Genome-wide identification, classification, and expression analysis of TCP transcription factors in carrot
Bibliographic record
Abstract
Carrot (Daucus carota L.) is a crop with rich nutritional value and is one of the most important economical horticulture crops worldwide. The TEOSINTE BRANCHED 1, CYCLOIDEA, PROLIFERATING CELL FACTORS (TCP) transcription factor (TF) family plays important roles in several physiological processes; However, TCP TFs in carrot are rarely reported. In this study, 36 D. carota TCP (DcTCP) TFs were identified from the carrot genome database. On the basis of phylogenetic relationship with TCP TFs in Arabidopsis, the DcTCP family was divided into two classes, namely class I and class II (including CIN and CYC/TB1 subclass). The number of DcTCP TFs in classes I and II were 22 and 14, respectively. Motif analysis and chromosome location of DcTCP TFs were also conducted. All of the DcTCP genes were distributed on nine chromosomes of carrot. The distribution of TCP TFs in different species indicates that the number of TCP TFs is consistent with plant evolution. Quantitative real-time PCR assay was performed to further understand the expression patterns of DcTCP genes during the development of carrot. The expression levels of DcTCP33 and DcTCP36 increased with the germination of carrot seed. The CIN subclass of DcTCPs (DcTCP1, DcTCP4, and DcTCP5) was primarily expressed in leaf blades, whereas the DcTCP26 gene was mainly expressed in roots. These results can provide potentially useful information about TCP TF identification and help explain the roles of TCP TFs in carrots.
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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 | 0.001 | 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) | 0.001 | 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".