CpG-creating mutations are costly in many human viruses
CpG-creating mutations are costly in many human viruses
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DOI：
10.1007/s10682-020-10039-z
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发表时间：
2020-04-24
影响因子：
1.9
通讯作者：
Pennings, Pleuni S.
中科院分区：
文献类型：
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作者：
Caudill, Victoria R.;Qin, Sarina;Pennings, Pleuni S.
突变可以发生在整个病毒基因组中，并且可能是有益的、中性的或有害的。我们感兴趣的突变，产生一个C旁边的一个G，产生CpG位点。CpG位点在真核生物和病毒基因组中是罕见的。对于真核生物来说，人们认为CpG位点很少见，因为它们在甲基化时容易发生突变。在病毒中，我们对为什么CpG位点很罕见知之甚少。之前的一项关于HIV的研究表明，产生CpG的过渡突变比类似的非CpG突变更昂贵。为了确定其他病毒是否也是这种情况，我们使用从Genbank、HIV数据库和病毒病原体资源获得的现有数据，分析了不同毒株、亚型和病毒基因中产生CpG和不产生CpG突变的等位基因频率。我们的结果表明，对于大多数病毒来说，CpG位点确实成本高昂。通过了解CpG位点的成本，我们可以进一步了解病毒的进化和适应。
Mutations can occur throughout the virus genome and may be beneficial, neutral or deleterious. We are interested in mutations that yield a C next to a G, producing CpG sites. CpG sites are rare in eukaryotic and viral genomes. For the eukaryotes, it is thought that CpG sites are rare because they are prone to mutation when methylated. In viruses, we know less about why CpG sites are rare. A previous study in HIV suggested that CpG-creating transition mutations are more costly than similar non-CpG-creating mutations. To determine if this is the case in other viruses, we analyzed the allele frequencies of CpG-creating and non-CpG-creating mutations across various strains, subtypes, and genes of viruses using existing data obtained from Genbank, HIV Databases, and Virus Pathogen Resource. Our results suggest that CpG sites are indeed costly for most viruses. By understanding the cost of CpG sites, we can obtain further insights into the evolution and adaptation of viruses.