Table 1. Assembled genomes and acquired antibiotic resistance genes.
| Strain | Scaffold ID | Length | Illumina coverage | Incompatibility group | MPF family* | MOB family† | Other T4SS genes | Acquired antibiotic resistance genes ordered including duplications‡ |
|---|---|---|---|---|---|---|---|---|
|
Ps. aeruginosa
CCUG 70744 |
Chromosome | 6.86 Mb | 68× | – | – | – | – | – |
|
E. coli
CCUG 70745 |
Chromosome | 5.07 Mb | 75× | – | – | – | blaCTX-M-15#, blaCMY-6, blaCMY-6 | |
| pEco70745_1 | 107 kb | 86× | IncFIA, IncFIB, IncFII |
F | F | t4cp2 | tet(B), blaOXA-1#, aac(6′)-Ib-cr#, [dfrA17, ant(3″)-I], sul1, aph(6)-Id#, aph(3″)-Ib, aph(6)-Id, mph(A)#, erm(B) | |
| pEco70745_2 | 44 kb | 102× | IncX3 | T | P | t4cp1, t4cp2, virB4 | blaNDM-7# | |
| pEco70745_3 | 3.6 kb | 828× | – | – | – | – | – | |
| pEco70745_4 | 1.9 kb | 916× | – | – | – | – | – | |
| pEco70745_5 | 1.8 kb | 704× | ColpVC | – | – | – | – | |
| pEco70745_6 | 1.5 kb | 392× | – | – | – | – | – | |
| K. pneumoniae CCUG 70742 | Chromosome | 5.26 Mb | 69× | – | – | – | – | – |
| pKpn70742_1 | 65 kb | 191× | IncR | – | – | – | dfrA14, tet(A), [aac(6′)Ib-cr, blaOXA-1], blaCTX-M-15, blaTEM-1, aph(6)-Id#, aph(3″)-Ib, sul2 | |
| pKpn70742_2 | 63 kb | 55× | IncL/M | I | P | t4cp1, t4cp2, traU | blaOXA-48# | |
| pKpn70742_3 | 4.4 kb | 861× | – | – | – | – | – | |
| pKpn70742_4 | 1.9 kb | 1093× | ColpVC | – | – | – | – | |
|
Pr. mirabilis
CCUG 70746 |
Chromosome | 3.91 Mb | 103× | – | – | – | – | – |
| pPmi70746_1 | 192 kb | 189× | IncA/C2 | F | H | t4cp1, t4cp2, virB4 | sul1, [ant(3″)-I, dfrA12], mph(E), msr(E), armA, sul1, blaNDM-1#, aph(3′)-VIa, {1}, sul1, blaNDM-1#, aph(3′)-VIa, {1}, sul1, blaNDM-1#, aph(3′)-VIa, {1}, sul1, [blaOXA-10, cmlA5, ARR-2, dfrA14], blaCMY-16#, sul2, aph(3″)-Ib,aph(6)-Id, tet(A), floR, {2} | |
|
A. baumannii
CCUG 70743 |
Chromosome | 3.94 Mb | 111× | – | – | – | – | [aac(3)-Ia], aph(3″)-Ib, aph(6)-Id, tet(B), sul2|| |
| pAba70743_1 | 11 kb | 358× | – | – | – | – | blaOXA-72, blaOXA-72 | |
| A5_NODE_3§ | 1.3 kb | 81× | – | – | – | – | aac(6′)-Im-like | |
|
K. pneumoniae
CCUG 70747 |
Chromosome | 5.22 Mb | 64× | – | – | – | – | – |
| pKpn70747_1 | 186 kb | 71× | IncFIB(K), IncFII | – | – | – | sul1, aac(6′)-Ib, aph(3′)-Ic#, [dfrA1, ant(3″)-Ia#], [ant(3″)-Ia#, dfrA1, blaVIM-1], blaSHV-200 | |
| pKpn70747_2 | 118 kb | 51× | IncFII(K) | F | F | t4cp1, t4cp2, virB4 | blaKPC-2#, blaTEM-1 | |
| pKpn70747_3 | 33 kb | 350× | – | I | – | – | – |
*Genes encoding the membrane-associated mating pair formation (MPF) complex which provides the mating channel for conjugative transfer.
†A set of mobility (MOB) genes essential for conjugative transfer including e.g. a relaxase.
‡Genes annotated in integron gene cassettes are marked by underlining and square brackets, [_]. The position of annotated ISCR elements and their type (1 or 2) are marked with a pair of curly brackets, {}.
§The assembly graph for A. baumannii CCUG 70743 and the best match against GenBank indicated that scaffold A5_NODE_3 was more likely to be a part of the chromosome than a plasmid.
||Genes annotated next to an insertion sequence (<200 bp in between) are marked with a hash.