Composite Hedges Nanopores codec system for rapid and portable DNA data readout with high INDEL-Correction.
Journal
Nature communications
ISSN: 2041-1723
Titre abrégé: Nat Commun
Pays: England
ID NLM: 101528555
Informations de publication
Date de publication:
30 Oct 2024
30 Oct 2024
Historique:
received:
11
05
2024
accepted:
11
10
2024
medline:
31
10
2024
pubmed:
31
10
2024
entrez:
31
10
2024
Statut:
epublish
Résumé
Reading digital information from highly dense but lightweight DNA medium nowadays relies on time-consuming next-generation sequencing. Nanopore sequencing holds the promise to overcome the efficiency problem, but high indel error rates lead to the requirement of large amount of high quality data for accurate readout. Here we introduce Composite Hedges Nanopores, capable of handling indel rates up to 15.9% and substitution rates up to 7.8%. The overall information density can be doubled from 0.59 to 1.17 by utilizing a degenerated eight-letter alphabet. We demonstrate that sequencing times of 20 and 120 minutes are sufficient for processing representative text and image files, respectively. Moreover, to achieve complete data recovery, it is estimated that text and image data require 4× and 8× physical redundancy of composite strands, respectively. Our codec system excels on both molecular design and equalized dictionary usage, laying a solid foundation approaching to real-time DNA data retrieval and encoding.
Identifiants
pubmed: 39477940
doi: 10.1038/s41467-024-53455-3
pii: 10.1038/s41467-024-53455-3
doi:
Substances chimiques
DNA
9007-49-2
Types de publication
Journal Article
Langues
eng
Sous-ensembles de citation
IM
Pagination
9395Subventions
Organisme : National Natural Science Foundation of China (National Science Foundation of China)
ID : 62171211
Organisme : National Natural Science Foundation of China (National Science Foundation of China)
ID : 32371526
Organisme : National Natural Science Foundation of China (National Science Foundation of China)
ID : 32100021
Organisme : Shenzhen Science and Technology Innovation Commission
ID : JCYJ20220814170440001
Organisme : Shenzhen Science and Technology Innovation Commission
ID : JCYJ20220818100218039
Organisme : Shenzhen Science and Technology Innovation Commission
ID : JCYJ20220530113013030
Organisme : Shenzhen Science and Technology Innovation Commission
ID : JCYJ20230807092459028
Informations de copyright
© 2024. The Author(s).
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