Table 2.
Characteristics of the PacBio-sequenced genome assembly of E. coli strain YDC107.
| Contig | Description | Sequence length (bp) | GC% | Plasmid Inc-typesa | Resistance genesb | GenBank accession no. |
|---|---|---|---|---|---|---|
| YDC107 | chromosome | 5,198,311 | 50.63 | NA | none | CP025707 |
| pYDC107_184 | plasmid (complete) | 184,098 | 51.42 | IncFIA(AP001918), IncFIB(AP001918), IncFII(AY458016) | mrx, aadA5, tet(D), sul2, aac(3)-IIa, blaTEM-1, mphA, sul1, aph(6)-Id, tet(A), dfrA14, aph(3″)-Ib, ermB | CP025708 |
| pYDC107_85 | plasmid (incomplete) | 85,535 | 49.68 | IncI1 | bla CMY-44 | CP025709 |
| pYDC107_70 | plasmid (complete) | 70,372 | 53.34 | IncN | blaKPC-3, blaOXA-9, blaTEM-1, sul2, aadA, aac(6′)-Ib, aph(3″)-Ib, aph(6)-Id, dfrA14 | CP025710 |
| pYDC107_41 | plasmid (complete) | 41,544 | 45.34 | IncP-1-like trfA | none | CP025711 |
| YDC107_phage1 | phage | 46,701 | 49.89 | NA | none | CP025712 |
| YDC107_phage2 | phage | 18,617 | 47.27 | NA | none | CP025713 |
aThe incompatability type (Inc-type) of each plasmid. NA indicates the inc-typing was not applicable for the chromosome and phage contigs. pYDC107_41 was not predicted to have an inc-type using PlasmidFinder; however, the annotation contained an IncP-1-like trfA replication gene.
bThe antibiotic resistance genes identified on each plasmid. Efflux pumps or mutation-associated resistance genes were also identified on the chromosome that are not shown.