Clinical Investigation of Bacteriome in Primary Endodontic Infections With Apical Periodontitis Using High-Throughput Sequencing Analysis

IF 3.5 2区 医学 Q1 DENTISTRY, ORAL SURGERY & MEDICINE
Theeb A. Alquria BDS, FRCD, PhD candidate , Aneesha Acharya BDS, MDS, PhD , Binait Kabir DDS, MS , Ina L. Griffin DMD , Patricia A. Tordik DMD, FICD , Frederico C. Martinho DDS, MS, PhD
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引用次数: 0

Abstract

Introduction

This study characterized the bacteriome in primary endodontic infection (PEI) with apical periodontitis (AP), identified core and rare bacteriome species and community diversity metrics, and analyzed the relationship between the bacteriome composition, diversity and features, and patient variables.

Methods

Twenty-seven patients with PEI and AP were sampled. The DNA was extracted and quantified using quantitative polymerase chain reaction. Raw V3-V4 amplicon sequencing data were processed with the DADA2 pipeline to generate amplicon sequence variants, and taxonomic assignment of the amplicon sequence variants up to the species level was done against the Human Oral Microbiome Database. Core bacteriome and differential abundance analyses were performed using ANCOM. Alpha diversity was determined using Chao1, Shannon, and Simpson indexes. LeFse analysis was used to identify abundant taxa. Sparse Estimation of Correlations among Microbiomes analysis estimated linear and nonlinear relationships among bacteria.

Results

Of 27, 24 root canal samples were analyzed, and 3 root canal sampling were filtered out with a low read count. The bacterial phyla with top mean relative abundance were Bacteroidetes, Firmicutes, Synergistetes, Fusobacteria, and Actinobacteria. A total of 113 genera and 215 species were identified. The samples were gathered into 3 clusters. LefSe analysis identified differences in abundant taxa between distinct age, gender, symptomatology, and lesion size groups. Sparse Estimation of Correlations among Microbiomes distance analysis indicated Slackia exigua as the node with the highest degree.

Conclusions

The bacteriome in PEI with AP among the patients in this study was complex and displayed high microbial heterogeneity. Moreover, age, gender, symptomatology, and lesion size were associated with differences in bacteriome features in PEI with AP.
原发性牙髓炎合并根尖牙周炎细菌群的临床研究
导言:本研究描述了原发性牙髓炎(PEI)合并根尖周炎(AP)患者细菌组的特征,确定了细菌组的核心和稀有物种以及群落多样性指标,并分析了细菌组的组成、多样性和特征与患者变量之间的关系:方法:对 27 名 PEI 和 AP 患者进行了采样。方法:对 27 名 PEI 和 AP 患者进行采样,提取 DNA 并使用 qPCR 进行定量。使用 DADA2 管道处理原始 V3-V4 扩增子测序数据,生成扩增子序列变异(ASV),并根据 HOMD 对 ASV 进行分类,直至物种水平。使用 ANCOM 进行了核心细菌组和差异丰度分析。使用 Chao1、Shannon 和 Simpson 指数确定阿尔法多样性。LeFse 分析用于确定丰富的类群。SECOM 分析估计了细菌之间的线性和非线性关系。平均相对丰度最高的细菌门为类杆菌属、固形菌属、协同菌属、镰刀菌属和放线菌属。共鉴定出 113 个属和 215 个种。样本被分为三个群组。LeFse 分析确定了不同年龄组、性别组、症状组和病变大小组之间丰富类群的差异。SECOM 距离分析表明,Slackia exigua 是程度最高的节点:结论:本研究中,伴有 AP 的 PEI 患者的细菌组十分复杂,显示出高度的微生物异质性。此外,年龄、性别、症状和病变大小与伴有 AP 的 PEI 细菌组特征的差异有关。
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来源期刊
Journal of endodontics
Journal of endodontics 医学-牙科与口腔外科
CiteScore
8.80
自引率
9.50%
发文量
224
审稿时长
42 days
期刊介绍: The Journal of Endodontics, the official journal of the American Association of Endodontists, publishes scientific articles, case reports and comparison studies evaluating materials and methods of pulp conservation and endodontic treatment. Endodontists and general dentists can learn about new concepts in root canal treatment and the latest advances in techniques and instrumentation in the one journal that helps them keep pace with rapid changes in this field.
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