Table 3.
Summary of predicted ARGs categorized by drug classes using Resistance Gene Identifier (RGI).
| RGI criteriaa | Drug class | P.GXZCb | P. canadensis PA-6-2A | P. canadensis Feb-92 | P. simiae CCUG 50988 | P. simiae PCL1751 |
|---|---|---|---|---|---|---|
| Perfect | Aminoglycoside antibiotic | 3 | 0 | 0 | 0 | 0 |
| Strict | Aminoglycoside antibiotic | 1 | 0 | 0 | 0 | 0 |
| Cephalosporin | 1 | 1 | 1 | 1 | 1 | |
| Disinfecting agents and antiseptics | 1 | 1 | 1 | 1 | 1 | |
| Fluoroquinolone antibiotic | 5 | 6 | 5 | 5 | 5 | |
| Glycopeptide antibiotic | 1 | 1 | 1 | 1 | 1 | |
| Glycylcycline | 1 | 1 | 1 | 1 | 1 | |
| Penam | 1 | 1 | 1 | 1 | 1 | |
| Phenicol antibiotic | 1 | 1 | 1 | 1 | 1 | |
| Phosphonic acid antibiotic | 1 | 1 | 1 | 0 | 0 | |
| Rifamycin antibiotic | 1 | 1 | 1 | 1 | 1 | |
| Tetracycline antibiotic | 5 | 5 | 4 | 1 | 4 | |
| Loose | Tetracycline antibiotic | 187 | 181 | 178 | 171 | 169 |
| Fluoroquinolone antibiotic | 185 | 180 | 170 | 163 | 160 | |
| Macrolide antibiotic | 142 | 139 | 137 | 133 | 129 | |
| Penam | 113 | 111 | 108 | 106 | 102 | |
| Aminoglycoside antibiotic | 94 | 98 | 98 | 81 | 83 | |
| Peptide antibiotic | 78 | 74 | 73 | 69 | 69 | |
| Phenicol antibiotic | 77 | 77 | 68 | 69 | 68 | |
| Cephalosporin | 68 | 67 | 64 | 61 | 61 | |
| Disinfecting agents and antiseptics | 67 | 62 | 57 | 58 | 58 | |
| Cephamycin | 55 | 56 | 54 | 50 | 50 | |
| Carbapenem | 48 | 50 | 49 | 43 | 43 | |
| Aminocoumarin antibiotic | 38 | 43 | 46 | 41 | 40 | |
| Diaminopyrimidine antibiotic | 35 | 37 | 32 | 33 | 33 | |
| Monobactam | 34 | 36 | 35 | 33 | 33 | |
| Penem | 28 | 30 | 29 | 28 | 28 | |
| Glycopeptide antibiotic | 27 | 28 | 28 | 27 | 27 | |
| Sulfonamide antibiotic | 13 | 10 | 12 | 12 | 12 | |
| Rifamycin antibiotic | 12 | 15 | 13 | 14 | 14 | |
| Glycylcycline | 10 | 10 | 8 | 10 | 10 | |
| Nitroimidazole antibiotic | 8 | 7 | 7 | 7 | 7 | |
| Lincosamide antibiotic | 7 | 6 | 6 | 6 | 6 | |
| Nucleoside antibiotic | 7 | 6 | 6 | 5 | 5 | |
| Bicyclomycin-like antibiotic | 5 | 6 | 6 | 5 | 6 | |
| Antibacterial free fatty acids | 4 | 3 | 3 | 4 | 4 | |
| Oxazolidinone antibiotic | 4 | 4 | 4 | 4 | 4 | |
| Pleuromutilin antibiotic | 4 | 4 | 4 | 4 | 3 | |
| Elfamycin antibiotic | 3 | 4 | 4 | 4 | 4 | |
| Fusidane antibiotic | 3 | 3 | 3 | 3 | 3 | |
| Mupirocin-like antibiotic | 3 | 3 | 3 | 3 | 3 | |
| Phosphonic acid antibiotic | 3 | 15 | 16 | 13 | 13 | |
| Streptogramin antibiotic | 3 | 3 | 4 | 3 | 4 | |
| Isoniazid-like antibiotic | 2 | 4 | 5 | 2 | 2 | |
| Polyamine antibiotic | 1 | 1 | 1 | 1 | 1 | |
| Salicylic acid antibiotic | 1 | 1 | 1 | 1 | 1 | |
| Streptogramin A antibiotic | 1 | 1 | 2 | 2 | 2 | |
| Streptogramin B antibiotic | 1 | 1 | 1 | 1 | 1 |
aRGI Criteria: “Perfect, Strict, Loose” have been mentioned in the published articles. A more technical definition of these terms refers to this website (https://github.com/arpcard/rgi/issues/140).
bPlasmid sequences of the P. GXZC strain were not predicted ARG hits using the same criteria in CARD.