Table 2.
COI haplotype frequencies for Rana temporaria populations in the Province of Trento detected by eDNA metabarcoding across temporal replicates. For each wetland site, haplotype frequencies (mean of spatial replicates S1-3) detected by eDNA metabarcoding at the different temporal points (T1, T2 and mean T1 + T2) are reported, together with available frequencies derived from traditional tissue-based genetic sampling (reference dataset: 41). nd = no data.
| Site | Dataset | COI haplotypes (frequencies) | |||||||
|---|---|---|---|---|---|---|---|---|---|
| CA2_TN4 | VC6 | PR4 | SA1_PR7 | TN2 | TN3 | TN5 | MT5 | ||
| Amp | eDNA (T1) | 0.644 | 0 | 0 | 0 | 0.74 | 0 | 0 | 0 |
| eDNA (T2) | 0.317 | 0 | 0 | 0 | 0.68 | 0 | 0 | 0 | |
| eDNA (T1 + T2) | 0.2907 | 0 | 0 | 0 | 0.71 | 0 | 0 | 0 | |
| reference dataset | 0.4 | 0 | 0 | 0 | 0.6 | 0 | 0 | 0 | |
| Bed | eDNA (T1) | 0.2637 | 0.61 | 0.122 | 0 | 0 | 0 | 0 | 0 |
| eDNA (T2) | 0.2006 | 0.59 | 0.209 | 0 | 0 | 0 | 0 | 0 | |
| eDNA (T1 + T2) | 0.2321 | 0.6 | 0.166 | 0 | 0 | 0 | 0 | 0 | |
| reference dataset | 0.1 | 0.8 | 0.1 | 0 | 0 | 0 | 0 | 0 | |
| Fia | eDNA (T1) | 0.3871 | 0 | 0 | 0 | 0.16 | 0.43 | 0.0196 | 0 |
| eDNA (T2) | 0.4415 | 0 | 0 | 0 | 0.06 | 0.49 | 0 | 0 | |
| eDNA (T1 + T2) | 0.4089 | 0 | 0 | 0 | 0.12 | 0.46 | 0.0118 | 0 | |
| reference dataset | 0.3 | 0 | 0 | 0 | 0.1 | 0.3 | 0.3 | 0 | |
| Ing | eDNA (T1) | 0.9528 | 0.05 | 0 | 0 | 0 | 0 | 0 | 0 |
| eDNA (T2) | 0.2345 | 0.77 | 0 | 0 | 0 | 0 | 0 | 0 | |
| eDNA (T1 + T2) | 0.7133 | 0.29 | 0 | 0 | 0 | 0 | 0 | 0 | |
| reference dataset | 0.8 | 0.2 | 0 | 0 | 0 | 0 | 0 | 0 | |
| Lel | eDNA (T1) | 0.2203 | 0.78 | 0 | 0 | 0 | 0 | 0 | 0 |
| eDNA (T2) | nd | nd | nd | nd | nd | nd | nd | nd | |
| eDNA (T1 + T2) | 0.2203 | 0.78 | 0 | 0 | 0 | 0 | 0 | 0 | |
| reference dataset | 0.5 | 0.4 | 0 | 0.1a | 0 | 0 | 0 | 0 | |
| PLa | eDNA (T1) | 0.8031 | 0 | 0.134b | 0.0628 | 0 | 0 | 0 | 0 |
| eDNA (T2) | nd | nd | nd | nd | nd | nd | nd | nd | |
| eDNA (T1 + T2) | 0.8031 | 0 | 0.134b | 0.0628 | 0 | 0 | 0 | 0 | |
| reference dataset | 0.8 | 0 | 0 | 0.2 | 0 | 0 | 0 | 0 | |
| PMa | eDNA (T1) | 0.1754 | 0.82 | 0 | 0 | 0 | 0 | 0 | 0 |
| eDNA (T2) | nd | nd | nd | nd | nd | nd | nd | nd | |
| eDNA (T1 + T2) | 0.1754 | 0.82 | 0 | 0 | 0 | 0 | 0 | 0 | |
| reference dataset | 0.7 | 0.3 | 0 | 0 | 0 | 0 | 0 | 0 | |
| PS1 | eDNA (T1) | 0.3936 | 0.35 | 0.26 | 0 | 0 | 0 | 0 | 0 |
| eDNA (T2) | 0.7635 | 0 | 0.237 | 0 | 0 | 0 | 0 | 0 | |
| eDNA (T1 + T2) | 0.5169 | 0.23 | 0.252 | 0 | 0 | 0 | 0 | 0 | |
| reference dataset | 0.3 | 0.2 | 0.5 | 0 | 0 | 0 | 0 | 0 | |
| PS2 | eDNA (T1) | 0.6715 | 0.09 | 0.238 | 0 | 0 | 0 | 0 | 0 |
| eDNA (T2) | nd | nd | nd | nd | nd | nd | nd | nd | |
| eDNA (T1 + T2) | 0.6715 | 0.09 | 0.238 | 0 | 0 | 0 | 0 | 0 | |
| reference dataset | 0.5 | 0.1 | 0.4 | 0 | 0 | 0 | 0 | 0 | |
| Va1 | eDNA (T1) | 0.5235 | 0 | 0 | 0 | 0.24 | 0.19 | 0.0373b | 0 |
| eDNA (T2) | 0.4887 | 0 | 0 | 0 | 0.1 | 0.25 | 0.1544b | 0 | |
| eDNA (T1 + T2) | 0.5061 | 0 | 0 | 0 | 0.17 | 0.22 | 0.0959b | 0 | |
| reference dataset | 0.4 | 0 | 0 | 0 | 0.1 | 0.2 | 0 | 0.3a | |