Comprehensive analyses of a large human gut Bacteroidales culture collection reveal species- and strain-level diversity and evolution

IF 20.6 1区医学 Q1 MICROBIOLOGY

Cell host & microbe Pub Date : 2024-09-17 DOI:10.1016/j.chom.2024.08.016

Zhenrun J. Zhang, Cody G. Cole, Michael J. Coyne, Huaiying Lin, Nicholas Dylla, Rita C. Smith, Téa E. Pappas, Shannon A. Townson, Nina Laliwala, Emily Waligurski, Ramanujam Ramaswamy, Che Woodson, Victoria Burgo, Jessica C. Little, David Moran, Amber Rose, Mary McMillin, Emma McSpadden, Anitha Sundararajan, Ashley M. Sidebottom, Laurie E. Comstock

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引用次数: 0

Abstract

Species of the Bacteroidales order are among the most abundant and stable bacterial members of the human gut microbiome, with diverse impacts on human health. We cultured and sequenced the genomes of 408 Bacteroidales isolates from healthy human donors representing nine genera and 35 species and performed comparative genomic, gene-specific, metabolomic, and horizontal gene transfer analyses. Families, genera, and species could be grouped based on many distinctive features. We also observed extensive DNA transfer between diverse families, allowing for shared traits and strain evolution. Inter- and intra-species diversity is also apparent in the metabolomic profiling studies. This highly characterized and diverse Bacteroidales culture collection with strain-resolved genomic and metabolomic analyses represents a valuable resource to facilitate informed selection of strains for microbiome reconstitution.

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对大量人类肠道类杆菌培养物进行综合分析，揭示物种和菌株层面的多样性与进化

类杆菌目细菌是人类肠道微生物组中数量最多、最稳定的细菌之一，对人类健康有多种影响。我们培养了来自健康人体供体的 408 个类杆菌分离物（代表 9 个属和 35 个种）并对其进行了基因组测序，还进行了比较基因组、特异基因、代谢组和水平基因转移分析。科、属和种可根据许多不同的特征进行分组。我们还观察到不同科之间存在广泛的 DNA 转移，从而实现了性状共享和菌株进化。种间和种内的多样性在代谢组分析研究中也很明显。这种高度特征化和多样化的类杆菌培养物收集以及菌株解析基因组学和代谢组学分析是一种宝贵的资源，有助于在知情的情况下选择用于微生物组重建的菌株。

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来源期刊

Cell host & microbe 生物-微生物学

CiteScore

45.10

自引率

1.70%

发文量

201

审稿时长

4-8 weeks

期刊介绍： Cell Host & Microbe is a scientific journal that was launched in March 2007. The journal aims to provide a platform for scientists to exchange ideas and concepts related to the study of microbes and their interaction with host organisms at a molecular, cellular, and immune level. It publishes novel findings on a wide range of microorganisms including bacteria, fungi, parasites, and viruses. The journal focuses on the interface between the microbe and its host, whether the host is a vertebrate, invertebrate, or plant, and whether the microbe is pathogenic, non-pathogenic, or commensal. The integrated study of microbes and their interactions with each other, their host, and the cellular environment they inhabit is a unifying theme of the journal. The published work in Cell Host & Microbe is expected to be of exceptional significance within its field and also of interest to researchers in other areas. In addition to primary research articles, the journal features expert analysis, commentary, and reviews on current topics of interest in the field.