Published April 4, 2025
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Table 2 in A comprehensive multigene phylogeny of Phylloporia (Hymenochaetaceae, Basidiomycota), with an emphasis on tropical African species
Authors/Creators
- 1. Département de Biologie, Ecologie et Evolution, Université de Liège, Quai Edouard Van Beneden 22, 4020 Liège, Belgium
- 2. Service Général de l'Enseignement Supérieur et de la Recherche Scientifique, Fédération Wallonie-Bruxelles, 1080 Brussels, Belgium & Meise Botanic Garden, Niewlaan 32, 1860 Meise, Belgium
- 3. Institut de Recherche en Ecologie Tropicale (IRET), BP- 13354 Gros Bouquet, Libreville, Gabon
- 4. Université catholique de Louvain (MUCL, BCCM), Earth and Life Institute - Microbiology (ELIM), Université catholique de Louvain, Croix du Sud 2 bte L 7.05.06, 1348 Louvain-la-Neuve, Belgium
Description
Table 2. Summary of data sets used for phylogenetic inferences.
| Properties | TEF-1α | TEF-1α | LSU | RPB2 | RPB2 | Introns |
|---|---|---|---|---|---|---|
| 1 st & 2 nd | 3 rd | 1 st & 2 nd | 3 rd | |||
| Alignment size | 592 | 296 | 995 | 524 | 262 | 292 |
| Excluded characters | — | — | 167 | — | — | — |
| Model selected | GTR+I+G | GTR+G | GTR+I+G | HKY+I+G | GTR+I+G | GTR+I+G |
| -Likelihood score Base frequencies | 3.250.915 | 66.952.549 | 158.480.479 | 22.536.924 | 55.748.057 | 57.160.884 |
| Freq. A | 0.3087 | 0.1481 | 0.2381 | 0.2930 | 0.2577 | 0.2337 |
| Freq. C | 0.2099 | 0.2839 | 0.1629 | 0.2224 | 0.2145 | 0.2105 |
| Freq. G | 0.2783 | 0.3013 | 0.3245 | 0.2613 | 0.2669 | 0.2110 |
| Freq. T | 0.2031 | 0.2667 | 0.2745 | 0.2233 | 0.2610 | 0.3448 |
| Proportion of invariable sites | 0.5357 | — | 0.3963 | 0.6198 | 0.0689 | 0.1118 |
| Gamma shape | 0.5344 | 32.455 | 0.6493 | 0.7747 | 91.620 | 46.204 |
| Test of substitution saturation1 | ||||||
| Iss | 0.484 | 0.501 | 0.711 | 0.241 | 0.379 | 0.618 |
| Iss.cSym | 0.712 | 0.683 | 0.802 | 0.705 | 0.682 | 0.724 |
| P (Sym) | <0.0001 | <0.0001 | <0.0001 | <0.0001 | <0.0001 | <0.0001 |
| Iss.cAsym | 0.384 | 0.354 | 0.442 | 0.378 | 0.465 | 0.769 |
| P (Asym) | <0.0001 | <0.0001 | <0.0001 | <0.0001 | <0.0001 | <0.0001 |
1 Iss: index of substitution saturation. Iss.cSym: critical value for symmetrical tree topology. Iss.cAsym: critical value for extremely assymetrical tree topology. P: probability that Iss is significantly different from the critical value (Iss.cSym or Iss.cAsym).
Notes
Published as part of Jerusalem, M., Amalfi, M., Yombiyeni, P., Castillo, G. & Decock, C., 2025, A comprehensive multigene phylogeny of Phylloporia (Hymenochaetaceae, Basidiomycota), with an emphasis on tropical African species, pp. 17 in Persoonia 54 (1) on page 17, DOI: 10.3114/persoonia.2025.54.01, http://zenodo.org/record/16898522
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- Is part of
- Journal article: 10.3114/persoonia.2025.54.01 (DOI)
- Journal article: urn:lsid:plazi.org:pub:6020FFF7704CFFF7FFF71349FFEDB244 (LSID)
- Journal article: http://publication.plazi.org/id/6020FFF7704CFFF7FFF71349FFEDB244 (URL)
- Journal article: http://zenodo.org/record/16898522 (URL)