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BioMed Central, Genome Biology, 1(16), 2015

DOI: 10.1186/s13059-015-0849-0

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Circlator: Automated circularization of genome assemblies using long sequencing reads

Journal article published in 2015 by Martin Hunt ORCID, Nishadi De Silva, Nishadi De Silva ORCID, Thomas D. Otto, Julian Parkhill, Jacqueline A. Keane, Simon R. Harris
This paper is made freely available by the publisher.
This paper is made freely available by the publisher.

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Abstract

Abstract 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/ .