TABLE 1
Characteristics of the genome of E. coli strain PK6 from Cuba
| Genetic element | Sequence name | Assembly size (bp) | G+C content (%) | Multiplicity (k)a | Incompatibility group (plasmids)b | Antimicrobial resistance mechanismsc |
|---|---|---|---|---|---|---|
| Chromosome | PK6CUB-RH_CHR | 4,726,526 | 50.8 | 1.00 | NA | QnrB19, TEM-1B, Tet(B), GyrA (S83L), ParC (S80I) |
| Plasmid 1 | pRHEcCUB-1 | 42,683 | 48.5 | 1.30 | IncX1 | AadA1, AadA2, CmlA1, DfrA12, QacH2, Sul3 (In640); CTX-M-32 |
| Plasmid 2 | pRHEcCUB-2 | 12,602 | 45.5 | 2.94 | NI | |
| Plasmid 3 | pRHEcCUB-3 | 4,593 | 50.4 | 13.53 | NI | |
| Plasmid 4 | pRHEcCUB-4 | 2,724 | 47.7 | 4.14 | NI |
aMultiplicity was calculated using Unicylcler to distinguish between the single-copy contig (k = 1) and the multiple contigs (k > 1) (3).
bNA, not applicable; NI, not identified using PlasmidFinder (v2.0) (6).
cAntimicrobial resistance mechanisms were AadA1 and AadA2, streptomycin/spectinomycin adenylyltransferases; CmlA1, chloramphenicol efflux protein; CTX-M-32, extended-spectrum β-lactamase for cephalosporin resistance; DfrA12, trimethoprim-resistant dihydrofolate reductase; GyrA (S83L) and ParC(S80I), serine-to-leucine substitution at position 83 in topoisomerase II (GyrA) and serine-to-isoleucine substitution at position 80 in topoisomerase IV (ParC) for high-level resistance to fluoroquinolones; QacH2, quaternary ammonium compound exporter protein; QnrB19, DNA gyrase protection protein for low-level resistance to fluoroquinolones; Sul3, sulfonamide-resistant dihydropteroate synthase; TEM-1B, β-lactamase; Tet(B), tetracycline efflux protein; and In640, integron containing the qacH2, aadA1, aadA2, cmlA1, and dfrA12 genes as determined using the INTEGRALL database.