Hallmaier-Wacker Luisa K, Lüert Simone, Gronow Sabine, Spröer Cathrin, Overmann Jörg, Buller Nicky, Vaughan-Higgins Rebecca J, Knauf Sascha
Neglected Tropical Diseases Work Group, Infection Biology Unit, German Primate Center, Leibniz Institute for Primate Research, Göttingen, Germany.
Primate Genetics Laboratory, German Primate Center, Leibniz Institute for Primate Research, Göttingen, Germany.
Front Microbiol. 2019 Sep 10;10:2094. doi: 10.3389/fmicb.2019.02094. eCollection 2019.
The genus contains a number of human and animal pathogenic as well as symbiotic bacteria that are found in vastly different anatomical and environmental habitats. Our understanding of the species range, evolution, and biology of these important bacteria is still limited. To explore the diversity of treponemes, we established, validated, and tested a novel metataxonomic approach. As the informative nature of the hypervariable regions of the 16S rRNA gene differ, we first analyzed each variable region independently. Considering the results obtained, we established and validated the sequencing of the V4-region of the 16S rRNA gene using known mixtures of species as well as a selected number of clinical samples. The metataxonomic approach was able to identify to a near-species level. We demonstrate that using a spirochete-specific enrichment, our method is applicable to complex microbial communities and large variety of biological samples. The metataxonomic approach described provides a useful method to unravel the full diversity and range of in various ecosystems.
该属包含许多人类和动物病原菌以及共生菌，它们存在于截然不同的解剖学和环境栖息地中。我们对这些重要细菌的物种范围、进化和生物学的了解仍然有限。为了探索密螺旋体的多样性，我们建立、验证并测试了一种新的宏分类学方法。由于16S rRNA基因高变区的信息性质不同，我们首先独立分析了每个可变区。考虑到所获得的结果，我们使用已知的物种混合物以及选定数量的临床样本，建立并验证了16S rRNA基因V4区的测序。这种宏分类学方法能够鉴定到近乎物种水平。我们证明，使用螺旋体特异性富集，我们的方法适用于复杂的微生物群落和各种各样的生物样本。所描述的宏分类学方法为揭示各种生态系统中密螺旋体的全部多样性和范围提供了一种有用的方法。
