Assessment of Variations in RBD domain within spike proteinof SARS-COV۲ during different waves in South Khorasan, East of Iran

سال انتشار: 1401
نوع سند: مقاله کنفرانسی
زبان: انگلیسی
مشاهده: 196

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شناسه ملی سند علمی:

MEDISM23_466

تاریخ نمایه سازی: 16 مهر 1401

چکیده مقاله:

Background and Aim : Genomic analysis of SARS-COV۲ have shown a lot of variation in allaround the viral genome. So, according to lack of these data from Iran as well as the region ofstudy we aimed to investigate the polymorphic variation of S gene in COVID-۱۹ samples of SouthKhorasan province.Methods : The sampling was performed from January ۲۰۲۱ to March ۲۰۲۲. Cases with confirmedpositive PCR result were selected based on severity and symptoms; next, divided to mild,moderated and sever groups. Demographic, clinical and virological examinations data wererecorded. Nasopharyngeal samples were given and RNA extracted and forwarded for synthesis ofcDNA. Using an in-house PCR assay Partial amplification of S gene was performed for sequencingof RBD region. The sequenced were analyzed in the biological software including Bioedit, Mega۷,CLC and online tools such as NCBI and Nextclade databanks. Statistical analysis was performedin the SPSS version ۲۲.Results : In overall there were ۲۷۲ RNA samples with a confirmed positive PCR test. The PCRproduct of ۱۴۲ samples were sequenced to determine RBD region. Among which ۷۱ samples(۵۰%) were male, and the rest were female. The mean age of participants were ۴۵.۷ ± ۲۰.۹ years.Mutations were mostly accumulated in the RBD and especially RBM motif. The mean numbersof mutations per sample was ۵.۱ ± ۳.۴. Result of analysis in nextclade showed that ۳۹.۹% samplesare belonged to the clade Rec, and then followed by clades alpha, ۲۰A, ۱۹A and omicron. ۱۹Awas distributed in all times and months. Clades delta, ۲۰A and Rec were significantly associatedwith the ICU admission and death rate. Viral load was significantly lower in death group ratherthan comparison group. The well-known D۶۱۴G mutation is now completely established amongthe current circulating variants.Conclusion : The result of this study demonstrated a lot of mutations accumulated in the RBDregion and RBM motif in the spike protein of SARS-COV۲. So, these huge numbers of establishedvariants require next studies for continuous sequencing and following of SARS-COV۲ genome inspecific S gene.

نویسندگان

Davod Javanmard

Infectious diseases research center, Birjand university of medical sciences, Birjand, Iran

Majid Zare Bidaki

Infectious Diseases Research Center, Birjand University of Medical Sciences, Birjand, Iran.

Shokouh Ghafari

Deprtment of Pathology, Birjand University of Medical Sciences, Birjand, Iran

Masood Ziaee

Department of General Surgery, Zahedan University of Medical Sciences, Zahedan, Iran