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bioRxiv · 10.1101/511683

Annotated bacterial chromosomes from frame-shift-corrected long read metagenomic data

Arumugam, K.·Bagci, C.·Bessarab, I.·Beier, S.·Buchfink, B.·Gorska, A.·Qiu, G.·Huson, D. H.·Williams, R. B.
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Abstract

BackgroundShort-read sequencing technologies have long been the work-horse of microbiome analysis. Continuing technological advances are making the application of long-read sequencing to metagenomic samples increasingly feasible.\n\nResultsWe demonstrate that whole bacterial chromosomes can be obtained from a complex community, by application of MinION sequencing to a sample from an EBPR bio-reactor, producing 6Gb of sequence that assembles in to multiple closed bacterial chromosomes. We provide a simple pipeline for processing such data, which includes a new approach to correcting erroneous frame-shifts.\n\nConclusionsAdvances in long read sequencing technology and corresponding algorithms will allow the routine extraction of whole chromosomes from environmental samples, providing a more detailed picture of individual members of a microbiome.

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Arumugam, K., Bagci, C., Bessarab, I., Beier, S., Buchfink, B., Gorska, A., Qiu, G., Huson, D. H., Williams, R. B.. 2019-01-04. Annotated bacterial chromosomes from frame-shift-corrected long read metagenomic data. https://doi.org/10.1101/511683

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