Oka Tomoichiro, Doan Yen Hai, Shimoike Takashi, Haga Kei, Takizawa Takenori
Department of Virology II, National Institute of Infectious Diseases, Gakuen 4-7-1, Musashi-murayama, Tokyo, Japan.
Department of Virology, Toyama Institute of Health, Nakataikoyama 17-1, Izumi, Toyama, Japan.
Virus Genes. 2017 Dec;53(6):848-855. doi: 10.1007/s11262-017-1481-8. Epub 2017 Jun 22.
Sapoviruses (SaVs) are enteric viruses and have been detected in various mammals. They are divided into multiple genogroups and genotypes based on the entire major capsid protein (VP1) encoding region sequences. In this study, we determined the first complete genome sequences of two genogroup V, genotype 3 (GV.3) SaV strains detected from swine fecal samples, in combination with Illumina MiSeq sequencing of the libraries prepared from viral RNA and PCR products. The lengths of the viral genome (7494 nucleotides [nt] excluding polyA tail) and short 5'-untranslated region (14 nt) as well as two predicted open reading frames are similar to those of other SaVs. The amino acid differences between the two porcine SaVs are most frequent in the central region of the VP1-encoding region. A stem-loop structure which was predicted in the first 41 nt of the 5'-terminal region of GV.3 SaVs and the other available complete genome sequences of SaVs may have a critical role in viral genome replication. Our study provides complete genome sequences of rarely reported GV.3 SaV strains and highlights the common 5'-terminal genomic feature of SaVs detected from different mammalian species.
札幌病毒（SaVs）是肠道病毒，已在多种哺乳动物中被检测到。根据整个主要衣壳蛋白（VP1）编码区序列，它们被分为多个基因组和基因型。在本研究中，我们结合从病毒RNA和PCR产物制备的文库的Illumina MiSeq测序，确定了从猪粪便样本中检测到的两株基因组V、基因型3（GV.3）SaV毒株的首个完整基因组序列。病毒基因组的长度（7494个核苷酸[nt]，不包括多聚A尾）、短的5'非翻译区（14 nt）以及两个预测的开放阅读框与其他SaVs相似。两株猪源SaVs之间的氨基酸差异在VP1编码区的中部最为常见。在GV.3 SaVs 5'末端区域的前41 nt以及其他可用的SaV完整基因组序列中预测的茎环结构可能在病毒基因组复制中起关键作用。我们的研究提供了罕见报道的GV.3 SaV毒株的完整基因组序列，并突出了从不同哺乳动物物种中检测到的SaVs的共同5'末端基因组特征。
