Table 5 Additional potential pathogens detected
From: Unified metagenomic method for rapid detection of microorganisms in clinical samples
Sample number | Sample type | Routine testing detections | Sequencing results after 2 h | ||
|---|---|---|---|---|---|
Microorganisms (Ct values) | Number of microbial reads | Percentage of bacterial reads | |||
51 | BAL | Agar culture negative S. pneumoniae urine Ag positive | S. pneumoniae | 13 | 26.531 |
11 | Sputum | Commensals | R. mucilaginosa S. mitis S. pneumoniae S. oralis SARSCov2 (Ct 20) P. histicola | 29765 1014 835 549 413 395 | 87.446 2.979 2.453 1.613 N/A 1.16 |
20 | BAL | Agar culture negative S. pneumoniae urine Ag positive PIV3 | S. pneumoniae Parainfluenza virus 3 (Ct 31) | 985 30 | 91.628 N/A |
34 | BAL | P. aeruginosa PCR not requested | P. aeruginosa Rhinovirus A (Ct 24) | 52007 56 | 67.401 N/A |
36 | Sputum | Commensals | E. corrodens N. mucosa V. parvula R. mucilaginosa P. melaninogenica P. jejuni N. meningitidis N. cinerea E. coli K. denitrificans A. defectiva Influenza virus A (Ct 24) | 195 164 39 37 31 21 20 13 12 7 7 2 | 32.939 27.703 6.588 6.25 5.236 3.547 3.378 2.196 2.027 1.182 1.182 N/A |
37 | Sputum | C. freundii | C. freundii Human gammaherpesvirus 4 Rhinovirus B (Ct25) | 5660 44 15 | 70.119 N/A N/A |
49 | BAL | P. aeruginosa PCR not requested | P. aeruginosa SARSCov2 (Ct 19/21) | 12016 3935 | 66.67 N/A |
50 | NTS | Negative | Influenza virus C | 40 | N/A |
