A Survey on Plant Viruses in Natural Brassicaceae Communities Using RNA-Seq
A Survey on Plant Viruses in Natural Brassicaceae Communities Using RNA-Seq
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DOI：
10.1007/s00248-018-1271-4
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发表时间：
2019-07-01
影响因子：
3.6
通讯作者：
Kudoh, Hiroshi
中科院分区：
文献类型：
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作者：
Kamitani, Mari;Nagano, Atsushi J.;Kudoh, Hiroshi
对植物病毒的研究偏向于作物病害，而对自然植被中的病毒知之甚少。我们对日本中部三个当地植物群落中的野生十字花科植物中的植物病毒进行了广泛的调查。我们应用了选择性耗尽rRNA的RNA-Seq，这使我们能够同时检测所有基因组报告的病毒的感染。从两个多年生植物拟南芥中检测到芜菁花叶病毒(TuMV)、黄瓜花叶病毒(CMV)、小白菜黄化病毒(Brassica Yellows Virus)、天南星斑点病毒(Pelargonium Zonate Spot)和拟南芥部分病毒1号(Arabiopsis Heller I PartiVirus 1)的侵染。Gemmifera和Rorippa Indica。从头组装进一步在阿拉伯碎片体内检测到一种可能的新病毒的部分序列。病毒种类组成和感染率因地点和植物种类不同而不同。从多年生克隆植物中检测到的病毒最多，证实了病毒在多年生克隆植物中的高克隆传播率。对TuMV和CMV的系统发育分析表明，野生十字花科病毒株系与其他已报道的农作物病毒株系同属一个主要分支，表明该病毒在野生植物和农作物中是共有的。我们的研究表明，病毒在自然植物种群中的分布是由病毒的生活史和寄主的组合决定的。揭示病毒在自然植物群落中的分布，提高了我们对植物病毒生态学的认识。
Studies on plant viruses are biased towards crop diseases and little is known about viruses in natural vegetation. We conducted extensive surveys of plant viruses in wild Brassicaceae plants occurring in three local plant communities in central Japan. We applied RNA-Seq with selective depletion of rRNA, which allowed us to detect infections of all genome-reported viruses simultaneously. Infections of Turnip mosaic virus (TuMV), Cucumber mosaic virus (CMV), Brassica yellows virus, Pelargonium zonate spot virus, and Arabidopsis halleri partitivirus 1 were detected from the two perennial species, Arabidopsis halleri subsp. gemmifera and Rorippa indica. De novo assembly further detected partial sequences of a putative novel virus in Arabis fragellosa. Virus species composition and infection rate differed depending on site and plant species. Viruses were most frequently detected from the perennial clonal plant, A. halleri, in which a high clonal transmission rate of viruses across multiple years was confirmed. Phylogenetic analysis of TuMV and CMV showed that virus strains from wild Brassicaceae were included as a major clade of these viruses with other reported strains from crop plants, suggesting that viruses were shared among wild plants and crops. Our studies indicated that distribution of viruses in natural plant populations are determined by the combinations of life histories of viruses and hosts. Revealing viral distribution in the natural plant communities improves our knowledge on the ecology of plant viruses.