| AMR | Antimicrobial resistance |
| ARBs | Antibiotic-resistant bacteria |
| ARGs | AMR genes |
| HGT | Horizontal gene transfer |
| MGEs | Mobile genetic elements |
| HLR | High-level resistance |
| ECOFF | Epidemiological cut-off |
| ECVs | Epidemiological cut-off F values |
| MICs | Minimal inhibitory concentrations |
| WT | Wild type |
| MDR | Multidrug resistant |
| MLST | Multilocus sequence typing |
| STs | Sequence types |
| GD | Genetic diversity |
| CDC | Center for Disease Control and Prevention |
| WGS | Whole-genome sequencing |
| SNPs | Single-nucleotide polymorphisms |
| TET | Tetracycline |
| ERY-TET | Erythromycin-tetracycline |
| A/R | Antibiotic/reserpine |
| Tns | Transposons |
| ComTns | Composite transposons |