Table 1.
Antibiotic resistance genes selected for LAMP primer design
| Gene | Resistance mechanism [gene ontology #] | Antibiotic | Target organism(s) | Reference Strain used for validation (ATCC #) | # of generaa |
|---|---|---|---|---|---|
| ant3ia | Aminoglycoside nucleotidyltransferase activity [GO:0034068] | Spectinomycin, streptomycin | E. faecalis | A. baumannii (BAA-1710) | 30 |
| aadD | Aminoglycoside nucleotidyltransferase activity [GO:0034068] | Kanamycin, tobramycin | S. aureus | S. aureus Mu50 (700699) | 3 |
| bacA | Di-trans,poly-cis-decaprenylcistransferase activity [GO:0008834] | Bacitracin | E. faecalis, S. aureus | S. aureus Mu50 (700699) | 153 |
| bl2B_tem | Beta-lactamase activity [GO:0008800] | Cephalosporin, penicillin | S. aureus | E. fergusonii (35469) | 34 |
| ble | Binding protein | Bleomycin | S. aureus | S. aureus Mu50 (700699) | 5 |
| cata9 | Chloramphenicol O-acetyltransferase activity [GO:0008811] | chloramphenicol | E. faecium, S. aureus | S. pneumoniae (700669) | 5 |
| dfra12 | Dihydrofolate reductase activity [GO:0004146] | Trimethoprim | E. faecalis, S. aureus | – | 12 |
| lsa | ABC efflux family that is resistant to MLS antibiotics | Lincosamide, macrolide, streptogramin B | E. faecalis | E. faecalis V583 (700802) | 1 |
| mphC | Transferase activity, transferring phosphorus-containing groups [GO:0016772] | Macrolide | S. aureus | – | 2 |
| mepA | Multidrug efflux pump activity [GO:0015559] | Tigecycline | S. aureus | S. aureus Mu50 (700699) | 1 |
| norA | Permease | Fluoroquinolone | S. aureus | S. aureus Mu50 (700699) | 1 |
| qacA | MULTIDRUG efflux pump | qa-compound | S. aureus | S. aureus Mu50 (700699) | 1 |
| tetO | Translation elongation factor activity [GO:0003746] | Tetracycline | E. faecalis | S. pyogenes (12344) | 16 |
| tetM | Translation elongation factor activity [GO:0003746] | Tetracycline | All | S. aureus Mu50 (700699) | 33 |
| vanG | d-Alanine-d-alanine ligase activity [GO:0008716] | Vancomycin | E. faecalis | – | 1 |
| vanB | d-Alanine-d-alanine ligase activity [GO:0008716] | Vancomycin | E. faecalis, E. faecium | S. aureus Mu50 (700699) | 5 |
| vanA | d-Alanine-d-alanine ligase activity [GO:0008716] | Teicoplanin, vancomycin | All | – | 5 |
| vanYA | d-alanine-d-alanine ligase activity [GO:0008716] | Teicoplanin, vancomycin | All | – | 4 |
| vatA | Acetyltransferase activity [GO:0016407] | Streptogramin A | S. aureus | – | 1 |
| vgbA | Lyase activity [GO:0016829] | Streptogramin B | S. aureus | – | 1 |
aTotal number of genera that harbor the selected antibiotic resistance gene, as listed by ARDB (Liu and Pop 2009)