Metagenomics of the Microbiome in Oral Health and Disease

口腔健康和疾病中微生物组的宏基因组学

• 批准号: 8678711
• 负责人: Karen E. Nelson
• 金额: $ 67.7万
• 依托单位: J. CRAIG VENTER INSTITUTE, INC.
• 依托单位国家: 美国
• 财政年份: 2010
• 资助国家: 美国
• 起止时间: 2010-08-16 至 2017-06-30
• 项目状态: 已结题
• 来源: https://reporter.nih.gov/project-details/8678711
• 关键词: Accounting; Acids; Address; Affect; Attention; Behavioral; Biochemical; Biochemical Pathway; Categories; Child; Childhood; Chronic Disease; Code; Communities; Competence; DNA Sequence; Data; Data Set; Dental Care; Dental Plaque; Dental caries; Development; Diagnostic; Dietary Practices; Disease; Disease model; Etiology; Exposure to; Future; Gene Expression Profile; Gene Targeting; Genes; Genetic Transcription; Genomics; Goals; Human; Individual; Infant; Investigation; Knowledge; Link; Longitudinal Studies; Metabolic Pathway; Metabolism; Metagenomics; Methodology; Microbe; Microbial Biofilms; Microbial Genetics; Modeling; Monitor; Mouth Diseases; Natural History; Oral cavity; Oral health; Organism; Participant; Pathway interactions; Pattern; Positioning Attribute; Production; Regulatory Pathway; Relative (related person); Research; Research Project Grants; Role; Streptococcus mutans; Techniques; Time; Tooth Diseases; Transcript; Twin Multiple Birth; Water; Work; acid stress; bacteriocin; biological adaptation to stress; comparative; deciduous tooth; gene function; mRNA Differential Displays; metagenomic sequencing; microbial; microbiome; novel; oral microbiome; sugar; transcriptomics; treatment strategy

DESCRIPTION (provided by applicant): The development of dental caries in children provides a disease model that is well suited to a metagenomic investigation since the timeframe of caries development can be monitored within a defined study period during which longitudinal studies can be conducted. Dental caries has a well established link to discrete, but only partially characterized changes in the dental plaque microbiome. Our study endeavors to define the relative abundance of many species comprising the dental plaque microbiome in 60- 70 twin pairs discordant for dental caries in association and longitudinal studies. The study power afforded by the use of discordant twin pairs for dental caries is substantially greater than similar studies using unrelated individuals. Next, we will compare the caries-free and caries-active microbiomes by deep metagenomic sequencing to identify differentially abundant genes and metabolic pathways. Lastly, we will determine the functional relevance of differentially abundant species, strains and genes by conducting targeted meta-transcriptomic studies. The statistical significance of all of the datasets will be determined which will allow for the widespread identification of species, strains, genes and transcripts associated with dental caries and dental health. These approaches are likely to enhance our understanding of dental caries onset and development and may enable in the future the development of novel treatment strategies.

描述（由申请人提供）：儿童龋齿的发展提供了一种非常适合宏基因组研究的疾病模型，因为可以在规定的研究期内监测龋齿发展的时间范围，在此期间可以进行纵向研究。龋齿与牙菌斑微生物组的离散但仅部分表征的变化存在明确的联系。我们的研究致力于通过关联和纵向研究来确定 60-70 对龋齿不一致的双胞胎中包含牙菌斑微生物组的许多物种的相对丰度。使用不一致的双胞胎对龋齿进行研究所提供的研究功效远远大于使用无关个体进行的类似研究。接下来，我们将通过深度宏基因组测序来比较无龋齿和有龋齿活性的微生物组，以识别差异丰富的基因和代谢途径。最后，我们将通过进行有针对性的宏转录组研究来确定差异丰富的物种、菌株和基因的功能相关性。所有数据集的统计显着性将被确定，这将允许广泛识别与龋齿和牙齿健康相关的物种、菌株、基因和转录本。这些方法可能会增强我们对龋齿发生和发展的理解，并可能在未来开发出新的治疗策略。

项目成果

Supragingival Plaque Microbiome Ecology and Functional Potential in the Context of Health and Disease.

• DOI: 10.1128/mbio.01631-18
• 发表时间: 2018-11-27
• 期刊: mBio
• 影响因子: 6.4
• 作者: Espinoza JL;Harkins DM;Torralba M;Gomez A;Highlander SK;Jones MB;Leong P;Saffery R;Bockmann M;Kuelbs C;Inman JM;Hughes T;Craig JM;Nelson KE;Dupont CL
• 通讯作者: Dupont CL

Utilising surface-level data to explore surface, tooth, individual and family influence on the aetiology of hypomineralised second primary molars.

利用表面数据探索表面、牙齿、个人和家庭对第二乳磨牙矿化不足病因的影响。

• DOI: 10.1016/j.jdent.2021.103797
• 发表时间: 2021
• 期刊: Journal of dentistry
• 影响因子: 4.4
• 作者: Silva,MJ;Zheng,Y;Zaloumis,S;Burgner,DP;Craig,JM;Manton,DJ;Kilpatrick,NM;Scurrah,KJ
• 通讯作者: Scurrah,KJ

Host Genetic Control of the Oral Microbiome in Health and Disease.

• DOI: 10.1016/j.chom.2017.08.013
• 发表时间: 2017-09-13
• 期刊: Cell host & microbe
• 影响因子: 30.3
• 作者: Gomez A;Espinoza JL;Harkins DM;Leong P;Saffery R;Bockmann M;Torralba M;Kuelbs C;Kodukula R;Inman J;Hughes T;Craig JM;Highlander SK;Jones MB;Dupont CL;Nelson KE
• 通讯作者: Nelson KE

Differential network analysis of oral microbiome metatranscriptomes identifies community scale metabolic restructuring in dental caries.

• DOI: 10.1093/pnasnexus/pgac239
• 发表时间: 2022-11
• 期刊: PNAS NEXUS
• 作者: Espinoza, Josh L.;Torralba, Manolito;Leong, Pamela;Saffery, Richard;Bockmann, Michelle;Kuelbs, Claire;Singh, Suren;Hughes, Toby;Craig, Jeffrey M.;Nelson, Karen E.;Dupont, Chris L.
• 通讯作者: Dupont, Chris L.

The Oral Microbiome of Children: Development, Disease, and Implications Beyond Oral Health.

• DOI: 10.1007/s00248-016-0854-1
• 发表时间: 2017-02
• 期刊: Microbial ecology
• 影响因子: 3.6
• 作者: Gomez A;Nelson KE
• 通讯作者: Nelson KE