Table 4.
Phylogenetic model comparisons for plastid and mitochondrial gene sets. GTR + Γ + I is an unpartitioned model, and GTR + FO*R{2–8} represent GHOST heterotachy models with two to eight rate classes, representing fully edge-unlinked models. Best-fit models appear in boldface. The constraint specifies monophyly of a clade containing Gastrodieae, Nervilieae and Wullschlaegelieae, following the recent nuclear gene coalescent analysis of Pérez-Escobar et al. (2024).
| Model | lnL | Number of parameters1 | BIC2 | ΔBIC3 | wBIC4 | |
|---|---|---|---|---|---|---|
| Plastid | H1 (GTR+Γ+I) | −499 800 | 151 | 1 001 319 | 11 768 | 0 |
| H2 (GTR+FO*H2) | −497 445 | 299 | 998 295 | 8744 | 0 | |
| H4 (GTR+FO*H4) | −491 824 | 599 | 990 470 | 918 | 0 | |
| H6 (GTR+FO*H6) | −489 657 | 899 | 989 551 | 0 | 1 | |
| H8 (GTR+FO*H8) | −488 799 | 1199 | 991 253 | 1701 | 0 | |
| H6 (constrained) | −489 844 | 899 | 989 927 | 1534 | 0 | |
| Mitochondrial | H1 (GTR+Γ+I) | −160 290 | 171 | 322 360 | 5174 | 0 |
| H2 (GTR+FO*H2) | −157 686 | 339 | 318 902 | 1716 | 0 | |
| H4 (GTR+FO*H4) | −155 058 | 679 | 317 186 | 0 | 1 | |
| H6 (GTR+FO*H6) | −154 138 | 1019 | 318 886 | 1700 | 0 | |
| H8 (GTR+FO*H8) | −153 597 | 1359 | 321 343 | 4157 | 0 | |
| H4 (constrained) | −154 931 | 679 | 317 931 | 745 | 0 |
1Number of free parameters in each model. 2Bayesian Information criterion. 3Difference in BIC values between a particular model and the best model. 4BIC weight of the model.