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基于全基因组测序数据,用于快速识别Xanthomonas citri的多部位序列类型化方案

Efenaide B Okoh^1,2, Michael Payne³, Ruiting Lan³

¹Hawkesbury Institute for the Environment, Western Sydney University, Locked Bag 1797, Penrith, NSW 2751, Australia.

|April 26, 2024

概括

对于Xanthomonas citri来说,一个新的七基因多基因序列类型 (MLST) 方案改善了病变病毒的分类. 这种强大的工具有助于使用全基因组测序数据对X. citri的分类学修订.

科学领域:

细菌学细菌学是一门学科.
基因组学就是基因组学.
人类遗传学是一个学科.

背景情况:

桑托莫纳斯是一种植物病原体,有14个重新分类的亚种/病变病毒,导致各种植物疾病.
全基因组测序 (WGS) 为 X. citri. 的流行病学和进化研究提供了高的区分能力.
WGS 促进了多位置序列类型 (MLST) 方案的改进.

研究的目的:

为X. citri pathovar分类开发一个强大的七基因MLST方案.
在公共数据库中识别错误分类的Xanthomonas分离物.
为 X. citri. 提供一个全面的分类学修订工具.

主要方法:

利用NCBI RefSeq的基因组序列来开发一个七基因MLST方案.
通过使用开发的MLST方案,从NCBI GenBank分析了2,911个Xanthomonas组件.
相关的MLST分类与从92个保存的基因推断的基因位置.

主要成果:

开发的MLST方案产生了19种序列类型 (ST),与遗传学分类相关.
在NCBI中错误分类的37个分离物中确定了15种新型ST.
分类 545 X. citri 组合成 34 个 ST,与 MLST 相对应的遗传学分析.
观察到不同病变病毒共享相同ST的实例,表明潜在的分类重叠.

结论:

开发的MLST方案是通过WGS.快速X. citri pathovar分类的可靠工具.
这些发现凸显了对当前X. citri pathovar分类的有效性进行进一步调查的必要性.
这个MLST计划支持对X. citri pathovars进行全面的分类学修订.

关键词:

在MLST上,我们可以看到MLST.在WGS中,使用的是WGS.桑托蒙纳斯树 (Xanthomonas citri) 是一种植物.这是分类分类的分类.计划计划计划计划计划

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