Antibiotic resistance phenotypes of pools.

Individual isolates were pooled by k-means clustering and consensus resistance phenotypes (defined as the resistance profile of a majority of the isolates in a pool) were visually confirmed. Pools labeled “S” contain strains that are susceptible to fluoroquinolones and non-multidrug-resistant (non-MDR). Pools labeled “M” contain strains that are resistant to fluoroquinolones and may be MDR≥3 (resistant to at least 3 separate drug classes) or MDR≥5 (resistant to at least 5 separate drug classes) [21]. Pools labeled “H” contain strains that are MDR≥3 or MDR≥5 and have extremely high fluoroquinolone MICs. CIP = ciprofloxacin; GAT = gatifloxacin; LVX = levofloxacin; NOR = norfloxacin; AMP = ampicillin; SXT = trimethoprim-sulfamethoxazole; FQs = All four fluoroquinolones; FOX = cefoxitin; CFZ = cefazolin; GEN = gentamicin; TIM-ticarcillin-clavulanic acid; AMC = amoxicillin-clavulanic acid; NIT = nitrofurantoin; AMK = amikacin; IPM = imipenem.