153 In silico estimates of plasmid copy number and increased resistance in CMY-2-producing E. coli Figure 4. Boxplots of ePCN for CMY-2-producing E. coli isolates with an MIC (minimal inhibitory concentration) for cefotaxime, ceftazidime and piperacillin/tazobactam. Box plot explanation: bottom of the box, lower quartile; top of the box, upper quartile; line in the middle, median; end of the whiskers, lowest data point still within 1.5 times the interquartile range (IQR) below lower quartile and highest data point still within 1.5 times the IQR above upper quartile; ○ symbol outside the whiskers: outliers with isolate number. Isolates in the high-MIC group for CAZ and TZP showed a lower number of acquired resistance genes other than blaCMY-2 compared to the isolates in the low-MIC group. (Figure 5.). The median number of acquired resistance genes was 2 (IQR 0-4.50) for the CTX low-MIC group vs. 2.5 (IQR 0-11.25) for the CTX high-MIC-group; 4 (IQR 0.259.50) for the CAZ low-MIC groups vs. 0 (IQR 0-2.25) for the CAZ high-MIC group; 4 (IQR 0-6.50) in the TZP low-MIC-group vs. 0 (IQR 0-6.50) in the TZP high-MIC group. This result was significant for CAZ (p=0.03) but not for TZP (0.48) (Figure 5). The median ratio between the coverage of scaffolds containing either one of the seven E. coli MLST genes and the coverage of the whole-genome assembly was 0.88 (IQR 0.81-0.96). 8
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