Table 2.
Comparison of human and microbial DNA recovery with and without initial centrifugation
| Sample number | Sample type | Reported (spiked) | Centrifugation | Total number of read | Human Reads | Microbial reads | Number of reads of the target organisms |
|---|---|---|---|---|---|---|---|
| 1 | NT |
P.aeruginosa (Adenovirus SARS-CoV-2) Herpesvirus 7 (PIV3) |
Yes | 620,452 | 2332 (0.37%) | 618,130 (99.6%) |
609,514 (98%) 2,684 446 34 15 |
| No | 539,843 | 22,555 (0.042%) | 517,288 (96%) |
250,999 (46%) 47 3 2 0 |
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| 2 | Spiked sterile VTM |
(P. multocida S. aureus C. albicans H. influenzae Adenovirus M. pneumoniae C. pneumoniae PIV1 PIV3 PIV4 FluA Rhinovirus A Metapneumovirus Coronavirus OC43 Coronavirus 229E Coronavirus NL63 SarsCov2 RSV) |
Yes | 2,054,974 | N/A | 2,050,603 (99%) |
505,388 (24.5%) 1,147,990 (56%) 1787 (0.1%) 1263 (0.06%) 9531 175 60 6 16 4 6 2 1 2 3 1 1 0 |
| No | 958,291 | N/A | 957,640 (99%) |
813,470 (85%) 117,570 (12%) 6570 (0.68%) 952 (0.1%) 134 3 1 0 0 0 0 0 0 0 0 0 0 0 |
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| 3 | NT | Human CoV HKU1 | Yes | 222,732 | 17,859 (8%) | 204,873 (92%) | 191 |
| No | 301,165 | 36,644 (12%) | 264,521 (88%) | 4 |