Islam, M.R.; Hoque, M.N.; Rahman, M.S.; Puspo, J.A.; Akhter, M.; Akter, S.; Rubayet-Ul-Alam, A.S.M.; Sultana, M.; Crandall, K.A.; Hossain, M.A. Genome Wide Analysis of Severe Acute Respiratory Syndrome Coronavirus-2 Implicates World-Wide Circulatory Virus Strains Heterogeneity. Preprints2020, 2020040137. https://doi.org/10.20944/preprints202004.0137.v1
Islam, M.R., Hoque, M.N., Rahman, M.S., Puspo, J.A., Akhter, M., Akter, S., Rubayet-Ul-Alam, A.S.M., Sultana, M., Crandall, K.A., & Hossain, M.A. (2020). Genome Wide Analysis of Severe Acute Respiratory Syndrome Coronavirus-2 Implicates World-Wide Circulatory Virus Strains Heterogeneity. Preprints. https://doi.org/10.20944/preprints202004.0137.v1
Islam, M.R., Keith A. Crandall and M. Anwar Hossain. 2020 "Genome Wide Analysis of Severe Acute Respiratory Syndrome Coronavirus-2 Implicates World-Wide Circulatory Virus Strains Heterogeneity" Preprints. https://doi.org/10.20944/preprints202004.0137.v1
Severe acute respiratory syndrome coronavirus-2 (SARS-CoV-2), a novel evolutionarily divergent RNA virus etiological agent of COVID-19, is responsible for present devastating pandemic respiratory illness. To explore the genomic signatures, we comprehensively analyzed 2,492 complete and/or near-complete genome sequences of SARS-CoV-2 strains reported from across the globe to the GISAID database up to 30 March 2020. Genome-wide annotations revealed 1,407 nucleotide-level mutations at different positions throughout the entire genome of SARS-CoV-2. Moreover, nucleotide deletion analysis found nine deletions throughout the genome, including in polyprotein (n=6), ORF10 (n=1) and 3´-UTR (n=2). Evidence from the systematic gene-level mutational and protein profile analyses revealed a large number of amino acid (aa) substitutions (n=722), making the viral proteins heterogeneous. Notably, residues of receptor-binding domain (RBD) having crucial interactions with angiotensin-converting enzyme 2 (ACE2), and cross-reacting neutralizing antibody were found to be conserved among the analyzed SARS-CoV-2 strains, except for replacement of Lysine with Arginine at 378 position of the cryptic epitope of a Shanghai isolate, hCoV-19/Shanghai/SH0007/2020 (EPI_ISL_416320). Our method of genome annotation is a promising tool for monitoring and tracking the epidemic, the associated genetic variants, and their implications for the development of effective control and prophylaxis strategy.
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