The Landscape of Genetic Content in the Gut and Oral Human Microbiome
The Landscape of Genetic Content in the Gut and Oral Human Microbiome
复制标题
DOI：
10.1016/j.chom.2019.07.008
复制
发表时间：
2019-08-14
影响因子：
30.3
通讯作者：
Kostic, Aleksandar D.
中科院分区：
文献类型：
--
作者：
Tierney, Braden T.;Yang, Zhen;Kostic, Aleksandar D.
尽管对人类微生物组的物种多样性及其在疾病中的作用有很大的兴趣，但其遗传多样性的规模尚未量化，这是破译人类-微生物相互作用的基础。在这里，我们对来自两个人体小生境（口腔和肠道）的宏基因组进行了交叉研究荟萃分析，涵盖了来自13项研究的3，655个样本。我们在数据集中发现了惊人的遗传异质性，在95%的同一性水平上共识别了45，666，334个非冗余基因（23，961，508个口服和22，254，436个肠道）。所有基因中有50%是“单基因”，或者说是单个宏基因组样本所特有的。单例富集了不同的功能（与非单例相比），并产生于亚群特异性微生物菌株。总的来说，这些结果为微生物组来源的人类表型中观察到的无法解释的异质性提供了潜在的基础。在这些数据的基础上，我们建立了一个资源，可以在https://microbial-genes.bio上访问。
Despite substantial interest in the species diversity of the human microbiome and its role in disease, the scale of its genetic diversity, which is fundamental to deciphering human-microbe interactions, has not been quantified. Here, we conducted a cross-study meta-analysis of metagenomes from two human body niches, the mouth and gut, covering 3,655 samples from 13 studies. We found staggering genetic heterogeneity in the dataset, identifying a total of 45,666,334 non-redundant genes (23,961,508 oral and 22,254,436 gut) at the 95% identity level. Fifty percent of all genes were "singletons," or unique to a single metagenomic sample. Singletons were enriched for different functions (compared with non-singletons) and arose from sub-population-specific microbial strains. Overall, these results provide potential bases for the unexplained heterogeneity observed in microbiome-derived human phenotypes. One the basis of these data, we built a resource, which can be accessed at https://microbial-genes.bio.