Table 1.
Characteristics of the sequenced strains
|
Strain* |
ST |
Year |
Source |
Hospital |
K locus |
O locus |
No. of resistance genes/ classes |
Resistance gene |
||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
AGM† |
FQ‡ |
Sul§ |
Tet|| |
Trm/ Dfr¶ |
Omp mutants# |
β- Lactamase** |
Carbapene -mase |
ESBL |
||||||||
|
1 390 154 |
ST11.A |
2010 |
Urinary |
C |
KL64 |
O2v1 |
19/9 |
1 |
1, 2, 3 |
I, I*, II |
AD |
A1 |
K35, 36 |
L2, O2 |
KPC-2 |
CTX-M-2 |
|
1 437 318 |
ST11.A |
2010 |
Pulm. |
B |
KL64 |
O2v1 |
21/10 |
– |
1, 2, 3 |
I, I, II |
AD |
A1 |
K35, 36 |
L2, O2 |
KPC-2 |
CTX-M-2 |
|
1 445 551 |
ST11.A |
2010 |
Urinary |
A |
KL64 |
O2v1†† |
22/10 |
– |
1, 2, 3 |
I?, II |
AD |
A1 |
K35, 36 |
L2, O2 |
KPC-2 |
– |
|
1 478 199 |
ST11.A |
2010 |
Wound |
A |
KL64 |
O2v1 |
22/11 |
– |
1, 2, 3 |
I, II |
AD |
A1 |
K35, 36 |
L2, O2 |
KPC-2 |
– |
|
1 485 373 |
ST11.A |
2010 |
Urinary |
A |
KL64 |
O2v1 |
21/10 |
– |
1, 2, 3 |
I, I, II |
AD |
A1 |
K35, 36 |
L2, O2 |
KPC-2 |
CTX-M-2 |
|
1 499 465 |
ST11.A |
2010 |
Urinary |
A |
KL64 |
O2v1†† |
22/11 |
– |
1, 2, 3 |
I, II |
AD |
A1 |
K35, 36 |
L2, O2 |
KPC-2 |
– |
|
1 499 471 |
ST11.A |
2010 |
Tissue |
A |
KL64 |
O2v1 |
20/9 |
– |
1, 2, 3 |
I, I, II |
AD |
A1 |
K35, 36 |
L2, O2 |
KPC-2 |
CTX-M-2 |
|
1 514 041 |
ST11.A |
2010 |
Blood |
C |
KL64 |
O2v1†† |
21/10 |
1 |
1, 2, 3 |
I, I, II |
AD |
A1 |
K35, 36 |
L2, O2 |
KPC-2 |
CTX-M-2 |
|
1 581 721 |
ST11.A |
2011 |
Pulm. |
D |
KL64 |
O2v1 |
21/10 |
1 |
1, 2, 3 |
I, II |
AD |
A1 |
K35, 36 |
L2, O2 |
KPC-2 |
– |
|
1 584 073 |
ST11.A |
2011 |
Blood |
C |
KL64 |
O2v1†† |
21/9 |
– |
1, 2, 3 |
I, I, II |
AD |
A1 |
K35, 36 |
L2, O2 |
KPC-2 |
CTX-M-2 |
|
1 625 271 |
ST11.A |
2011 |
Bone |
A |
KL64†† |
O2v1 |
22/10 |
– |
1, 2, 3, 5 |
I, II |
D |
– |
K35, 36 |
L2, O2 |
KPC-2 |
– |
|
1 780 874 |
ST11.A |
2011 |
Urinary |
A |
KL64 |
O2v1†† |
23/10 |
1 |
1, 2, 3 |
I, I, II |
AD |
A1 |
K35, 36 |
L2, O2 |
KPC-2 |
CTX-M-2 |
|
1 837 343 |
ST11.A |
2011 |
Other |
A |
KL64 |
O2v1 |
22/11 |
– |
1, 2, 3 |
I, II |
AD |
A1 |
K35, 36 |
L2, O2 |
KPC-2 |
CTX-M-2 |
|
1 874 371 |
ST11.A |
2011 |
Blood |
A |
KL64 |
O2v1†† |
22/11 |
1 |
1, 2, 3 |
I, I, II |
AD |
A1 |
K35, 36 |
L2, O2 |
KPC-2 |
CTX-M-2 |
|
1 991 160 |
ST11.A |
2011 |
Blood |
A |
KL64 |
O2v1 |
21/10 |
1 |
1, 2, 3 |
I, I, II |
AD |
A1 |
K35, 36 |
L2, O2 |
KPC-2 |
CTX-M-2 |
|
2 148 012 |
ST11.A |
2011 |
Pulm. |
A |
KL64 |
O2v1†† |
18/8 |
1 |
1, 2, 3 |
I, I, II |
AD |
A1 |
K35, 36 |
L2, O2 |
KPC-2 |
CTX-M-2^ |
|
2 197 811 |
ST11.A |
2012 |
Urinary |
A |
KL64 |
O2v1†† |
20/9 |
1 |
1, 2, 3 |
I, II |
AD |
A1 |
K35, 36 |
L2, O2 |
KPC-2 |
– |
|
2 277 048 |
ST11.A |
2012 |
Pulm. |
A |
KL64 |
O2v1†† |
22/9 |
1 |
1, 2, 3 |
I, I, II |
AD |
A1 |
K35, 36 |
L2, O2 |
KPC-2 |
CTX-M-2 |
|
2 529 179 |
ST11.A |
2012 |
Other |
A |
KL64†† |
O2v1†† |
21/9 |
1, 3, 4 |
1, 2, 3 |
I, I, II |
AD |
A1+ |
K35, 36 |
L2, O2 |
KPC-2 |
CTX-M-2 |
|
2 696 866 |
ST11.A |
2012 |
Urinary |
A |
KL64 |
O2v1 |
22/9 |
1 |
1, 2, 3 |
I, I, II |
AD |
A1 |
K35, 36 |
L2, O2 |
KPC-2 |
CTX-M-2 |
|
2 758 660 |
ST11.A |
2012 |
Pulm. |
A |
KL64†† |
O2v1†† |
22/11 |
1 |
1, 2, 3 |
I, II |
AD |
A1 |
K35, 36 |
L2 |
KPC-2 |
– |
|
3 417 179 |
ST11.A |
2013 |
Pulm. |
G |
KL64 |
O2v1 |
19/9 |
1 |
1, 2, 3 |
I, II |
AD |
A1 |
K35, 36 |
L2, O2 |
KPC-2 |
– |
|
3 538 308 |
ST11.A |
2013 |
Urinary |
G |
KL64 |
O2v1 |
22/11 |
– |
1, 2, 3 |
I, I, II |
AD |
A1 |
K35, 36 |
L2, O2 |
KPC-2 |
CTX-M-2 |
|
3 920 822 |
ST11.A |
2013 |
Blood |
C |
KL64 |
O2v1†† |
19/9 |
1 |
1, 2, 3 |
I, II |
A |
A1 |
K35 |
L2, O2 |
KPC-2 |
– |
|
4 142 680 |
ST11.A |
2013 |
Blood |
KL64†† |
O2v1†† |
22/11 |
1 |
1, 2, 3 |
I, II |
AD |
A1 |
K35, 36 |
L2 |
KPC-2 |
– |
|
|
4 198 906 |
ST11.A |
2013 |
Tissue |
D |
KL64†† |
O2v1†† |
21/10 |
1 |
1, 2, 3 |
I, II |
AD |
A1 |
K35, 36 |
L2 |
KPC-2 |
– |
|
4 213 316 |
ST11.A |
2013 |
Blood |
KL64†† |
O2v1†† |
22/10 |
1 |
1, 2, 3 |
I, II |
AD |
A1 |
K35, 36 |
L2 |
KPC-2 |
– |
|
|
4 285 260 |
ST11.A |
2013 |
Blood |
KL64†† |
O2v1†† |
20/9 |
1 |
1, 2, 3 |
I, II |
AD |
A1 |
K35, 36 |
L2 |
KPC-2 |
– |
|
|
4 285 298 |
ST11.A |
2013 |
Urinary |
KL64†† |
O2v1†† |
20/9 |
1 |
1, 2, 3 |
I, II |
AD |
A1 |
K35, 36 |
L2 |
KPC-2* |
– |
|
|
4 551 627 |
ST11.A |
2013 |
Other |
A |
KL64†† |
O2v1†† |
22/11 |
1 |
1, 2, 3 |
I, II |
AD |
A1 |
K35, 36 |
L2 |
KPC-2 |
– |
|
4 778 856 |
ST11.A |
2013 |
Urinary |
H |
KL64 |
O2v1 |
22/11 |
– |
1, 2, 3 |
I, II |
– |
– |
K35, 36 |
L2, O2 |
KPC-2 |
– |
|
5 375 657 |
ST11.A |
2014 |
Urinary |
G |
KL64†† |
O2v1†† |
22/10 |
1 |
1, 2, 3 |
I, II |
AD |
A1 |
K35, 36 |
L2 |
KPC-2 |
– |
|
6 083 015 |
ST11.A |
2014 |
Wound |
G |
KL64†† |
O2v1†† |
20/9 |
1 |
1, 2, 3 |
I, II |
AD |
A1 |
K35, 36 |
L2 |
KPC-2 |
– |
|
6 181 890 |
ST11.A |
2014 |
Urinary |
G |
KL64†† |
O2v1†† |
17/8 |
1 |
1, 2, 3 |
I, II |
AD |
A1* |
K35, 36 |
L2 |
KPC-2 |
– |
|
6 292 852 |
ST11.A |
2014 |
Urinary |
L |
KL64†† |
O2v1†† |
22/22 |
1 |
1, 2, 3 |
I, II |
AD |
A1 |
K35, 36 |
L2 |
KPC-2 |
– |
|
6 367 646 |
ST11.A |
2014 |
Urinary |
G |
KL64†† |
O2v1†† |
18/9 |
– |
1, 2, 3 |
I, II |
AD |
A1 |
K35, 36 |
L2 |
KPC-2 |
– |
|
1 514 059 |
ST11.B |
2010 |
Blood |
C |
KL27 |
O2v2 |
21/10 |
2, 3 |
1, 2, 4 |
– |
A12 |
– |
T1D |
KPC-2 |
CTX-M-2 |
|
|
1 544 072 |
ST11.B |
2011 |
Urinary |
A |
KL27 |
O2v2†† |
22/11 |
2 |
1, 2, 4 |
– |
– |
– |
O2, T1D |
KPC-2 |
– |
|
|
1 646 000 |
ST11.B |
2011 |
Urinary |
A |
KL27 |
O2v2 |
22/11 |
2, 3, 4 |
1, 2, 4 |
– |
A12 |
– |
O2, T1D |
KPC-2 |
– |
|
|
2 332 977 |
ST11.B |
2012 |
Pulm. |
A |
KL27 |
O2v2 |
22/11 |
2 |
1, 2, 4 |
– |
– |
– |
O2, T1D |
KPC-2 |
– |
|
|
2 391 220 |
ST11.B |
2012 |
Other |
G |
KL27 |
O2v2 |
17/8 |
3 |
1, 2, 4 |
– |
A12 |
K35, 36 |
O2 |
KPC-2 |
CTX-M-2 |
|
|
4 230 080 |
ST11.B |
2013 |
Pulm. |
G |
KL27 |
O2v2 |
21/9 |
2, 3, 4 |
1, 2, 4 |
– |
A12 |
– |
O2, T1D |
KPC-2 |
– |
|
|
4 577 657 |
ST11.B |
2013 |
Urinary |
H |
KL27 |
O2v2 |
21/10 |
3, 4 |
1, 2, 4 |
– |
A12 |
K36 |
– |
KPC-2 |
– |
|
|
5 322 583 |
ST11.B |
2014 |
Urinary |
J |
KL27 |
O2v2 |
17/8 |
2, 3, 4 |
1, 2, 4 |
– |
A12 |
– |
O2, T1D |
KPC-2 |
– |
|
|
6 175 670 |
ST15 |
2014 |
Pulm. |
G |
KL24†† |
O1v1 |
18/8 |
1, 2, 3 |
1, 2, 3, 4 |
II |
D |
A14 |
K35 |
T1D, O+;S |
NDM-1 |
CTX-M-15 |
|
3 099 312 |
ST199 |
2012 |
Blood |
G |
KL154†† |
O2v1 |
22/9 |
1, 2, 3 |
1, 2, 3 |
I, I, II |
AD |
A1+ |
– |
L2, O2, O+, S |
KPC-2 |
CTX-M-2 |
|
1 720 144 |
ST25 |
2011 |
Urinary |
H |
KL2 |
O1v2 |
22/11 |
1, 2, 3 |
– |
I, II |
– |
Ax |
– |
T1D, O |
KPC-2 |
CTX-M-8 |
|
1 897 570 |
ST2655-1LV |
2011 |
Other |
F |
KL7 |
O2v2 |
23/10 |
2, 4 |
– |
I, II |
– |
– |
K36 |
T1D, O+, S |
GES-5 |
CTX-M-8 |
|
1 412 708 |
ST340 |
2010 |
Tissue |
A |
KL15 |
O4 |
18/9 |
1, 2, 3, 4 |
1, 2, 3 |
I, II |
D |
A12 |
– |
L2, T1D |
KPC-2 |
CTX-M-15,8^ |
|
1 414 704 |
ST340 |
2010 |
Tissue |
A |
KL15 |
O4 |
19/9 |
1, 2, 3, 4 |
1, 2 |
I, II |
D |
A12 |
– |
T1D |
KPC-2 |
CTX-M-15 |
|
1 450 421 |
ST340 |
2010 |
Blood |
A |
KL15 |
O4 |
23/11 |
2 |
1, 2, 3 |
I, II |
D |
Ax |
– |
L2, T1D |
KPC-2 |
CTX-M-15 |
|
1 465 945 |
ST340 |
2010 |
Urinary |
A |
KL15 |
O4 |
22/11 |
1, 2, 3 |
1, 2 |
I,II |
D |
A12 |
– |
T1D |
KPC-2 |
CTX-M-15 |
|
1 877 899 |
ST340 |
2011 |
Other |
A |
KL151 |
O4 |
22/11 |
2 |
1, 2 |
– |
D |
Ax |
– |
– |
– |
CTX-M-15 |
|
2 210 477 |
ST340 |
2012 |
Blood |
A |
KL64 |
O4 |
22/11 |
1, 2, 3 |
1, 2, 3, 5 |
I, II |
AD |
A1, A12+ |
– |
L2, O2, T1D, O+ |
KPC-2 |
CTX-M-15,2 |
|
2 703 880 |
ST340 |
2012 |
Pulm. |
A |
KL15 |
O4 |
22/9 |
1, 2, 3, 4 |
1, 2 |
– |
A12+ |
– |
T1D |
KPC-2 |
CTX-M-15 |
|
|
3 049 866 |
ST340 |
2012 |
Pulm. |
G |
KL15 |
O4 |
22/11 |
1, 2, 3, 4 |
1, 2 |
– |
A12+ |
– |
T1D |
KPC-2 |
CTX-M-15 |
|
|
3 049 874 |
ST340 |
2012 |
Urinary |
G |
KL15 |
O4 |
22/11 |
1, 2, 3, 4 |
1, 2 |
– |
A12+ |
– |
T1D |
KPC-2 |
CTX-M-15 |
|
|
3 297 576 |
ST340 |
2012 |
Blood |
G |
KL15 |
O4 |
20/9 |
1, 2, 3, 4 |
1, 2 |
– |
A12 |
– |
T1D |
KPC-2 |
CTX-M-15 |
|
|
4 022 578 |
ST340 |
2013 |
Pulm. |
D |
KL151 |
O4†† |
22/10 |
2, 3 |
1, 2 |
I, II |
– |
A12 |
K36 |
O2 |
KPC-2 |
CTX-M-15 |
|
4 152 813 |
ST340 |
2013 |
Urinary |
G |
KL151†† |
O4 |
21/10 |
2, 3 |
1, 2 |
I, II |
– |
A12 |
– |
O2 |
KPC-2 |
CTX-M-15 |
|
4 281 075 |
ST340 |
2013 |
Wound |
G |
KL15 |
O4 |
21/10 |
3, 4 |
1, 2, 5 |
– |
A12+ |
– |
– |
KPC-2 |
– |
|
|
4 879 999 |
ST340 |
2013 |
Pulm. |
H |
KL151 |
O4 |
18/9 |
2, 3, 4 |
1, 2 |
– |
A12+ |
K36 |
O |
KPC-2 |
CTX-M-8 |
|
|
6 264 345 |
ST340 |
2014 |
Pulm. |
D |
KL15 |
O4 |
19/9 |
1, 2 |
1, 2 |
– |
– |
A14 |
– |
T1D |
KPC-2 |
CTX-M-15 |
|
6 334 725 |
ST340 |
2014 |
Urinary |
A |
KL151 |
O4 |
19/9 |
2, 3 |
1, 2 |
I, II |
– |
A12+ |
– |
– |
NDM-1 |
CTX-M-8 |
|
4 455 550 |
ST37 |
2013 |
Urinary |
H |
KL55 |
OL103 |
23/9 |
2, 3 |
1, 2 |
II |
– |
A12+ |
– |
– |
NDM-1 |
– |
|
4 552 909 |
ST37 |
2013 |
Urinary |
H |
KL55 |
OL103 |
23/11 |
2, 3 |
1, 2, 5 |
I, II |
D |
A12+ |
– |
– |
NDM-1 |
CTX-M-27 |
|
4 941 726 |
ST37 |
2013 |
Urinary |
D |
KL55 |
OL103 |
18/9 |
2, 3 |
1, 2, 5 |
I, II |
– |
A12+ |
– |
– |
NDM-1 |
– |
|
5 240 651 |
ST37 |
2013 |
Urinary |
E |
KL55 |
OL103 |
19/9 |
2, 3 |
1, 2, 5 |
I, II |
D |
A12+ |
– |
– |
NDM-1 |
CTX-M-27 |
|
6 533 645 |
ST37 |
2014 |
Rectal |
K |
KL55 |
OL103 |
19/10 |
2, 3 |
1, 2, 5 |
II |
D |
A12+ |
– |
– |
NDM-1 |
CTX-M-27 |
|
5 700 769 |
ST437 |
2014 |
Blood |
G |
KL36 |
O4 |
20/9 |
2, 4 |
1, 2, 5 |
AD |
Axe‡‡ |
– |
T1D, O+ |
KPC-2 |
CTX-M-15 |
|
*Bold text indicates that these strains encode yersiniabactin on the ybt9 of the integrative and conjugative element ICEKp3.
†AGMs code 1, AphA6; 2, any Aac; 3, any Aad; 4, other Aph ignored StrAB SatA Rmt.
‡FQ, fluoroquinolone-resistance mutations; code 1, GyrA-83I; 2, ParC-80I; 3, Qnr-S1; 4, other GyrA; 5, other Qnr.
§Sulfonamide-resistance: I, SulI; II, SulII.
||Tetracycline-resistance efflux: A, TetA; D, TetD.
¶Trimethoprim.
#Porin mutations that might affect antimicrobial uptake and susceptibility.
**L2, LAP-2; O2, Oxa-2; T1D, TEM-1D^; O+, OXA-2 or −9; S, SHV-28 or −187.
††Missing genes.
‡‡For each potential resistance gene identified by Kleborate, this indicates inexact nucleotide and inexact amino acid match; with ^ indicating inexact nucleotide but exact amino acid match; ? for incomplete match.