Benchmarking of two bioinformatic workflows for the analysis of whole-genome sequenced Staphylococcus aureus collected from patients with suspected sepsis

Table 3 Antibiotic groups included in the benchmarking

Disc diffusion Phenotypic AST^a	Bioinformatic workflows Genotypic predicted AST
Disc diffusion Phenotypic AST^a	1928	INH
Ciprofloxacin	Ciprofloxacin	Ciprofloxacin
Clindamycin	Clindamycin	Lincosamide
Erythromycin	Erythromycin	Macrolide
Rifampicin	Rifampicin	Rifampicin
Trimethoprim	Trimethoprim	Trimethoprim
Tetracycline	Tetracycline	Tetracycline
Vancomycin	Vancomycin	Glycopeptide
Fusidic acid	Fusidic acid	Fusidic acid
Isoxazolyl penicillin	Isoxazolyl penicillin	Isoxazolyl penicillin

^aPhenotypic AST results reported in this study are limited from the set of antibiotics included in the 1928 platform. As the phenotypic AST was performed as part of the routine clinical practice, the sample type mainly determined which antibiotics to be tested for each bacterial isolate (Additional file 1)

ISSN: 1471-2334