Kawakubo Shusuke, Tomitaka Yasuhiro, Tomimura Kenta, Koga Ryoko, Matsuoka Hiroki, Uematsu Seiji, Yamashita Kazuo, Ho Simon Y W, Ohshima Kazusato
Laboratory of Plant Virology, Department of Biological Resource Science, Faculty of Agriculture, Saga University, 1-banchi, Honjo-machi, Saga 840-8502, Japan.
Laboratory of Agro-Environmental Science, Warm Region Horticulture Institute, Chiba Prefectural Agriculture and Forestry Research Center, 1762 Yamamoto, Tateyama, Chiba 294-0014, Japan.
Virus Evol. 2022 Jun 24;8(2):veac060. doi: 10.1093/ve/veac060. eCollection 2022.
Characterizing the detailed spatial and temporal dynamics of plant pathogens can provide valuable information for crop protection strategies. However, the epidemiological characteristics and evolutionary trajectories of pathogens can differ markedly from one country to another. The most widespread and important virus of brassica vegetables, turnip mosaic virus (TuMV), causes serious plant diseases in Japan. We collected 317 isolates of TuMV from and plants throughout Japan over nearly five decades. Genomic sequences from these isolates were combined with published sequences. We identified a total of eighty-eight independent recombination events in Japanese TuMV genomes and found eighty-two recombination-type patterns in Japan. We assessed the evolution of TuMV through space and time using whole and partial genome sequences of both nonrecombinants and recombinants. Our results suggest that TuMV was introduced into Japan after the country emerged from its isolationist policy (1639-1854) in the Edo period and then dispersed to other parts of Japan in the 20th century. The results of our analyses reveal the complex structure of the TuMV population in Japan and emphasize the importance of identifying recombination events in the genome. Our study also provides an example of surveying the epidemiology of a virus that is highly recombinogenic.
描绘植物病原体详细的时空动态可为作物保护策略提供有价值的信息。然而，病原体的流行病学特征和进化轨迹在不同国家可能存在显著差异。十字花科蔬菜中分布最广且最重要的病毒——芜菁花叶病毒（TuMV），在日本会引发严重的植物病害。在近五十年间，我们从日本各地的[具体植物]和[具体植物]上收集了317株TuMV分离株。这些分离株的基因组序列与已发表的序列相结合。我们在日本TuMV基因组中总共鉴定出88个独立的重组事件，并在日本发现了82种重组类型模式。我们利用非重组体和重组体的全基因组序列及部分基因组序列评估了TuMV在时空上的进化。我们的结果表明，TuMV是在日本江户时代（1639 - 1854年）结束闭关锁国政策后传入日本的，然后在20世纪传播到日本其他地区。我们的分析结果揭示了日本TuMV种群的复杂结构，并强调了识别基因组中重组事件的重要性。我们的研究还提供了一个对具有高度重组性的病毒进行流行病学调查的实例。
