Resolving the psyllid tree of life: phylogenomic analyses of the superfamily Psylloidea (Hemiptera)
Why this work is in the frame
A frame that forgets how it found something cannot be audited. These are the routes that admitted this work.
Bibliographic record
Abstract
Abstract Understanding evolutionary relationships in the superfamily Psylloidea is challenging due to the lack of clear morphological synapomorphies for many groups. Some families and many of the genera, including the two largest, Cacopsylla Ossiannilsson and Trioza Foerster, have long been acknowledged as nonmonophyletic and the circumscription of natural groups has remained fluid. We present the best phylogenetic hypothesis to date for Psylloidea and provide a working systematic framework to better reflect evolutionary relationships. A shotgun sequencing approach using mixed pool DNAs for more than 400 species resulted in recovery from de novo assemblies of near‐complete mitogenomes (≥10 kb) for 359 species, and partial genomes (5–10 kb) for an additional 40 species. The resulting phylogeny improves and clarifies the family classification and resolves some of the longstanding uncertainties in relationships within and between genera. A whole‐nuclear‐genome scan approach (yielding data from an estimated 373 nuclear genes) using the anchored hybrid enrichment method for a representative subset of taxa confirms the placement of major groupings and overall tree topology recovered with the mitochondrial data. The data generated represent a major increase in molecular resources for this superfamily. In addition, we highlight areas of remaining uncertainty that require further sampling and/or additional sources of data. The phylogeny provides new insights for both evolutionary and applied research, and a backbone constraint tree allows the placement of taxa of particular interest or concern (e.g. pest taxa) with only small fragments of sequence available (e.g. DNA barcodes).
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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 | 0.001 | 0.000 |
| Meta-epidemiology (narrow) | 0.000 | 0.000 |
| Meta-epidemiology (broad) | 0.001 | 0.000 |
| Bibliometrics | 0.000 | 0.000 |
| Science and technology studies | 0.000 | 0.000 |
| Scholarly communication | 0.000 | 0.000 |
| Open science | 0.001 | 0.000 |
| Research integrity | 0.000 | 0.000 |
| Insufficient payload (model declined to judge) | 0.000 | 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 it