Table 3.
Differences in the number of putative fungal functional groups (identified by FUNGuild “trophic level” annotations) in the rhizosphere of healthy and diseased cotton plants in two cultivars (LM28 and ZHM2).
| Annotated | LM28 | ZHM2 | Both | |||||||
|---|---|---|---|---|---|---|---|---|---|---|
| Sig. | Odds ratio | P | Sig. | Odds ratio | P | Sig. | Odds ratio | P | ||
| Undefined sap | 433 | 143 | 0.54 | <0.001 | 172 | 0.55 | <0.001 | 178 | 0.62 | <0.001 |
| Plant path undefined sap | 14 | 8 | 0.31 | 0.012 | 8 | 0.38 | 0.045 | 9 | 0.40 | 0.036 |
| Dung sap undefined sap | 5 | 4 | 0.22 | 0.035 | 4 | 0.27 | 0.062 | 4 | 0.32 | 0.090 |
| Arbuscular mycorrhizal | 71 | 5 | 2.52 | 0.035 | 9 | 1.73 | 0.140 | 12 | 1.51 | 0.215 |
| Fungal parasite Undefined sap | 133 | 52 | 0.45 | <0.001 | 29 | 1.01 | 1.000 | 53 | 0.64 | 0.009 |
| Endophyte fungal parasite plant path | 9 | 5 | 0.32 | 0.048 | 5 | 0.39 | 0.152 | 5 | 0.46 | 0.178 |
| Animal path endophyte Fungal parasite Plant path Wood sap | 21 | 10 | 0.37 | 0.019 | 11 | 0.42 | 0.034 | 12 | 0.45 | 0.030 |
| Endophyte Litter sap Soil sap undefined sap | 39 | 15 | 0.46 | 0.020 | 19 | 0.45 | 0.009 | 20 | 0.50 | 0.014 |
| Animal path Dung sap endophyte Epiphyte Plant sap Wood sap | 19 | 10 | 0.34 | 0.008 | 12 | 0.35 | 0.008 | 12 | 0.40 | 0.022 |
Individual OTUs with significant differences in its abundance between diseased and healthy plants determined by DESeq2 analysis. Odds ratio of <1 indicates a higher proportion of OTUs in the particular fungal functional group in the microbiome of diseased samples, and P-value indicates whether the odds ratio differs significantly from 1.0. Only guilds with P ≤ 0.05 in any of the contrasts are shown.