The Ancient Evolutionary History of Polyomaviruses.
The Ancient Evolutionary History of Polyomaviruses.
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DOI：
10.1371/journal.ppat.1005574
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发表时间：
2016-04
期刊：
影响因子：
6.7
通讯作者：
Varsani A
中科院分区：
文献类型：
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作者：
Buck CB;Van Doorslaer K;Peretti A;Geoghegan EM;Tisza MJ;An P;Katz JP;Pipas JM;McBride AA;Camus AC;McDermott AJ;Dill JA;Delwart E;Ng TF;Farkas K;Austin C;Kraberger S;Davison W;Pastrana DV;Varsani A
多瘤病毒是已知可感染哺乳动物和鸟类的 DNA 肿瘤病毒家族。为了研究该家族更深层的进化史，我们结合了病毒宏基因组学、生物信息学和结构建模方法来识别和表征与鱼类和节肢动物相关的多瘤病毒序列。对不同的新序列进行的分析表明，多瘤病毒已经与它们的动物宿主逐渐共同进化了至少 5 亿年。对单个多瘤病毒基因的系统发育分析表明，一些现代多瘤病毒物种是在涉及远亲多瘤病毒谱系的古代重组事件之后出现的。改进的进化模型为为病毒科多瘤病毒科开发更准确的分类系统提供了有用的平台。多瘤病毒是一类基于 DNA 的病毒，已知可感染包括人类在内的各种陆生脊椎动物。在本报告中，我们描述了与各种海洋鱼类相关的高度分化的多瘤病毒的发现。对公共深度测序数据库的搜索意外地揭示了蝎子和蜘蛛数据集中存在类多瘤病毒序列。我们对这些新序列的分析表明，多瘤病毒通过一种称为宿主内分化的既定机制与个体宿主动物谱系缓慢共同进化。所提出的模型与其他 DNA 病毒（例如乳头瘤病毒）的机制相似，被认为是进化而来的。我们的分析还表明，远缘相关的多瘤病毒有时会重组产生新的嵌合谱系。我们提出了一种可能的分类方案来解释这些推断的古代重组事件。
Polyomaviruses are a family of DNA tumor viruses that are known to infect mammals and birds. To investigate the deeper evolutionary history of the family, we used a combination of viral metagenomics, bioinformatics, and structural modeling approaches to identify and characterize polyomavirus sequences associated with fish and arthropods. Analyses drawing upon the divergent new sequences indicate that polyomaviruses have been gradually co-evolving with their animal hosts for at least half a billion years. Phylogenetic analyses of individual polyomavirus genes suggest that some modern polyomavirus species arose after ancient recombination events involving distantly related polyomavirus lineages. The improved evolutionary model provides a useful platform for developing a more accurate taxonomic classification system for the viral family Polyomaviridae. Polyomaviruses are a family of DNA-based viruses that are known to infect various terrestrial vertebrates, including humans. In this report, we describe our discovery of highly divergent polyomaviruses associated with various marine fish. Searches of public deep sequencing databases unexpectedly revealed the existence of polyomavirus-like sequences in scorpion and spider datasets. Our analysis of these new sequences suggests that polyomaviruses have slowly co-evolved with individual host animal lineages through an established mechanism known as intrahost divergence. The proposed model is similar to the mechanisms through with other DNA viruses, such as papillomaviruses, are thought to have evolved. Our analysis also suggests that distantly related polyomaviruses sometimes recombine to produce new chimeric lineages. We propose a possible taxonomic scheme that can account for these inferred ancient recombination events.