Terminator-free template-independent enzymatic DNA synthesis for digital information storage
| Autor: | Reza Kalhor, Jean C. Bolot, Naveen Goela, George M. Church, Henry H. Lee |
|---|---|
| Jazyk: | angličtina |
| Rok vydání: | 2019 |
| Předmět: |
0301 basic medicine
Computer science Science Information Storage and Retrieval General Physics and Astronomy 02 engineering and technology Article General Biochemistry Genetics and Molecular Biology Nanopores 03 medical and health sciences Synthetic biology chemistry.chemical_compound DNA Nucleotidylexotransferase Codec lcsh:Science Hardware_REGISTER-TRANSFER-LEVELIMPLEMENTATION Polymerase Multidisciplinary biology DNA synthesis business.industry Apyrase DNA Sequence Analysis DNA General Chemistry 021001 nanoscience & nanotechnology 030104 developmental biology Terminator (genetics) ComputingMethodologies_PATTERNRECOGNITION chemistry Computer data storage biology.protein lcsh:Q Nanopore sequencing 0210 nano-technology business Biological system DNA computing and cryptography Biotechnology |
| Zdroj: | Nature Communications, Vol 10, Iss 1, Pp 1-12 (2019) Nature Communications |
| ISSN: | 2041-1723 |
| Popis: | DNA is an emerging medium for digital data and its adoption can be accelerated by synthesis processes specialized for storage applications. Here, we describe a de novo enzymatic synthesis strategy designed for data storage which harnesses the template-independent polymerase terminal deoxynucleotidyl transferase (TdT) in kinetically controlled conditions. Information is stored in transitions between non-identical nucleotides of DNA strands. To produce strands representing user-defined content, nucleotide substrates are added iteratively, yielding short homopolymeric extensions whose lengths are controlled by apyrase-mediated substrate degradation. With this scheme, we synthesize DNA strands carrying 144 bits, including addressing, and demonstrate retrieval with streaming nanopore sequencing. We further devise a digital codec to reduce requirements for synthesis accuracy and sequencing coverage, and experimentally show robust data retrieval from imperfectly synthesized strands. This work provides distributive enzymatic synthesis and information-theoretic approaches to advance digital information storage in DNA. Adoption of DNA as a data storage medium could be accelerated with specialized synthesis processes and codecs. The authors describe TdT-mediated DNA synthesis in which data is stored in transitions between non-identical nucleotides and the use of synchronization markers to provide error tolerance. |
| Databáze: | OpenAIRE |
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