PT  - JOURNAL ARTICLE
AU  - Martin Hunt
AU  - Nishadi De Silva
AU  - Thomas D Otto
AU  - Julian Parkhill
AU  - Jacqueline A Keane
AU  - Simon R Harris
TI  - Circlator: automated circularization of genome assemblies using long sequencing reads
AID  - 10.1101/023408
DP  - 2015 Jan 01
TA  - bioRxiv
PG  - 023408
4099  - http://biorxiv.org/content/early/2015/07/30/023408.short
4100  - http://biorxiv.org/content/early/2015/07/30/023408.full
AB  - The assembly of DNA sequence data into finished genomes is undergoing a renais-sance thanks to emerging technologies producing reads of tens of kilobases. 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 rep-resentations 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/.NCTCNational Collection of Type CulturesONTOxford Nanopore TechnologiesPacBioPacific Biosciences