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Nevada patients revealed prevalence of unique SARS-CoV-2 variants bearing mutations in the RdRp gene (06Mar2020-05Jun2020)

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  • Nevada patients revealed prevalence of unique SARS-CoV-2 variants bearing mutations in the RdRp gene (06Mar2020-05Jun2020)

    Journal of Genetics and Genomics

    Genomic surveillance of Nevada patients revealed prevalence of unique SARS-CoV-2 variants bearing mutations in the RdRp gene
    We report the occurrence of a novel mutation at 323aa (314aa of orf1b) of nsp12 (RNA dependent RNA Polymerase) changed to Phenylalanine (F) from Proline (P), in the first reported isolate of SARS-CoV-2, Wuhan-Hu-1. This 323F variant was present at a very high frequency in Northern Nevada. Structural modeling determined this mutation in the interface domain, which is important for the association of accessory proteins required for the polymerase. In conclusion, we report the introduction of specific SARS-CoV-2 variants at very high frequency in distinct geographic locations, which is important for understanding the evolution and circulation of SARS-CoV-2 variants of public health importance, while it circulates in humans...

    ...A total of 173 cases were analyzed to determine the number and relative proportion of the specimens which carried the D614G spike protein variant in Nevada. The cumulative frequency for D614 and G614 were plotted from March 6 to June 5...

    Interestingly, analysis of the Northern Nevada and Southern Nevada specimen showed very different dominant variants. In Northern Nevada the F323 was more prevalent, while in Southern Nevada L323 was more prevalent. We used a subsampling of Nextstrain.org data to assess the frequency of P323L/F in the United States and globally during the same time period (March 6 to June 5). P323 was the predominant variant in Asia, while L323 was more prevalent in other areas of the world and F323 was only appreciably noted in North America...

    https://www.sciencedirect.com/scienc...721000278#fig3
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