当前位置: X-MOL 学术Virus Genes › 论文详情
Our official English website, www.x-mol.net, welcomes your feedback! (Note: you will need to create a separate account there.)
Temporal landscape of mutational frequencies in SARS-CoV-2 genomes of Bangladesh: possible implications from the ongoing outbreak in Bangladesh
Virus Genes ( IF 1.9 ) Pub Date : 2021-07-12 , DOI: 10.1007/s11262-021-01860-x
Otun Saha 1 , Israt Islam 1 , Rokaiya Nurani Shatadru 1 , Nadira Naznin Rakhi 1 , Md Shahadat Hossain 2 , Md Mizanur Rahaman 1
Affiliation  

Along with intrinsic evolution, adaptation to selective pressure in new environments might have resulted in the circulatory SARS-CoV-2 strains in response to the geoenvironmental conditions of a country and the demographic profile of its population. With this target, the current study traced the evolutionary route and mutational frequency of 198 Bangladesh-originated SARS-CoV-2 genomic sequences available in the GISAID platform over a period of 13 weeks as of 14 July 2020. The analyses were performed using MEGA X, Swiss Model Repository, Virus Pathogen Resource and Jalview visualization. Our analysis identified that majority of the circulating strains strikingly differ from both the reference genome and the first sequenced genome from Bangladesh. Mutations in nonspecific proteins (NSP2-3, NSP-12(RdRp), NSP-13(Helicase)), S-Spike, ORF3a, and N-Nucleocapsid protein were common in the circulating strains with varying degrees and the most unique mutations (UM) were found in NSP3 (UM-18). But no or limited changes were observed in NSP9, NSP11, Envelope protein (E) and accessory factors (NSP7a, ORF 6, ORF7b) suggesting the possible conserved functions of those proteins in SARS-CoV-2 propagation. However, along with D614G mutation, more than 20 different mutations in the Spike protein were detected basically in the S2 domain. Besides, mutations in SR-rich region of N protein and P323L in RDRP were also present. However, the mutation accumulation showed a significant association (p = 0.003) with sex and age of the COVID-19-positive cases. So, identification of these mutational accumulation patterns may greatly facilitate vaccine development deciphering the age and the sex-dependent differential susceptibility to COVID-19.



中文翻译:

孟加拉国 SARS-CoV-2 基因组突变频率的时间景观:孟加拉国持续爆发的可能影响

随着内在进化,在新环境中对选择压力的适应可能导致循环 SARS-CoV-2 菌株以响应一个国家的地理环境条件及其人口的人口统计特征。以此为目标,目前的研究追踪了截至 2020 年 7 月 14 日的 13 周内 GISAID 平台中可用的 198 个源自孟加拉国的 SARS-CoV-2 基因组序列的进化路线和突变频率。使用 MEGA X 进行分析, Swiss Model Repository、Virus Pathogen Resource 和 Jalview 可视化。我们的分析表明,大多数循环菌株与参考基因组和来自孟加拉国的第一个测序基因组都存在显着差异。非特异性蛋白质(NSP2-3、NSP-12(RdRp)、NSP-13(Helicase))、S-Spike、ORF3a、和N-核衣壳蛋白在不同程度的循环菌株中常见,最独特的突变(UM)在NSP3(UM-18)中发现。但是在 NSP9、NSP11、包络蛋白 (E) 和辅助因子(NSP7a、ORF 6、ORF7b)中没有观察到变化或变化有限,表明这些蛋白质在 SARS-CoV-2 传播中可能具有保守功能。然而,随着D614G突变,Spike蛋白的20多种不同突变基本在S2结构域中被检测到。此外,RDRP中N蛋白的SR富集区和P323L也存在突变。然而,突变积累显示出显着的关联(包膜蛋白 (E) 和辅助因子 (NSP7a、ORF 6、ORF7b) 表明这些蛋白质在 SARS-CoV-2 传播中可能具有保守功能。然而,随着D614G突变,Spike蛋白的20多种不同突变基本在S2结构域中被检测到。此外,RDRP中N蛋白的SR富集区和P323L也存在突变。然而,突变积累显示出显着的关联(包膜蛋白 (E) 和辅助因子 (NSP7a、ORF 6、ORF7b) 表明这些蛋白质在 SARS-CoV-2 传播中可能具有保守功能。然而,随着D614G突变,Spike蛋白的20多种不同突变基本在S2结构域中被检测到。此外,RDRP中N蛋白的SR富集区和P323L也存在突变。然而,突变积累显示出显着的关联(p  = 0.003) 与 COVID-19 阳性病例的性别和年龄。因此,识别这些突变积累模式可能会极大地促进疫苗开发,以破译年龄和对 COVID-19 的性别依赖性差异易感性。

更新日期:2021-07-12
down
wechat
bug