Table 1.

Concordance tests between phenotypic antimicrobial susceptibility testing and WGS-based predicted antimicrobial resistance.

Antimicrobial agent	Sensitivity		Specificity		Predictive value +		Predictive value −		Cohen's kappa coefficient
	%	95% CI	%	95% CI	%	95% CI	%	95% CI	κ	95% CI	p value	Interpretation
Ampicillin (AMP)a	96.0	80.5 to 99.3	96.0	88.4 to 99.6	96.0	80.5 to 99.3	97.8	88.4 to 99.6	0.94	0.85 to 1.00	< 0.001	Very Good
Ciprofloxacin (CIP)	98.2	90.7 to 99.7	100.0	75.8 to 100	100.0	93.6 to 100	92.3	66.7 to 98.6	0.95	0.86 to 1.00	< 0.001	Very Good
Nalidixic acid (NAL)	100.0	93.6 to 100	100.0	77.2 to 100	100.0	93.6 to 100	100.0	77.2 to 100	1.00	1.00 to 1.00	< 0.001	Very Good
Erythromycin (ERY)	100.0	64.6 to 100	100.0	94.2 to 100	100.0	64.6 to 100	100.0	94.2 to 100	1.00	1.00 to 1.00	< 0.001	Very Good
Gentamicin (GEN)	100.0	61.0 to 100	100.0	94.3 to 100	100.0	61.0 to 100	100.0	94.3 to 100	1.00	1.00 to 1.00	< 0.001	Very Good
Streptomycin (STR)	96.2	81.1 to 99.3	95.3	84.5 to 98.7	92.6	76.6 to 97.9	97.6	87.7 to 99.6	0.91	0.81 to 1.00	< 0.001	Very Good
Tetracycline (TET)	100.0	93.6 to 100	100.0	77.2 to 100	100.0	93.6 to 100	100.0	77.2 to 100	1.00	1.00 to 1.00	< 0.001	Very Good

^aPresence of bla_OXA-61-like gene with T at the promoter region (57 bp upstream of the start codon) and/or presence of bla_OXA-184 gene.