Characterization of begomoviruses in the South West islands of the Indian Ocean
Bibliographic record
Abstract
Characteristic symptoms of Tomato yellow leaf curl disease on tomato plants with a great economic impact were recently observed in several islands of the South West part of the Indian Ocean. Tomato leaf samples presenting symptoms were assessed for viral presence by degenerate begomoviruses primers. Samples from Madagascar, Mayotte and Réunion were tested positive for DNA-A. No presence of DNA-B or DNA-? was revealed. For Réunion, the complete DNA-A was cloned and sequenced. Agroinoculation of tomato plants and transmission by Bemisia tabaci confirmed the Koch's postulate. The most significant alignments were obtained with Tomato yellow leaf curl virus (TYLCV) isolates with 98 to 99% nucleotide identity (DNAMAN, Lynnon Corporation, Quebec), suggesting that the virus present in Réunion is an isolate of TYLCV. For Madagascar, the 522 bp of the core region of the capsid protein (Whyatt and Brown, 1994) showed the most significant alignments with begomoviruses (NCBI, BLAST), 86 to 88% nucleotide identity (DNAMAN) with the isolates from Mayotte, 82% nucleotide identity with TYLCV isolates, South African mosaic virus - M12 (SACMV-[M12]) and East African mosaic Malawi virus - Malawi [K]. For Mayotte, the same region of the capsid protein showed similarly the most nucleotide identity with the isolate from Madagascar (86 to 88%), 86 to 87% nucleotide identity with TYLCV isolates and 85 to 86% nucleotide identity with SACMV-[M12]. The low nucleotide identity of begomovirus isolates from Madagascar and Mayotte (< 89%) with available begomovirus nucleotide sequences suggest the presence of two new species. To perform our analysis, the cloning and sequencing of the complete DNA-A of these viruses is actually in course. (Texte intégral)
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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 | 0.000 | 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 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".