TABLE 4.
Response of bacterial phyla composition to extraction step revealed through redundancy analysisa
| Phylumb | Avg % abundancec
|
Cumulative fit (%)d | t | |
|---|---|---|---|---|
| Extract 1 | Extract 6 | |||
| Acidobacteria | 32.8 | 17.3 | 61.8 | 0.20 |
| Actinobacteria | 5.5 | 11.2 | 32.8 | −0.26 |
| Bacteroidetes | 1.0 | 0.8 | 12.1 | 1.20 |
| BRC1 | <0.1 | <0.1 | 16.6 | 1.34 |
| Chlamydia | 0.7 | 0.5 | 3.5 | 1.26 |
| Chloroflexi | 0.6 | 1.1 | 1.8 | −1.55 |
| Firmicutes | 1.1 | 1.0 | 14.5 | 1.13 |
| Fusobacteria | <0.1 | 0 | 14.3 | 1.25 |
| Gemmatimonades | 1.0 | 0.6 | 34.6 | 0.58 |
| Nitrospira | 0.1 | <0.1 | 44.5 | 0.51 |
| OD1 | 0.5 | 0.1 | 47.1 | 0.35 |
| OP10 | <0.1 | <0.1 | 9.8 | 1.77 |
| Planctomycetes | 1.8 | 10.0 | 80.9 | −0.07 |
| Proteobacteria | 20.8 | 31.9 | 23.9 | −0.88 |
| Spirochaetes | <0.1 | 0 | 14.3 | 1.25 |
| Thermomicrobia | 0 | <0.1 | 14.3 | −1.25 |
| TM7 | 0.1 | <0.1 | 70.7 | 0.32 |
| Verrucomicrobia | 17.2 | 9.8 | 21.9 | 0.55 |
| WS3 | 0.6 | 0.2 | 51.3 | 0.46 |
a
Bold type indicates phyla that have critical t values closer to 0 than the t value for the extraction step in this redundancy analysis (0.63). This indicates that the extraction step is a significant predictor for the abundance of bolded phyla.
b
Sequence classification into phyla was based on the RDP-II classifier at 50% confidence (30).
c
Relative abundances are averaged across sand and clay soil samples.
d
Percentage of variability in phylum abundance as explained by extraction step 1 versus extraction step 6.