Evolved DNAzymes and Stable Activation Chemistry Enable High‐Efficiency DNA Ligation
Bibliographic record
Abstract
DNA ligation is a fundamental reaction used in a variety of applications, typically performed by T4 DNA ligase. For certain applications, such as DNA data storage, DNA-ligating DNAzymes offer a more stable and cost-effective alternative to protein enzymes. The E47 DNAzyme is among the most efficient DNA-ligating DNAzymes reported, but it still lacks sufficient activity for widespread adoption and requires a highly unstable phosphoimidazole-activated DNA substrate to function. In this study, we performed in vitro selection using a pre-structured library based on E47 and identified sequences with more than a twofold increase in ligation activity, representing the fastest DNA-ligating DNAzymes reported to date. We also screened alternative imidazolide compounds for substrate activation and found that phosphobenzimidazole-activated DNA substrates are significantly more stable, remaining intact for at least 24 h at room temperature. These advances improve the practicality of DNAzymes for ligation-based applications and broaden their potential use in DNA data storage.
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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 | 0.000 |
| Bibliometrics | 0.000 | 0.000 |
| Science and technology studies | 0.000 | 0.000 |
| Scholarly communication | 0.001 | 0.000 |
| Open science | 0.000 | 0.000 |
| Research integrity | 0.001 | 0.001 |
| Insufficient payload (model declined to judge) | 0.001 | 0.001 |
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".