Frustration and fidelity in influenza genome assembly
Frustration and fidelity in influenza genome assembly
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流感基因组组装的挫败感和保真度
DOI：
10.1101/636613
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发表时间：
2019
影响因子：
3.9
通讯作者：
M. Thattai
中科院分区：
文献类型：
--
作者：
Nida Farheen;M. Thattai
流感病毒的基因组由八个不同的单链RNA片段组成，每个片段编码病毒生命周期所必需的蛋白质。当病毒感染宿主细胞时，这些片段必须复制并包装成新的萌芽病毒粒子。病毒基因组是以非常高的保真度组装起来的：实验表明，大多数病毒粒子恰好包含八个RNA片段中的每一个拷贝。细胞生物学研究表明，基因组组装是由RNA片段及其相关蛋白质之间特定的可逆和不可逆相互作用所介导的。然而，准确的部门间互动网络仍然没有解决。在这里，我们通过计算预测，树状的不可逆相互作用网络保证了高保真的基因组组装，而循环相互作用网络则导致徒劳或受挫的非路径产物。我们在多个实验数据集上测试了我们的预测。我们发现树状网络捕获了包装病毒粒子中RNA片段的最近邻统计数据，正如EM断层成像所观察到的那样。只有八个树状网络(可能有262,144个)以最佳方式同时捕获最近邻数据以及独立测量的RNA-RNA接触倾向。这八个网络不包括先前提出的轴辐式网络和线性网络。相反，每个预测的网络都结合了集线器和线性特征，与交互得失的进化模型一致。
The genome of the influenza virus consists of eight distinct single-stranded RNA segments, each encoding proteins essential for the viral life cycle. When the virus infects a host cell these segments must be replicated and packaged into new budding virions. The viral genome is assembled with remarkably high fidelity: experiments reveal that most virions contain precisely one copy of each of the eight RNA segments. Cell-biological studies suggest that genome assembly is mediated by specific reversible and irreversible interactions between the RNA segments and their associated proteins. However, the precise inter-segment interaction network remains unresolved. Here we computationally predict that tree-like irreversible interaction networks guarantee high-fidelity genome assembly, while cyclic interaction networks lead to futile or frustrated off-pathway products. We test our prediction against multiple experimental datasets. We find that tree-like networks capture the nearest-neighbor statistics of RNA segments in packaged virions, as observed by EM tomography. Just eight tree-like networks (of a possible 262,144) optimally capture both the nearest-neighbor data as well as independently measured RNA-RNA contact propensities. These eight do not include the previously-proposed hub-and-spoke and linear networks. Rather, each predicted network combines hub-like and linear features, consistent with evolutionary models of interaction gain and loss.
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影响因子：
16.6
作者：
Moreira, Etori Aguiar;Weber, Anna;Bolte, Hardin;Kolesnikova, Larissa;Giese, Sebastian;Lakdawala, Seema;Beer, Martin;Zimmer, Gert;Garcia-Sastre, Adolfo;Schwemmle, Martin;Juozapaitis, Mindaugas
通讯作者：
Juozapaitis, Mindaugas
DOI：
10.1021/acs.jpcb.8b08096
发表时间：
2018
期刊：
The journal of physical chemistry. B
影响因子：
--
作者：
Madge J
通讯作者：
Madge J
影响因子：
5.5
作者：
Bouvier NM;Palese P
通讯作者：
Palese P
甲型流感病毒基因组的结构
DOI：
10.1101/236620
发表时间：
2017
期刊：
--
影响因子：
--
作者：
Dadonaite B
通讯作者：
Dadonaite B