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SARS-Cov-2 Genomic Variations Among Isolates from Jordanian Patients
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| Author:
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WAJDY J.AL-AWAIDA, HAMZEH J. AL-AMEER, MOHAMED SAMY ABOUSENNA, REFAT NIMER, HAYAT O. AL-ASASFEH, SEVERIN ALEXANDER EVGENIEVICH, YAKUNINA ELENA BORISOVNA, BAKAEVA ZARINA VAGICAINE, OMAR AL BAWAREED, BAKER JAWABRAH AL-HOURANI, NAJAH R. HADI
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| Abstract:
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Severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) is a highly infectious viral disease that emerged in late 2019 and rapidly deployed globally, Jordon as the most countries of the world has been affected and suffered from COVID-19 Pandemic, In the current study, we track the SARS-CoV-2 mutation and evolution, through conducting multiple alignments and phylogenetic analysis for isolated strains in Jordan. Twenty-one amino acid sequences of SARS-CoV-2 whole-genome and their Spike protein were used in the phylogenetic analysis and alignment. Amino acid sequences were selected from 28 Jordanian isolates retrieved from the global initiative on sharing all influenza data (GISAID) (https://www.gisaid.org/). These sequences were analyzed in comparison with SARS-CoV-2 isolate Wuhan-Hu-1 (Reference strain) using the BLAST tool, MAFFT online server, Guidance, BioEdit and CoVsurver Application for detection the mutations, phylogenetic analysis and multiple alignments. It was found that the evolution of SARS-CoV-2 whole-genome not more than 0.07% from reference strain while the spike protein variant not more than 0.08%, it was detected numerous of mutations (N_G204R; N_M234I;N_R203K; N_S190I; N_S202N; N_T205I; NS3_G251V; NS3_Q57H; NS3_S171L; NS7a_F59del; NS7a_Q62del;
NS7a_R80stop; NS7a_S60del; NS7a_T61del; NS8_L84S; NSP12_P323L; NSP2_I559V; NSP2_P125S; NSP2_P585S;
NSP2_S32L; NSP2_T153M; NSP2_T85I; NSP3_N1587S; NSP3_P1103L; NSP3_P1484S; NSP6_ins37F; NSP6_L37F;
NSP6_M86I; Spike_D1139Y; Spike_D614G; Spike_G1167S; Spike_Y145del), the most significant mutation is
Spike_D614G which is spike protein structure, and it was found in 61.9 % of SARS-CoV-2 Jordanian isolates.These evolved variants of SARS-CoV-2 likelihood increasing transmissibility or pathogenicity of COVID-19 infection; thus,tackling this pandemic requires consideration of evolved variants of SARS-CoV-2 in vaccine development and
current vaccine efficacy trials.
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| Keyword:
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COVID-19; SARS-CoV-2; spike protein; Jordan; Coronavirus; mutation; sequence analysis.
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| EOI:
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| DOI:
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https://doi.org/10.31838/ijpr/2020.SP2.483
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| Download:
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