A metagenomics workflow for SARS-CoV-2 identification, co-pathogen detection, and overall diversity.

ABSTRACT: An unbiased metagenomics approach to virus identification can be essential in the initial phase of a pandemic. Better molecular surveillance strategies are needed for the detection of SARS-CoV-2 variants of concern and potential co-pathogens triggering respiratory symptoms. Here, a metagenomics workflow was developed to identify the metagenome diversity by SARS-CoV-2 diagnosis (n_positive = 65; n_negative = 60), symptomatology status (n_symptomatic = 71; n_asymptomatic = 54) and anatomical swabbing site (n_{nasopharyngeal} = 96; n_throat = 29) in 125 individuals. Furthermore, the workflow was able to identify putative respiratory co-pathogens, and the SARS-CoV-2 lineage across 29 samples. The diversity analysis showed a significant

SUBMITTER: Castaneda-Mogollon D 

PROVIDER: S-EPMC8564975 | biostudies-literature | 2021 Dec

REPOSITORIES: biostudies-literature