期刊
NATURE MICROBIOLOGY
卷 4, 期 10, 页码 1727-1736出版社
NATURE PORTFOLIO
DOI: 10.1038/s41564-019-0494-6
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资金
- Melbourne Water [LP160100408]
- EPA Victoria
- NSF BCS [0935347]
- National Science Foundation [ACI-1548562, MCB-1441985, DUE-1323809]
- San Diego State University Grants Programs
- Summer Undergraduate Research Program
- Department of Energy Lawrence Livermore National Laboratory grant [B618146]
- NWO Vidi grant [864.14.004]
- NWO Veni grant [016.Veni.181.092]
- European Research Council Stg grant [638707]
- Vidi grant [864.11.005]
- Ministry of Health of the Czech Republic grant [15-31426A, 15-29078A]
- Rutherford Discovery Fellowship from the Royal Society of New Zealand
- ARC Discovery Early Career Researcher Award [DE170100525]
- NIH Pathway to Independence Fellowship [1K99AI119401-01A1]
- United States National Science Foundation [1510925]
- National Geographic Society (CRE)
- NSERC
- Agence Nationale de la Recherche JCJC [ANR-13-JSV6-0004]
- Investissements d'Avenir Mediterranee Infection [10-IAHU-03]
- Netherlands Heart Foundation (IN-CONTROL CVON) [2012-03]
- Top Institute Food and Nutrition, Wageningen, the Netherlands [TiFN GH001]
- NWO Vidi grants [864.13.013, 016.178.056]
- NWO Spinoza Prize [SPI 92-266]
- ERC FP7/2007-2013/ERC Advanced Grant agreement [2012-322698]
- ERC Starting Grant [715772]
- University of Groningen
- Novo Nordisk Foundation [NNF16OC0021856]
- Div Of Chem, Bioeng, Env, & Transp Sys
- Directorate For Engineering [1510925] Funding Source: National Science Foundation
- European Research Council (ERC) [715772] Funding Source: European Research Council (ERC)
- Australian Research Council [DE170100525] Funding Source: Australian Research Council
- Agence Nationale de la Recherche (ANR) [ANR-13-JSV6-0004] Funding Source: Agence Nationale de la Recherche (ANR)
Microbiomes are vast communities of microorganisms and viruses that populate all natural ecosystems. Viruses have been considered to be the most variable component of microbiomes, as supported by virome surveys and examples of high genomic mosaicism. However, recent evidence suggests that the human gut virome is remarkably stable compared with that of other environments. Here, we investigate the origin, evolution and epidemiology of crAssphage, a widespread human gut virus. Through a global collaboration, we obtained DNA sequences of crAssphage from more than one-third of the world's countries and showed that the phylogeography of crAssphage is locally clustered within countries, cities and individuals. We also found fully colinear crAssphage-like genomes in both Old-World and New-World primates, suggesting that the association of crAssphage with primates may be millions of years old. Finally, by exploiting a large cohort of more than 1,000 individuals, we tested whether crAssphage is associated with bacterial taxonomic groups of the gut microbiome, diverse human health parameters and a wide range of dietary factors. We identified strong correlations with different clades of bacteria that are related to Bacteroidetes and weak associations with several diet categories, but no significant association with health or disease. We conclude that crAssphage is a benign cosmopolitan virus that may have coevolved with the human lineage and is an integral part of the normal human gut virome.
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