A 16S rRNA Gene and Draft Genome Database for the Murine Oral Bacterial Community.
A 16S rRNA Gene and Draft Genome Database for the Murine Oral Bacterial Community.
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DOI：
10.1128/msystems.01222-20
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发表时间：
2021-02-09
期刊：
影响因子：
6.4
通讯作者：
Curtis MA
中科院分区：
文献类型：
--
作者：
Joseph S;Aduse-Opoku J;Hashim A;Hanski E;Streich R;Knowles SCL;Pedersen AB;Wade WG;Curtis MA
小鼠模型研究经常用于口腔微生物组研究，特别是用于研究牙周炎和龋齿等疾病以及其他相关的全身性疾病。我们在这里报告了一个精心策划的参考数据库，以表征在实验室和一些野生小鼠的口腔微生物群落的发展的细节。使用细菌培养、16 S rRNA基因扩增子和全基因组测序的组合构建了一个策展的小鼠口腔微生物组数据库，该数据库将用作基于小鼠的研究的参考。该数据库包括从培养的分离株中收集的近全长16 S rRNA基因序列和从一系列来源收集的代表性分类群的基因组草案，这些来源包括无特定病原体的实验室小鼠，野生小家鼠和以前的野生林鼠。目前，它包括103个小鼠口腔分类群（MOT）跨越四个门-厚壁菌门，变形菌门，放线菌门，拟杆菌门-包括12个新的未描述的物种水平的分类群。这项研究的关键观察结果是（i）实验室小鼠口腔微生物组的低多样性和主要可培养性，以及（ii）鉴定了三种主要的小鼠特异性口腔细菌谱系，即丹尼尔链球菌（MOT 10），鼠乳杆菌（MOT 93）和Gemella物种2（MOT 43），这是一种新的，尚未命名的分类群。其中，S。danieliae是特别令人感兴趣的，因为它是来自所有品系的健康和牙周病实验室小鼠的口腔微生物组的主要组分，并且存在于野生小鼠中。预计这一良好的特点数据库应该是一个有用的资源，在口腔微生物学领域的体外实验和小鼠模型研究。小鼠模型研究经常用于口腔微生物组研究，特别是用于研究牙周炎和龋齿等疾病以及其他相关的全身性疾病。我们在这里报告了一个精心策划的参考数据库，以表征在实验室和一些野生小鼠的口腔微生物群落的发展的细节。这里报道的基因组信息和发现可以帮助提高宿主微生物实验研究的结果和准确性，这些研究使用小鼠模型来了解健康和疾病。还正在努力在网络服务器上公开提供参考数据集，以便世界各地的研究人员能够轻松访问和下载。
Mouse model studies are frequently used in oral microbiome research, particularly to investigate diseases such as periodontitis and caries, as well as other related systemic diseases. We have reported here the details of the development of a curated reference database to characterize the oral microbial community in laboratory and some wild mice. A curated murine oral microbiome database to be used as a reference for mouse-based studies has been constructed using a combination of bacterial culture, 16S rRNA gene amplicon, and whole-genome sequencing. The database comprises a collection of nearly full-length 16S rRNA gene sequences from cultured isolates and draft genomes from representative taxa collected from a range of sources, including specific-pathogen-free laboratory mice, wild Mus musculus domesticus mice, and formerly wild wood mouse Apodemus sylvaticus. At present, it comprises 103 mouse oral taxa (MOT) spanning four phyla—Firmicutes, Proteobacteria, Actinobacteria, and Bacteroidetes—including 12 novel undescribed species-level taxa. The key observations from this study are (i) the low diversity and predominantly culturable nature of the laboratory mouse oral microbiome and (ii) the identification of three major murine-specific oral bacterial lineages, namely, Streptococcus danieliae (MOT10), Lactobacillus murinus (MOT93), and Gemella species 2 (MOT43), which is one of the novel, still-unnamed taxa. Of these, S. danieliae is of particular interest, since it is a major component of the oral microbiome from all strains of healthy and periodontally diseased laboratory mice, as well as being present in wild mice. It is expected that this well-characterized database should be a useful resource for in vitro experimentation and mouse model studies in the field of oral microbiology. IMPORTANCE Mouse model studies are frequently used in oral microbiome research, particularly to investigate diseases such as periodontitis and caries, as well as other related systemic diseases. We have reported here the details of the development of a curated reference database to characterize the oral microbial community in laboratory and some wild mice. The genomic information and findings reported here can help improve the outcomes and accuracy of host-microbe experimental studies that use murine models to understand health and disease. Work is also under way to make the reference data sets publicly available on a web server to enable easy access and downloading for researchers across the world.