口腔微生物组采样短读16SrRNA测序是否适合用于头癌的诊断工具?
Kenny Yeo1,2, Fangmeinuo Wu1,3, Runhao Li1,3
1Discipline of Surgery, Adelaide Medical School, The University of Adelaide, Adelaide, SA 5000, Australia.
Pathogens (Basel, Switzerland)
|October 25, 2024
概括
这一元分析揭示了使用口腔微生物组用于头癌 (HNC) 诊断的不一致性. 测序方法和样本类型的变化限制了用于HNC检测的16SrRNA数据的可靠性.
科学领域:
- 微生物学 微生物学
- 在瘤学瘤学.
- 生物信息学是一种生物信息学.
背景情况:
- 口腔微生物组在头癌 (HNC) 中的作用正在研究中.
- 之前对HNC口腔微生物组的研究已经产生了不一致的结果.
- 标准化是必要的,以利用口腔微生物组成用于HNC诊断.
研究的目的:
- 巩固口腔微生物组现有的16S rRNA测序数据集.
- 为了确定HNC患者,健康个体和患有先发性疾病的个体之间的微生物组成差异.
- 评估样本类型和测序区域对诊断能力的影响.
主要方法:
- 对16个已发表的短读16S rRNA测序数据集的元分析.
- 包括来自HNC,健康的,和癌前的捐赠者的唾液和口腔冲洗样本.
- 对V3V4,V4和V4V5rRNA基因区域的分析.
主要成果:
- HNC唾液中的α多样性低于健康对照组;口腔冲洗样本显示相反的趋势.
- 在不同患者组中,β多样性是相似的,但微生物比例因样本类型和原料组而异.
- 与V4 (AUC 0.688) 相比,V3V4区域在HNC检测方面表现出更高的歧视力 (AUC 0.888-0.928).
结论:
- 用于HNC诊断的16SrRNA测序受研究批次,原始集和样本类型的变化所限制.
- 在使用不同方法的研究中解释16SrRNA测序结果时,建议谨慎.
- 为了可靠的基于口腔微生物组的HNC检测,需要进一步标准化.
相关概念视频
01:22Introduction to the Human Microbiota
Microorganisms colonize various regions of the human body, including the mouth, nasal passages, throat, stomach, intestines, urogenital tract, and skin. The total number of microbial cells is estimated to range from 10¹³ to 10¹⁴—comparable to, or exceeding, the number of human somatic cells. This host–microbiome relationship has led to the conceptualization of humans as supraorganisms, wherein microbial communities perform vital roles in development, immunity, and disease...
01:27The Oral Microbiota
The oral microbiome includes a complex ecosystem comprising over 700 microbial species, identified through genomic sequencing and culture-based analyses to date. This community includes a core microbiome, found universally among individuals, and a variable component influenced by environmental factors such as diet, lifestyle, and host genetics. Site-specific conditions, including oxygen gradients, pH levels, and nutrient availability, determine the spatial distribution of these microorganisms...