journal article·2023-11Open access

Processing DNA Storage through Programmable Assembly in a Droplet‐Based Fluidics System

Minsang Yu, Doyeon Lim, Jungwoo Kim, Youngjun Song

Advanced Science· Volume 10· Issue 32

Abstract

Abstract DNA can be used to store digital data, and synthetic short‐sequence DNA pools are developed to store high quantities of digital data. However, synthetic DNA data cannot be actively processed in DNA pools. An active DNA data editing process is developed using splint ligation in a droplet‐controlled fluidics (DCF) system. DNA fragments of discrete sizes (100–500 bps) are synthesized for droplet assembly, and programmed sequence information exchange occurred. The encoded DNA sequences are processed in series and parallel to synthesize the determined DNA pools, enabling random access using polymerase chain reaction amplification. The sequencing results of the assembled DNA data pools can be orderly aligned for decoding and have high fidelity through address primer scanning. Furthermore, eight 90 bps DNA pools with pixel information (png: 0.27–0.28 kB), encoded by codons, are synthesized to create eight 270 bps DNA pools with an animation movie chip file (mp4: 12 kB) in the DCF system.
Source: crossref · Quality: baseline

Research context

OpenAlex topics: DNA and Biological Computing · Modular Robots and Swarm Intelligence · Advanced biosensing and bioanalysis techniques

SciVX discovery tags are terminology-based. OpenAlex topics are source-provided classifications.

Affiliations

Standard Bioelectronics. Co. 511 Michuhol Tower, Gaetbeol‐ro 12 Incheon 21999 South Korea

Department of Nano‐Bioengineering Incheon National University Academy‐ro 119 Incheon 22012 South Korea

Funding

National Research Foundation of Korea

References (53)

Show source-provided references
1. 10.1038/s43588-022-00231-210.1038/s43588-022-00231-2 ↗
2. 10.1038/nature1187510.1038/nature11875 ↗
3. 10.1126/science.797365110.1126/science.7973651 ↗
4. 10.1021/acs.nanolett.8b0471510.1021/acs.nanolett.8b04715 ↗
5. 10.1038/s41467-021-22277-y10.1038/s41467-021-22277-y ↗
6. 10.1021/acs.nanolett.0c0075510.1021/acs.nanolett.0c00755 ↗
7. 10.1038/s41576-019-0125-310.1038/s41576-019-0125-3 ↗
8. 10.1021/acsnano.2c0674810.1021/acsnano.2c06748 ↗
9. 10.1038/nature1026210.1038/nature10262 ↗
10. 10.1038/s41598-018-26709-610.1038/s41598-018-26709-6 ↗
11. 10.1021/acsnano.1c0215310.1021/acsnano.1c02153 ↗
12. 10.1021/acsnano.9b0132410.1021/acsnano.9b01324 ↗
13. 10.3174/ajnr.A348210.3174/ajnr.A3482 ↗
14. 10.1038/s41587-019-0356-z10.1038/s41587-019-0356-z ↗
15. 10.1093/nar/gkx77710.1093/nar/gkx777 ↗
16. 10.1002/smtd.20200109410.1002/smtd.202001094 ↗
17. 10.1038/nbt.342310.1038/nbt.3423 ↗
18. J.Bornholt R.Lopez D. M.Carmean L.Ceze G.Seelig K.Strauss presented atProc. of the 21st Int. Conf. on Architectural Support for Programming Languages and Operating Systems ACM Atlanta GA USA2016 pp.637–649.10.1145/2872362.2872397 ↗
19. 10.1038/s41598-017-05188-110.1038/s41598-017-05188-1 ↗
20. T. T.Nguyen K.Cai K. A.Schouhamer Immink H. M.Kiah presented at2020 IEEE Int. Sympos. on Inform. Theory (ISIT) IEEE Los Angeles CA USA2020 p.694.10.1109/ISIT44484.2020.9174438 ↗
21. 10.1093/bib/bbac48410.1093/bib/bbac484 ↗
22. 10.1016/j.biotechadv.2020.10763910.1016/j.biotechadv.2020.107639 ↗
23. 10.1038/nbt.407910.1038/nbt.4079 ↗
24. 10.1038/s41563-021-01021-310.1038/s41563-021-01021-3 ↗
25. 10.1038/s41467-020-18842-610.1038/s41467-020-18842-6 ↗
26. 10.1038/s41467-021-21587-510.1038/s41467-021-21587-5 ↗
27. 10.1038/s41467-017-02705-810.1038/s41467-017-02705-8 ↗
28. 10.1038/s41467-019-09517-y10.1038/s41467-019-09517-y ↗
29. 10.1137/010801810.1137/0108018 ↗
30. 10.1038/s41467-019-10978-410.1038/s41467-019-10978-4 ↗
31. 10.1016/j.molcel.2018.10.02010.1016/j.molcel.2018.10.020 ↗
32. Greene J. · 1998
33. 10.1038/s41467-017-00070-010.1038/s41467-017-00070-0 ↗
34. 10.1007/s11042-014-2221-x10.1007/s11042-014-2221-x ↗
35. 10.1007/s11042-018-6516-110.1007/s11042-018-6516-1 ↗
36. 10.1007/s11042-013-1828-710.1007/s11042-013-1828-7 ↗
37. 10.1126/science.aaj203810.1126/science.aaj2038 ↗
38. Salomon D. · 2007
39. S.Chandak K.Tatwawadi B.Lau J.Mardia M.Kubit J.Neu P.Griffin M.Wootters T.Weissman H.Ji presented at2019 57th Ann. Allerton Conf. on Commun. Control and Computing (Allerton) IEEE Monticello IL USA2019 p.147.10.1109/ALLERTON.2019.8919890 ↗
40. 10.1371/journal.pone.004421210.1371/journal.pone.0044212 ↗
41. 10.1021/la703235y10.1021/la703235y ↗
42. 10.1002/advs.20190346310.1002/advs.201903463 ↗
43. 10.1021/acsami.7b0478410.1021/acsami.7b04784 ↗
44. 10.1073/pnas.120661410910.1073/pnas.1206614109 ↗
45. T.Jeewandara 2021 https://phys.org/news/2021‐12‐dna‐storage‐nanoscale‐electrode‐wells.html.
46. 10.1126/science.293.5536.1763c10.1126/science.293.5536.1763c ↗
47. 10.1126/science.118802110.1126/science.1188021 ↗
48. 10.1038/s42003-020-01141-710.1038/s42003-020-01141-7 ↗
49. https://www.cambridgeconsultants.com/us/case‐studies/catalog‐dna‐data‐encoding‐machine.
50. 10.1038/s41598-019-41228-810.1038/s41598-019-41228-8 ↗
51. 10.2144/00011413310.2144/000114133 ↗
52. 10.1038/s41467-021-24991-z10.1038/s41467-021-24991-z ↗
53. 10.1038/s41586-018-0289-610.1038/s41586-018-0289-6 ↗