Table 4. Genomic characteristics of hybrid sequenced Escherichia coli isolates and plasmid replicons from barnacle geese.
| Isolate
( E. coli MLST) |
Sampling
period |
Number
of total contigs |
ESBL-
plasmid (replicon; pMLST) |
bla gene(s)
on ESBL- plasmid |
Other
resistance genes on ESBL- plasmid |
Virulence
genes on ESBL- plasmid |
Phenotype a | Other plasmid
replicons in isolate |
Other
resistance genes in isolate |
Other virulence genes in
isolate |
|---|---|---|---|---|---|---|---|---|---|---|
| H5
(ST359) |
Fall | 6 | pZPK-H5
(IncI1; ST38, CC-3) |
bla CTX-M-1 | floR | cia | ESBL | IncFIB,
IncFIC(FII), IncFII(29) |
mdf(A), aph(6)-
Id, aph(3″)-Ib, sul2, dfrA |
astA, cea, etsC, gad, hlyF,
iroN, iss, iucC, iutA, lpfA, ompT, sitA, terC, traT, tsh |
| H11
(ST58) |
Fall | 11 | pZPK-H11
(IncN+IncR; IncN: ST1) |
bla CTX-M-1 |
qnrS1,
aadA2b, lnu(F) |
– | ESBL | IncFIB, IncFII,
IncFII(pCoo), IncQ1 |
mdf(A), aph(6)-
Id, aph(3")-Ib, dfrA5, sul2, tet(A) |
cea, cia, cvaC, etsC, fyuA,
gad, hlyF, iroN, irp2, iss, iucC, iutA, lpfA, mchF, ompT, sitA, terC, traT, tsh |
| H21
(ST115) |
Fall | 9 | pZPK-H21
(IncK) |
bla CMY-2, bla TEM-32 | – | traT | AmpC | Col156,
Col8282, IncFIB, IncFII, IncFII |
mdf(A) |
air, celb, chuA, cia, eilA, etsC,
gad, hlyF, hra, iha, iss, iucC, iutA, kpsE, kpsMII_K5, mcbA, ompT, papC, sitA, terC, traT |
| H29
(ST453) |
Fall | 3 | pZPK-H29
(IncY) |
bla
CTX-M-15,
bla TEM-1B |
qnrS1, aph(6)-
Id, aph(3")-Ib, sul2, dfrA14, tet(A) |
– | ESBL | – |
dfrA1, mdf(A),
aadA1, tet(A) |
fyuA, gad, irp2, iss, kpsE,
kpsMIII_K10, lpfA, papC, sitA, terC |
| H58
(ST1594) |
Fall | 20 | pZPK-H58
(IncK) |
bla CMY-2 | – | traT | AmpC | Col8282,
ColpVC |
mdf(A) |
astA, celb, gad, gad, hra,
iha, iss, iucC, iutA, kpsE, kpsMII, ompT, sitA, terC |
| H68B
(ST3580) |
Fall | 3 | – | Chromosomal
point mutation in AmpC promoter |
– | – | AmpC | IncFIA, IncFIB,
IncFIC(FII), IncFII(pHN7A8) |
mdf(A), tet(A) |
cba, cma, etsC, gad, hlyF,
iroN, iss, iucC, iutA, lpfA, ompT, sitA, terC, traT, tsh |
| H98
(ST453) |
Fall | 3 | pZPK-H98
(IncY) |
bla
CTX-M-15,
bla TEM-1B |
qnrS1, aph(6)-
Id, aph(3")-Ib, sul2, dfrA14, tet(A) |
– | ESBL | – |
dfrA1, mdf(A),
aadA1, tet(A) |
fyuA, gad, irp2, iss, kpsE,
kpsMIII_K10, lpfA, papC, sitA, terC |
| H163
(ST2178) |
Spring | 9 | pZPK-H163
(IncI1; ST23, CC-2) |
bla CMY-2 | – | cia | AmpC | ColpVC, IncFIB,
IncFII |
mdf(A) |
cif, eae, espA, espF, espJ,
gad, iss, lpfA, nleB, sepA, terC, tir |
| H193
(ST2178) |
Spring | 4 | pZPK-H193
(IncI1; ST23, CC-2) |
bla CMY-2 | – | cia | AmpC+ESBL | ColpVC, IncFIB,
IncFII |
mdf(A) |
cif, eae, espA, espF, espJ,
gad, iss, lpfA, nleB, sepA, terC, tir |
CC = clonal complex; ESBL = extended-spectrum beta-lactamase; MLST = multilocus sequence type; pMLST = plasmid multilocus sequence type.
a Based on phenotypic tests.