Pantnagar Journal of Research

Abstract

In this study 423 SARS-CoV-2 genome encoding for spike protein of Delta lineage circulating upto December 2022 in India were downloaded from NCBI and GISAID and aligned against the reference sequence MN908947.3. Total 192 mutations were found to be prevalent in the spike protein of Delta variants circulating in India out of which 125 were non-synonymous mutations and 67 were synonymous mutations. The non-synonymous mutations were further subjected for analysis to analyse the effect of mutation on the functionality of the protein. Out of the total 125 non-synonymous mutations, nine were found to have deleterious effect on the functionality of spike protein. Remaining 116 mutations were found to have neutral effect on functionality of spike protein. The selection pressure imparted by the host was analysed using Data monkey sever. The selective pressure analysis revealed that site numbers 142, 152 and 222 of SARS-CoV-2 Delta variants were evolving under positive selection pressure.