使用社区向的DNA元编码,分析与核桃衰退相关的核桃真菌病生物组
Marie Belair1, Flora Pensec1, Jean-Luc Jany1
1Laboratoire Universitaire de Biodiversité et Ecologie Microbienne, INRAE, University Brest, F-29280 Plouzané, France.
Plants (Basel, Switzerland)
|June 28, 2023
概括
鉴定核桃死亡中的真菌病生物组是关键. 在没有提取的情况下,ITS2区域和ITS3/ITS4_KYO1初始集为准确的真菌多样性评估提供了最佳的DNA元编码方法.
科学领域:
- 植物病理学 植物病理学
- 菌类学 菌类学是指菌类学.
- 分子生物学分子生物学
背景情况:
- 核桃枯竭带来了复杂的症状,挑战了单个病原体-疾病模型.
- 准确识别真菌病生物组对于有效的疾病管理至关重要.
- DNA元编码为全面的真菌社区分析提供了强大的工具.
研究的目的:
- 评估在核桃中的真菌DNA放大原始对的性能.
- 使用不同的DNA元编码管道评估分类分辨率和丰度估计.
- 确定研究核桃真菌病理生物组的最佳生物信息管道.
主要方法:
- 使用模拟社区测试了针对ITS地区的五个基础对.
- 分析了DNA元编码数据与家族遗传树的分类分辨率.
- 应用优化管道到DNA从症状的核桃和树枝.
- 将ITS1,ITS和ITS2区域作为真菌条形码的有效性进行比较.
主要成果:
- 与ITS1和ITS.相比,ITS2区域显示出更高的灵敏度和组成相似性.
- ITS3/ITS4_KYO1初始化套件提供了比其他ITS2初始化套件更广泛的真菌多样性的覆盖.
- 提取步骤对分类学分辨率产生了影响,这取决于初级对.
- 没有ITS2提取的Kyo集产生了最准确的真菌多样性评估.
结论:
- ITS2区域是一个更有效的条形码用于菌的识别在核桃死退研究.
- 对于全面的真菌多样性分析,推使用ITS3/ITS4_KYO1初始化套件.
- 最优的DNA元编码管道涉及Kyo集,没有ITS2提取步骤,用于准确的核桃病生物体表征.
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