Microbiome | |
Annotated bacterial chromosomes from frame-shift-corrected long-read metagenomic data | |
Sina Beier1  Daniel H. Huson1  Caner Bağcı1  Anna Górska1  Benjamin Buchfink2  Guanglei Qiu3  Krithika Arumugam3  Rohan B. H. Williams4  Irina Bessarab4  | |
[1] Department of Computer Science, University of Tübingen, Sand 14;Max-Planck-Institute for Developmental Biology;Singapore Centre for Environmental Life Sciences Engineering, Nanyang Technological University;Singapore Centre for Environmental Life Sciences Engineering, National University of Singapore; | |
关键词: Microbiome; Long-read sequencing; Microbial genomics; Sequence assembly; Frame-shifts; Algorithms; | |
DOI : 10.1186/s40168-019-0665-y | |
来源: DOAJ |
【 摘 要 】
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.
【 授权许可】
Unknown