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

Research output: Contribution to journal › Journal article › Research › peer-review

Standard

A Previously Undescribed Highly Prevalent Phage Identified in a Danish Enteric Virome Catalog. / Van Espen, Lore; Bak, Emilie Glad; Beller, Leen; Close, Lila; Deboutte, Ward; Juel, Helene Bæk; Nielsen, Trine; Sinar, Deniz; De Coninck, Lander; Frithioff-Bøjsøe, Christine; Fonvig, Cilius Esmann; Jacobsen, Suganya; Kjærgaard, Maria; Thiele, Maja; Fullam, Anthony; Kuhn, Michael; Holm, Jens Christian; Bork, Peer; Krag, Aleksander; Hansen, Torben; Arumugam, Manimozhiyan; Matthijnssens, Jelle.

In: mSystems, Vol. 6, No. 5, e00382-21, 2021.

Research output: Contribution to journal › Journal article › Research › peer-review

Harvard

Van Espen, L, Bak, EG, Beller, L, Close, L, Deboutte, W, Juel, HB, Nielsen, T, Sinar, D, De Coninck, L, Frithioff-Bøjsøe, C, Fonvig, CE, Jacobsen, S, Kjærgaard, M, Thiele, M, Fullam, A, Kuhn, M, Holm, JC, Bork, P, Krag, A, Hansen, T, Arumugam, M & Matthijnssens, J 2021, 'A Previously Undescribed Highly Prevalent Phage Identified in a Danish Enteric Virome Catalog', mSystems, vol. 6, no. 5, e00382-21. https://doi.org/10.1128/mSystems.00382-21

APA

Van Espen, L., Bak, E. G., Beller, L., Close, L., Deboutte, W., Juel, H. B., Nielsen, T., Sinar, D., De Coninck, L., Frithioff-Bøjsøe, C., Fonvig, C. E., Jacobsen, S., Kjærgaard, M., Thiele, M., Fullam, A., Kuhn, M., Holm, J. C., Bork, P., Krag, A., ... Matthijnssens, J. (2021). A Previously Undescribed Highly Prevalent Phage Identified in a Danish Enteric Virome Catalog. mSystems, 6(5), [e00382-21]. https://doi.org/10.1128/mSystems.00382-21

Vancouver

Van Espen L, Bak EG, Beller L, Close L, Deboutte W, Juel HB et al. A Previously Undescribed Highly Prevalent Phage Identified in a Danish Enteric Virome Catalog. mSystems. 2021;6(5). e00382-21. https://doi.org/10.1128/mSystems.00382-21

Author

Van Espen, Lore ; Bak, Emilie Glad ; Beller, Leen ; Close, Lila ; Deboutte, Ward ; Juel, Helene Bæk ; Nielsen, Trine ; Sinar, Deniz ; De Coninck, Lander ; Frithioff-Bøjsøe, Christine ; Fonvig, Cilius Esmann ; Jacobsen, Suganya ; Kjærgaard, Maria ; Thiele, Maja ; Fullam, Anthony ; Kuhn, Michael ; Holm, Jens Christian ; Bork, Peer ; Krag, Aleksander ; Hansen, Torben ; Arumugam, Manimozhiyan ; Matthijnssens, Jelle. / A Previously Undescribed Highly Prevalent Phage Identified in a Danish Enteric Virome Catalog. In: mSystems. 2021 ; Vol. 6, No. 5.

Bibtex

@article{84b4b62f628641e69be5f453596bab4e,
title = "A Previously Undescribed Highly Prevalent Phage Identified in a Danish Enteric Virome Catalog",
abstract = "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).",
keywords = "Healthy gut viromes, Human gut virome, Phages, Virome catalog",
author = "{Van Espen}, Lore and Bak, {Emilie Glad} and Leen Beller and Lila Close and Ward Deboutte and Juel, {Helene B{\ae}k} and Trine Nielsen and Deniz Sinar and {De Coninck}, Lander and Christine Frithioff-B{\o}js{\o}e and Fonvig, {Cilius Esmann} and Suganya Jacobsen and Maria Kj{\ae}rgaard and Maja Thiele and Anthony Fullam and Michael Kuhn and Holm, {Jens Christian} and Peer Bork and Aleksander Krag and Torben Hansen and Manimozhiyan Arumugam and Jelle Matthijnssens",
note = "Publisher Copyright: Copyright {\textcopyright} 2021 Van Espen et al.",
year = "2021",
doi = "10.1128/mSystems.00382-21",
language = "English",
volume = "6",
journal = "mSystems",
issn = "2379-5077",
publisher = "American Society for Microbiology",
number = "5",

}

RIS

TY - JOUR

T1 - A Previously Undescribed Highly Prevalent Phage Identified in a Danish Enteric Virome Catalog

AU - Van Espen, Lore

AU - Bak, Emilie Glad

AU - Beller, Leen

AU - Close, Lila

AU - Deboutte, Ward

AU - Juel, Helene Bæk

AU - Nielsen, Trine

AU - Sinar, Deniz

AU - De Coninck, Lander

AU - Frithioff-Bøjsøe, Christine

AU - Fonvig, Cilius Esmann

AU - Jacobsen, Suganya

AU - Kjærgaard, Maria

AU - Thiele, Maja

AU - Fullam, Anthony

AU - Kuhn, Michael

AU - Holm, Jens Christian

AU - Bork, Peer

AU - Krag, Aleksander

AU - Hansen, Torben

AU - Arumugam, Manimozhiyan

AU - Matthijnssens, Jelle

N1 - Publisher Copyright: Copyright © 2021 Van Espen et al.

PY - 2021

Y1 - 2021

N2 - 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).

AB - 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).

KW - Healthy gut viromes

KW - Human gut virome

KW - Phages

KW - Virome catalog

U2 - 10.1128/mSystems.00382-21

DO - 10.1128/mSystems.00382-21

M3 - Journal article

C2 - 34665009

AN - SCOPUS:85117859142

VL - 6

JO - mSystems

JF - mSystems

SN - 2379-5077

IS - 5

M1 - e00382-21

ER -

ID: 283755173