Table 1.
Alpha diversity indices used in this study.
| Index notation | Order | Phylogenetic | Interpretation |
|---|---|---|---|
| 0D | 0 | no | not weighted by abundance = species richness |
| 1D | 1 | no | species weighted exactly by their abundance = exp(Shannon’s H) |
| 2D | 2 | no | more weight given to dominant species = inv. Simpson index |
| InfD | Inf | no | only the most dominant species counts = inverse of Berger-Parker index |
| 0Dph | 0 | yes | lineage richness = Faith’s PD |
| 1Dph | 1 | yes | lineages weighted by their abundance (“richness of common lineages”) |
| 2Dph | 2 | yes | more weight given to dominant lineages (“richness of abundant lineages”) |
Order (q) defines how much weight is given to abundant taxa. See Methods for more details.