Table 1.
Datasets generated by MPS for microbiomics analyses
| DNA Samples | T1 | C6 | C7 | C9 | Culture Broth Control | Culture Broth Control | Culture Broth Control | Blank/Reagent Control |
|---|---|---|---|---|---|---|---|---|
| Prepared from | Diseased lung tissue | Culture of R5 medium | Culture of SP4_F medium | Culture of BCF medium | R5 medium | SP4_F medium | BCF medium | H2O |
| Time of Culture | NA | Week 1 | Week 1 | Week 3 | NA | NA | NA | NA |
| Qualified raw reads | 5,573,804 | 4,692,312 | 6,988,910 | 3,581,211 | 626 | 2,453,560 | 771,844 | 538,744 |
| No. of reads with paired-ends | 3,933,870 (70.61%*) | 3,558,936 (75.86%*) | 3,933,342 (56.3%*) | 981,934 (27.4%*) | 12 (1.9%) | 704 (0.03%) | 968 (0.13%) | 182 (0.03%) |
| No. of paired-end reads with 440 bp joint sequences | 1,965,819 | 1,778,015 | 1,965,500 | 490,967 | 0 | 1 | 0 | 0 |
| Numbers of reads matching: | ||||||||
| 1) 100% to sequences of | ||||||||
| A. cberi | 95,247 (4.84%**) | 15 | 7 | 0 | 0 | 0 | 0 | 0 |
| M. hominis | 0 | 0 | 0 | 2.164 (0.45%**) | 0 | 0 | 0 | 0 |
| 2) >95% to sequences of | ||||||||
| A. cberi | 356,393 (18.13%**) | 243 | 599 | 0 | 0 | 0 | 0 | 0 |
| M. hominis | 0 | 21 | 12 | 129,667 (26.41%**) | 0 | 0 | 0 | 0 |
| 3) >90% to sequence of | ||||||||
| A. cberi | 392,413 (19.96%**) | 22,902 (1.29%**) | 207,281 (10.55%**) | 30 | 0 | 0 | 0 | 0 |
| M. hominis | 7 | 12,469 (0.70%**) | 31,506 (1.60%**) | 142,745 (29.08%**) | 0 | 0 | 0 | 0 |
*
Percentage of the number of reads with qualified paired-ends out of the numbers of qualified raw reads.
**
Percentage of the number of reads out of the numbers of 440 by merged sequences derived from paired-ends reads.
The percentage of <0.1% is not marked.