Characterisation of the genome and secretome of Phytophthora cryptogea and P. erythroseptica
Bibliographic record
Abstract
Phytophthora cryptogea Pethybr. & Laff. and P. erythroseptica Pethybr. are oomycetes that cause root rot diseases of multiple plant species, including serious diseases of potato. These two species of Phytophthora were originally reported in Ireland more than 100 years ago and are closely related phylogenetically and morphologically similar. Both species have wide host ranges and can hybridise with each other. In this study, we sequenced whole genomes of the ex-type strain of P. cryptogea (CBS 113.19) and the authentic strain of P. erythroseptica (P6180). The genomes of the two isolates were assembled into 52.5 Mb and 74.7 Mb, respectively. A total of 11,654 protein-encoding genes were predicted for P. cryptogea and 15,970 for P. erythroseptica . Phylogenomic analyses of 2012 single-copy orthologous genes and 99 BUSCO genes from the stramenopiles dataset confirmed that they are sister species and show that they belong to Phytophthora clade 8. The secretome analysis of P. erythroseptica P6180, P. cryptogea CBS 418.71 and P. cryptogea CBS 113.19 may provide information for future research on resistance-breeding targets and strategies for pathogen control. This genomic characterisation of the two Phytophthora species provides additional reference data that might be useful for future studies on Phytophthora genetic variation, pathogenicity and biological traits.
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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) | 0.000 | 0.000 |
| Bibliometrics | 0.000 | 0.000 |
| Science and technology studies | 0.000 | 0.000 |
| Scholarly communication | 0.000 | 0.000 |
| Open science | 0.000 | 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".