Integrated transcriptomic and proteomic analyses of the tissues from the digestive gland of <i>Chlamys farreri</i> following cadmium exposure
Bibliographic record
Abstract
OBJECTIVES: Cadmium causes the pollution of marine habitat and Chlamys farreri is an effective concentrator of heavy metals, the aim of this study was to study the response mechanism of C. farreri to cadmium stress at transcriptomic and proteomic levels. METHODS: Transcriptomic analysis based on RNA-sequencing and proteomic analysis based on isobaric tags for relative and absolute quantitation were performed to reveal the molecular response of C. farreri to different concentrations of cadmium (0.1, 0.3, and 1 mg/L). In addition, a protein-protein interaction (PPI) network was constructed based on the Cytoscape tool to identify hub proteins related to the response of C. farreri to cadmium stress. RESULTS: A total of 24 190 unigenes from 58 683 candidates were annotated in known databases. The numbers of the differentially expressed unigenes (DEGs) was different among the three cadmium-treated groups compared with the control group. DEGs were involved in many pathways such as ABC transporters, protein processing in endoplasmic reticulum and endocytosis. A total of 660 proteins were identified, and differentially expressed proteins (DEPs) among different groups were determined. The overlapping DEGs and DEPs were associated with cadmium response. The upregulated unigene0002618 and downregulated unigene0000904 may be more important for the response of C. farreri to cadmium stress. Unigene0009750 was the hub protein in the PPI network with the highest degree of 20. CONCLUSIONS: Our transcriptomic and proteomic analyses elucidated the molecular response of C. farreri to cadmium stress.
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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".