Ecological Structuring of Temperate Bacteriophages in the Inflammatory Bowel Disease-Affected Gut.
Ecological Structuring of Temperate Bacteriophages in the Inflammatory Bowel Disease-Affected Gut.
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DOI：
10.3390/microorganisms8111663
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发表时间：
2020-10-27
期刊：
影响因子：
4.5
通讯作者：
Ogata H
中科院分区：
文献类型：
--
作者：
Nishiyama H;Endo H;Blanc-Mathieu R;Ogata H
本研究的目的是阐明人类肠道温和噬菌体群落的生态结构及其在炎症性肠病（IBD）中的作用。温带噬菌体占人类肠道微生物群的很大比例，并且可能在IBD发病机制中发挥作用。然而，这些噬菌体中的许多在参考数据库中等待表征。因此，我们从IBD多组学数据库项目产生的全宏基因组序列数据进行了大规模的温和噬菌体和细菌基因组重建。通过基因组比较将噬菌体与其宿主联系起来，我们发现温和噬菌体感染了一系列遗传上广泛的细菌。噬菌体群落组成的大部分变异可以通过个体间的变异来解释，但IBD患者和非IBD患者之间的温带噬菌体丰度存在差异。值得注意的是，在活动性溃疡性结肠炎患者中，感染单形拟杆菌和多形拟杆菌的温和噬菌体-实验证明对肠道稳态有益的两个物种-被过度代表，而与非IBD患者相比，其宿主的代表性不足。支持越来越多的证据表明，肠道病毒群落在IBD中起着至关重要的作用，我们的研究结果表明，温和的噬菌体和IBD发病机制之间的潜在关联。
The aim of this study was to elucidate the ecological structure of the human gut temperate bacteriophage community and its role in inflammatory bowel disease (IBD). Temperate bacteriophages make up a large proportion of the human gut microbiota and are likely to play a role in IBD pathogenesis. However, many of these bacteriophages await characterization in reference databases. Therefore, we conducted a large-scale reconstruction of temperate bacteriophage and bacterial genomes from the whole-metagenome sequence data generated by the IBD Multi’omics Database project. By associating phages with their hosts via genome comparisons, we found that temperate bacteriophages infect a phylogenetically wide range of bacteria. The majority of variance in bacteriophage community composition was explained by variation among individuals, but differences in the abundance of temperate bacteriophages were identified between IBD and non-IBD patients. Of note, in active ulcerative colitis patients, temperate bacteriophages infecting Bacteroides uniformis and Bacteroides thetaiotaomicron—two species experimentally proven to be beneficial to gut homeostasis—were over-represented, whereas their hosts were under-represented in comparison with non-IBD patients. Supporting the mounting evidence that gut viral community plays a vital role in IBD, our results show potential association between temperate bacteriophages and IBD pathogenesis.
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