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使用流细胞计和监督分类,在共同培养中快速量化肠道细菌物种

Charlotte C van de Velde¹, Clémence Joseph¹, Anaïs Biclot^1,2

¹KU Leuven, Department of Microbiology, Immunology and Transplantation, Rega Institute for Medical Research, Laboratory of Molecular Bacteriology, B-3000, Leuven, Belgium.

ISME communications

|November 8, 2023

概括

这项研究引入了使用流细胞计和AI分类量化肠道细菌的更快方法. 它显示承诺作为一个更快的替代16SrRNA基因测序用于微生物社区分析.

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.
分析化学分析化学

背景情况:

高通量微生物社区分析对研究至关重要.
目前的方法,如16S rRNA基因测序,对于大样本集可能会耗时.
需要对个别细菌种群的准确和快速量化.

研究的目的:

开发和验证一种新的,高吞吐率的方法来计算人类肠道细菌.
将流细胞计与监督分类相结合,用于物种识别和量化.
评估这种方法的性能与传统的16S rRNA基因测序相比.

主要方法:

利用流式细胞测量来捕获来自细菌物种的多变量数据.
员工监督的分类算法用于物种识别.
在5个物种社区和2个和4个物种共同培养的体外试验中测试了这种方法.
将结果与16S rRNA基因测序数据进行比较.

主要成果:

在5个物种的体社区中,在物种识别方面获得了71%的F1得分.
在体外表现出与16S rRNA基因测序相似或更高的性能.
确认与4个物种社区中丰富物种的测序数据达成一致.
确定了流细胞计数据中的特定物种变异性,需要进行多变量分析.

结论:

流细胞计与监督分类相结合,为16S rRNA基因测序提供了一个更快的替代方案,用于肠道细菌的列举.
方法的性能取决于物种,但对于某些社区组成而言足够准确.
利用多变量流细胞计数据对于有效区分细菌物种至关重要.

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