Virulent coliphages in 1-year-old children fecal samples are fewer, but more infectious than temperate coliphages

Aurélie Mathieu, Moïra Dion, Ling Deng, Denise Tremblay, Elisabeth Moncaut, Shiraz A. Shah, Jakob Stokholm, Karen A. Krogfelt, Susanne Schjørring, Hans Bisgaard, Dennis S. Nielsen, Sylvain Moineau and Marie-Agnès Petit ()
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Aurélie Mathieu: Université Paris-Saclay, INRAE, AgroParisTech, Micalis Institute
Moïra Dion: Université Laval
Ling Deng: University of Copenhagen
Denise Tremblay: Université Laval
Elisabeth Moncaut: Université Paris-Saclay, INRAE, AgroParisTech, Micalis Institute
Shiraz A. Shah: Copenhagen University Hospital
Jakob Stokholm: Copenhagen University Hospital
Karen A. Krogfelt: Statens Serum Institut
Susanne Schjørring: Statens Serum Institut
Hans Bisgaard: Copenhagen University Hospital
Dennis S. Nielsen: University of Copenhagen
Sylvain Moineau: Université Laval
Marie-Agnès Petit: Université Paris-Saclay, INRAE, AgroParisTech, Micalis Institute

Nature Communications, 2020, vol. 11, issue 1, 1-12

Abstract: Abstract Bacteriophages constitute an important part of the human gut microbiota, but their impact on this community is largely unknown. Here, we cultivate temperate phages produced by 900 E. coli strains isolated from 648 fecal samples from 1-year-old children and obtain coliphages directly from the viral fraction of the same fecal samples. We find that 63% of strains hosted phages, while 24% of the viromes contain phages targeting E. coli. 150 of these phages, half recovered from strain supernatants, half from virome (73% temperate and 27% virulent) were tested for their host range on 75 E. coli strains isolated from the same cohort. Temperate phages barely infected the gut strains, whereas virulent phages killed up to 68% of them. We conclude that in fecal samples from children, temperate coliphages dominate, while virulent ones have greater infectivity and broader host range, likely playing a role in gut microbiota dynamics.

Date: 2020
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DOI: 10.1038/s41467-019-14042-z

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