Genomic diversity and intragenic recombination of species C rotaviruses
Genomic diversity and intragenic recombination of species C rotaviruses
复制标题
DOI：
10.1099/jgv.0.001703
复制
发表时间：
2022-01-01
影响因子：
3.8
通讯作者：
Nagai, Makoto
中科院分区：
文献类型：
--
作者：
Oki, Hisako;Masuda, Tsuneyuki;Nagai, Makoto
轮状病毒C（RVC）是全世界猪、牛和人类腹泻的主要原因。RVC在所有11个基因中表现出序列多样性，特别是在VP4和VP7中，并且所有基于片段的基因分型已经与轮状病毒A相似地进行。迄今为止，重组事件已在轮状病毒A和B中报道。然而，除了RVC与轮状病毒H之间在NSP3中的重组外，还没有关于RVC基因重组的报道。在这项研究中，9个猪RVC株在日本猪中确定的完全测序和分析一起从GenBank数据库中的RVC序列。结果表明，几个猪RVC株的VP4、VP2和NSP1基因序列与GenBank中的RVC株均无分支，提示存在新的基因型。在VP4、VP7、VP2、NSP1和NSP3基因中鉴定了几种基因型之间或基因型内的同源重组事件。其中，分别在VP4、VP2和NSP3基因中的9个、1个和1个基因型间重组事件得到了足够的统计值的支持。虽然这些发现表明在RVC基因组中发生了基因内重组事件，但数据库中潜在的序列错误和不良序列组装应小心观察。本研究的结果提供了有关RVC的重要重组事件的数据，这些重组事件通过帮助它们获得遗传多样性和可塑性来影响病毒的进化，尽管需要进一步的序列数据来更全面地了解这些机制。
Rotavirus C (RVC) is a major cause of diarrhoea in swine, cattle, and humans worldwide. RVC exhibits sequence diversity in all 11 genes, especially in VP4 and VP7, and all segment-based genotyping has been performed similar to rotavirus A. To date, recombination events have been reported in rotavirus A and B. However, there are no reports describing gene recombination of RVC, except for recombination in NSP3 between RVC and rotavirus H. In this study, nine porcine RVC strains identified in Japanese pigs were completely sequenced and analysed together with RVC sequences from the GenBank database. The analyses showed that sequences of the VP4, VP2, and NSP1 of several porcine RVC strains did not branch with any of those of the RVC strains in the GenBank database, suggesting new genotypes. Several homologous recombination events, between or within genotypes, were identified in the VP4, VP7, VP2, NSP1, and NSP3 genes. Of these, nine, one, and one intergenotypic recombination events in the VP4, VP2, and NSP3 genes, respectively, were supported with sufficient statistical values. Although these findings suggest occurrences of the intragenic recombination events in the RVC genome, potential sequence errors and poor sequence assemblies in the databases should be watched with care. The results in this study present data about the important recombination events of the RVCs, which influence evolution of the virus by aiding them to gain genetic diversity and plasticity, although further sequence data will be necessary to obtain more comprehensive understanding of such mechanisms.