CI)a | SD of plasmid replicon profiles (95% CI)a | Ratio of plasmid/ST diversitya | # of typeable plasmidsb | SD of STs (95% CI)b | SD of plasmid replicon profiles (95% CI)b | Ratio of plasmid /ST diversityb | Inference of transmissionb |
blaCTX-M-1 | 414 (30.8%) | 29.35 (27.53–34.39) | 79.04 (66.64–99.11) | 2.69 | 136 | 21.86 (19.07–29.03) | 1.20 (1.20–1.32) | 0.05 | Dominant plasmid [IncI1 pST3] |
blaCTX-M-15 | 418 (31.1%) | 3.24 (3.23–3.74) | 72.88 (62.31– 94.27) | 22.49 | 23 | 3.66 (3.37–6.68) | 5.81 (4.94–8.31) | 1.59 | Dominant ST [ST131] |
blaCMY-2 | 188 (14.0%) | 17.94 (16.53–23.90) | 145.71 (93.26–198.16) | 8.12 | 88 | 18.12 (15.3–26.14) | 3.10 (3.05–3.74) | 0.17 | Diverse plasmids |
blaCTX-M-14 | 183 (13.6%) | 25.56 (22.64–30.89) | 73.61 (52.91–106.33) | 2.88 | 40 | 23.79 (15.39–35.63) | 2.37 (2.32–2.81) | 0.10 | Dominant plasmid [IncF F2:A-:B-] |
blaSHV-12 | 140 (10.4%) | 33.90 (27.61–43.16) | 81.88 (52.13–112.92) | 2.42 | 26 | 10.46 (7.86–22.18) | 5.83 (5.05–8.91) | 0.56 | Diverse plasmids in a common ST [ST117] |
