Hunt Martin, Silva Nishadi De, Otto Thomas D, Parkhill Julian, Keane Jacqueline A, Harris Simon R
Wellcome Trust Sanger Institute, Wellcome Trust Genome Campus, Cambridge, CB10 1SA, UK.
Genome Biol. 2015 Dec 29;16:294. doi: 10.1186/s13059-015-0849-0.
The assembly of DNA sequence data is undergoing a renaissance thanks to emerging technologies capable of producing reads tens of kilobases long. Assembling complete bacterial and small eukaryotic genomes is now possible, but the final step of circularizing sequences remains unsolved. Here we present Circlator, the first tool to automate assembly circularization and produce accurate linear representations of circular sequences. Using Pacific Biosciences and Oxford Nanopore data, Circlator correctly circularized 26 of 27 circularizable sequences, comprising 11 chromosomes and 12 plasmids from bacteria, the apicoplast and mitochondrion of Plasmodium falciparum and a human mitochondrion. Circlator is available at http://sanger-pathogens.github.io/circlator/ .
由于能够产生长达数十千碱基读段的新兴技术，DNA序列数据的组装正经历复兴。现在组装完整的细菌和小型真核生物基因组已成为可能，但序列环化的最后一步仍然没有解决。在此，我们展示了Circlator，这是首个自动进行组装环化并生成环状序列精确线性表示的工具。利用太平洋生物科学公司（Pacific Biosciences）和牛津纳米孔（Oxford Nanopore）的数据，Circlator正确环化了27个可环化序列中的26个，这些序列包括来自细菌的11条染色体和12个质粒、恶性疟原虫的顶质体和线粒体以及一条人类线粒体。可在http://sanger - pathogens.github.io/circlator/获取Circlator。
