Core Genome Multi-Locus Sequence Typing and Prediction of Antimicrobial Susceptibility Using Whole Genome Sequences of Escherichia coli Bloodstream Infection Isolates.

50 Escherichia coli bloodstream isolates from the clinical laboratory and 12 E. coli isolates referred for PFGE were sequenced, assessed for clonality using cgMLST and evaluated for genomic susceptibility predictions using ARESdb. Sequence typing using WGS-based MLST and ST-specific PCR were identical. Overall categorical agreement between genotypic (ARESdb) and phenotypic susceptibility testing for 62 isolates and 11 antimicrobial agents was 91%. Among the referred isolates, high ceftazidime, cefepime, and piperacillin-tazobactam major error rates were found.