A quantitative real‐time <scp>PCR</scp> assay for detection of <i> <scp>C</scp> olletotrichum lindemuthianum </i> in navy bean seeds
Bibliographic record
Abstract
Bean anthracnose is a seedborne disease of common bean ( P haseolus vulgaris ) caused by the fungal pathogen C olletotrichum lindemuthianum . Using seed that did not test positive for the pathogen has been proven to be an effective strategy for bean anthracnose control. To quantify the extent of anthracnose seed infection, a real‐time PCR ‐based diagnostic assay was developed for detecting C . lindemuthianum in seeds of the commercial bean class navy bean. The ribosomal DNA ( rDNA ) region consisting of part of the18 S rDNA , 5 . 8S rDNA , internal transcribed spacers ( ITS ) 1, 2 and part of the 28 S rDNA of seven races of C . lindemuthianum , 21 isolates of C olletotrichum species and nine other bean pathogens were sequenced with the universal primer set ITS 5/ ITS 4. Based on the aligned sequence matrix, one primer set and a probe were designed for a SYBR Green dye assay and a T aq M an MGB (minor groove binder) assay. The primer set was demonstrated to be specific for C . lindemuthianum and showed a high sensitivity for the target pathogen. The detection limit of both assays was 5 fg of C . lindemuthianum genomic DNA . To explore the correlation between the lesion area and the DNA amount of C . lindemuthianum in bean seed, seeds of the navy bean cultivar N avigator with lesions of different sizes, as well as symptomless seeds, were used in both real‐time PCR assays.
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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 | 0.001 | 0.001 |
| 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".