Whole Genome Sequencing and Comparative Genomics of Fusarium Head Blight Fungi
Bibliographic record
Abstract
Plant pathogenic fungi from the genus Fusarium can cause economically important diseases of several different agricultural crops, including Fusarium Head Blight (FHB) of wheat.In addition to physically damaging the crops and causing reduced yield, these fungi produce toxins that contaminate the grains and make their products unsafe for consumption.Fungi causing this disease are considerably diverse in their biology with the most prominent and globally distributed species being from the F. graminearum species complex.Fungi from other taxonomic groups, such as F. avenaceum from the F. tricinctum species complex, also cause FHB and have the same geographical ranges as FHB pathogens from the F. graminearum species complex.This study explores the genomic similarities and differences between FHB fungi to: 1) better understand their diversity, and 2) identify genes that may be contributing to toxin production and disease.Whole genome sequencing and comparative genomics was performed on three species within the F. graminearum species complex; F. graminearum, F. meridionale, and F. asiaticum.Patterns of genomic and genetic variation were used to identify genomic regions and genes that are different between genomes.We then performed more detailed analyses of the biological interactions between two North American strains of F. graminearum that are from distinctly different genetic populations and produce different toxins.Our analyses indicated that one strain is more competitive than the other and that isolate-isolate interactions negatively impact toxin production and disease.We also identified a region of the genome that is highly variable between the two strains and when this region was compared to other strains of F. graminearum, the analyses indicated it is part of the accessory genome of the F. graminearum species and genus.Finally, we also performed whole genome sequencing and comparative genomics of three F. avenaceum isolates, which are FHB pathogens within the F.
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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) | 0.001 | 0.000 |
| Meta-epidemiology (broad) | 0.001 | 0.001 |
| Bibliometrics | 0.001 | 0.001 |
| Science and technology studies | 0.000 | 0.000 |
| Scholarly communication | 0.001 | 0.000 |
| Open science | 0.000 | 0.000 |
| Research integrity | 0.000 | 0.001 |
| Insufficient payload (model declined to judge) | 0.001 | 0.001 |
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".