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The Human Gut Virome Is Highly Diverse, Stable, and Individual Specific.

Author information

Affiliations

  • 1. APC Microbiome Ireland & School of Microbiology, University College Cork, Cork T12 YT20, Ireland.
      Authors
    • Shkoporov AN 1
    • Clooney AG 1
    • Sutton TDS 1
    • Ryan FJ 1
    • Daly KM 1
    • Nolan JA 1
    • McDonnell SA 1
    • Khokhlova EV 1
    • Draper LA 1
    • Forde A 1
    • Guerin E 1
    • Velayudhan V 1
    • Ross RP 1
    • Hill C 1
    (14 authors)

ORCIDs linked to this article

Cell Host & Microbe, 01 Oct 2019, 26(4):527-541.e5
https://doi.org/10.1016/j.chom.2019.09.009 PMID: 31600503 

A comment on this article appears in "Not Just a Passing Phage." Cell Host Microbe. 2019 Oct 9;26(4):448-449. This article is based on a previously available preprint.

Abstract 

The human gut contains a vast array of viruses, mostly bacteriophages. The majority remain uncharacterized, and their roles in shaping the gut microbiome and in impacting on human health remain poorly understood. We performed longitudinal metagenomic analysis of fecal viruses in healthy adults that reveal high temporal stability, individual specificity, and correlation with the bacterial microbiome. Using a database-independent approach that uses most of the sequencing data, we uncovered the existence of a stable, numerically predominant individual-specific persistent personal virome. Clustering of viral genomes and de novo taxonomic annotation identified several groups of crAss-like and Microviridae bacteriophages as the most stable colonizers of the human gut. CRISPR-based host prediction highlighted connections between these stable viral communities and highly predominant gut bacterial taxa such as Bacteroides, Prevotella, and Faecalibacterium. This study provides insights into the structure of the human gut virome and serves as an important baseline for hypothesis-driven research.

Full text links 

Read article at publisher's site: https://doi.org/10.1016/j.chom.2019.09.009

Read article for free, from open access legal sources, via Unpaywall: http://www.cell.com/article/S1931312819304767/pdfUnpaywall

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Funding 

Funders who supported this work.

European Regional Development Fund (1)

Janssen Biotech

    Science Foundation Ireland (1)