Evaluation of NGS-based approaches for SARS-CoV-2 whole genome characterisation.
Detection Principle
NucleicAcid-Others
Target
whole genome
Testing Method Category
NGS
Testing Method
4 sequencing protocols
Testing Method - Additional Info
Three used Illumina sequencing: an in-house metagenomic NGS (mNGS) protocol and two newly commercialised kits including a hybridisation capture method developed by Illumina (DNA Prep with Enrichment kit and Respiratory Virus Oligo Panel, RVOP), and an amplicon sequencing method developed by Paragon Genomics (CleanPlex SARS-CoV-2 kit). We also evaluated the widely used amplicon sequencing protocol developed by ARTIC Network and combined with Oxford Nanopore Technologies (ONT) sequencing.
Reported Performance
Remark: For low viral loads, amplicon-based enrichment methods were the most sensitive techniques. All methods were highly concordant in terms of identity in complete consensus sequence
Sample Size
8 samples
Peer-reviewed
yes
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