Feasibility Study on Identification of Four SARS-CoV-2 Genotypes Based on RT-qPCR
Widespread transmission of severe acute eespiratory ayndrome xoronavirus 2(SARS-CoV-2)underscores the urgency of continuous monitoring of this virus for early detection and preventive measures.Whole genome sequencing(WGS)is the"gold standard"for SARS-CoV-2 detection,but its technical complexity and expense limit its widespread application in various contexts.In resource-limited areas,there is a pressing need for a low-cost and efficient alternative.Real-time reverse transcription quantitative polymerase chain reaction(RT-qPCR)offers an economical and rapid method that complements WGS effectively.We aimed to validate the performance of a RT-qPCR based assay kit for the SARS-CoV-2 2019-nCoV Omicron subvariants BF.7/BA.5.2/XBB/BQ.1.We also assessed its feasibility in practical application by evaluating 101 clinical samples positive for SARS-CoV-2.The kit did not show cross-reactivity with"wild type"SARS-CoV-2,Alpha,Beta,Delta variants,or influenza A virus reference strains,with a minimum limit of detection of 100 copies/mL.In 101 samples positive for SARS-CoV-2,detection of Omicron BF.7/BA.5.2/XBB/BQ.1 subvariants by the kit was completely consistent with WGS results.Therefore,this RT-qPCR kit provides a simple,economical,and efficient method for rapid identification of SARS-CoV-2 Omicron subtypes,thereby serving as an effective complement to WGS.
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