A single chromosome assembly of Bacteroides fragilis strain BE1 from Illumina and MinION nanopore sequencing data.
A single chromosome assembly of Bacteroides fragilis strain BE1 from Illumina and MinION nanopore sequencing data.
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DOI：
10.1186/s13742-015-0101-6
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发表时间：
2015
期刊：
影响因子：
9.2
通讯作者：
Watson M
中科院分区：
文献类型：
--
作者：
Risse J;Thomson M;Patrick S;Blakely G;Koutsovoulos G;Blaxter M;Watson M
第二代和第三代测序技术彻底改变了细菌基因组学。短读长的 Illumina 读长会产生廉价但碎片化的组装，而长读长则更昂贵，但会产生更完整的基因组。 Oxford Nanopore MinION 设备是一款革命性的移动测序仪，可以产生数千个长单分子读数。我们使用 Illumina MiSeq 和 Oxford Nanopore MinION 平台对脆弱拟杆菌菌株 BE1 进行了测序。我们能够使用公开软件和商用计算硬件组装一条 5.18 Mb 的无间隙染色体。我们鉴定了菌株中的基因重排和可逆启动子的状态。仅使用少量数据、公开可用的软件和商品计算硬件即可实现脆弱拟杆菌菌株 BE1 的单染色体组装。这种技术的结合提供了超便宜、高质量、成品细菌基因组的可能性。
Second and third generation sequencing technologies have revolutionised bacterial genomics. Short-read Illumina reads result in cheap but fragmented assemblies, whereas longer reads are more expensive but result in more complete genomes. The Oxford Nanopore MinION device is a revolutionary mobile sequencer that can produce thousands of long, single molecule reads. We sequenced Bacteroides fragilis strain BE1 using both the Illumina MiSeq and Oxford Nanopore MinION platforms. We were able to assemble a single chromosome of 5.18 Mb, with no gaps, using publicly available software and commodity computing hardware. We identified gene rearrangements and the state of invertible promoters in the strain. The single chromosome assembly of Bacteroides fragilis strain BE1 was achieved using only modest amounts of data, publicly available software and commodity computing hardware. This combination of technologies offers the possibility of ultra-cheap, high quality, finished bacterial genomes.