Phylogenetic and functional gene structure shifts of the oral microbiomes in periodontitis patients
Phylogenetic and functional gene structure shifts of the oral microbiomes in periodontitis patients
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牙周炎患者口腔微生物组的系统发育和功能基因结构变化
DOI：
10.1038/ismej.2014.28
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发表时间：
2014-09-01
期刊：
影响因子：
11
通讯作者：
Zhou, Xuedong
中科院分区：
文献类型：
--
作者：
Li, Yan;He, Jinzhi;Zhou, Xuedong
确定龈下牙菌斑的组成和功能对于了解人类牙周健康和疾病至关重要，但由于人体微生物组与人体之间相互作用的复杂性，因此具有挑战性。在这里，我们研究了牙周和健康个体之间的系统发育和功能基因的差异，使用MiSeq测序的16S rRNA基因扩增子和特定的功能基因阵列（GeoChip 4.0的组合，用于生物化学过程和人类微生物的HuMiChip 1.0）。我们的分析表明，牙周和健康组之间的口腔微生物的系统发育和功能基因结构明显不同。16S rRNA基因序列分析显示，牙周炎组与健康组间有39个属的细菌分布差异显著，其中梭杆菌属、卟啉单胞菌属、密螺旋体属、丝状菌属、真杆菌属、坦纳氏菌属、Hallella属、细小单胞菌属、消化链球菌属和卡托氏菌属在牙周炎组中的相对丰度较高。此外，功能基因芯片数据显示，牙周炎中存在基因数目较少但信号强度较高的主效基因，且多种参与毒力因子、氨基酸代谢、糖胺聚糖和嘧啶降解的基因在牙周炎中富集，提示其在牙周病发病机制中的潜在重要性。而参与氨基酸合成和嘧啶合成的基因相对丰度明显低于健康组。总之，这项研究为我们了解牙周病患者龈下微生物群落的系统发育和功能基因结构及其在牙周炎发病机制中的重要性提供了新的见解。
Determining the composition and function of subgingival dental plaque is crucial to understanding human periodontal health and disease, but it is challenging because of the complexity of the interactions between human microbiomes and human body. Here, we examined the phylogenetic and functional gene differences between periodontal and healthy individuals using MiSeq sequencing of 16S rRNA gene amplicons and a specific functional gene array (a combination of GeoChip 4.0 for biogeochemical processes and HuMiChip 1.0 for human microbiomes). Our analyses indicated that the phylogenetic and functional gene structure of the oral microbiomes were distinctly different between periodontal and healthy groups. Also, 16S rRNA gene sequencing analysis indicated that 39 genera were significantly different between healthy and periodontitis groups, and Fusobacterium, Porphyromonas, Treponema, Filifactor, Eubacterium, Tannerella, Hallella, Parvimonas, Peptostreptococcus and Catonella showed higher relative abundances in the periodontitis group. In addition, functional gene array data showed that a lower gene number but higher signal intensity of major genes existed in periodontitis, and a variety of genes involved in virulence factors, amino acid metabolism and glycosaminoglycan and pyrimidine degradation were enriched in periodontitis, suggesting their potential importance in periodontal pathogenesis. However, the genes involved in amino acid synthesis and pyrimidine synthesis exhibited a significantly lower relative abundance compared with healthy group. Overall, this study provides new insights into our understanding of phylogenetic and functional gene structure of subgingival microbial communities of periodontal patients and their importance in pathogenesis of periodontitis.