Exploring the Genomic and Proteomic Variations of SARS-CoV-2 Spike Glycoprotein: A Computational Biology Approach

Overview

Journal Infect Genet Evol

Specialties Biology
Genetics
Infectious Diseases

Date 2020 Jun 6

PMID 32502733

Citations 53

Authors

Syed Mohammad Lokman

Md Rasheduzzaman

Asma Salauddin

Rocktim Barua

Afsana Yeasmin Tanzina

Meheadi Hasan Rumi

Md Imran Hossain

A M A M Zonaed Siddiki

Adnan Mannan

Md Mahbub Hasan

Affiliations

Soon will be listed here.

Abstract

The newly identified SARS-CoV-2 has now been reported from around 185 countries with more than a million confirmed human cases including more than 120,000 deaths. The genomes of SARS-COV-2 strains isolated from different parts of the world are now available and the unique features of constituent genes and proteins need to be explored to understand the biology of the virus. Spike glycoprotein is one of the major targets to be explored because of its role during the entry of coronaviruses into host cells. We analyzed 320 whole-genome sequences and 320 spike protein sequences of SARS-CoV-2 using multiple sequence alignment. In this study, 483 unique variations have been identified among the genomes of SARS-CoV-2 including 25 nonsynonymous mutations and one deletion in the spike (S) protein. Among the 26 variations detected in S, 12 variations were located at the N-terminal domain (NTD) and 6 variations at the receptor-binding domain (RBD) which might alter the interaction of S protein with the host receptor angiotensin-converting enzyme 2 (ACE2). Besides, 22 amino acid insertions were identified in the spike protein of SARS-CoV-2 in comparison with that of SARS-CoV. Phylogenetic analyses of spike protein revealed that Bat coronavirus have a close evolutionary relationship with circulating SARS-CoV-2. The genetic variation analysis data presented in this study can help a better understanding of SARS-CoV-2 pathogenesis. Based on results reported herein, potential inhibitors against S protein can be designed by considering these variations and their impact on protein structure.

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