Table 2.

Sensitivity and specificity of WGS-based antimicrobial resistance predictions against the broth microdilution reference AST. Epidemiological cut-offs are applied as interpretive criteria for the reference AST

Antimicrobial	Genotyping sensitivity (95% CI)	Genotyping specificity (95% CI)
Ampicillin	0.96 (0.88–1)	0.93 (0.82–0.99)
Chloramphenicol	0.94 (0.83–0.99)	0.94 (0.84–0.99)
Ciprofloxacin	0.85 (0.66–0.96)	1 (0.95–1)
Gentamicin	0 (0–0.37)	1 (0.96–1)
Nalidixic Acid	0.82 (0.63–0.94)	1 (0.95–1)
Sulfamethoxazole	0.67 (0.54–0.78)	0.97 (0.84–1)
Streptomycin	0.92 (0.83–0.97)	0.83 (0.67–0.94)
Sulfisoxazole	0.62 (0.5–0.73)	0.93 (0.77–0.99)
Trimethoprim-Sulfamethoxazole	0.88 (0.72–0.97)	0.96 (0.88–0.99)
Tetracycline	0.95 (0.85–0.99)	0.82 (0.68–0.92)
Trimethoprim	0.94 (0.79–0.99)	0.97 (0.9–1)
Overall	0.83 (0.79–0.86)	0.96 (0.94–0.97)