Fig. 5: Benchmarking and validation of MinION and NanoOK RT using mock resistome samples.

a, A known mock community comprising eight bacteria and an isolate of K. pneumoniae from P8 was sequenced using MinION and analysed with NanoOK RT. Findings were compared to the results obtained from the P8 K. pneumoniae isolate sequenced and assembled by Illumina and MinION. The AMR genes were grouped according to sequence similarity. Blue indicates presence, grey indicates absence. Details of specific genes detected can be found in Supplementary Table 9. b, MinION AMR profiles obtained from a faecal sample from a healthy preterm infant (P103M no spike) were compared to the K. pneumoniae spiked forms. Two different concentrations of P8 K. pneumoniae isolate were inoculated on sample P103M; 4% (P103M 4% spike) and 40% (P103M 40% spike). Findings were compared to the results obtained from the P8 K. pneumoniae isolate sequenced and assembled from Illumina and MinION. AMR genes were grouped according to sequence similarity. c, Percentages of reads assigned to P103M spiked with 40% P8 K. pneumoniae isolate (P103M 40% spike) and 4% P8 K. pneumoniae isolate (P103M 4% spike); only taxa representing ≥ 1% are shown.