Table 1.
Quantitative group comparisons using ANOSIM and PCoA to analyze large effect sizes (between environments) of simulated and unsimulated human saliva and public restroom floor samples
| Test statistic (R) | p value | % explained | |
|---|---|---|---|
| Unsimulated (real) data community analysis | |||
| Jaccard (Fig. 2a) | 0.865 | 0.001 | 31.24 |
| Bray-Curtis (Fig. 2b) | 0.849 | 0.001 | 47.17 |
| Unweighted UniFrac with FastTree (Fig. 2c) | 0.734 | 0.001 | 43.56 |
| Weighted UniFrac with FastTree (Fig. 2d) | 0.263 | 0.001 | 63.52 |
| Unweighted UniFrac with ghost-tree (Fig. 2e; Additional file 1: Figure S1A) | 0.753 | 0.001 | 50.79 |
| Weighted UniFrac with ghost-tree (Fig. 2f; Additional file 1: Figure S1B) | 0.463 | 0.001 | 76.21 |
| Unweighted UniFrac with ghost-tree 0 branch foundation (Additional file 1: Figure S1C) | 0.730 | 0.001 | 50.61 |
| Weighted UniFrac with ghost-tree 0 branch foundation (Additional file 1: Figure S1D) | 0.458 | 0.001 | 76.91 |
| Unweighted UniFrac with ghost-tree 0 branch extensions (Additional file 1: Figure S1E) | 0.700 | 0.001 | 66.11 |
| Weighted UniFrac with ghost-tree 0 branch extensions (Additional file 1: Figure S1F) | 0.453 | 0.001 | 67.97 |
| Simulated data community analysis | |||
| Jaccard to analyze FTSCs (Fig. 3a) | 0.191 | 0.001 | 3.05 |
| Bray-Curtis to analyze FTSCs (Fig. 3b) | 0.191 | 0.001 | 2.71 |
| Jaccard to analyze GTSCs (Fig. 3c) | 0.036 | 0.001 | 1.63 |
| Bray-Curtis to analyze GTSCs (Fig. 3d) | 0.036 | 0.001 | 2.43 |
| Unweighted UniFrac with FastTree to analyze FTSCs (Fig. 3e) | 0.675 | 0.001 | 22.10 |
| Weighted UniFrac with FastTree to analyze FTSCs (Fig. 3f) | 0.255 | 0.001 | 43.69 |
| Unweighted UniFrac with FastTree to analyze GTSCs (Fig. 3g) | 0.298 | 0.001 | 68.87 |
| Weighted UniFrac with FastTree to analyze GTSCs (Fig. 3h) | 0.150 | 0.001 | 54.08 |
| Unweighted UniFrac with ghost-tree to analyze FTSCs (Fig. 3i) | 0.302 | 0.001 | 27.72 |
| Weighted UniFrac with ghost-tree to analyze FTSCs (Fig. 3j) | 0.117 | 0.001 | 35.55 |
| Unweighted UniFrac with ghost-tree to analyze GTSCs (Fig. 3k) | 0.580 | 0.001 | 20.40 |
| Weighted UniFrac with ghost-tree to analyze GTSCs (Fig. 3l) | 0.307 | 0.001 | 44.98 |
Note: For unsimulated samples, sample size is 36, and two groups were analyzed using 999 permutations. For simulated samples, sample size is 360, and two groups were analyzed using 999 permutations. The test statistic (R), p value, and percent variation explained in the first the PCoA axes are presented for each comparison