year 17, Issue 5 (September - October 2023)
Iran J Med Microbiol 2023, 17(5): 520-532 |
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Tahir D A, Arif S K, Mahmood Z H. Exploring Novel Genetic Mutations in SARS-CoV-2: Insights into Viral Genetic Diversity and Evolutionary Dynamics. Iran J Med Microbiol 2023; 17 (5) :520-532
URL: http://ijmm.ir/article-1-2263-en.html
URL: http://ijmm.ir/article-1-2263-en.html
1- Department of Biology, College of Science, University of Sulaimani, Al Sulaymaniyah, Iraq
2- College of Health Sciences, University of Human Development, Al Sulaymaniyah, Iraq , sehand.arif@univsul.edu.iq
3- Department of Infection Biology & Microbiomes, Faculty of Health & Life Sciences, University of Liverpool, The United Kingdom
2- College of Health Sciences, University of Human Development, Al Sulaymaniyah, Iraq , sehand.arif@univsul.edu.iq
3- Department of Infection Biology & Microbiomes, Faculty of Health & Life Sciences, University of Liverpool, The United Kingdom
Abstract: (503 Views)
Background and Aim: The study aimed to detect SARS-CoV-2 using custom-designed primers in conventional PCR, targeting RdRp, E, and N genes, and assess regional isolate genetic diversity compared to global strains.
Materials and Methods: In Sulaimani City, Iraq, from September 2020 to September 2021, 200 positive nasopharyngeal samples were collected, and 17 known variants with the S gene were randomly selected for whole RdRp, E, and N gene sequencing. To facilitate sequencing, six primer sets were designed for the RdRp gene (RdRp1, RdRp2, RdRp3), two for the N gene (N1, N2), and one for the E gene.
Results: Twelve mutations in the RdRp gene were identified, with the most common mutation being 14408C>T (P323L). In the N gene, a unique mutation, 28977C>T (S235F), was detected in eight samples of various variants alongside other amino acid-altering point mutations (28280-2GAT>CTA and 2881-3GGG>AAC). The E gene exhibited amino acid-altering mutations (S68F and I13L) in two samples. The most frequent mutation, 28977C>T (S235F), was identified in eight samples representing alpha, gamma, and cluster 5 variants.
Conclusion: A novel mutation, specifically 28280-2GAT>CTA, resulting in D3L, along with three other mutations (28484G>A, 29129T>G, 29131T>C) causing amino acid substitutions (G70S, N284K, F285L) were identified in the N gene. Additionally, a unique mutation at 26281 A>T in the E gene was observed in the Wuhan variant.
Type of Study: Original Research Article |
Subject:
Medical Virology
Received: 2023/08/18 | Accepted: 2023/11/20 | ePublished: 2023/11/29
Received: 2023/08/18 | Accepted: 2023/11/20 | ePublished: 2023/11/29
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