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探索人类眼睛表面微生物群的挑战和见解
Elio L Herzog1,2,3, Marco Kreuzer4, Martin S Zinkernagel1,2
1Department of Ophthalmology, Inselspital, Bern University Hospital, University of Bern, Bern, Switzerland.
Frontiers in cellular and infection microbiology
|September 20, 2023
概括
研究眼皮表面微生物组显示,DNA提取方法和生物信息学工具,而不是擦拭品类型,显著影响微生物组成. 这些发现对于改善低生物质微生物组研究中的数据可重复性至关重要.
科学领域:
- 微生物学 微生物学
- 基因组学就是基因组学.
- 生物信息学是一种生物信息学.
背景情况:
- 眼睛表面含有低丰度的微生物群,这对准确的表征构成了挑战.
- 了解微生物组分析中的偏差对于可靠的研究和潜在的治疗干预至关重要.
研究的目的:
- 为了确定在样本采集和数据分析管道中对低丰富的眼睛表面微生物组引入偏差的因素.
- 揭示影响眼睛表面微生物组准确分析的关键步骤.
主要方法:
- 从六名参与者中采集了使用棉花和状尼龙抹布的下部结膜和盖抹布.
- 使用两个套件分离微生物DNA,有和没有宿主DNA枯竭和机械溶解.
- 使用MetaPhlan3和Kraken2.2进行了全元基因组猎枪测序并分析了微生物组成.
主要成果:
- 尼龙片增加了下部结膜的总DNA产量.
- 检测到269种微生物,其中Actinobacteria,Firmicutes和Proteobacteria是主要的细菌类.
- 微生物的组成和病毒的数量因DNA提取工具和生物信息学工具的不同而有所不同.
结论:
- 眼睛表面的微生物组成受到DNA提取和分析工具的影响,而不是擦拭剂类型.
- 标准化DNA提取和分析方法对于可重复的眼皮表面微生物组研究至关重要.
- 解决表征挑战可以为基于微生物组的眼部疾病治疗铺平道路.
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