Table 3.
Delimitation efficiency ratio (DER) results for the species delimitation analyses of the nine Diaporthe clades studied.
| Clade | Delimitation efficiency ratio (DER)1 | ||||||
|---|---|---|---|---|---|---|---|
|
| |||||||
| PTP | mPTP | ABGD2 | ASAP2 | SPN | |||
|
|
|
||||||
| Combined | tef1 | Combined | tef1 | ||||
| D. amygdali clade (Fig. 12A) | 1 | 1 | 1 | 1 | 1 | 1 | 1 |
| D. brasiliensis clade (Fig. 13A) | 1 | 1 | 1 | 1 | 1 | 1 | 1 |
| D. eucommiae clade (Fig. 14A) | 1 | 1 | 0.33 | 0.33 | 0.33 | 0.33 | 1 |
| D. foeniculina clade (Fig. 15A) | 1 | 1 | 0.25 | 0.25 | 0.25 | 0.25 | 0.4 |
| D. glabrae clade (Fig. 16A) | 1 | 1 | 0.67 | 0.33 | 0.33 | 0.33 | 0.67 |
| D. inconspicua clade (Fig. 17A) | 1 | 1 | 1 | 1 | 1 | 1 | 1 |
| D. leucospermi clade (Fig. 18A) | 0.86 | 0.86 | 0.71 | 0.14 | 0.71 | 0.14 | 1.43* |
| D. longicolla clade (Fig. 19A) | 1 | 1 | 1 | 0.67 | 1 | 0.67 | 0.67 |
| D. rudis clade (Fig. 20A) | 1 | 1 | 0.83 | 0.83 | 0.83 | 0.83 | 1 |
1 PTP: Poisson tree processes; mPTP: multi-rate PTP; ABGD: automatic barcode gap discovery; ASAP: assemble species by automatic partitioning; SPN: statistical parsimony network.
2 Combined: combined dataset based on 5- (ITS, tef1, tub2, cal and his3) or 3-loci (ITS, tef1 and tub2), as cal and his3 loci were excluded from certain clades due to lack of sequences for several taxa (for details see the corresponding figure).
*
DER > 1, the species delimitation analysis recognised a higher number of molecular operational taxonomic units (MOTU) when compared to the number of species recognised by the GCPSR principle.