Transcriptome profiling of floral development in Dendrocalamus hamiltoniiuncovers floral transition mechanism in bamboos
Bibliographic record
Abstract
Bamboos are the giant woody grasses belonging to family Poaceae. The plants have versatile utilities including rural and industrial applications. Bamboos are indeed major players in the economies of many Asian countries. They support an international trade worth more than US$ 2.5 billion per year and this is expected to increase further. Bamboos have long juvenile phase and unique flowering behavior -the major deterrents to their conservation and propagation. Most genera/species have a long intermast period of juvenile stage that varies from 40-120 years after which bamboos flower gregariously, irrespective of geographical locations. The entire culms of all clonal individuals from a single mother, flower simultaneously and die en masse. This results in huge loss of valuable germplasm, and is a continuous but unpredictable threat to all standing populations of bamboos. Besides gregarious flowering, some culms of bamboos flower sporadically, set a few seeds annually and die. Although the process of flowering in bamboos demands attention, it is poorly understood. Therefore, an attempt was made to elucidate the molecular mechanism of floral transition in Dendrocalamus hamiltonii, a multipurpose bamboo native to Himalayan region using a transcriptomic approach in an in vitro system. The Illumina paired-end sequencing was conducted, and a total of 37862456, 35040478 and 35017513 reads were obtained after filtering by RNA-seq of the vegetative, about-to-flower and flowering stages. These were assembled into 191575 transcripts with mean length of 1005.68 bp. A total of 98,782 unigenes were annotated in the NCBI non-redundant protein database and 86,665 in the Swiss-Prot database. Also, 73,802 annotated unigenes were allocated to gene ontology (GO) categories. In them most of the unigenes were categorized into biological process followed by molecular function and cellular component. By searching against the Kyoto Encyclopedia of Genes and Genomes Pathway database (KEGG), 7,222 unigenes were assigned to 372 KEGG pathways and in addition 28905 simple sequence repeats (SSRs) were identified. In total 7439 differentially expressed floral specifiers representing the three floral developmental stages were identified.
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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".