Extended Data Fig. 6: AMR genes associated to Klebsiella pneumoniae from a metagenomic sample P8 compared to those found in P8 Klebsiella pneumoniae isolate.

Heat maps displaying AMR genes associated to K. pneumoniae from faecal sample P8 and AMR genes detected from a K. pneumoniae isolate from the same sample. Sequencing of the metagenomic sample was performed for only 6h using MinION and NanoOK RT tool (highlighted as ‘P8’’). Sequencing and assembly of the K. pneumoniae isolate was performed using both MinION (‘Isolate MinION’) and Illumina HiSeq (‘Isolate Illumina’’). AMR genes were grouped according to sequence similarity. Blue indicates presence, grey indicates absence. The ”Walkout taxa” column shows the taxa that NanoOK RT’s walkout function classified the nanopore AMR hits to. An “n/a” indicates the gene is not found in the metagenomic nanopore sample. A single read can only be classified to a single taxa, but multiple taxa are shown if different reads classify to different taxa. Further details of specific gene names can be found in Supplementary Table 8.