Background: Nanopore sequencing provides a rapid, cheap and portable real-time sequencing platform with the potential to revolutionize genomics. However, several applications are limited by relatively high single-read error rates (> 10 %), including RNA-seq, haplotype sequencing and 16S sequencing. Results: We developed the Intramolecular-ligated Nanopore Consensus Sequencing (INC-Seq) as a strategy for obtaining long and accurate nanopore reads, starting with low input DNA. Applying INC-Seq for 16S rRNA-based bacterial profiling generated full-length amplicon sequences with a median accuracy > 97 %. Conclusions: INC-Seq reads enabled accurate species-level classification, identification of species at 0.1 % abundance and robust quantification of relative abundances, providing a cheap and effective approach for pathogen detection and microbiome profiling on the MinION system.
CITATION STYLE
Li, C., Chng, K. R., Boey, E. J. H., Ng, A. H. Q., Wilm, A., & Nagarajan, N. (2016). INC-Seq: Accurate single molecule reads using nanopore sequencing. GigaScience, 5(1). https://doi.org/10.1186/s13742-016-0140-7
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