Kim Hyein, Park Dongbin, Hahn Yoonsoo
Department of Life Science, Research Center for Biomolecules and Biosystems, Chung-Ang University, Seoul 06974, South Korea.
Department of Life Science, Research Center for Biomolecules and Biosystems, Chung-Ang University, Seoul 06974, South Korea.
Gene. 2018 Jan 5;638:7-12. doi: 10.1016/j.gene.2017.09.069. Epub 2017 Sep 30.
Genomic RNA molecules of plant RNA viruses are often co-isolated with the host RNAs, and their sequences can be detected in plant transcriptome datasets. Here, an alfalfa (Medicago sativa) transcriptome dataset was analyzed and three new RNA viruses were identified, which were named Medicago sativa alphapartitivirus 1 (MsAPV1), Medicago sativa deltapartitivirus 1 (MsDPV1), and Medicago sativa marafivirus 1 (MsMV1). The RNA-dependent RNA polymerases of MsAPV1, MsDPV1, and MsMV1 showed about 68%, 58%, and 46% amino acid sequence identity, respectively, with their closest virus species. Sequence similarity and phylogenetic analyses indicated that MsAPV1, MsDPV1, and MsMV1 were novel RNA virus species that belong to the genus Alphapartitivirus of the family Partitiviridae, the genus Deltapartitivirus of the family Partitiviridae, and the genus Marafivirus of the family Tymoviridae, respectively. The bioinformatics procedure applied in this study may facilitate the identification of novel RNA viruses from plant transcriptome data.
植物RNA病毒的基因组RNA分子常常与宿主RNA共同分离出来，并且它们的序列能够在植物转录组数据集中被检测到。在此，对一个苜蓿（紫花苜蓿）转录组数据集进行了分析，并鉴定出三种新的RNA病毒，它们被命名为苜蓿α分病毒1（MsAPV1）、苜蓿δ分病毒1（MsDPV1）和苜蓿马拉病毒1（MsMV1）。MsAPV1、MsDPV1和MsMV1的RNA依赖RNA聚合酶与其亲缘关系最近的病毒种类分别显示出约68%、58%和46%的氨基酸序列同一性。序列相似性和系统发育分析表明，MsAPV1、MsDPV1和MsMV1分别是属于分病毒科α分病毒属、分病毒科δ分病毒属和番茄病毒科马拉病毒属的新型RNA病毒种类。本研究中应用的生物信息学方法可能有助于从植物转录组数据中鉴定新型RNA病毒。
