Assessing long-read sequencing with Nanopore R9, R10, and PacBio CCS to obtain high-quality metagenome assembled genomes from complex microbial communities

Sereika, M.; Krikegaard, R. H.; Karst, S. M.; Michaelsen, T. Y.; Sorensen, E. A.; Albertsen, M.

doi:10.1101/2021.10.27.466057

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bioRxiv · 10.1101/2021.10.27.466057

Assessing long-read sequencing with Nanopore R9, R10, and PacBio CCS to obtain high-quality metagenome assembled genomes from complex microbial communities

Sereika, M.·Krikegaard, R. H.·Karst, S. M.·Michaelsen, T. Y.·Sorensen, E. A.·Albertsen, M.

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Abstract

Long-read Oxford Nanopore sequencing has democratized microbial genome sequencing and enables the recovery of highly contiguous microbial genomes from isolates or metagenomes. However, to obtain near-perfect genomes it has been necessary to include short-read polishing to correct insertions and deletions derived from homopolymer regions. Here, we show that Oxford Nanopore R10.4 can be used to generate near-perfect microbial genomes from isolates or metagenomes without shortread or reference polishing.

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Sereika, M., Krikegaard, R. H., Karst, S. M., Michaelsen, T. Y., Sorensen, E. A., Albertsen, M.. 2021-10-28. Assessing long-read sequencing with Nanopore R9, R10, and PacBio CCS to obtain high-quality metagenome assembled genomes from complex microbial communities. https://doi.org/10.1101/2021.10.27.466057

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