Table 1.
Main characteristics of CEG-carrying ICEs described in this study
| ICE family | Type of integrase | CEG | N° strains | ST | Country1 | Isolation source2 | CONJscan T4SS type3 | Size range (if complete, kb)4 | GC range (if complete, %)5 | CEG within a class I integron | CEG within a transposon | Other ARG6 | References |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| Tn4371 | Shufflon-specific DNA recombinase Rci and Bacteriophage Hp1-like | bla NDM-1 | 11 | 308 | Singapore | Urine, foot wound swab, endotracheal tube aspirate | T | 73.7 | 64.7 | No | Yes (ISCR24 composite) | ∆ble, ∆blaPME-1 | [50], this study |
| blaSPM-1 (as single or double copy | 11 | 277 | Brazil | Urine, bloodstream, tracheal aspirate, catheter tip, NA | T | 43.8–57.7 | 64.9–65.6 | No | Yes (ISCR4 composite) | None | [51, 52], this study | ||
| blaKPC-2 (double copy) | 1 | NA | USA | Wastewater | T | 61.2 | 59.2 | No | Yes (complex transposon) | blaSHV-12, qnrB19 | [81], this study | ||
| ICEclc | Bacteriophage P4 | bla IMP-13 | 10 | 621 | Italy, India | Urinary tract infection, respiratory sample, blood | G | NA | NA | Yes | Yes (Tn3-like) | aacA4-C329, sul1 | [82], this study |
| bla GES-5 | 4 | 235 | Australia | Rectal swab, blood culture, hospital ward, hospital gel hand wash | G | 92.8 | 61.9 | Yes | Yes (Tn3-like) | aacA4r15, gcuE15, aphA15, sul1 | [47], this study | ||
| bla VIM-2 | 4 | 111, 235 | Portugal, UK | Urine, bronchial aspirate, NA | G | 83.4–88.9 | 62.0 | Yes | Yes (Tn3-like) | aacC2b, aacA7, aacC1, aacA4-C329, sul1 | [49, 57], this study | ||
| bla IMP-1 | 3 | 111, 357, 1285 | Japan, UK | Midstream urine, NA | G | 76.2–96.4 | 61.9–62.3 | Yes | Yes (Tn3-like) | ∆aacA4-C329, aadB, aacA28, aadA1a, cmlA9, tet(G), sul1 | [54, 57], This study | ||
| bla DIM-1 | 1 | 1047 | Nepal | Urinary catheter | G | 88.7 | 62.8 | Yes | Yes (IS6100 composite) | dfrB5, ∆aacA4-C329, rmtF, catB12 | This study | ||
| bla GES-6 | 1 | 235 | Portugal | Urine | G | 86.6 | 63.0 | Yes | Yes (defective Tn402-like) | aacA7, sul1 | [48] | ||
| bla IMP-14 | 1 | 2613 | NA | NA | NA | NA | NA | Yes | Yes (IS6100 composite within a Tn3-like) | aadB, blaOXA-10-A, aacA4-T329, sul1 | This study | ||
| bla VIM-1 | 1 | 111 | Italy | Blood | G | NA | NA | Yes | Yes (Tn3-like) | aacA4-C329, blaOXA-2, gcu10, aadA13, sul1 | [82], this study |
ARG Antibiotic resistance genes, ICE Integrative and conjugative element, NA Not available, ST Sequence type
1NA is shown when the country information was not provided by sequence authors;
2NA is shown when the isolation source was not provided by sequence authors;
3NA is shown when no output was obtained by the platform or the conjugative module system was incomplete due to contig fragmentation;
4,5NA is shown when the ICE sequence was incomplete due to contig fragmentation or delimitation of the entire element was not successful;
6Representation of total ARG associated with the same CEG; a given strain harbouring the referred CEG may not present all ARG here reported;
∆ represents incomplete genes