Table 3.
Research I: Summary of bacteria detection and Bland–Altman plotting results (Methods A–B (a) and Methods A–C (b)) at the genus level.
| (a) | |||||
|---|---|---|---|---|---|
| Maximum Relative Abundance |
Bacteria ID † | Number of Specimens with the Bacteria Detection (/5) | Number of Specimens with the Bacteria Abundance Out of the LOA | ||
| Method A | Method B | SD € | CI ∫ | ||
| ≥10% | G1 | 5 | 5 | 2 | 2 |
| G2 | 5 | 5 | 0 | 0 | |
| G3 | 2 | 2 | 0 | 0 | |
| G5 | 5 | 5 | 0 | 0 | |
| G7 | 5 | 5 | 0 | 0 | |
| G8 | 5 | 5 | 0 | 1 | |
| ≥1%, <10% | G4 | 1 | 1 | 0 | 1 |
| G6 | 4 | 4 | 0 | 1 | |
| G9 | 4 | 4 | 1 | 1 | |
| G10 | 3 | 4 | 1 | 1 | |
| G11 | 4 | 4 | 1 | 1 | |
| G12 | 5 | 5 | 2 | 2 | |
| G13 | 5 | 5 | 1 | 1 | |
| G14 | 5 | 5 | 0 | 0 | |
| G15 | 5 | 5 | 0 | 1 | |
| G16 | 5 | 5 | 0 | 0 | |
| G17 | 5 | 5 | 0 | 0 | |
| G18 | 5 | 5 | 0 | 0 | |
| G19 | 2 | 2 | 1 | 1 | |
| G20 | 3 | 4 | 0 | 0 | |
| G21 | 5 | 5 | 0 | 0 | |
| G22 | 4 | 5 | 0 | 0 | |
| G23 | 2 | 2 | 0 | 0 | |
| G24 | 2 | 2 | 0 | 0 | |
| G25 | 5 | 5 | 0 | 0 | |
| G26 | 2 | 3 | 0 | 0 | |
| G27 | 4 | 4 | 0 | 0 | |
| G28 | 5 | 4 | 0 | 0 | |
| G29 | 4 | 4 | 0 | 0 | |
| G30 | 4 | 3 | 0 | 0 | |
| G31 | 4 | 4 | 0 | 0 | |
| G32 | 5 | 5 | 0 | 0 | |
| G34 | 1 | 2 | 0 | 0 | |
| G36 | 3 | 4 | 0 | 0 | |
| G37 | 3 | 4 | 0 | 0 | |
| ≥0.1%, <1% | G33 | 5 | 5 | 0 | 1 |
| G35 | 3 | 3 | 0 | 1 | |
| G38 | 4 | 4 | 2 | 2 | |
| G39 | 2 | 3 | 1 | 1 | |
| G40 | 5 | 5 | 1 | 2 | |
| G41 | 0 | 1 | 1 | 1 | |
| G42 | 5 | 5 | 0 | 0 | |
| G43 | 3 | 2 | 1 | 1 | |
| G44 | 5 | 5 | 1 | 1 | |
| G45 | 2 | 2 | 0 | 0 | |
| G46 | 1 | 1 | 1 | 1 | |
| G47 | 4 | 4 | 0 | 0 | |
| G48 | 1 | 1 | 0 | 0 | |
| G49 | 2 | 2 | 0 | 0 | |
| G50 | 4 | 4 | 0 | 0 | |
| G51 | 4 | 4 | 0 | 0 | |
| G52 | 1 | 2 | 0 | 0 | |
| G54 | 5 | 5 | 0 | 1 | |
| G55 | 5 | 3 | 0 | 0 | |
| G57 | 1 | 1 | 0 | 0 | |
| G58 | 4 | 4 | 0 | 0 | |
| G59 | 2 | 0 | 0 | 0 | |
| <0.1% | G53 | 1 | 0 | 1 | 1 |
| G56 | 2 | 2 | 2 | 2 | |
| G60 | 4 | 4 | 0 | 1 | |
| G61 | 1 | 1 | 0 | 0 | |
| G62 | 0 | 1 | 0 | 0 | |
| G63 | 4 | 4 | 0 | 0 | |
| G64 | 1 | 1 | 0 | 0 | |
| G65 | 1 | 1 | 0 | 1 | |
| G66 | 3 | 1 | 0 | 0 | |
| G67 | 2 | 3 | 0 | 0 | |
| G68 | 2 | 1 | 1 | 1 | |
| G69 | 0 | 1 | 0 | 0 | |
| G70 | 2 | 2 | 1 | 1 | |
| G71 | 0 | 2 | 1 | 1 | |
| G72 | 1 | 1 | 1 | 1 | |
| G73 | 0 | 1 | 1 | 1 | |
| G74 | 1 | 2 | 0 | 0 | |
| G75 | 2 | 2 | 0 | 0 | |
| G76 | 3 | 3 | 0 | 1 | |
| G77 | 0 | 1 | 0 | 0 | |
| G78 | 1 | 0 | 0 | 0 | |
| G80 | 0 | 1 | 0 | 0 | |
| G81 | 2 | 0 | 0 | 0 | |
| G83 | 0 | 1 | 0 | 0 | |
| G84 | 1 | 1 | 0 | 0 | |
| G85 | 0 | 1 | 0 | 0 | |
| G86 | 2 | 0 | 0 | 0 | |
| G87 | 0 | 2 | 0 | 0 | |
| G88 | 0 | 1 | 0 | 0 | |
| G89 | 2 | 0 | 0 | 0 | |
| G91 | 1 | 0 | 0 | 0 | |
| G92 | 1 | 0 | 0 | 0 | |
| G93 | 0 | 1 | 0 | 0 | |
| (b) | |||||
|
Maximum Relative
Abundance |
Bacteria ID † | Number of Specimens with the Bacteria Detection (/5) | Number of Specimens with the Bacteria Abundance Out of the LOA | ||
| Method A | Method C | SD € | CI ∫ | ||
| ≥10% | G1 | 5 | 5 | 2 | 4 |
| G2 | 5 | 5 | 0 | 1 | |
| G3 | 2 | 2 | 0 | 0 | |
| G4 | 1 | 2 | 0 | 0 | |
| G5 | 5 | 5 | 0 | 0 | |
| G6 | 4 | 4 | 0 | 0 | |
| G7 | 5 | 5 | 0 | 0 | |
| G8 | 5 | 5 | 0 | 0 | |
| ≥1%, <10% | G9 | 4 | 4 | 1 | 1 |
| G10 | 3 | 3 | 0 | 0 | |
| G11 | 4 | 4 | 1 | 1 | |
| G12 | 5 | 5 | 0 | 0 | |
| G13 | 5 | 5 | 2 | 2 | |
| G14 | 5 | 5 | 2 | 2 | |
| G15 | 5 | 5 | 1 | 1 | |
| G16 | 5 | 5 | 1 | 1 | |
| G17 | 5 | 5 | 2 | 2 | |
| G18 | 5 | 5 | 0 | 0 | |
| G20 | 3 | 3 | 0 | 0 | |
| G21 | 5 | 5 | 0 | 0 | |
| G22 | 4 | 5 | 0 | 0 | |
| G23 | 2 | 2 | 0 | 0 | |
| G24 | 2 | 2 | 1 | 1 | |
| G25 | 5 | 5 | 0 | 0 | |
| G26 | 2 | 2 | 0 | 0 | |
| G27 | 4 | 4 | 0 | 0 | |
| G28 | 5 | 4 | 0 | 0 | |
| G29 | 4 | 3 | 0 | 0 | |
| G30 | 4 | 2 | 0 | 0 | |
| G31 | 4 | 3 | 0 | 0 | |
| G32 | 5 | 5 | 0 | 0 | |
| G33 | 5 | 5 | 0 | 0 | |
| G34 | 1 | 1 | 0 | 0 | |
| G35 | 3 | 4 | 0 | 0 | |
| G36 | 3 | 4 | 0 | 0 | |
| ≥0.1%, <1% | G19 | 2 | 0 | 1 | 1 |
| G37 | 3 | 3 | 0 | 0 | |
| G38 | 4 | 4 | 2 | 2 | |
| G39 | 2 | 2 | 0 | 0 | |
| G40 | 5 | 5 | 0 | 1 | |
| G41 | 0 | 2 | 1 | 1 | |
| G42 | 5 | 5 | 1 | 1 | |
| G43 | 3 | 2 | 0 | 0 | |
| G44 | 5 | 4 | 2 | 2 | |
| G45 | 2 | 2 | 1 | 1 | |
| G46 | 1 | 2 | 1 | 1 | |
| G47 | 4 | 4 | 1 | 1 | |
| G48 | 1 | 1 | 0 | 0 | |
| G49 | 2 | 1 | 0 | 0 | |
| G50 | 4 | 3 | 0 | 0 | |
| G51 | 4 | 3 | 0 | 0 | |
| G52 | 1 | 2 | 0 | 0 | |
| G53 | 1 | 1 | 0 | 0 | |
| G54 | 5 | 5 | 0 | 0 | |
| G55 | 5 | 4 | 0 | 0 | |
| G56 | 2 | 3 | 0 | 0 | |
| G57 | 1 | 2 | 0 | 0 | |
| G58 | 4 | 3 | 0 | 0 | |
| G59 | 2 | 3 | 0 | 0 | |
| <0.1% | G60 | 4 | 4 | 1 | 1 |
| G61 | 1 | 2 | 1 | 1 | |
| G62 | 0 | 1 | 1 | 1 | |
| G63 | 4 | 4 | 3 | 3 | |
| G64 | 1 | 1 | 1 | 1 | |
| G65 | 1 | 0 | 1 | 1 | |
| G66 | 3 | 4 | 1 | 1 | |
| G67 | 2 | 3 | 0 | 1 | |
| G68 | 2 | 0 | 0 | 0 | |
| G69 | 0 | 1 | 1 | 1 | |
| G70 | 2 | 2 | 0 | 0 | |
| G71 | 0 | 1 | 1 | 1 | |
| G72 | 1 | 1 | 1 | 1 | |
| G74 | 1 | 3 | 0 | 0 | |
| G75 | 2 | 1 | 0 | 0 | |
| G76 | 3 | 3 | 0 | 0 | |
| G77 | 0 | 1 | 0 | 0 | |
| G78 | 1 | 2 | 0 | 0 | |
| G79 | 0 | 1 | 0 | 0 | |
| G80 | 0 | 1 | 0 | 0 | |
| G81 | 2 | 1 | 0 | 0 | |
| G82 | 0 | 1 | 0 | 0 | |
| G84 | 1 | 1 | 0 | 0 | |
| G85 | 0 | 1 | 0 | 0 | |
| G86 | 2 | 0 | 0 | 0 | |
| G89 | 2 | 0 | 0 | 0 | |
| G90 | 0 | 1 | 0 | 0 | |
| G91 | 1 | 0 | 0 | 0 | |
| G92 | 1 | 0 | 0 | 0 | |
† See Table S5 for the bacterial taxonomy name corresponding to each ID. € SD, LOA was defined as mean ± 1.96 × SD of the differences between two measurements. ∫ CI, LOA was defined as the lower or upper limit of 95% CI of the upper or lower limit, respectively, of SD. LOA, limit of agreement; SD, standard deviation; CI, confidence interval.