DNA assembly for nanopore data storage readout

Randolph Lopez, Yuan Jyue Chen, Siena Dumas Ang, Sergey Yekhanin, Konstantin Makarychev, Miklos Z. Racz, Georg Seelig, Karin Strauss, Luis Ceze*

*Corresponding author for this work

Research output: Contribution to journalArticle

Abstract

Synthetic DNA is becoming an attractive substrate for digital data storage due to its density, durability, and relevance in biological research. A major challenge in making DNA data storage a reality is that reading DNA back into data using sequencing by synthesis remains a laborious, slow and expensive process. Here, we demonstrate successful decoding of 1.67 megabytes of information stored in short fragments of synthetic DNA using a portable nanopore sequencing platform. We design and validate an assembly strategy for DNA storage that drastically increases the throughput of nanopore sequencing. Importantly, this assembly strategy is generalizable to any application that requires nanopore sequencing of small DNA amplicons.

Original languageEnglish (US)
Article number2933
JournalNature communications
Volume10
Issue number1
DOIs
StatePublished - Dec 1 2019
Externally publishedYes

Fingerprint

Nanopores
Information Storage and Retrieval
data storage
readout
sequencing
deoxyribonucleic acid
assembly
Data storage equipment
DNA
Digital storage
digital data
DNA Sequence Analysis
decoding
Reading
durability
Decoding
Durability
platforms
Throughput
fragments

ASJC Scopus subject areas

  • Chemistry(all)
  • Biochemistry, Genetics and Molecular Biology(all)
  • Physics and Astronomy(all)

Cite this

Lopez, R., Chen, Y. J., Dumas Ang, S., Yekhanin, S., Makarychev, K., Racz, M. Z., ... Ceze, L. (2019). DNA assembly for nanopore data storage readout. Nature communications, 10(1), [2933]. https://doi.org/10.1038/s41467-019-10978-4
Lopez, Randolph ; Chen, Yuan Jyue ; Dumas Ang, Siena ; Yekhanin, Sergey ; Makarychev, Konstantin ; Racz, Miklos Z. ; Seelig, Georg ; Strauss, Karin ; Ceze, Luis. / DNA assembly for nanopore data storage readout. In: Nature communications. 2019 ; Vol. 10, No. 1.
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Lopez, R, Chen, YJ, Dumas Ang, S, Yekhanin, S, Makarychev, K, Racz, MZ, Seelig, G, Strauss, K & Ceze, L 2019, 'DNA assembly for nanopore data storage readout', Nature communications, vol. 10, no. 1, 2933. https://doi.org/10.1038/s41467-019-10978-4

DNA assembly for nanopore data storage readout. / Lopez, Randolph; Chen, Yuan Jyue; Dumas Ang, Siena; Yekhanin, Sergey; Makarychev, Konstantin; Racz, Miklos Z.; Seelig, Georg; Strauss, Karin; Ceze, Luis.

In: Nature communications, Vol. 10, No. 1, 2933, 01.12.2019.

Research output: Contribution to journalArticle

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AU - Lopez, Randolph

AU - Chen, Yuan Jyue

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AU - Seelig, Georg

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AU - Ceze, Luis

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AB - Synthetic DNA is becoming an attractive substrate for digital data storage due to its density, durability, and relevance in biological research. A major challenge in making DNA data storage a reality is that reading DNA back into data using sequencing by synthesis remains a laborious, slow and expensive process. Here, we demonstrate successful decoding of 1.67 megabytes of information stored in short fragments of synthetic DNA using a portable nanopore sequencing platform. We design and validate an assembly strategy for DNA storage that drastically increases the throughput of nanopore sequencing. Importantly, this assembly strategy is generalizable to any application that requires nanopore sequencing of small DNA amplicons.

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Lopez R, Chen YJ, Dumas Ang S, Yekhanin S, Makarychev K, Racz MZ et al. DNA assembly for nanopore data storage readout. Nature communications. 2019 Dec 1;10(1). 2933. https://doi.org/10.1038/s41467-019-10978-4