Stratification of human gut microbiomes by succinotype is associated with inflammatory bowel disease status.

IF 13.8 1区 生物学 Q1 MICROBIOLOGY
Laura Anthamatten, Philipp Rogalla von Bieberstein, Carmen Menzi, Janina N Zünd, Christophe Lacroix, Tomas de Wouters, Gabriel E Leventhal
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Abstract

Background: The human gut microbiome produces and consumes a variety of compounds that interact with the host and impact health. Succinate is of particular interest as it intersects with both host and microbiome metabolism. However, which gut bacteria are most responsible for the consumption of intestinal succinate is poorly understood.

Results: We build upon an enrichment-based whole fecal sample culturing approach and identify two main bacterial taxa that are responsible for succinate consumption in the human intestinal microbiome, Phascolarctobacterium and Dialister. These two taxa have the hallmark of a functional guild and are strongly mutual exclusive across 21,459 fecal samples in 94 cohorts and can thus be used to assign a robust "succinotype" to an individual. We show that they differ with respect to their rate of succinate consumption in vitro and that this is associated with higher concentrations of fecal succinate. Finally, individuals suffering from inflammatory bowel disease (IBD) are more likely to have the Dialister succinotype compared to healthy subjects.

Conclusions: We identified that only two bacterial genera are the key succinate consumers in human gut microbiome, despite the fact that many more intestinal bacteria encode for the succinate pathway. This highlights the importance of phenotypic assays in functionally profiling intestinal microbiota. A stratification based on "succinotype" is to our knowledge the first function-based classification of human intestinal microbiota. The association of succinotype with IBD thus builds a bridge between microbiome function and IBD pathophysiology related to succinate homeostasis. Video Abstract.

按琥珀酸型对人类肠道微生物组进行分层与炎症性肠病状态有关。
背景:人类肠道微生物组产生并消耗多种化合物,这些化合物与宿主相互作用并影响健康。琥珀酸与宿主和微生物组的新陈代谢都有交集,因此特别引人关注。然而,人们对哪些肠道细菌对肠道琥珀酸的消耗负有最大责任却知之甚少:结果:我们在基于富集的全粪便样本培养方法的基础上,确定了人类肠道微生物组中负责消耗琥珀酸的两个主要细菌类群--Phascolarctobacterium 和 Dialister。这两个类群具有功能联盟的特征,在 94 个队列的 21,459 份粪便样本中具有很强的互斥性,因此可用于为个体分配一个稳健的 "琥珀酸原型"。我们的研究表明,他们在体外消耗琥珀酸的速度方面存在差异,这与粪便中琥珀酸浓度较高有关。最后,与健康人相比,患有炎症性肠病(IBD)的人更有可能具有 Dialister succinotype:结论:我们发现,尽管有更多的肠道细菌编码琥珀酸途径,但在人类肠道微生物组中只有两个细菌属是琥珀酸的主要消费者。这凸显了表型测定在分析肠道微生物群功能方面的重要性。据我们所知,基于 "琥珀酸型 "的分层是人类肠道微生物群首次基于功能的分类。因此,琥珀酸型与 IBD 的关联在微生物群功能和与琥珀酸平衡有关的 IBD 病理生理学之间架起了一座桥梁。视频摘要。
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来源期刊
Microbiome
Microbiome MICROBIOLOGY-
CiteScore
21.90
自引率
2.60%
发文量
198
审稿时长
4 weeks
期刊介绍: Microbiome is a journal that focuses on studies of microbiomes in humans, animals, plants, and the environment. It covers both natural and manipulated microbiomes, such as those in agriculture. The journal is interested in research that uses meta-omics approaches or novel bioinformatics tools and emphasizes the community/host interaction and structure-function relationship within the microbiome. Studies that go beyond descriptive omics surveys and include experimental or theoretical approaches will be considered for publication. The journal also encourages research that establishes cause and effect relationships and supports proposed microbiome functions. However, studies of individual microbial isolates/species without exploring their impact on the host or the complex microbiome structures and functions will not be considered for publication. Microbiome is indexed in BIOSIS, Current Contents, DOAJ, Embase, MEDLINE, PubMed, PubMed Central, and Science Citations Index Expanded.
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