Yuan Xiao-Long, Zhang Cheng-Sheng, Kong Fan-Yu, Zhang Zhong-Feng, Wang Feng-Long
Tobacco Research Institute of Chinese Academy of Agricultural Sciences, Qingdao 266101, China.
Special Crops Research Center of Chinese Academy of Agricultural Sciences, Qingdao 266101, China.
Plants (Basel). 2021 Aug 6;10(8):1620. doi: 10.3390/plants10081620.
is a widely distributed plant pathogen that can cause serious disease and cause significant economic losses to various crops, including tomatoes, tobacco, onions, and strawberries. To understand its pathogenic mechanisms and explore strategies for controlling diseases caused by this pathogen, we sequenced and analyzed the whole genome of JM01. The JM01 genome was assembled using a combination of approaches including shotgun sequencing, single-molecule sequencing, and the Hi-C technique. The assembled JM01 genome is about 95.32 Mb, with contig and scaffold N50 54.23 kb and 113.15 kb, respectively. The average GC content of the whole-genome is about 49.02%, encoding 23,275 genes. In addition, we identified 19.15% of interspersed elements and 0.95% of tandem elements in the whole genome. A genome-wide phylogenetic tree indicated that diverged from approximately 156.32 Ma. Meanwhile, we found that 252 and 285 gene families showed expansion and contraction in when compared to gene families in . To determine the pathogenic mechanisms JM01, we analyzed a suite of proteins involved in plant-pathogen interactions. The results revealed that gene duplication contributed to the expansion of Cell Wall Degrading Enzymes (CWDEs) such as glycoside hydrolases, and effectors such as Arg-Xaa-Leu-Arg (RXLR) effectors. In addition, transient expression was performed on by infiltrating with cells containing a cysteine-rich (SCR) protein. The results indicated that SCR can cause symptoms of hypersensitive response. Moreover, we also conducted comparative genome analysis among four genomes. The completion of the JM01 genome can not only help us understand its genomic characteristics, but also help us discover genes involved in infection and then help us understand its pathogenic mechanisms.
是一种广泛分布的植物病原体，可导致严重疾病，并给包括番茄、烟草、洋葱和草莓在内的各种作物造成重大经济损失。为了解其致病机制并探索控制由该病原体引起的疾病的策略，我们对JM01的全基因组进行了测序和分析。JM01基因组采用了包括鸟枪法测序、单分子测序和Hi-C技术等多种方法进行组装。组装后的JM01基因组约为95.32 Mb，重叠群和支架N50分别为54.23 kb和113.15 kb。全基因组的平均GC含量约为49.02%，编码23,275个基因。此外，我们在全基因组中鉴定出19.15%的散在元件和0.95%的串联元件。全基因组系统发育树表明，大约在156.32百万年前从分化而来。同时，我们发现与中的基因家族相比，有252个和285个基因家族在JM01中显示出扩增和收缩。为了确定JM01的致病机制，我们分析了一系列参与植物-病原体相互作用的蛋白质。结果表明，基因复制导致了细胞壁降解酶（如糖苷水解酶）和效应子（如精氨酸-氨基酸-亮氨酸-精氨酸（RXLR）效应子）的扩增。此外，通过用含有富含半胱氨酸（SCR）蛋白的细胞浸润对进行瞬时表达。结果表明，SCR可引起过敏反应症状。此外，我们还对四个基因组进行了比较基因组分析。JM01基因组的完成不仅有助于我们了解其基因组特征，还有助于我们发现参与感染的基因，进而帮助我们了解其致病机制。
