Fig. 3: Rapid diagnostic using MinION technology for preterm infants clinically diagnosed with suspected NEC (P49 and P205).

a,b, Taxonomic profiles comparing the results obtained at 1 h and 6 h for P49 (a) and P205 (b) after sequencing started. The pie chart legends comprise the eight most abundant taxa. Detailed counts can be found in Supplementary Table 3. c,d, Correlation plots representing normalized assigned reads at 1 h and 6 h for P49 (taxa n = 35, log-transformed Pearson’s r = 0.97) (c) and P205 (taxa n = 120, log-transformed Pearson’s r = 0.98) (d). The grey region either side of the fit line represents the 95% CIs. e,f, Heat maps displaying the number of CARD hits detected among the most common groups of antibiotic resistance genes found in preterm P49 (e) and P205 (f). Further information on all the AMR genes classified can be found in Supplementary Table 4. g,h, Walkout results for preterm infants P49 (g) and P205 (h) at 6 h, as reported by the NanoOK RT’s walkout option. Results shown are for independent bacterial hits (defined as ≥ 50 bp away from the AMR sequence), at 6 h of sequencing.