سامانه مدیریت نشریات علمی دانشگاه علوم پزشکی مشهد

Aghcheli, Bahman, Tahamtan, Alireza, Razavi Nikoo, Hadi, Bazi, Zahra, Kalani, Mohammad Reza, Moradi, Abdolvahab. (1401). Evaluation of Mutations in SARS-CoV-2 N and S Genes on the Proteins Stability, Immunogenicity, and Pathogenicity in Iranian Patients from Golestan Province. , 10(8), 16486-16497. doi: 10.22038/ijp.2022.64880.4906
Bahman Aghcheli; Alireza Tahamtan; Hadi Razavi Nikoo; Zahra Bazi; Mohammad Reza Kalani; Abdolvahab Moradi. "Evaluation of Mutations in SARS-CoV-2 N and S Genes on the Proteins Stability, Immunogenicity, and Pathogenicity in Iranian Patients from Golestan Province". , 10, 8, 1401, 16486-16497. doi: 10.22038/ijp.2022.64880.4906
Aghcheli, Bahman, Tahamtan, Alireza, Razavi Nikoo, Hadi, Bazi, Zahra, Kalani, Mohammad Reza, Moradi, Abdolvahab. (1401). 'Evaluation of Mutations in SARS-CoV-2 N and S Genes on the Proteins Stability, Immunogenicity, and Pathogenicity in Iranian Patients from Golestan Province', , 10(8), pp. 16486-16497. doi: 10.22038/ijp.2022.64880.4906
Aghcheli, Bahman, Tahamtan, Alireza, Razavi Nikoo, Hadi, Bazi, Zahra, Kalani, Mohammad Reza, Moradi, Abdolvahab. Evaluation of Mutations in SARS-CoV-2 N and S Genes on the Proteins Stability, Immunogenicity, and Pathogenicity in Iranian Patients from Golestan Province. , 1401; 10(8): 16486-16497. doi: 10.22038/ijp.2022.64880.4906

Evaluation of Mutations in SARS-CoV-2 N and S Genes on the Proteins Stability, Immunogenicity, and Pathogenicity in Iranian Patients from Golestan Province

International Journal of Pediatrics
مقاله 6، دوره 10، شماره 8، آبان 2022، صفحه 16486-16497    اصل مقاله (1018.52 K)
نوع مقاله: original article
شناسه دیجیتال (DOI): 10.22038/ijp.2022.64880.4906
نویسندگان
Bahman Aghcheli1؛ Alireza Tahamtan1؛ Hadi Razavi Nikoo1؛ Zahra Bazi2؛ Mohammad Reza Kalani3؛ Abdolvahab Moradi* 1
1Department of Microbiology, School of Medicine, Golestan University of Medical Sciences, Gorgan, Iran.
2Department of Biotechnology, Golestan University of Medical Sciences, Gorgan, Iran.
3Senior Scientist, Enterprise-TTM, University of Pittsburgh Medical Center, Pittsburgh, PA.
چکیده
Background: Natural selection such as mutations is known as a constant process for viral fitness and selective adaptation. Understanding the effects of each mutation, especially on structural proteins in the viral life cycle, is important in tracking the viruses behavior. Here, we evaluated the effects of mutations in SARS-CoV-2 nucleoprotein (N) and spike (S) genes on the protein stability, immunogenicity, and pathogenicity in Iranian COVID-19 patients from Golestan province.
Methods: In this study, 8 SARS-CoV-2 RNA samples were enrolled from referral hospitals in Golestan province. These samples were confirmed using a real-time RT-PCR assay targeting the SARS-CoV-2 nucleoprotein (N) and ORF1ab genes (Pishtazteb, Iran). Next-generation sequencing (NGS) was done on samples and subsequent sequences were retrieved from Global Initiative on Sharing All Influenza Data (GISAID) EpiCoV database. Structural analysis was performed between wild type (Wuhan accession number: NC_045512.2) and mutant N and S proteins to evaluate their stability, immunogenicity, and pathogenicity via bioinformatics servers such as Dynamut, Prodigy, IEDB, and software’s (Mega XI and Pymol II.V.II visualizer).
Results: Amino acid codon changes in N and S proteins show that mutations could alter the translation efficiency. Normal Mode Analysis (NMA) by Dynamut server shows that stability and flexibility are changed by the mutations of these proteins. Immunogenicity analysis indicates the potential effects of some mutations such as P681H, Q675R, L699I, and D3L on immune escape. Interaction complex binding energy and affinity are higher in the mutant type compared to the Wuhan wild type, indicating higher pathogenicity.
Conclusion: The results indicate that there are some important mutations in N and S genes that affect the virus behavior in the infectivity. Regarding the sample size limitation and various mutations in SARS-CoV-2 variants, other studies using whole-genome sequencing with larger sample sizes will be required. Therefore, continuous monitoring of the SARS-CoV-2 genome seems important.
کلیدواژه‌ها
SARS-CoV-2؛ COVID-19؛ mutations؛ spike؛ nucleoprotein؛ bioinformatics analysis
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