Table 1.
Number of read pairs obtained by the mNGS analysis and their taxonomic assignments.
| BioSample ID (ENA) | SAMEA7388130 LCR_98 |
SAMEA7388131 LCR_99 |
SAMEA7388129 LCR_88 |
SAMEA7388132 LCR_88_98_99 |
|
|---|---|---|---|---|---|
| Hospital date | 6 | 14 | 27 | Negative control | |
| Number of read pairs | Total | 944071 | 979841 | 2493377 | 145943 |
| Quality filtered | 582319 | 314872 | 1277830 | 26469 | |
| Human | 572562 | 266901 | 1254920 | 6249 | |
| Unclassified | 5026 | 29300 | 13169 | 8617 | |
| Microbial | 4731 | 18671 | 9741 | 11603 | |
| Read pairs % in microbial fraction | Candida albicans | 0 | 0 | 14.29 | 0 |
| Micrococcus luteus | 14.12 | 9.44 | 11.43 | 13.09 | |
| Cutibacterium acnes | 27.52 | 14.10 | 11.36 | 30.42 | |
| Moraxella osloensis | 1.73 | 1.53 | 6.53 | 5.71 | |
| Kocuria rhizophila | 4.08 | 8.25 | 0.09 | 4.67 | |
For each sample, values represented in bold type indicate the three most abundant microbial species. For additional information regarding the mNGS pipeline, refer to the Supplementary File.Shading was used to highlight the positive, clinically important result.