Proposal to establish a common taxon for 16SrV-C and 16SrV-D phytoplasmas and three genetic clades based on combined 16S rDNA signatures and variability of housekeeping genes
Bibliographic record
Abstract
Members of subgroups 16SrV-C and-D form a homogenous genetic cluster with a complex ecology that involves perennial plants such as alders, grapevine and Clematis and leafhopper vectors. However, despite the monophyletic origin of the members of these subgroups, a common specific sequence could not be found in their 16S rRNA gene, preventing from describing a common taxon according to the rules for the description of ‘Candidatus Phytoplasma’ species. The genetic diversity of 16S rRNA and five housekeeping genes among European and American strains of 16SrV phytoplasmas, including 16SrV-C strains detected in Canadian alders were examined. Members of subgroups 16SrV-C and 16SrV-D share a common combination of three sequence signatures in the 16S rRNA gene that can serve as descriptors for a new common taxon. According to the sequences of tuf, rplV-rpsC, rplF-rplR, map and uvrB-degV genes, they can be divided into three genetic clusters.
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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) | 0.001 | 0.000 |
| Bibliometrics | 0.000 | 0.000 |
| Science and technology studies | 0.000 | 0.000 |
| Scholarly communication | 0.000 | 0.000 |
| Open science | 0.000 | 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 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".