Characterization of the human skin resistome and identification of two microbiota cutotypes.
Characterization of the human skin resistome and identification of two microbiota cutotypes.
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人类皮肤抗性组的表征和两种微生物群剪切型的鉴定
DOI：
10.1186/s40168-020-00995-7
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发表时间：
2021-02-17
期刊：
影响因子：
15.5
通讯作者：
Wang J
中科院分区：
文献类型：
--
作者：
Li Z;Xia J;Jiang L;Tan Y;An Y;Zhu X;Ruan J;Chen Z;Zhen H;Ma Y;Jie Z;Xiao L;Yang H;Wang J;Kristiansen K;Xu X;Jin L;Nie C;Krutmann J;Liu X;Wang J
背景人类皮肤微生物群被认为是皮肤稳态和屏障功能所必需的。其功能的全面分析将大大受益于来自宏基因组测序的参考基因目录。人类皮肤微生物组的现有目录是基于来自参考基因组的单个队列的有限个体的样本，这限制了全球皮肤微生物组多样性的覆盖范围。随后将其与538个先前测序的北美样品组合以构建整合的人类皮肤微生物基因目录（iHSMGC）。iHSMGC包含10，930，638个基因，检测到4，879，024个新基因。基于iHSMGC的人类皮肤耐药基因组的表征证实，皮肤微生物，如葡萄球菌属，是抗生素耐药基因（ARG）的重要储存库。对皮肤微生物ARG的进一步分析检测到微生物特异性和皮肤位点特异性ARG特征。值得注意的是，中国人的ARG丰度明显高于美国人，而多重耐药细菌（“超级细菌”）存在于美国人和中国人的皮肤上。对微生物特征的详细分析鉴定出Osloensisas是中国人皮肤特有的一个种。重要的是，已证明，在中国人皮肤上存在的两种强大的微生物网络模式之一中，奥斯陆莫拉菌是一种标志性物种，痤疮皮肤杆菌是第二种。每一个这样的“cutotype”与数据驱动的标记基因，功能模块和宿主皮肤特性的不同模式相关联。这两个cutotypes显着不同的功能模块与他们的代谢特征，表明宿主依赖的营养链可能是他们的development.ConclusionsThe发展的iHSMGC将有利于进一步研究人类皮肤微生物。在本研究中，它被用来进一步表征人类皮肤耐药基因组。它还允许发现人类皮肤上存在两种cutotype。后一项发现将有助于更好地理解皮肤微生物组的人际复杂性。视频摘要
BackgroundThe human skin microbiota is considered to be essential for skin homeostasis and barrier function. Comprehensive analyses of its function would substantially benefit from a catalog of reference genes derived from metagenomic sequencing. The existing catalog for the human skin microbiome is based on samples from limited individuals from a single cohort on reference genomes, which limits the coverage of global skin microbiome diversity.ResultsIn the present study, we have used shotgun metagenomics to newly sequence 822 skin samples from Han Chinese, which were subsequently combined with 538 previously sequenced North American samples to construct an integrated Human Skin Microbial Gene Catalog (iHSMGC). The iHSMGC comprised 10,930,638 genes with the detection of 4,879,024 new genes. Characterization of the human skin resistome based on iHSMGC confirmed that skin commensals, such asStaphylococcus spp, are an important reservoir of antibiotic resistance genes (ARGs). Further analyses of skin microbial ARGs detected microbe-specific and skin site-specific ARG signatures. Of note, the abundance of ARGs was significantly higher in Chinese than Americans, while multidrug-resistant bacteria (“superbugs”) existed on the skin of both Americans and Chinese. A detailed analysis of microbial signatures identifiedMoraxella osloensisas a species specific for Chinese skin. Importantly,Moraxella osloensisproved to be a signature species for one of two robust patterns of microbial networks present on Chinese skin, withCutibacterium acnesindicating the second one. Each of such “cutotypes” was associated with distinct patterns of data-driven marker genes, functional modules, and host skin properties. The two cutotypes markedly differed in functional modules related to their metabolic characteristics, indicating that host-dependent trophic chains might underlie their development.ConclusionsThe development of the iHSMGC will facilitate further studies on the human skin microbiome. In the present study, it was used to further characterize the human skin resistome. It also allowed to discover the existence of two cutotypes on the human skin. The latter finding will contribute to a better understanding of the interpersonal complexity of the skin microbiome.Video abstract
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影响因子：
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