16S rRNA 基因组和聚类不是基于Streptomyces的基因组分类的可靠代理
Angelika B Kiepas1, Paul A Hoskisson1, Leighton Pritchard1
1Strathclyde Institute of Pharmacy and Biomedical Sciences, University of Strathclyde, 161 Cathedral Street, Glasgow, G4 0RE, UK.
Microbial genomics
|September 10, 2024
概括
16S rRNA基因序列对于分类Streptomyces物种是不可靠的,往往导致错误分类. 全基因组分析揭示了显著的差异,表明需要在细菌分类学中使用替代标记物.
科学领域:
- 微生物学 微生物学
- 细菌的分类学 细菌的分类学
- 基因组学就是基因组学.
背景情况:
- 对于发现抗微生物药物至关重要的Streptomyces属,遭受复杂和有争议的分类.
- 现有的分类被怀疑包含了显著的物种级别错误分类,阻碍了应用微生物学.
研究的目的:
- 为了调查16S rRNA和Streptomyces中基于全基因组的分类之间的分类冲突.
- 为了评估16S rRNA序列的可靠性,以界定Streptomyces物种.
主要方法:
- 来自主要数据库的2276个Streptomyces基因组组合和48981个16S rRNA序列的分析.
- 构建一个16S基因树,并与基于全基因组平均核酸标识 (ANI) 的分类法进行比较.
- 对Streptomyces的16S和全基因组景观的划分.
主要成果:
- 一个16S基因树解决了三种主要的Streptomyces血统,但它的拓与当前的分类学分配相冲突.
- 在16S rRNA和全基因组分类之间观察到频繁的分歧.
- 16S零半径操作分类单位 (zOTU) 与基于ANI的分类学不一致.
结论:
- 16S rRNA序列数据不足以用于常规的Streptomyces物种划分.
- 建议使用替代标记序列来进行Streptomyces分类和metabarcoding.
- 建议使用替代方法对Streptomyces属进行重新分类,以提高准确性.
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