Department of Virology, School of Medicine, Lorestan University of Medical Sciences, Khorramabad, Iran.
Department of Virology, School of Medicine, Lorestan University of Medical Sciences, Khorramabad, Iran; Hepatitis Research Center, Lorestan University of Medical Sciences, Khorramabad, Iran.
Microb Pathog. 2022 Jul;168:105595. doi: 10.1016/j.micpath.2022.105595. Epub 2022 May 18.
An essential step in SARS-CoV-2 infection is binding the receptor-binding domain (RBD) of the SARS-CoV-2 spike protein to the ACE2 receptor on the surface of host cells. Therefore, variation in this region can have crucial effects on clinical outcomes and the emergence of variants of concern (VOCs) and variants of interest (VOIs). In this cross-sectional descriptive study, 54 patients with SARS-COV-2 infection were enrolled. After collecting samples and identifying the virus using the One-Step Real-Time qRT-PCR technique and confirming the viral infection, the region containing the RBD region for detection of any mutations was amplified using the Nested-PCR method. Finally, to identify probable mutations, the Nested-PCR product was sequenced. Our data show that the most mutant strains in circulation in our population are the delta variant (90.74%), alpha variant (5.56%), and omicron variant (3.70%), respectively. Pangolin Lineages strains were B.1.1.7(Alpha variant), B.1.617.2(Delta variant) and B.1.1.529(Omicron variant). Also, the mutation profile of variants suggests that N501Y, T478K, and D614G amino acid substitutions, are the significant mutations in the alpha and delta variants that are common with the Omicron variant. The highest frequency of clinical signs in the patients were: lung involvement (42.59%); fever, chills (40.74%); body pain (15%), and other signs (1.67%). Our data revealed that SARS-COV-2 RBD region variation results in substituting essential amino acids and the emergence of the new variant. We can consider it as a predictor for monitoring the emergence of variants of concerns and viral outcomes.
在 SARS-CoV-2 感染中，一个关键步骤是该病毒刺突蛋白的受体结合域（RBD）与宿主细胞表面的 ACE2 受体结合。因此，该区域的变异会对临床结果以及关注变异株（VOC）和感兴趣变异株（VOI）的出现产生重要影响。在这项横断面描述性研究中，共纳入了 54 例 SARS-CoV-2 感染患者。采集样本后，采用 One-Step Real-Time qRT-PCR 技术鉴定病毒，并确认病毒感染后，使用巢式 PCR 方法扩增包含 RBD 区域的检测任何突变的区域。最后，通过巢式 PCR 产物测序来识别可能的突变。我们的数据显示，在我们的人群中流行的最主要的突变株分别是德尔塔变异株（90.74%）、阿尔法变异株（5.56%）和奥密克戎变异株（3.70%）。穿山甲谱系株分别为 B.1.1.7（阿尔法变异株）、B.1.617.2（德尔塔变异株）和 B.1.1.529（奥密克戎变异株）。此外，变异株的突变谱表明，N501Y、T478K 和 D614G 氨基酸取代是阿尔法和德尔塔变异株中的显著突变，与奥密克戎变异株共有。患者最常见的临床体征是：肺部受累（42.59%）；发热、寒战（40.74%）；全身疼痛（15%）和其他体征（1.67%）。我们的数据表明，SARS-CoV-2 RBD 区域的变异导致必需氨基酸的替代和新变异株的出现。我们可以将其视为监测关注变异株和病毒结果出现的指标。
