Identification and molecular characterization of the first complete genome sequence of Human Parechovirus type 15
Identification and molecular characterization of the first complete genome sequence of Human Parechovirus type 15
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DOI：
10.1038/s41598-020-63467-w
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发表时间：
2020-04-21
影响因子：
4.6
通讯作者：
Ndiaye, Kader
中科院分区：
文献类型：
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作者：
Fernandez-Garcia, Maria Dolores;Simon-Loriere, Etienne;Ndiaye, Kader
使用宏基因组学方法，我们已经确定了人类15型双埃柯病毒（HPeV 15）毒株的第一个全长基因组序列，该毒株分离自患有急性弛缓性麻痹并与EV-A71共感染的儿童。HPeV 15是一种很少报道的类型。迄今为止，在GenBank数据库中没有HPeV 15的全长基因组序列，其中只有有限的该病毒的VP 1序列可用。通过对VP 1全序列和推导的氨基酸序列进行配对比较，发现该毒株与HPeV 15原型株的核苷酸同源性为79.6%，氨基酸同源性为93.4%，属于15型。可用的基因组区域的比较分析和使用P2和P3编码区的系统发育分析揭示了与HPeV参考基因组的低核苷酸同一性。系统发育分析和相似性分析表明，在HPeV 15进化过程中，基因组重组事件可能发生在UTR和非结构区。研究菌株与HPeV 3的不同变体具有高度相似性特征，表明存在型间重组。我们的数据有助于非洲HPeV的稀缺数据，并为未来的研究提供了有价值的信息，旨在了解HPeV 15的进化史，分子流行病学或生物学和致病特性。
Using a metagenomics approach, we have determined the first full-length genome sequence of a human parechovirus type 15 (HPeV15) strain, isolated from a child with acute flaccid paralysis and co-infected with EV-A71. HPeV15 is a rarely reported type. To date, no full-length genome sequence of HPeV15 is available in the GenBank database, where only limited VP1 sequences of this virus are available. Pairwise comparisons of the complete VP1 nucleotide and deduced amino acid sequences revealed that the study strain belongs to type 15 as it displayed 79.6% nucleotide and 93.4% amino acid identity with the HPeV15 prototype strain. Comparative analysis of available genomic regions and phylogenetic analysis using the P2 and P3 coding regions revealed low nucleotide identity to HPeV reference genomes. Phylogenetic and similarity plot analyses showed that genomic recombination events might have occurred in the UTRs and nonstructural region during HPeV15 evolution. The study strain has high similarity features with different variants of HPeV3 suggesting intertypic recombination. Our data contributes to the scarce data available on HPeVs in Africa and provides valuable information for future studies that aim to understand the evolutionary history, molecular epidemiology or biological and pathogenic properties of HPeV15.