Table 2.
Beta-lactamase gene carriage and phenotypic resistance profiles of carbapenemase-producing Enterobacterales isolates.
| Sample Type | Organism by K-mer Spectra |
MLST 1 | State | Carbapenemase Gene | AmpC Gene | ESBL Gene | ETP | IPM | MEM | Other Resistance Phenotypes | mCIM/eCIM Report |
|---|---|---|---|---|---|---|---|---|---|---|---|
| BC | Citrobacter freundii | ST98 | TN | KPC-2 | CMY-109 | None | R | R | S | ATM, CTX, CAZ, TZP | serine carbapenemase detected |
| UC | Citrobacter freundii | ST415 | WI | KPC-2 | CMY-48 | SHV-12 | R | R | R | ATM, CTX, CAZ, CT, TZP | serine carbapenemase detected |
| UC | Citrobacter freundii | ST344-like | WI | KPC-2 | CMY-108 | SHV-12 | R | R | R | ATM, FEP, CTX, CAZ, CT, TZP | serine carbapenemase detected |
| UC | Enterobacter asburiae | ST252 | CA | KPC-2 | ACT-3 | SHV-12 | R | R | R | ATM, FEP, CTX, CAZ, CT, TZP | serine carbapenemase detected |
| UC | Enterobacter cloacae | ST171 | NJ | KPC-3 | ACT-16 | None | R | R | R | ATM, FEP, CTX, CAZ, CT, TZP | serine carbapenemase detected |
| UC | Enterobacter hormaechei | ST110 | CA | KPC-2 | ACT-15 | None | R | R | R | ATM, CTX, CAZ, CZA, CT, TZP | serine carbapenemase detected |
| UC | Enterobacter hormaechei | ST1377 | NM | NDM-1 | ACT-7 | None | R | R | R | FEP, CTX, CAZ, CZA, CT, MEV, TZP | metallo beta-lactamase detected |
| UC | Escherichia coli | ST721-like | CA | OXA-48 | DHA-1 | CTX-M-27 | R | I | S | ATM, FEP, CTX, CAZ, ETP | serine carbapenemase detected |
| UC | Escherichia coli | ST691-like | CA | KPC-2 | None | None | R | R | S | ATM, CTX, TZP | serine carbapenemase detected |
| UC | Escherichia coli | ST44 | CA | NDM-5 | None | CTX-M-15 | R | R | R | ATM, FEP, CTX, CAZ, CZA, CT, MEV, TZP | metallo beta-lactamase detected |
| BC | Escherichia coli | ST2 | CA | NDM-5 | None | CTX-M-15 | R | R | R | ATM, FEP, CTX, CAZ, CZA, CT, MEV, TZP | metallo beta-lactamase detected |
| BC | Escherichia coli | ST221 | CA | OXA-48 | None | None | S | I | S | TZP | serine carbapenemase detected |
| UC | Escherichia coli | ST721-like | CA | KPC-2 (truncated) | None | CTX-M-15 | S | S | S | ATM, FEP, CTX, CAZ | carbapenemase not detected |
| UC | Escherichia coli | ST43/ST131 2 | GA | KPC-3 | None | None | S | I | S | ATM, CTX, CAZ, TZP | serine carbapenemase detected |
| UC | Escherichia coli | ST33 | GA | NDM-1 | None | None | R | R | R | FEP, CTX, CAZ, CZA, CT, TZP | metallo beta-lactamase detected |
| UC | Klebsiella aerogenes | ST3-like | GA | KPC-3 | None | None | R | R | R | ATM, FEP, CTX, CAZ, CT, TZP | serine carbapenemase detected |
| UC | Klebsiella aerogenes | ST3-like | GA | KPC-3 | None | None | R | R | R | ATM, FEP, CTX, CAZ, CT, TZP | serine carbapenemase detected |
| UC | Klebsiella michiganensis | ST59-like | CA | NDM-7 | None | OXY-2-8 | R | R | R | ATM, FEP, CTX, CAZ, CZA, CT, MEV, TZP | metallo beta-lactamase detected |
| BC | Klebsiella michiganensis | ST85 | WI | KPC-2 | None | OXY-1-7 | R | R | R | ATM, CTX, TZP | serine carbapenemase detected |
| BC | Klebsiella michiganensis | ST311 | GA | KPC-3 | None | OXY-4-1, SHV-187 | R | R | R | ATM, FEP, CTX, CAZ, CT, TZP | serine carbapenemase detected |
| UC | Klebsiella oxytoca | ST180 | GA | KPC-3 | None | OXY-1-4 | S | R | S | ATM, TZP | serine carbapenemase detected |
| UC | Klebsiella pneumoniae | ST15 | CA | NDM-1 | CMY-6 | CTX-M, SHV-106 | R | R | R | ATM, FEP, CTX, CAZ, CZA, CT, MEV, TZP | metallo beta-lactamase detected |
| UC | Klebsiella pneumoniae | ST101 | CA | OXA-48 | None | CTX-M-15 | R | R | R | ATM, FEP, CTX, CAZ, CT, MEV, TZP | serine carbapenemase detected |
| BC | Klebsiella pneumoniae | ST11 | CA | KPC-2 | None | CTX-M-65, SHV-187 | R | R | R | ATM, FEP, CTX, CAZ, CT, TZP | serine carbapenemase detected |
| UC | Klebsiella pneumoniae | ST258 | NJ | KPC-3 | None | SHV-12 | R | R | R | ATM, FEP, CTX, CAZ, CT, TZP | serine carbapenemase detected |
| UC | Klebsiella pneumoniae | ST412 | NJ | KPC-2 | None | SHV-187 | R | R | R | ATM, CTX, TZP | serine carbapenemase detected |
| UC | Klebsiella pneumoniae | ST412 | NJ | KPC-2 | None | SHV-187 | R | R | R | ATM, CTX, TZP | serine carbapenemase detected |
| UC | Klebsiella pneumoniae | ST258 | NJ | KPC-3 | None | SHV-12 | R | R | R | ATM, FEP, CTX, CAZ, CT, TZP | serine carbapenemase detected |
| UC | Klebsiella pneumoniae | ST258 | NJ | KPC-3 | None | None | R | R | R | ATM, FEP, CTX, CAZ, CT, TZP | serine carbapenemase detected |
| BC | Klebsiella pneumoniae | ST1683-like | NJ | KPC-3 | None | SHV-187 | R | R | R | ATM, FEP, CTX, CAZ, CT, TZP | serine carbapenemase detected |
| UC | Klebsiella pneumoniae | ST379 | GA | KPC-3 | None | SHV-187, TEM-168 (trunc) | R | R | R | ATM, FEP, CTX, CAZ, CT, TZP | serine carbapenemase detected |
| UC | Klebsiella pneumoniae | ST469 | GA | KPC-3 | None | SHV-187 | R | R | R | ATM, FEP, CTX, CAZ, CT, TZP | serine carbapenemase detected |
| UC | Klebsiella pneumoniae | ST16 | GA | NDM-5, OXA-181 | None | SHV-187 | R | R | R | ATM, FEP, CTX, CAZ, CZA, CT, MEV, TZP | metallo beta-lactamase detected |
| UC | Klebsiella pneumoniae | ST219 | GA | KPC-3 | None | CTX-M-15, SHV-187 | R | R | S | ATM, FEP, CTX, CAZ, CT, TZP | serine carbapenemase detected |
| BC | Klebsiella pneumoniae | ST13 | GA | KPC-3 | None | SHV-197 | R | R | R | ATM, CTX, CAZ, CT, TZP | serine carbapenemase detected |
| UC | Klebsiella pneumoniae | ST219 | GA | KPC-3 | None | CTX-M-15, SHV-187 | R | R | S | ATM, FEP, CTX, CAZ, CT, TZP | serine carbapenemase detected |
| BC | Klebsiella pneumoniae | ST16 | GA | NDM-5, OXA-181 | None | CTX-M-15, SHV-187 | R | R | R | ATM, FEP, CTX, CAZ, CZA, CT, MEV, TZP | metallo beta-lactamase detected |
| UC | Klebsiella pneumoniae | ST258 | NY | KPC-3 | None | SHV-187 | R | R | R | ATM, FEP, CTX, CAZ, CT, TZP | serine carbapenemase detected |
| UC | Klebsiella pneumoniae | ST348 | NY | KPC-4 | None | SHV-187 | R | I | S | ATM, FEP, CTX, CAZ, CT, TZP | serine carbapenemase detected |
| UC | Klebsiella pneumoniae | ST307 | NY | KPC-3 | None | CTX-M-15 | R | R | R | ATM, FEP, CTX, CAZ, CT, TZP | serine carbapenemase detected |
| UC | Klebsiella pneumoniae | ST258 | CA | KPC-3 | None | SHV-187, TEM-168 (trunc) | R | R | R | ATM, FEP, CTX, CAZ, CT, TZP | serine carbapenemase detected |
| UC | Klebsiella pneumoniae | ST405 | TN | VIM-1 | None | CTX-M-15 | R | R | R | ATM, FEP, CTX, CAZ, CZA, CT, MEV, TZP | metallo beta-lactamase detected |
| BC | Klebsiella pneumoniae | ST405 | TN | VIM-1 | None | CTX-M-15, SHV-187 | R | R | R | ATM, FEP, CTX, CAZ, CZA, CT, MEV, TZP | metallo-beta lactamase detected |
| BC | Klebsiella pneumoniae | ST405 | TN | VIM-1 | None | CTX-M-15 | R | R | R | ATM, FEP, CTX, CAZ, CZA, CT, MEV, TZP | metallo beta lactamase detected |
| BC | Klebsiella pneumoniae | ST152 | IL | KPC-3 | None | CTX-M-15 | R | R | R | ATM, FEP, CTX, CAZ, CT, TZP | serine carbapenemase detected |
| UC | Klebsiella pneumoniae | ST258 | WI | KPC-3 | None | SHV-187 | R | R | R | ATM, FEP, CTX, CAZ, CT, TZP | serine carbapenemase detected |
| BC | Klebsiella pneumoniae | ST258 | WI | KPC-3 | None | SHV-187 | R | R | R | ATM, FEP, CTX, CAZ, CT, TZP | serine carbapenemase detected |
| UC | Klebsiella pneumoniae | ST258 | GA | KPC-3 | None | SHV-12 | R | R | R | ATM, FEP, CTX, CAZ, CT, TZP | serine carbapenemase detected |
| BC | Klebsiella pneumoniae | ST13 | GA | KPC-3 | None | CTX-M-15, SHV-187 | R | R | R | ATM, FEP, CTX, CAZ, CT, TZP | serine carbapenemase detected |
| UC | Klebsiella pneumoniae | ST16 | GA | OXA-181 | None | CTX-M-15, SHV-187 | R | R | R | ATM, FEP, CTX, CAZ, CT, TZP | serine carbapenemase detected |
| BC | Klebsiella pneumoniae | ST1199 | GA | KPC-3 | None | SHV-187 | R | R | R | ATM, FEP, CTX, CAZ, CT, TZP | serine carbapenemase detected |
| UC | Raoultella ornithinolytica | N/A | NM | OXA-181 | None | None | R | R | I | CTX, TZP | serine carbapenemase detected |
| BC | Serratia marcescens | N/A | CA | SME-2 | SRT-1 | None | R | N/R | R | ATM, CTX, CAZ, MEM | serine carbapenemase detected |
| BC | Serratia marcescens | N/A | TN | VIM-1 | SRT-1 | None | I | R | I | FEP, CTX, CAZ, CZA, CT, TZP | metallo beta lactamase detected |
1 Multi-locus sequencing typing was carried out using the 7-locus scheme present in CLC Genomic Workbench (CLC Type with MLST scheme 1.3). When multiple MLST schemes exist, such as for Acinetobacter baumannii and Escherichia coli, the Pasteur scheme is used. When all alleles cannot be identified, the closest sequence type is listed, followed by “-like”. N/A = no scheme available for that organism. 2 ST43 Pasteur/ST131 Achtman scheme ATM: aztreonam; FEP: cefepime; CTX: cefotaxime; CAZ: ceftazidime; CZA: ceftazidime/avibactam; CT: ceftolozane/tazobactam; ETP: ertapenem; IPM: imipenem; MEM: meropenem; MEV: meropenem/vaborbactam; TZP: piperacillin/tazobactam. The antimicrobial susceptibility testing results listed in this table were obtained using the broth microdilution method.