Detection by high-throughput sequencing and molecular characterization of complexes of fabaviruses infecting ‘Staccato<sup>(R)</sup>’ sweet cherry (<i>Prunus avium</i>) in Canada
Bibliographic record
Abstract
High throughput sequencing (HTS) revealed the existence of complexes of fabaviruses infecting two ‘Staccato(R) ’ sweet cherry plants (Prunus avium). Species classified as members of the genus Fabavirus are positive sense RNA viruses that possess bipartite genomes. The cherry plants Stac-3B (symptomatic) and Stac-4B (asymptomatic) were each determined to be infected with multiple RNA1 and RNA2 segments of Prunus virus F (PrVF) and the putative cherry virus F (CVF). The RNA1 and RNA2 segments Stac-3B_C3 and Stac-3B_c11, respectively, are proposed to represent an isolate identified as PrVF-CP1; while the RNA1 and RNA2 segments Stac-3B_C4 and Stac-3B_c7 are proposed to represent an isolate CVF-CC1. The termini of these four RNA segments were confirmed by RACE revealing that the first 28 nucleotides of the 5ʹuntranslated region (UTR) of all four RNA segments is conserved and is predicted to form a hairpin structure. The 3ʹUTRs possess various repeat sequences. Very interestingly, a group of PrVF sequences, exemplified by SwC 74_2c, were identified as the products of an interspecies recombination event, with PrVF 8816_s1 as a possible major parent and an isolate of CVF being the minor parent. This was supported by all methods in the RDP4 program. No association was made of any of the fabavirus complexes with any disease symptoms. This is the first description of the detection of CVF in Canada.
Fetched live from OpenAlex and de-inverted. Abstracts are not stored in this database: the inverted indexes are 8.6 GB of the frame’s 9.3 GB of text, and the host has 13 GB free.
How this classification was reachedexpand
Full frame machine prediction
Teacher imitationNot calibrated prevalence, not ground truth. Human validation pending. The Gemma side is a direct model label for every work in the frame, read from the title-only record. The Codex side is a classifier learned from the 10,348 direct Codex labels and calibrated to design-weighted sample rates; fields without enough sample support carry no Codex call. Candidate is the union of the two sides; consensus is their intersection. These outputs are machine_predicted_unvalidated and are not human labels.
Distilled classifier scores by category (both heads)
| Category | Codex | Gemma |
|---|---|---|
| Metaresearch | 0.000 | 0.000 |
| Meta-epidemiology (narrow) | 0.000 | 0.000 |
| Meta-epidemiology (broad) | 0.000 | 0.000 |
| Bibliometrics | 0.001 | 0.001 |
| Science and technology studies | 0.001 | 0.000 |
| Scholarly communication | 0.001 | 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 source (direct Gemma or distilled Codex), 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".