RNA‐seq reveals a robust transcriptomic response during anoxia in the Western painted turtle
Bibliographic record
Abstract
Western painted turtles, Chrysemys picta bellii , can survive 3 months of anoxia at 3°C and for more than 30 hours at 20°C. Although the physiological responses to anoxia have been well studied, the underlying transcriptomic responses are not as well‐characterized. Using RNA‐seq methodology, we show a robust transcriptional response in ventricle and telencephalon to 24 hours of anoxia at 19°C, including the upregulation of several genes by more than 100‐fold, despite decreases in total RNA content of 50% and 12% in ventricle and telencephalon, respectively. qPCR validated the increased expression of several genes in ventricle, including FOS (91‐fold) and a GLUT1‐like transporter belonging to SLC2A (29‐fold). Similar validations were made in telencephalon for APOLD1 (292‐fold) and PTGS2 (219‐fold). There were no decreases in telencephalic gene expression, but there were decreases in 5 ventricular genes, including CDO1, which, when knocked out in mice, increases hydrogen sulfide levels, SRSF5, a gene involved in mRNA processing, and MKNK1, which regulates growth and differentiation. This study shows how the increased availability of sequenced genomes can provide an unprecedented level of insight into our understanding of extreme physiological adaptation and marks a transformative moment in comparative physiology. This study was funded by Saint Louis University (DEW) and NSERC (LTB) .
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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 | 0.000 | 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) | 0.001 | 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".