Table 1:
Final assembly of XDR K. pneumoniae isolates and location of antibiotic resistance genes
| Isolate | ST | Contig | Length (bp) | Coverage | Contig ID* | Resistance genes** |
|---|---|---|---|---|---|---|
| 1_GR_13 | 147 | 1 | 5,181,675 | 1 | C | blaSHV-11, fosA, oqxA, oqxB |
| 2 | 192,771 | 1.95 | P: IncA/C2 | aadA1, ant(2'')-Ia, aph(6)-Id, ARR-2, blaOXA-10, blaTEM-1B, blaVEB-1, cmlA1, dfrA14, dfrA23, rmtB, strA, sul1, sul2, tet(A), tet(G) | ||
| 3 | 168,873 | 2 | P: IncFIBpKpn3, IncFIIpKP91 | aadA24, aph(3')-Ia, aph(6)-Id, dfrA1, dfrA14, strA | ||
| 4 | 108,879 | 1.53 | P: IncFIBpKPHS1 | |||
| 5 | 55,018 | 14.10 | ||||
| 6 | 53,495 | 2.36 | P: IncR, IncN | aadA24, aph(3')-Ia, aph(6)-Id, blaVIM-27, dfrA1, mph(A), strA, sul1 | ||
| 2_GR_12 | 258 | 1 | 5,466,424 | 1 | C | blaSHV-11, fosA, oqxA, oqxB |
| 2 | 197,872 | 1.3 | P: IncFIBpKpn3, IncFIIK | aadA2, aph(3')-Ia, catA1, dfrA12, mph(A), sul1 | ||
| 3 | 175,636 | 1.49 | P: IncA/C2 | aadA1, ant(2'')-Ia, aph(3'')-Ib, aph(6)-Id, ARR-2, blaOXA-10, blaTEM-1A, blaVEB-1, cmlA1, dfrA14, dfrA23, rmtB, sul1, sul2, tet(A), tet(G) | ||
| 4 | 95,481 | 1.61 | P: IncFIBpQil | blaKPC-2, blaOXA-9, blaTEM-1A | ||
| 5 | 43,380 | 1.91 | P: IncX3 | blaSHV-12 | ||
| 6 | 13,841 | 4 | P: ColRNAI | aac(6')-Ib, aac(6')Ib-cr | ||
| 16_GR_13 | 11 | 1 | 5,426,917 | 1 | C | blaSHV-11, fosA, oqxA, oqxB |
| 2 | 187,670 | 0.88 | P: IncFIBpKpn3; IncFIIK | aac(3)-IIa, aac(6')Ib-cr, aadA2, aph(3')-Ia, blaCTX-M-15, blaOXA-1, catB4, dfrA12, mph(A), sul1 | ||
| 3 | 155,161 | 0.99 | P: IncA/C2 | aadA1, ant(2'')-Ia, aph(3'')-Ib, aph(6)-Id, ARR-2, blaOXA-10, blaTEM-1B, blaVEB-1, cmlA1, rmtB, sul1, sul2, tet(A), tet(G) | ||
| 4 | 63,589 | 1.49 | P: IncL/MpOXA-48 | blaOXA-48 | ||
| 5 | 5,234 | 188.49 | ||||
| 6 | 4,940 | 97.77 | P: ColRNAI | |||
| 20_GR_12 | 258 | 1 | 5,395,894 | 1 | C | blaSHV-11, fosA, oqxA, oqxB |
| 2 | 170,467 | 1.77 | P: IncFIBpKpn3; IncFIIK | aph(3')-Ia, blaKPC-2, blaOXA-9, blaTEM-1A | ||
| 3 | 50,979 | 1.42 | P: IncN | aph(3'')-Ib, aph(6)-Id, blaTEM-1A, dfrA14, sul2, tet(A) | ||
| 4 | 43,380 | 1.78 | P: IncX3 | blaSHV-12 | ||
| 5 | 13,841 | 10.82 | P: ColRNAI | aac(6')-Ib, aac(6')Ib-cr |
*
Contig ID represents chromosome (C) or plasmid (P): replicon determined via PlasmidFinder 1.3.
**
Resistance genes identified using ResFinder 3.0 (≥90% sequence similarity, ≥60% minimum length) and displayed in alphabetical order. Boldface indicates a circular contig.