DNA storage in thermoresponsive microcapsules for repeated random multiplexed data access

Bas Bögels, Bichlien Nguyen, David Ward, Levena Gascoigne, David Schrijver, Anna-Maria Makri Pistikou, Alex Joesaar, Shuo Yang, Ilja Voets, Willem Mulder, Andrew Phillips, Stephen Mann, Georg Seelig, Karin Strauss, Yuan-Jyue Chen*, Tom de Greef*

*Corresponding author for this work

Research output: Contribution to journalArticleAcademicpeer-review

9 Citations (Scopus)

Abstract

DNA has emerged as an attractive medium for archival data storage due to its durability and high information density. Scalable parallel random access to information is a desirable property of any storage system. For DNA-based storage systems, however, this still needs to be robustly established. Here we report on a thermoconfined polymerase chain reaction, which enables multiplexed, repeated random access to compartmentalized DNA files. The strategy is based on localizing biotin-functionalized oligonucleotides inside thermoresponsive, semipermeable microcapsules. At low temperatures, microcapsules are permeable to enzymes, primers and amplified products, whereas at high temperatures, membrane collapse prevents molecular crosstalk during amplification. Our data show that the platform outperforms non-compartmentalized DNA storage compared with repeated random access and reduces amplification bias tenfold during multiplex polymerase chain reaction. Using fluorescent sorting, we also demonstrate sample pooling and data retrieval by microcapsule barcoding. Therefore, the thermoresponsive microcapsule technology offers a scalable, sequence-agnostic approach for repeated random access to archival DNA files.
Original languageEnglish
Pages (from-to)912-921
JournalNature Nanotechnology
Volume18
Issue number8
DOIs
Publication statusPublished - 1 Aug 2023

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