A Comparative Study of the Oral Microbiome Compositions of Healthy Postmenopausal, Premenopausal, and Prepubertal Nigerian Females, Using 16S rRNA Metagenomics Methods
A Comparative Study of the Oral Microbiome Compositions of Healthy Postmenopausal, Premenopausal, and Prepubertal Nigerian Females, Using 16S rRNA Metagenomics Methods
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DOI：
10.4103/njcp.njcp_32_17
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发表时间：
2017-10-01
影响因子：
0.9
通讯作者：
Agbakoba, N. R.
中科院分区：
文献类型：
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作者：
Anukam, K. C.;Agbakoba, N. R.
前言：关于尼日利亚人口腔微生物组组成的信息很少，这主要是由于缺乏适当的分子技术。在这项初步研究中，我们试图确定和表征“健康”女性的口腔细菌组成。材料和方法：口腔样本来自随机选择的三名年龄分别为56岁、28岁和8岁的女性。在Illumina MiSeq平台上进行测序前，提取DNA，用自定义条码引物扩增16S rRNA V4区。利用对微生物生态的定量洞察管道进行16S rRNA识别。利用核糖体RNA与REFseq蛋白质数据库中条目的相似性，在不同的分辨率水平上进行分类类别的分布。根据反Simpson‘s指数计算多样性评分。结果：绝经后、绝经前和青春期前的逆Simpson多样性指数分别为7.74、6.95和7.42。共检出12门70属85种。其次是变形杆菌、放线杆菌、类杆菌和梭状杆菌。研究对象1以嗜热链球菌(33.19%)为主，研究对象2以副流感嗜血杆菌(80.65%)为主，研究对象3以流感嗜血杆菌(23.05%)为主。结论：本研究揭示了不同种类的细菌在受试者体内的定植情况，并强调了元基因组学在破译不同年龄段女性口腔细菌组成方面的重要性。需要使用元基因组学方法进行更多的研究，以了解这些与我们环境中的健康和疾病相关的细菌生物体。
Introduction: There is a paucity of information on the oral microbiome compositions of Nigerians, mostly due to lack of appropriate molecular techniques. In this pilot study, we sought to determine and characterize the oral bacterial compositions of "healthy" females. Materials and Methods: Oral samples were collected from three randomly selected females aged 56, 28, and 8 years. DNA was extracted and 16S rRNA V4 region was amplified using custom-barcoded primers before sequencing with Illumina MiSeq platform. Quantitative Insights into Microbial Ecology pipeline was used for 16S rRNA recognition. Distribution of taxonomic categories at different levels of resolution was done using the ribosomal RNA similarities to entries in the REFseq protein database. Diversity score was calculated based on the inverse Simpson's index. Results: The inverse Simpson's diversity index for the postmenopausal, premenopausal, and prepubertal was 7.74, 6.95, and 7.42 respectively. A total of 12 phyla, 70 genera, and 85 species were detected. Firmicutes followed by Proteobacteria, Actinobacteria, Bacteroidetes, and Fusobacteria dominated the oral microbiome of the subjects. Streptococcus thermophilus (33.19%) was the most abundance species in subject 1, while subject 2 was highly predominated by Haemophilus parainfluenzae (80.65%), and subject 3 was predominated by Haemophilus influenzae (23.05%). Conclusion: The study has revealed that bacteria with varying diversities colonized the subjects and it highlighted the importance of metagenomics in deciphering the oral bacterial compositions from females of different age groups. More studies are needed using metagenomics approach, to appreciate these bacterial organisms that are associated with health and disease in our environment.