Megaphages infect Prevotella and variants are widespread in gut microbiomes View Full Text


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Article Info

DATE

2019-01-28

AUTHORS

Audra E. Devoto, Joanne M. Santini, Matthew R. Olm, Karthik Anantharaman, Patrick Munk, Jenny Tung, Elizabeth A. Archie, Peter J. Turnbaugh, Kimberley D. Seed, Ran Blekhman, Frank M. Aarestrup, Brian C. Thomas, Jillian F. Banfield

ABSTRACT

Bacteriophages (phages) dramatically shape microbial community composition, redistribute nutrients via host lysis and drive evolution through horizontal gene transfer. Despite their importance, much remains to be learned about phages in the human microbiome. We investigated the gut microbiomes of humans from Bangladesh and Tanzania, two African baboon social groups and Danish pigs; many of these microbiomes contain phages belonging to a clade with genomes >540 kilobases in length, the largest yet reported in the human microbiome and close to the maximum size ever reported for phages. We refer to these as Lak phages. CRISPR spacer targeting indicates that Lak phages infect bacteria of the genus Prevotella. We manually curated to completion 15 distinct Lak phage genomes recovered from metagenomes. The genomes display several interesting features, including use of an alternative genetic code, large intergenic regions that are highly expressed and up to 35 putative transfer RNAs, some of which contain enigmatic introns. Different individuals have distinct phage genotypes, and shifts in variant frequencies over consecutive sampling days reflect changes in the relative abundance of phage subpopulations. Recent homologous recombination has resulted in extensive genome admixture of nine baboon Lak phage populations. We infer that Lak phages are widespread in gut communities that contain the Prevotella species, and conclude that megaphages, with fascinating and underexplored biology, may be common but largely overlooked components of human and animal gut microbiomes. More... »

PAGES

693-700

References to SciGraph publications

  • 2010-04-11. QIIME allows analysis of high-throughput community sequencing data in NATURE METHODS
  • 2014-03-13. Classification and quantification of bacteriophage taxa in human gut metagenomes in THE ISME JOURNAL: MULTIDISCIPLINARY JOURNAL OF MICROBIAL ECOLOGY
  • 2015-06-15. Unusual biology across a group comprising more than 15% of domain Bacteria in NATURE
  • 2018-05-28. Recovery of genomes from metagenomes via a dereplication, aggregation and scoring strategy in NATURE MICROBIOLOGY
  • 2016-05-17. CRISPRDetect: A flexible algorithm to define CRISPR arrays in BMC GENOMICS
  • 2010-03-08. Prodigal: prokaryotic gene recognition and translation initiation site identification in BMC BIOINFORMATICS
  • 2017-11-13. Discovery of an expansive bacteriophage family that includes the most abundant viruses from the human gut in NATURE MICROBIOLOGY
  • 2017-09-25. Metagenomic characterization of the effect of feed additives on the gut microbiome and antibiotic resistome of feedlot cattle in SCIENTIFIC REPORTS
  • 2016-08-17. Uncovering Earth’s virome in NATURE
  • 2013-02-25. The gut microbiota — masters of host development and physiology in NATURE REVIEWS MICROBIOLOGY
  • 2016-10-24. Thousands of microbial genomes shed light on interconnected biogeochemical processes in an aquifer system in NATURE COMMUNICATIONS
  • 2014-07-24. A highly abundant bacteriophage discovered in the unknown sequences of human faecal metagenomes in NATURE COMMUNICATIONS
  • 2013-12-11. Diet rapidly and reproducibly alters the human gut microbiome in NATURE
  • 2007-02-26. Propagating the missing bacteriophages: a large bacteriophage in a new class in VIROLOGY JOURNAL
  • 2018-07-23. Abundance and diversity of the faecal resistome in slaughter pigs and broilers in nine European countries in NATURE MICROBIOLOGY
  • 2015-03-25. Subsistence strategies in traditional societies distinguish gut microbiomes in NATURE COMMUNICATIONS
  • 2012-03-04. Fast gapped-read alignment with Bowtie 2 in NATURE METHODS
  • Identifiers

    URI

    http://scigraph.springernature.com/pub.10.1038/s41564-018-0338-9

    DOI

    http://dx.doi.org/10.1038/s41564-018-0338-9

    DIMENSIONS

    https://app.dimensions.ai/details/publication/pub.1111674876

    PUBMED

    https://www.ncbi.nlm.nih.gov/pubmed/30692672


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