An chromosome-level haplotype-resolved genome assembly and annotation of pitaya (Selenicereus polyrhizus)
Bibliographic record
Abstract
Pitaya, (Selenicereus spp.), a fruit originating from North and Central America and extensively cultivated in China and Vietnam, holds significant economic value. Utilizing PacBio HiFi sequencing and Oxford Nanopore Technologies ultra-long sequencing, aided by Hi-C data, we have assembled a chromosome-level haplotype-resolved genome. The sizes of the two haplotype genomes were determined to be 1.477 Gb (hap1, contig N50 = 133.35 Mb) and 1.442 Gb (hap2, contig N50 = 132.57 Mb), with 96.7% (hap1) and 98.4% (hap2) respectively allocated to 11 pseudochromosomes. Hap1 comprises 58.94% repeat sequences and predicts a total of 29,139 protein-coding gene models and 18,378 non-coding RNAs. Hap2 comprises 58.37% repeat sequences and predicts a total of 28,538 protein-coding gene models and 19,458 non-coding RNAs. Notably, 93.5% and 93.6% of protein-coding genes were annotated for the two haplotypes. The high-quality genome assembly presented in this study provides a valuable resource for future ecological, evolutionary, biological, and breeding research in pitaya.
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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 | 0.001 | 0.000 |
| Meta-epidemiology (narrow) | 0.000 | 0.000 |
| Meta-epidemiology (broad) | 0.000 | 0.000 |
| Bibliometrics | 0.000 | 0.001 |
| Science and technology studies | 0.000 | 0.000 |
| Scholarly communication | 0.000 | 0.000 |
| Open science | 0.001 | 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".