Please use this identifier to cite or link to this item: https://hdl.handle.net/10356/106705
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.
URI: https://hdl.handle.net/10356/106705
http://hdl.handle.net/10220/49039
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 (http://creativecommons.org/licenses/by/4.0/), 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 (http://creativecommons.org/publicdomain/zero/1.0/) 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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