Nanopore Sequencing Is a Credible Alternative to Recover Complete Genomes of Geminiviruses.

ABSTRACT: Next-generation sequencing (NGS), through the implementation of metagenomic protocols, has led to the discovery of thousands of new viruses in the last decade. Nevertheless, these protocols are still laborious and costly to implement, and the technique has not yet become routine for everyday virus characterization. Within the context of CRESS DNA virus studies, we implemented two alternative long-read NGS protocols, one that is agnostic to the sequence (without a priori knowledge of the viral genome) and the other that use specific primers to target a virus (with a priori). Agnostic and specific long read NGS-based assembled genomes of two capulavirus strains were compared to those obtained using the gold standard technique of Sanger sequencing. Both protocols allowed the detection and acc

SUBMITTER: Ben Chehida S 

PROVIDER: S-EPMC8147096 | biostudies-literature | 2021 Apr

REPOSITORIES: biostudies-literature