Genome packaging within icosahedral capsids and large-scale segmentation in viral genomic sequences
Genome packaging within icosahedral capsids and large-scale segmentation in viral genomic sequences
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DOI：
10.1080/07391102.2018.1479660
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发表时间：
2019-06-13
影响因子：
4.4
通讯作者：
Lobzin，V. V.
中科院分区：
文献类型：
--
作者：
Chechetkin，V. R.;Lobzin，V. V.
具有二十面体衣壳的病毒的组装和成熟必须与二十面体对称相协调。二十面体对称也限制了基因组RNA/DNA和外壳蛋白之间的合作特异性相互作用，这应该反映在病毒基因组序列的准规则分割中。结合离散直接傅立叶变换和双傅立叶变换，研究了不同ssRNA、ssDNA和dsDNA病毒基因组序列的准规则大规模分割。其中具有代表性的有卫星烟草花叶病毒（STMV）和卫星烟草坏死病毒（STNV）、STNV- c、STNV-1、STNV-2、Escherichia噬菌体MS2、x174、α3、HK97和猿猴病毒40。在所有的基因组中，我们发现与病毒粒子组装和二十面体衣壳内基因组包装相关的基因组序列有明显的准规则分割。我们还发现我们的结果与这些病毒的衣壳结构和基因组包装的现有冷冻电子显微镜数据之间有很好的对应关系。基因组序列的傅里叶分析提供了对分层基因组包装机制的额外见解，并可用于验证病毒粒子组装中3倍或5倍中间体的概念。在选择模型和解释数据时应考虑序列分析的结果。它们也可能有助于开发抗病毒药物。
The assembly and maturation of viruses with icosahedral capsids must be coordinated with icosahedral symmetry. The icosahedral symmetry imposes also the restrictions on the cooperative specific interactions between genomic RNA/DNA and coat proteins that should be reflected in quasi-regular segmentation of viral genomic sequences. Combining discrete direct and double Fourier transforms, we studied the quasi-regular large-scale segmentation in genomic sequences of different ssRNA, ssDNA, and dsDNA viruses. The particular representatives included satellite tobacco mosaic virus (STMV) and the strains of satellite tobacco necrosis virus (STNV), STNV-C, STNV-1, STNV-2, Escherichia phages MS2, ϕX174, α3, and HK97, and Simian virus 40. In all their genomes, we found the significant quasi-regular segmentation of genomic sequences related to the virion assembly and the genome packaging within icosahedral capsid. We also found good correspondence between our results and available cryo-electron microscopy data on capsid structures and genome packaging in these viruses. Fourier analysis of genomic sequences provides the additional insight into mechanisms of hierarchical genome packaging and may be used for verification of the concepts of 3-fold or 5-fold intermediates in virion assembly. The results of sequence analysis should be taken into account at the choice of models and data interpretation. They also may be helpful for the development of antiviral drugs.