Rapid genome assembly and comparison decode intrastrain variation in human alphaherpesviruses.

ABSTRACT:

Unlabelled

Herpes simplex virus (HSV) is a widespread pathogen that causes epithelial lesions with recurrent disease that manifests over a lifetime. The lifelong aspect of infection results from latent viral infection of neurons, a reservoir from which the virus reactivates periodically. Recent work has demonstrated the breadth of genetic variation in globally distributed HSV strains. However, the amount of variation or capacity for mutation within one strain has not been well studied. Here we developed and applied a streamlined new approach for assembly and comparison of large DNA viral genomes such as HSV-1. This viral genome assembly (VirGA) workflow incorporates a combination of de novo assembly, alignment, and annotation strategies to automate the generation of draft genomes f

SUBMITTER: Parsons LR 

PROVIDER: S-EPMC4453532 | biostudies-literature | 2015 Mar

REPOSITORIES: biostudies-literature