High-throughput construction of multiple cas9 gene variants via assembly of high-depth tiled and sequence-verified oligonucleotides

Namjin Cho, Han Na Seo, Taehoon Ryu, Euijin Kwon, Sunghoon Huh, Jinsung Noh, Huiran Yeom, Byungjin Hwang, Heejeong Ha, Ji Hyun Lee, Sunghoon Kwon, Duhee Bang

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Abstract

Selective retrieval of sequence-verified oligonucleotides (oligos) from next-generation sequencing (NGS) flow cells, termed megacloning, promises accurate and reliable gene synthesis. However, gene assembly requires a complete collection of overlapping sense and nonsense oligos, and megacloning does not typically guarantee the complete production of sequence-verified oligos. Therefore, missing oligos must be provided via repetitive rounds of megacloning, which introduces a bottleneck for scaled-up efforts at gene assembly. Here, we introduce the concept of high-depth tiled oligo design to successfully utilize megacloned oligos for gene synthesis. Using acquired oligos from a single round of the megacloning process, we assembled 72 of 81 target Cas9-coding gene variants. We further validated 62 of these cas9 constructs, and deposited the plasmids to Addgene for subsequent functional characterization by the scientific community. This study demonstrates the utility of using sequence-verified oligos for DNA assembly and provides a practical and reliable optimized method for high-throughput gene synthesis.

Original languageEnglish
Article numbere55
JournalNucleic acids research
Volume46
Issue number9
DOIs
Publication statusPublished - 2018 May

All Science Journal Classification (ASJC) codes

  • Genetics

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    Cho, N., Seo, H. N., Ryu, T., Kwon, E., Huh, S., Noh, J., Yeom, H., Hwang, B., Ha, H., Lee, J. H., Kwon, S., & Bang, D. (2018). High-throughput construction of multiple cas9 gene variants via assembly of high-depth tiled and sequence-verified oligonucleotides. Nucleic acids research, 46(9), [e55]. https://doi.org/10.1093/nar/gky112