Allelic variation in gene expression in Populus F₁ hybrids
Bibliographic record
Abstract
Plant hybridization can induce phenotypic novelty and speciation as well as genome rearrangements and gene expression changes. Populus hybrids provide a good system to study interspecific hybridization and its genetic and molecular consequences. In this project I determined the allelic variation of gene expression in Populus trichocarpa x Populus deltoides F₁ hybrids using a single-base primer extension assay. Among 30 genes analyzed in four independently formed hybrids, 17 showed above 1.5 fold expression biases for the two alleles, and the expression patterns differed between leaves and stems for 9 genes. These results suggest differential regulation of the two parental alleles in the Populus F₁ hybrids. To determine if the allelic expression biases were caused by hybridization I compared the ratios of species-specific transcripts between a hybrid and clones of its parents. Modes of gene regulation were inferred from the hybrid-parent comparisons. C«-regulation was inferred for 6 out of 19 genes. The remaining 13 genes including 1 controlled by trans-regulation and 12 by combined cis- & trans-regulation showed allelic expression ratios in the hybrid that were significantly different from the parental ratios, suggesting an alteration of the regulation network induced by hybridization.
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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) | 0.002 | 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".