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Unique SARSCoV2 variant exhibiting plenteous missense mutations in structural and nonstructural genes

Alnoura T.M.S., Ullah M.F., Elssaig E.H., AhmedAbakur E.H.


Determining the variations in SARS-CoV-2 variant is considered main factor for understanding the pathogenic mechanisms, aid in diagnosis, prevention and treatment. The present study aimed to determine the genetic variations of SARS-CoV-2. The sequences of SARS-CoV-2 were ob-tained from National Center for Biotechnology Information (NCBI) and studied according to the time of isolation and their origin. The genome sequence of SARS-CoV-2 accession number NC_045512 which represented the first isolated sequence of SARS-CoV-2 (Wuhan strain) was used as the reference sequence. The obtained genome sequences of SARS-CoV-2 were aligned against this Wu-han strain and variations among nucleotides and proteins were examined. The sequence of SARS-CoV-2 accession number MT577016 showed very low homology 98.75 % compared to Wuhan strain NC_045512. The analysis identified 301 nucleotide changes, which correspond to 258 different mutations; most of them 80 % (207/258) were missense point mutations followed by 17.1 % (44/258) silent point mutations. The critical mutations occurred in viral structural genes; 16.7 % (43/258) mutations reported in S gene and 1 missense mutation was observed in E gene. Our finding showed the lowest homology and relatively distant phylogenetic relation of this SARS-CoV-2 variant with Wuhan strain along with high frequency of mutations including those in spike S and envelope E genes.

Key words: COVID-19, genetic variation, homology, phy-logenetic, SARS-CoV-2

Tsitologiya i Genetika 2021, vol. 55, no. 5, pp. 69-71

  1. Faculty of Medical Laboratory Science, Department of Microbiology and Immunology Alzaiem Alazhari University, Khartoum North, 11111, Sudan
  2. Department of Medical Laboratory Technology (FAMS), University of Tabuk, P.O. Box 741, Tabuk, 71411, Saudi Arabia
  3. Prince Fahad Research Chair, University of Tabuk, P.O. Box 741, Tabuk 71411, Saudi Arabia

E-mail: telnour, m.ullah, eelssaig,

eosman, eltayib1974

Alnoura T.M.S., Ullah M.F., Elssaig E.H., AhmedAbakur E.H. Unique SARSCoV2 variant exhibiting plenteous missense mutations in structural and nonstructural genes, Tsitol Genet., 2021, vol. 55, no. 5, pp. 69-71.

In "Cytology and Genetics":
Tarig M.S. Alnour, Mohammad Fahad Ullah, Elmutuz H. Elssaig & Eltayib H. Ahmed-Abakur Unique SARS-CoV-2 Variant Exhibiting Plenteous Missense Mutations in Structural and Nonstructural Genes, Cytol Genet., 2021, vol. 55, no. 6, pp. 606612
DOI: 10.3103/S0095452721060153


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