viralFlye: assembling viruses and identifying their hosts from long-read metagenomics data

Genome Biology

Mikhail Rayko¹  Dmitry Antipov¹  Pavel A. Pevzner²  Mikhail Kolmogorov² 

[1] Center for Algorithmic Biotechnology, Saint Petersburg State University;Department of Computer Science and Engineering, University of California at San Diego;

关键词: Virus detection;    Long reads;    Assembly;   

DOI  :  10.1186/s13059-021-02566-x

来源: DOAJ

【 摘 要 】

Abstract Although the use of long-read sequencing improves the contiguity of assembled viral genomes compared to short-read methods, assembling complex viral communities remains an open problem. We describe the viralFlye tool for identification and analysis of metagenome-assembled viruses in long-read assemblies. We show it significantly improves viral assemblies and demonstrate that long-reads result in a much larger array of predicted virus-host associations as compared to short-read assemblies. We demonstrate that the identification of novel CRISPR arrays in bacterial genomes from a newly assembled metagenomic sample provides information for predicting novel hosts for novel viruses.

【 授权许可】

Unknown