A Previously Undescribed Highly Prevalent Phage Identified in a Danish Enteric Virome Catalog

Publikation: Bidrag til tidsskriftTidsskriftartikelForskningfagfællebedømt

  • Lore Van Espen
  • Leen Beller
  • Lila Close
  • Ward Deboutte
  • Helene Bæk Juel
  • Trine Nielsen
  • Deniz Sinar
  • Lander De Coninck
  • Christine Frithioff-Bøjsøe
  • Suganya Jacobsen
  • Maria Kjærgaard
  • Maja Thiele
  • Anthony Fullam
  • Michael Kuhn
  • Peer Bork
  • Aleksander Krag
  • Jelle Matthijnssens

Gut viruses are important, yet often neglected, players in the complex human gut microbial ecosystem. Recently, the number of human gut virome studies has been increasing; however, we are still only scratching the surface of the immense viral diversity. In this study, 254 virus-enriched fecal metagenomes from 204 Danish subjects were used to generate the Danish Enteric Virome Catalog (DEVoC) containing 12,986 nonredundant viral scaffolds, of which the majority was previously undescribed, encoding 190,029 viral genes. The DEVoC was used to compare 91 healthy DEVoC gut viromes from children, adolescents, and adults that were used to create the DEVoC. Gut viromes of healthy Danish subjects were dominated by phages. While most phage genomes (PGs) only occurred in a single subject, indicating large virome individuality, 39 PGs were present in more than 10 healthy subjects. Among these 39 PGs, the prevalences of three PGs were associated with age. To further study the prevalence of these 39 prevalent PGs, 1,880 gut virome data sets of 27 studies from across the world were screened, revealing several age-, geography-, and disease-related prevalence patterns. Two PGs also showed a remarkably high prevalence worldwide-a crAss-like phage (20.6% prevalence), belonging to the tentative AlphacrAssvirinae subfamily, and a previously undescribed circular temperate phage infecting Bacteroides dorei (14.4% prevalence), called LoVEphage because it encodes lots of viral elements. Due to the LoVEphage's high prevalence and novelty, public data sets in which the LoVEphage was detected were de novo assembled, resulting in an additional 18 circular LoVEphage-like genomes (67.9 to 72.4 kb).

OriginalsprogEngelsk
Artikelnummere00382-21
TidsskriftmSystems
Vol/bind6
Udgave nummer5
Antal sider20
ISSN2379-5077
DOI
StatusUdgivet - 2021

Bibliografisk note

Funding Information:
This research was supported by the Novo Nordisk Foundation Center for Basic Metabolic Research, Faculty of Health and Medical Sciences, University of Copenhagen, Denmark (grant number NNF18CC0034900), the Challenge Grant “MicrobLiver” (grant number NNF15OC0016692), and grant number NNF15OC0016544 from the Novo Nordisk Foundation; the Innovation Fund Denmark (TARGET: grant number 0603-00484B), the Region Zealand Health Scientific Research Foundation; and the European Union’s Horizon 2020 research and innovation program (GALAXY: grant number 668031); the “Fonds Wetenschappelijk Onderzoek” (FWO, Research Foundation Flanders) (Lore Van Espen: 1S25720N, Leen Beller: 1S61618N).

Funding Information:
This research was supported by the Novo Nordisk Foundation Center for Basic Metabolic Research, Faculty of Health and Medical Sciences, University of Copenhagen, Denmark (grant number NNF18CC0034900), the Challenge Grant "MicrobLiver" (grant number NNF15OC0016692), and grant number NNF15OC0016544 from the Novo Nordisk Foundation; the Innovation Fund Denmark (TARGET: grant number 0603- 00484B), the Region Zealand Health Scientific Research Foundation; and the European Union's Horizon 2020 research and innovation program (GALAXY: grant number 668031); the "Fonds Wetenschappelijk Onderzoek" (FWO, Research Foundation Flanders) (Lore Van Espen: 1S25720N, Leen Beller: 1S61618N).

Funding Information:
The computational resources were provided by the Flemish Supercomputer Center (VSC) and funded by FWO and the Flemish Government Department of Economy, Science, and Innovation.

Publisher Copyright:
Copyright © 2021 Van Espen et al.

Antal downloads er baseret på statistik fra Google Scholar og www.ku.dk


Ingen data tilgængelig

ID: 283755173