The Oral Microbiome and Its Role in Systemic Autoimmune Diseases: A Systematic Review of Big Data Analysis.
The Oral Microbiome and Its Role in Systemic Autoimmune Diseases: A Systematic Review of Big Data Analysis.
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DOI：
10.3389/fdata.2022.927520
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发表时间：
2022
影响因子：
3.1
通讯作者：
Chen, Xiaoyan
中科院分区：
文献类型：
--
作者：
Gao, Lu;Cheng, Zijian;Zhu, Fudong;Bi, Chunsheng;Shi, Qiongling;Chen, Xiaoyan
尽管经过几十年的研究，系统性自身免疫性疾病（SAD）仍然是一个主要的全球健康问题，这些疾病的病因仍然不清楚。目前，随着高通量技术的发展，越来越多的证据表明口腔微生物组在SAD的发病机制中起着关键作用，口腔微生物组的改变可能有助于疾病的发生或演变。本文综述了口腔微生物组和SAD之间关系的最新知识，重点是从大量样本中产生的多组学数据。通过检索PubMed和Embase数据库，根据PRISMA指南对研究SAD（包括系统性红斑狼疮（SLE）、类风湿性关节炎（RA）和干燥综合征（SS））的口腔微生物组的研究进行了系统性综述。共发现1038项研究，其中25项研究被纳入：3项涉及SLE，12项涉及RA，9项涉及SS，1项涉及SLE和SS。16S rRNA测序是最常用的技术。HOMD是最常见的数据库，QIIME是下游分析最流行的管道。与健康对照组相比，SAD患者口腔样本中的细菌组成和种群发生了变化。候选病原体的结果并不总是一致的，但月形单胞菌和韦荣氏球菌在三个SAD中显著增加，链球菌在SAD中显著减少。本系统性综述收集了SAD患者和对照组的大量测序数据。口腔微生物生态失调已被确定在这些SAD，虽然生态失调的特点是不同的研究。从入选标准、样本类型、测序平台和参考数据库到下游分析管道和截止点，每项研究都缺乏标准化的研究方法。除基因组学研究外，转录组学、蛋白质组学和代谢组学等技术还可用于研究SAD患者和疾病高危人群的口腔微生物组，从而更好地了解SAD的病因，促进新的治疗方法的开发。
Despite decades of research, systemic autoimmune diseases (SADs) continue to be a major global health concern and the etiology of these diseases is still not clear. To date, with the development of high-throughput techniques, increasing evidence indicated a key role of oral microbiome in the pathogenesis of SADs, and the alterations of oral microbiome may contribute to the disease emergence or evolution. This review is to present the latest knowledge on the relationship between the oral microbiome and SADs, focusing on the multiomics data generated from a large set of samples. By searching the PubMed and Embase databases, studies that investigated the oral microbiome of SADs, including systemic lupus erythematosus (SLE), rheumatoid arthritis (RA), and Sjögren's syndrome (SS), were systematically reviewed according to the PRISMA guidelines. One thousand and thirty-eight studies were found, and 25 studies were included: three referred to SLE, 12 referred to RA, nine referred to SS, and one to both SLE and SS. The 16S rRNA sequencing was the most frequent technique used. HOMD was the most common database aligned to and QIIME was the most popular pipeline for downstream analysis. Alterations in bacterial composition and population have been found in the oral samples of patients with SAD compared with the healthy controls. Results regarding candidate pathogens were not always in accordance, but Selenomonas and Veillonella were found significantly increased in three SADs, and Streptococcus was significantly decreased in the SADs compared with controls. A large amount of sequencing data was collected from patients with SAD and controls in this systematic review. Oral microbial dysbiosis had been identified in these SADs, although the dysbiosis features were different among studies. There was a lack of standardized study methodology for each study from the inclusion criteria, sample type, sequencing platform, and referred database to downstream analysis pipeline and cutoff. Besides the genomics, transcriptomics, proteomics, and metabolomics technology should be used to investigate the oral microbiome of patients with SADs and also the at-risk individuals of disease development, which may provide us with a better understanding of the etiology of SADs and promote the development of the novel therapies.