Towards a molecular phylogeny for the lichen family Pannariaceae (Lecanorales, Ascomycota)
Bibliographic record
Abstract
The phylogeny of the family Pannariaceae (Lecanorales, lichenized Ascomycota) was investigated using ITS15.8SITS2 nuclear ribosomal DNA sequences representing 21 species. Phylogenetic estimations were performed using parsimony and a Bayesian Markov chain Monte Carlo (MCMC) tree sampling procedure. Several phylogenetic null hypotheses were tested, also using MCMC. The results indicate that Pannariaceae, as currently treated, is polyphyletic and that Degelia sect. Amphiloma, Fuscopannaria subg. Micropannaria, and Moelleropsis s.str. do not belong in the family. The inclusion of Parmeliella in the Pannariaceae could not be rejected, although it falls outside the family in the optimal trees. Psoroma, Santessoniella, Protopannaria, Fuscopannaria subg. Fuscopannaria, Moelleropsis s.str., and Pannaria unequivocally belong to the family. The Pannaria sphinctrina group belongs in Pannaria despite its green-algal photobiont. Protopannaria pezizoides is not, as sometimes treated, a Pannaria, although a relationship with Psoroma could not be ruled out. In the optimal trees, Moelleropsis s.str. is nested inside Fuscopannaria subg. Fuscopannaria and Santessoniella inside Psoroma, but null hypotheses of their independence from these genera could not be rejected. Pannaria cannot be divided into two monophyletic subgenera, Pannaria and Chryopannaria. The photobiont has changed twice or three times and the ascus apex and hymenial amyloidity twice within the Pannariaceae.Key words: lichens, Pannariaceae, ITS, ribosomal DNA, phylogeny, MCMC.
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How this classification was reachedexpand
Full frame distilled prediction
Teacher imitationNot calibrated prevalence, not ground truth. Human validation pending. Learned from the 10,348 direct Codex labels and 10,348 direct Gemma labels. Candidate is the union of thresholded teacher heads; consensus is their intersection. These outputs are machine_predicted_unvalidated and are not human labels or direct frontier model labels.
Codex and Gemma teacher scores by category
| Category | Codex | Gemma |
|---|---|---|
| Metaresearch | 0.000 | 0.000 |
| Meta-epidemiology (narrow) | 0.000 | 0.000 |
| Meta-epidemiology (broad) | 0.000 | 0.000 |
| Bibliometrics | 0.000 | 0.000 |
| Science and technology studies | 0.000 | 0.000 |
| Scholarly communication | 0.000 | 0.000 |
| Open science | 0.000 | 0.000 |
| Research integrity | 0.000 | 0.000 |
| Insufficient payload (model declined to judge) | 0.001 | 0.000 |
Machine scores (provisional)
The two teacher heads of the student model, read on this work. A score orders the frame for review; it never asserts a category, and the validation status ships verbatim with every row.
Baseline scores from an immature model (maturity gate not passed, 7 training rounds). Scores rank; they never assert a category.
score_only:v0-immature-baseline · verbatim from the scoring run: score_only means the number may rank works, and no category label ships from itClassification
machine, unvalidatedMachine predicted; a candidate call from one teacher head, not a consensus.
How this classification was reached, model by model and score by score, is at the end of the page under "How this classification was reached".