TABLE 1.
Primer and probe sequences for β-lactamase genes included in the MB-PCR assays
| MB-PCR | Target | Primer or probe | Sequences (5′–3′)a | Length of target (bp) | Reference |
|---|---|---|---|---|---|
| 1 | KPC | KPC-F684 | GGCAGTCGGAGACAAAACC | 177 | 10 |
| KPC-R860 | CCCTCGAGCGCGAGTCTA | ||||
| KPC-MB | 5′-QUASAR 670-cgcgatCCTATTGTGTTGGCCGTCTAatcgcg-BHQ2-3′ | ||||
| 16S rRNA | BAC16S-F | TGGAGCATGTGGTTTAATTCGA | 160 | 11 | |
| BAC16S-R | TGCGGGACTTAACCCAACA | ||||
| BAC16S-MB | 5′-ROX-cgctggCGAGCTGACGACARCCATGCAccagcg-DABCYL-3′ | ||||
| 2 | OXA-48 | Oxa48(MB)-F | GCAAAGGAATGGCAAGAAAA | 72 | This study |
| Oxa48(MB)-R | CACAACTACGCCCTGTGATTT | ||||
| oxa48-MB | 5′-CAL Fluor Red 610-cgcgatAGTTGGAATGCTCACTTTACTGatcgcg-BHQ2-3′ | ||||
| VIM | Vim(MB)a-F | TCTACCCGTCCAATGGTCTC | 91 | This study | |
| Vim(MB)a-R | AGAAGKGCCGCTGTGTTTTT | ||||
| Vim-MB | 5′-HEX-cgcgatTGTCCGTGATGGTGATGAGTTGatcgcg-BHQ1-3′ | ||||
| IMP | Imp(MB)-F | GGAATAGAGTGGCTTAAYTCTC | 188 | 12 | |
| Imp(MB)-R | CCAAACYACTASGTTATCT | ||||
| Imp-MB | 5′-QUASAR 670-cgcaggCCCACGTATGCATCTGAATTAACAAcctgcg-BHQ2-3′ | ||||
| NDM | NDM(MB)-F1 | ATATCACCGTTGGGATCGAC | 109 | This study | |
| NDM(MB)-R1 | TAGTGCTCAGTGTCGGCATC | ||||
| NDM-MB | 5′-FAM-cgcgaAAGGACAGCAAGGCCAAGTCGtcgcg-BHQ1-3′ | ||||
| 3 | CTX-M(MB)-F2 | TGCGGARAARCACGTYRAYGGSACRAT | 116 | This study | |
| CTX-M(MB)-R2 | TAGCCGGVCCMCCVASVTGRGMAATCA | ||||
| CTX-M-1 group | CTX-M-1-MB | 5′-FAM-ccggaAGCGATAACGTGGCGATGAAtccgg-BHQ1-3′ | |||
| CTX-M-2 group | CTX-M-2-MB | 5′-HEX-cgcgtAGTATAGCGACAATACTGCCAacgcg-BHQ1-3′ | |||
| CTX-M-9 group | CTX-M-9-MB | 5′-CAL Fluor Red 610-gccgtAGCGACAATACcGCCATGAAacggc-BHQ2-3′ | |||
| CTX-M-825-F | ATAACACCTTCCGGCTCGAT | 85 | This study | ||
| CTX-M-825-R | GCTAATGGCGTGGTGGTATC | ||||
| CTX-M-8/25 group | CTX-M-825-MB | 5′-QUASAR 670-cggctTCAACACCGCGATCCCCGagccg-BHQ2-3′ | |||
| 4 | CMY1/MOX | CMY1MOX.MB-F | GCTGCTCAAGGAGCACAGGAT | 91 | This study |
| CMY1MOX.MB-R | CCGRTYGGCCACMCCGTA | ||||
| CMY1MOX-MB | 5′-FAM-cgcgatAGGATGGCAAGGCCCACTATTTCatcgcg-BHQ1-3′ | ||||
| CMY2/LAT/CEF | CMY2LATCEF.MB-F | KCCGCMAAAACAGAACAACA | 102 | This study | |
| CMY2LATCEF.MB-R | GTAGATAAYSGCMACRGCCATA | ||||
| CMY2LATCEF-MB | 5′-HEX-cgcgaGGAGCAGGCTATTCCGGGtcgcg-BHQ1-3′ | ||||
| ACT/MIR | ACTMIR.MB-F | GTRCCGGATGAGGTCRMGGAT | 100 | This study | |
| ACTMIR.MB-R | TGGYRTTRGCGTAAAGACG | ||||
| ACTMIR-MB | 5′-CAL Fluor Red 610-cgcgatCTTTTATCAAAACTGGCAGCCatcgcg-BHQ2-3′ | ||||
| DHA | DHA.MB-F | ACCGCTGGGRTTATCTCACAC | 95 | This study | |
| DHA.MB-R | ACACGCGGACCGGTTTTT | ||||
| DHA-MB1 | 5′-QUASAR 670-cgcgagGCAAAGCCAGTATGCGTACGGTTctcgcg-BHQ2-3′ | ||||
| 5 | TEM (104K, 164S, 164H, 164C, 238S, 240K*) | blaTEM-F | GAGTATTCAACATTTCCGTGTCGC | 856 | This study |
| blaTEM-R | TACCAATGCTTAATCAGTGAGGC | ||||
| TEM104K-MB | 5′-FAM-cgcgtACTTGGTTAAGTACTCACCacgcg-BHQ1-3′ | ||||
| TEM164R-MB | 5′-HEX-cgcgatGCCTTGATCGTTGGGAACCGatcgcg-BHQ1-3′ | ||||
| TEM238S-MB | 5′-CAL Fluor Red 610-cgcgatATCTGGAGCCAGTGAGCGTGGatcgcg-BHQ2-3′ | ||||
| 6 | SHV (156D, 238S, 240K*) | blaSHV-F1 | TGTGGTTATGCGTTATATTCGCCTGTGTAT | 868 | This study |
| blaSHV-R | TTAGCGTTGCCAGTGCTCGATC | ||||
| SHV156D-MB1 | 5′-QUASAR 670-gcgcaGCCAGATCGACGACAACGtgcgc-BHQ2-3′ | ||||
| SHV238240-MB1 | 5′-FAM-gcgcaGGAGCTAGCAAGCGGGGTtgcgc-BHQ1-3′ |
a
Molecular beacon hairpin sequences are shown in lowercase letters. ROX, rhodamine; HEX, hexachlorofluorescein; FAM, fluorescein; BHQ, black hole quencher; DABCYL, 4-(4′-dimethylaminophenylazo)benzoic acid.