RT Journal Article
SR Electronic
T1 Genome Detective Coronavirus Typing Tool for rapid identification and characterization of novel coronavirus genomes
JF bioRxiv
FD Cold Spring Harbor Laboratory
SP 2020.01.31.928796
DO 10.1101/2020.01.31.928796
A1 Cleemput, Sara
A1 Dumon, Wim
A1 Fonseca, Vagner
A1 Abdool Karim, Wasim
A1 Giovanetti, Marta
A1 Alcantara, Luiz Carlos
A1 Deforche, Koen
A1 de Oliveira, Tulio
YR 2020
UL http://biorxiv.org/content/early/2020/02/02/2020.01.31.928796.abstract
AB Summary Genome Detective is a web-based, user-friendly software application to quickly and accurately assemble all known virus genomes from next generation sequencing datasets. This application allows the identification of phylogenetic clusters and genotypes from assembled genomes in FASTA format. Since its release in 2019, we have produced a number of typing tools for emergent viruses that have caused large outbreaks, such as Zika and Yellow Fever Virus in Brazil. Here, we present The Genome Detective Coronavirus Typing Tool that can accurately identify novel coronavirus (2019-nCoV) sequences isolated in China and around the world. The tool can accept up to 2,000 sequences per submission and the analysis of a new whole genome sequence will take approximately one minute. The tool has been tested and validated with hundreds of whole genomes from ten coronavirus species, and correctly classified all of the SARS-related coronavirus (SARSr-CoV) and all of the available public data for 2019-nCoV. The tool also allows tracking of new viral mutations as the outbreak expands globally, which may help to accelerate the development of novel diagnostics, drugs and vaccines.Availability Available online: https://www.genomedetective.com/app/typingtool/covContact koen{at}emweb.be and deoliveira{at}ukzn.ac.zaSupplementary information Supplementary data is available online.