通过下一代测序对肠道微生物组概况的多中心评估揭示了部分长度元编码方法的主要偏差
Hugo Roume1,2, Stanislas Mondot3, Adrien Saliou4
1Université Paris-Saclay, INRAE, MetaGenoPolis, 78350, Jouy-en-Josas, France.
Scientific reports
|December 19, 2023
概括
人体肠道微生物群测序的方法偏差损害了研究的可重复性. 标准化生物信息学管道和数据库对于准确的分类学概况和可靠的肠道微生物组研究至关重要.
科学领域:
- 微生物学 微生物学
- 生物信息学是一种生物信息学.
- 基因组学就是基因组学.
背景情况:
- 下一代测序 (NGS) 显著提升了人类肠道微生物群的研究.
- 方法偏差阻碍了不同研究的可重现性.
- 使用标准化DNA材料的实验室间可重复性尚未得到广泛测量.
研究的目的:
- 评估人类肠道微生物群的实验室间可重复性.
- 识别测序和分析管道的变异来源.
- 评估生物信息学管道和数据库对分类分析的影响.
主要方法:
- 这是一项涉及七个实验室的多中心研究.
- 使用部分长度 (P1-P5) 和全长度 (P6) 的元编码,以及元基因组概况 (MGP).
- 采用模拟微生物群落和人类便样本的DNA,遵循IHMS协议.
主要成果:
- 观察到阿尔法多样性的实验室间显著变化,独立于测序深度.
- 贝塔多样性分析显示,实验室间的差异高于个人间的差异.
- 协调生物信息管道改善了细菌分析的一致性,突出了管道和数据库的影响.
结论:
- 生物信息学管道和分类学注释数据库是肠道微生物群研究变异的主要驱动因素.
- 生物信息学管道的标准化和基准测试对于准确和可重复的微生物组分析至关重要.
- 使用标准优化管道将增强肠道微生物群的检测能力.
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