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PreprintCC BY-NC-NDChemRxiv

De novo Rewriting DNA Identity into Functional RNA via Genetic Information Compiler

  • Linghao Zhang1,2
  • Qinze Rong1,2
  • Xueting Wang1,2
  • Dandan Tian1,2
  • Shihui Wang1,2
  • Huiyu Liu1,2
  • Xin Su1,2
  1. 1State Key Laboratory of Organic-Inorganic Composites, Beijing Key Laboratory of Bioprocess
  2. 2Beijing Advanced Innovation Center for Soft Matter Science and Engineering, College of Life Science and Technology, Beijing University of Chemical Technology
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Abstract

Genetic information is expressed through the molecular products encoded by DNA. Synthetic systems can regulate these outputs, but retain the original link between DNA identity and function. Re-engineering this link could assign new functions to existing DNA identities. Here we present a genetic information compiler (GIC) that converts selected double-stranded DNA (dsDNA) identities into user-defined RNA outputs. GIC exploits the nontrivial activity of λ exonuclease to interrogate dsDNA and release predefined activators. These activators restore T7 promoters and drive programmable transcription. This modular architecture enables orthogonal and concurrent routing, logic processing, and control of RNA identity, amplitude, composition and timing. Spatial compartmentalization further reveals activator-mediated information transfer between separated compartments. By programming functional gRNAs as outputs, GIC enables tunable, sequence-dependent, and selective regulation of Cas9, Cas12a and Cas13a. GIC establishes a new programmable information layer in which existing dsDNA identities can be interpreted de novo as user-defined functional RNAs.

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Cite

BibTeXRIS
BibTeX
@misc{zhang2026novo,
  title = {{De novo Rewriting DNA Identity into Functional RNA via Genetic Information Compiler}},
  author = {Linghao Zhang and Qinze Rong and Xueting Wang and Dandan Tian and Shihui Wang and Huiyu Liu and Xin Su},
  howpublished = {ChemRxiv},
  year = {2026},
  month = oct,
  doi = {10.26434/chemrxiv.15010249/v1},
  url = {https://chemrxiv.org/doi/full/10.26434/chemrxiv.15010249/v1},
  note = {CC BY-NC-ND},
}
RIS
TY  - UNPB
TI  - De novo Rewriting DNA Identity into Functional RNA via Genetic Information Compiler
AU  - Linghao Zhang
AU  - Qinze Rong
AU  - Xueting Wang
AU  - Dandan Tian
AU  - Shihui Wang
AU  - Huiyu Liu
AU  - Xin Su
PY  - 2026
DA  - 2026/10/12
PB  - ChemRxiv
DO  - 10.26434/chemrxiv.15010249/v1
UR  - https://chemrxiv.org/doi/full/10.26434/chemrxiv.15010249/v1
AB  - Genetic information is expressed through the molecular products encoded by DNA. Synthetic systems can regulate these outputs, but retain the original link between DNA identity and function. Re-engineering this link could assign new functions to existing DNA identities. Here we present a genetic information compiler (GIC) that converts selected double-stranded DNA (dsDNA) identities into user-defined RNA outputs. GIC exploits the nontrivial activity of λ exonuclease to interrogate dsDNA and release predefined activators. These activators restore T7 promoters and drive programmable transcription. This modular architecture enables orthogonal and concurrent routing, logic processing, and control of RNA identity, amplitude, composition and timing. Spatial compartmentalization further reveals activator-mediated information transfer between separated compartments. By programming functional gRNAs as outputs, GIC enables tunable, sequence-dependent, and selective regulation of Cas9, Cas12a and Cas13a. GIC establishes a new programmable information layer in which existing dsDNA identities can be interpreted de novo as user-defined functional RNAs.
ER  -