Table 2. Determining drivers of bacterial community assembly using CAP.
Constrained factor |
Bray–Curtis |
Weighted Unifrac |
Unweighted Unifrac |
|||||||
---|---|---|---|---|---|---|---|---|---|---|
% | P-value | CI | % | P-value | CI | % | P-value | CI | ||
Soil type+environment | Compartmenta | 31 | *** | 21, 48 | 33 | *** | 20, 52 | 36 | *** | 23, 64 |
Environmenta | 11 | *** | 8, 16 | 8.2 | *** | 5, 13 | 9.8 | *** | 7, 14 | |
Compartmentb | 25 | *** | 15, 47 | 24 | *** | 13, 46 | 37 | *** | 19, 78 | |
Genotypeb | 9.1 | *** | 7.3, 11 | 12 | *** | 8.5, 16 | 4.8 | * | 4.2, 5.5 | |
Compartmentc | 31 | *** | 20, 50 | 39 | *** | 22, 67 | 33 | *** | 21, 53 | |
Soil typec | 15 | *** | 9, 26 | 11 | *** | 6, 20 | 15 | *** | 10, 25 | |
Time course | Compartment | 19 | *** | 14, 27 | 25 | *** | 17, 39 | 18 | *** | 14, 26 |
Time point | 9.9 | *** | 7.8, 13 | 12 | *** | 8.5, 18 | 6.6 | *** | 5.7, 7.8 | |
Soil batch | 6.6 | *** | 4.9, 9.1 | 5.3 | *** | 3.6, 8 | 8.4 | *** | 6.6, 11 | |
Flowering stage | 1.5 | NS | 1.2, 1.9 | 1.3 | NS | 1.0, 1.9 | 1.8 | * | 1.3, 2.5 | |
Mutant background | 0.6 | NS | 0.4, 0.8 | 0.8 | NS | 0.5, 1.2 | 0.7 | NS | 0.5, 1.1 | |
Diversification | Compartment | 21 | *** | 12, 37 | 26 | *** | 12, 51 | 18 | *** | 12, 31 |
Soil batch | 19 | *** | 14, 28 | 20 | *** | 12, 32 | 18 | *** | 14, 24 | |
Plant species | 10 | *** | 8, 14 | 10 | *** | 7, 15 | 7.3 | *** | 6, 9 |
Abbreviations: CAP, constrained analysis of principal coordinates; CI, confidence interval; NS, non-significant; PERMANOVA, permutation-based analysis of variance.
Variation (in %) between samples in the ‘soil type and environment', ‘time course' and ‘diversification' experiments based on Bray–Curtis, weighted and unweighted UniFrac distances, constraining for the indicated factors. P-value based on PERMANOVA (999 permutations). *P<0.05, **P<0.01, ***P<0.001. Samples were analyzed separately according to the three different experimental setups as stated in Table 1. In addition, the ‘soil type and environment' samples were separated as follows:
Gal60 grown at the natural site and the greenhouse.
Gal60, Gal5 and Paj grown in French soil in the greenhouse.
Paj grown in the French and Cologne soil in the greenhouse.