Annotated bacterial chromosomes from frame-shift-corrected long-read metagenomic data
Annotated bacterial chromosomes from frame-shift-corrected long-read metagenomic data
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DOI：
10.1186/s40168-019-0665-y
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发表时间：
2019-04-16
期刊：
影响因子：
15.5
通讯作者：
Williams, Rohan B. H.
中科院分区：
文献类型：
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作者：
Arumugam, Krithika;Bagci, Caner;Williams, Rohan B. H.
背景短读测序技术长期以来一直是微生物组分析的主力。持续的技术进步使得应用程序的长读测序宏基因组samples.ResultsWe证明，整个细菌染色体可以从一个丰富的社会，通过应用程序的MinION测序的样品从EBPR生物反应器，生产6 Gb的序列，组装成多个封闭的细菌染色体。我们提供了一个简单的管道处理这样的数据，其中包括一个新的方法来纠正错误的frame-shifts.ConclusionsAdvances在长读测序技术和相应的算法将允许常规提取的整个染色体从环境样品，提供了一个更详细的图片的微生物组的个别成员。
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.ResultsWe 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.ConclusionsAdvances 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.