Phylogeography of cavity-nesting honeybees (Apis)
Bibliographic record
Abstract
We examine phylogenetic relationships among species and populations of Asian cavity-nesting honeybees, emphasizing detection of potential unrecognized species in the geographically widespread <em>Apis cerana</em> Fabricius (Hymenoptera, Apidae). We carried out a phylogenetic analysis of genome-wide single nucleotide polymorphisms (SNPs) using BEASTv1.8.4 and IQ-TREE 2. Our samples cover the largest geographic area and number of populations of Asian cavity-nesting honeybees sampled to date. Nodes in the tree were calibrated using the mid-Miocene giant honeybee <em>Apis lithohermaea</em> Engel. We used STRUCTURE, Bayes Factor Delimitation, and discriminant analysis of principal components to infer probable species among populations of cavity-nesting honeybees currently recognized as <em>Apis cerana</em>. Our results support four species within <em>A. cerana</em>: the yellow "plains" honeybee of India and Sri Lanka; the lineage inhabiting the oceanic Philippine islands; the Sundaland lineage found in Indonesia, Malaysia and parts of southeast Asia; and a Mainland lineage, which we provisionally consider <em>A. cerana</em> in a narrow sense.
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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 | 0.001 |
| 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 | 0.001 | 0.001 |
| Research integrity | 0.000 | 0.000 |
| Insufficient payload (model declined to judge) | 0.003 | 0.002 |
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; both teacher heads agree on what is shown here.
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".