The Differences and Genetic Relationships of 4 Dendrobium Species Based on High Throughput GBS-SNP Markers
Bibliographic record
Abstract
The differences and genetic relationships of 4 Dendrobium species ( Dendrobium huoshanense, Dendrobium officinale, Dendrobium moniliforme, Dendrobium Fanjingshanense ) were analyzed based on high throughput SNP markers obtained by GBS, using Dendrobium catenatum as the reference genome, for providing reference for the study of these 4 Dendrobium species. The results showed that the number of clean reads per each sample in D. huoshanense , D . officinale , D . moniliforme , D . Fanjingshanense were 1 300 724, 1 286 162, 1 380 009 and 1 170 337, respectively, and the number of SNPs per each sample were 1 507 746, 893 333, 1 364 605 and 1 227 006, respectively. The genetic structure based on Admixture software revealed that the samples of D . officinale were clustered into one branch, and the remaining Dendrobium samples were clustered into the other branch, when the best K value was 2; when k = 3, the samples of D . officinale were grouped into one cluster, some samples of D . huoshanense , all samples of D . moniliforme and D. fanjingshanense were grouped into the second cluster, and some samples of D . huoshanense were grouped into the third cluster; When k = 4, it was divided into four branches: the samples of D . officinale were grouped one branch, the samples of D . moniliforme and D . fanjingshanense were grouped one branch, the samples of D . huoshanense were divided into two branches, which was similar to the result of an unrooted neighbor-joining phylogenetic tree (NJ tree); Furthermore, principal coordinates analyses (PCoA) revealed that 91 Dendrobium samples were classed into three cluster. All samples of D. of ficinale and D. hu oshanense were grouped together, respectively, and the samples of D. monil iforme and D . fanjingshan ense were grouped together. According to the results of this study, the genetic relation of D. off icinale and the other 3 species of Dendrobium are relatively distant, and the genetic relationship of D. mo niliforme and D. fanjingshanense were relatively close, 72 samples of D . huoshanense in the study were divided into two branches, the genetic relationship in one of which was relatively close to D . moniliforme and D . fanjingshanense . The study verified that the genetic relationship between different Dendrobium species or different species of plants was investigated using SNPs detected by GBS.
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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 | 0.001 |
| Meta-epidemiology (narrow) | 0.000 | 0.000 |
| Meta-epidemiology (broad) | 0.000 | 0.001 |
| Bibliometrics | 0.001 | 0.001 |
| Science and technology studies | 0.001 | 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".