Comparative miRNAome Analysis Revealed Numerous Conserved and Novel Drought Responsive miRNAs in Cotton (<i>Gossypium spp.</i>)
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Bibliographic record
Abstract
Negative regulations of gene expression by endogenous, non-coding miRNAs have been shown to play important role in abiotic stress responses in plants. However, limited knowledge is available on water stress responsive miRNAs in cotton. In this study, differentially expressed drought responsive miRNAs and their targets were identified under natural field conditions through high-throughput small RNA sequencing by comparing leaf samples of drought tolerant Gossypium hirsutum cv. KC3 and drought susceptible G. barbadense cv. Suvin. Totally four small RNA libraries were constructed and sequenced by employing ion proton TM technology. Altogether, there were 39 407 089 reads with a mean read length of 22 nt. In KC3, there were 5 138 unique miRNA reads that were differentially expressed with at least two folds under water stressed conditions. In contrast, Suvin have shown 8 469 unique miRNA reads that were differentially expressed with minimum of two folds under water stressed conditions. Comparison of miRNAs expressed under water stressed conditions between KC3 and Suvin, have resulted 7 494 miRNA reads and interestingly majority of them were down regulated with at least two folds. Besides identifying large numbers of novel miRNAs, several abiotic stress responsive conserved miRNAs were also noticed. Of particular interest were miR750, miR2, miR14, miR276, miR279, miR-bantam and miR5176 that were highly down regulated in KC3 under water stress conditions. Strikingly, miR2 and miR-bantam were previously shown to target pre-apoptotic genes in biological systems. Further, the identified miRNAs were also targeting different classes of dehydrogenases, protein kinases and transcription factors. Our results revealed for the first time that there were large numbers of water stress related miRNAs that might be sequentially and/or complexly involved in gene regulation that confers drought tolerance in cotton under field conditions and they have enormous potential in elucidating the molecular mechanism of miRNA based gene regulation and more importantly in genetic improvement of drought tolerance in cotton. Further, this is the first report on experimentally identifying miRNAs in G. barbadense .
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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 | 0.001 | 0.000 |
| Meta-epidemiology (narrow) | 0.000 | 0.000 |
| Meta-epidemiology (broad) | 0.001 | 0.000 |
| Bibliometrics | 0.000 | 0.001 |
| 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 it