Targeted whole-genome recovery of single viral species in a complex environmental sample.

ABSTRACT: Characterizing unknown viruses is essential for understanding viral ecology and preparing against viral outbreaks. Recovering complete genome sequences from environmental samples remains computationally challenging using metagenomics, especially for low-abundance species with uneven coverage. We present an experimental method for reliably recovering complete viral genomes from complex environmental samples. Individual genomes are encapsulated into droplets and amplified using multiple displacement amplification. A unique gene detection assay, which employs an RNA-based probe and an exonuclease, selectively identifies droplets containing the target viral genome. Labeled droplets are sorted using a microfluidic sorter, and genomes are extracted for sequencing. We demonstrate this method's ef

SUBMITTER: Chen L 

PROVIDER: S-EPMC11295033 | biostudies-literature | 2024 Jul

REPOSITORIES: biostudies-literature