Highly selective retrieval of accurate DNA utilizing a pool of in situ-replicated DNA from multiple next-generation sequencing platforms

Hyeonseob Lim, Namjin Cho, Jinwoo Ahn, Sangun Park, Hoon Jang, Hwangbeom Kim, Hyojun Han, Ji Hyun Lee, Duhee Bang

Research output: Contribution to journalArticlepeer-review

3 Citations (Scopus)

Abstract

Scalable and cost-effective production of error-free DNA is critical to meet the increased demand for such DNA in the field of biological science. Methods based on 'Dial-out PCR' have enabled the high-throughput error-free DNA synthesis from a microarray-synthesized DNA pool by labeling with retrieval PCR tags, and retrieving error-free DNA of which the sequence is identified via next generation sequencing (NGS). However, most of the retrieved products contain byproducts due to background amplification of redundantly labeled DNAs. Here, we present a highly selective retrieval method of desired DNA from a pool of millions of DNA clones from NGS platforms. Our strategy is based on replicating entire sequence-verified DNA molecules from NGS plates to obtain population-controlled DNA pool. Using the NGS-replica pool, we could perform improved and selective retrieval of desired DNA from the replicated DNA pool compared to other dial-out PCR based methods. To evaluate the method, we tested this strategy by using 454, Illumina, and Ion Torrent platforms for producing NGS-replica pool. As a result, we observed a highly selective retrieval yield of over 95%. We anticipate that applications based on this method will enable the preparation of high-fidelity sequenced DNA from heterogeneous collections of DNA molecules.

Original languageEnglish
Article numbere40
JournalNucleic acids research
Volume46
Issue number7
DOIs
Publication statusPublished - 2018 Apr 20

Bibliographical note

Funding Information:
Pioneer Research Center Program [NRF-2012-0009557]; Mid-career Researcher Program [2015R1A2A1A1005597 2]; Bio & Medical Technology Development Program [NRF-2016M3A9B6948494], Basic Science Research Program [NRF-2015R1A2A2A03006577] through National Research Foundation of Korea funded by the Ministry of Science, ICT & Future Planning. Funding for open access charge: Mid-career Researcher Program [2015R1A2A1A10055972] through National Research Foundation of Korea funded by the Ministry of Science, ICT & Future Planning.

Publisher Copyright:
© 2018 The Author(s). Published by Oxford University Press on behalf of Nucleic Acids Research.

All Science Journal Classification (ASJC) codes

  • Genetics

Fingerprint

Dive into the research topics of 'Highly selective retrieval of accurate DNA utilizing a pool of in situ-replicated DNA from multiple next-generation sequencing platforms'. Together they form a unique fingerprint.

Cite this