TABLE 1.
Prevalence of genes tested in all samples and in mcr positive samples.
| All samples |
mcr positive |
||||
| n | % | n | % | ||
| Antimicrobial Resistance | |||||
| Colistin | COL | 102 | 95.33 | 62 | 100.00 |
| Imipenem | IPM | 7 | 6.54 | 3 | 4.84 |
| Amoxicillin | AMC | 10 | 9.35 | 4 | 6.45 |
| Ciprofloxacin | CIP | 41 | 38.32 | 22 | 35.48 |
| Cefoxitin | CFO | 16 | 14.95 | 7 | 11.29 |
| Gentamicin | GEN | 45 | 42.06 | 28 | 45.16 |
| Sulphonamides and trimethoprim | SUT | 76 | 71.03 | 45 | 72.58 |
| Amoxicillin and clavulanic acid | AMO | 40 | 37.38 | 23 | 37.10 |
| Antimicrobial Associated Resistance Genes | |||||
| Colistin resistance | mcr1 | 62 | 57.94 | 62 | 100.00 |
| Silver resistance | silP | 7 | 6.54 | 6 | 9.68 |
| Integrase | intI1 | 11 | 10.28 | 8 | 12.90 |
| Copper resistance | pcoD | 15 | 14.02 | 10 | 16.13 |
| Sulfa resistance | sulI | 17 | 15.89 | 9 | 14.52 |
| Transposase | ISEc12 | 14 | 13.08 | 6 | 9.68 |
| Aminoglycoside resistance | aadA | 12 | 11.21 | 7 | 11.29 |
| Gentamicin resistance | aac3-VI | 8 | 7.48 | 6 | 9.68 |
| Quarternary amonium resistance | qac delta1 | 17 | 15.89 | 12 | 19.35 |
| Ampicillin resistance | blaTEM | 16 | 14.95 | 9 | 14.52 |
| Gentamicin resistance | aac3-VI | 13 | 12.15 | 9 | 14.52 |
| Tetracycline resistance | tetB | 24 | 22.43 | 16 | 25.81 |
| Tetracycline resistance | tetA | 30 | 28.04 | 20 | 32.26 |
| Chaperone | groEL | 30 | 28.04 | 21 | 33.87 |
| Gentamicin resistance | aph(3)IA | 22 | 20.56 | 12 | 19.35 |
| Trimethoprim resistance | dfr17 | 29 | 27.10 | 16 | 25.81 |
| APEC Minimal Predictors | |||||
| Salmochelin siderophore receptor gene | iroN | 24 | 22.43 | 15 | 24.19 |
| Episomal outer membrane protease gene | ompT | 36 | 33.64 | 19 | 30.65 |
| Putative avian hemolysin F | hlyF | 33 | 30.84 | 17 | 27.42 |
| Episomal increased serum survival gene | iss | 42 | 39.25 | 23 | 37.10 |
| Aerobactin siderophore receptor gene | iutA | 53 | 49.53 | 31 | 50.00 |
| 3 or more predictors | 33 | 30.84 | 20 | 32.26 | |
| Plasmid Replicon Genes | |||||
| Plasmid replicon typing | incI2 | 34 | 31.78 | 23 | 37.10 |
| Plasmid replicon typing | T | 0 | 0.00 | 0 | 0.00 |
| Plasmid replicon typing | P | 11 | 10.28 | 4 | 6.45 |
| Plasmid replicon typing | A/C | 1 | 0.93 | 0 | 0.00 |
| Plasmid replicon typing | FIC | 2 | 1.87 | 0 | 0.00 |
| Plasmid replicon typing | B/O | 30 | 28.04 | 21 | 33.87 |
| Plasmid replicon typing | Y | 1 | 0.93 | 0 | 0.00 |
| Plasmid replicon typing | FIB | 39 | 36.45 | 22 | 35.48 |
| Plasmid replicon typing | FIA | 3 | 2.80 | 1 | 1.61 |
| Plasmid replicon typing | FIIA | 0 | 0.00 | 0 | 0.00 |
| Plasmid replicon typing | W | 0 | 0.00 | 0 | 0.00 |
| Plasmid replicon typing | K/B | 5 | 4.67 | 2 | 3.23 |
| Plasmid replicon typing | L/M | 16 | 14.95 | 10 | 16.13 |
| Plasmid replicon typing | Hl2 | 8 | 7.48 | 6 | 9.68 |
| Plasmid replicon typing | N | 13 | 12.15 | 9 | 14.52 |
| Plasmid replicon typing | HII | 8 | 7.48 | 7 | 11.29 |
| Plasmid replicon typing | X | 1 | 0.93 | 0 | 0.00 |
| Plasmid replicon typing | II | 24 | 22.43 | 14 | 22.58 |
| Phylogenetic Typing | |||||
| Phylotype group | A | 21 | 19.62 | 12 | 19.35 |
| Phylotype group | B1 | 41 | 38.32 | 22 | 35.48 |
| Phylotype group | B2 | 0 | 0.00 | 0 | 0.00 |
| Phylotype group | C | 2 | 1.87 | 1 | 1.61 |
| Phylotype group | D | 13 | 12.15 | 9 | 14.52 |
| Phylotype group | E | 12 | 11.21 | 6 | 9.68 |
| Phylotype group | F | 16 | 14.95 | 10 | 16.13 |