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Title: Annotated bacterial chromosomes from frame-shift-corrected long-read metagenomic data
Authors: Arumugam, Krithika
Bağcı, Caner
Bessarab, Irina
Beier, Sina
Buchfink, Benjamin
Górska, Anna
Qiu, Guanglei
Huson, Daniel H.
Williams, Rohan B. H.
Keywords: Microbiome
DRNTU::Engineering::Environmental engineering
Long-read Sequencing
Issue Date: 2019
Source: Arumugam, K., Bağcı, C., Bessarab, I., Beier, S., Buchfink, B., Górska, A., . . . Williams, R. B. H. (2019). Annotated bacterial chromosomes from frame-shift-corrected long-read metagenomic data. Microbiome, 7(1), 61-. doi:10.1186/s40168-019-0665-y
Series/Report no.: Microbiome
Abstract: Background : Short-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. Results : We demonstrate that whole bacterial chromosomes can be obtained from an enriched community, by application of MinION sequencing to a sample from an EBPR bioreactor, producing 6 Gb of sequence that assembles into multiple closed bacterial chromosomes. We provide a simple pipeline for processing such data, which includes a new approach to correcting erroneous frame-shifts. Conclusions : Advances 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.
DOI: 10.1186/s40168-019-0665-y
Rights: © 2019 The Author(s). This article is distributed under the terms of the Creative Commons Attribution 4.0 International License (, which permits unrestricted use, distribution, and reproduction in any medium, provided you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons license, and indicate if changes were made. The Creative Commons Public Domain Dedication waiver ( applies to the data made available in this article, unless otherwise stated.
Fulltext Permission: open
Fulltext Availability: With Fulltext
Appears in Collections:SCELSE Journal Articles

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