Unbiased Virus Detection in a Danish Zoo Using a Portable Metagenomic Sequencing System

Research output: Contribution to journalJournal articlepeer-review

Standard

Unbiased Virus Detection in a Danish Zoo Using a Portable Metagenomic Sequencing System. / Fomsgaard, Anna S.; Tahas, Stamatios A.; Spiess, Katja; Polacek, Charlotta; Fonager, Jannik; Belsham, Graham J.

In: Viruses, Vol. 15, No. 6, 1399, 2023.

Research output: Contribution to journalJournal articlepeer-review

Harvard

Fomsgaard, AS, Tahas, SA, Spiess, K, Polacek, C, Fonager, J & Belsham, GJ 2023, 'Unbiased Virus Detection in a Danish Zoo Using a Portable Metagenomic Sequencing System', Viruses, vol. 15, no. 6, 1399. https://doi.org/10.3390/v15061399

APA

Fomsgaard, A. S., Tahas, S. A., Spiess, K., Polacek, C., Fonager, J., & Belsham, G. J. (2023). Unbiased Virus Detection in a Danish Zoo Using a Portable Metagenomic Sequencing System. Viruses, 15(6), [1399]. https://doi.org/10.3390/v15061399

Vancouver

Fomsgaard AS, Tahas SA, Spiess K, Polacek C, Fonager J, Belsham GJ. Unbiased Virus Detection in a Danish Zoo Using a Portable Metagenomic Sequencing System. Viruses. 2023;15(6). 1399. https://doi.org/10.3390/v15061399

Author

Fomsgaard, Anna S. ; Tahas, Stamatios A. ; Spiess, Katja ; Polacek, Charlotta ; Fonager, Jannik ; Belsham, Graham J. / Unbiased Virus Detection in a Danish Zoo Using a Portable Metagenomic Sequencing System. In: Viruses. 2023 ; Vol. 15, No. 6.

Bibtex

@article{bc408ad385cd45b18d761e2c6ac3985e,
title = "Unbiased Virus Detection in a Danish Zoo Using a Portable Metagenomic Sequencing System",
abstract = "Metagenomic next-generation sequencing (mNGS) is receiving increased attention for the detection of new viruses and infections occurring at the human–animal interface. The ability to actively transport and relocate this technology enables in situ virus identification, which could reduce response time and enhance disease management. In a previous study, we developed a straightforward mNGS procedure that greatly enhances the detection of RNA and DNA viruses in human clinical samples. In this study, we improved the mNGS protocol with transportable battery-driven equipment for the portable, non-targeted detection of RNA and DNA viruses in animals from a large zoological facility, to simulate a field setting for point-of-incidence virus detection. From the resulting metagenomic data, we detected 13 vertebrate viruses from four major virus groups: (+)ssRNA, (+)ssRNA-RT, dsDNA and (+)ssDNA, including avian leukosis virus in domestic chickens (Gallus gallus), enzootic nasal tumour virus in goats (Capra hircus) and several small, circular, Rep-encoding, ssDNA (CRESS DNA) viruses in several mammal species. More significantly, we demonstrate that the mNGS method is able to detect potentially lethal animal viruses, such as elephant endotheliotropic herpesvirus in Asian elephants (Elephas maximus) and the newly described human-associated gemykibivirus 2, a human-to-animal cross-species virus, in a Linnaeus two-toed sloth (Choloepus didactylus) and its enclosure, for the first time.",
keywords = "cross-species transmission, field detection, human–animal interface, metagenomic sequencing, nanopore sequencing, point-of-care test (POCT)",
author = "Fomsgaard, {Anna S.} and Tahas, {Stamatios A.} and Katja Spiess and Charlotta Polacek and Jannik Fonager and Belsham, {Graham J.}",
note = "Publisher Copyright: {\textcopyright} 2023 by the authors.",
year = "2023",
doi = "10.3390/v15061399",
language = "English",
volume = "15",
journal = "Viruses",
issn = "1999-4915",
publisher = "M D P I AG",
number = "6",

}

RIS

TY - JOUR

T1 - Unbiased Virus Detection in a Danish Zoo Using a Portable Metagenomic Sequencing System

AU - Fomsgaard, Anna S.

AU - Tahas, Stamatios A.

AU - Spiess, Katja

AU - Polacek, Charlotta

AU - Fonager, Jannik

AU - Belsham, Graham J.

N1 - Publisher Copyright: © 2023 by the authors.

PY - 2023

Y1 - 2023

N2 - Metagenomic next-generation sequencing (mNGS) is receiving increased attention for the detection of new viruses and infections occurring at the human–animal interface. The ability to actively transport and relocate this technology enables in situ virus identification, which could reduce response time and enhance disease management. In a previous study, we developed a straightforward mNGS procedure that greatly enhances the detection of RNA and DNA viruses in human clinical samples. In this study, we improved the mNGS protocol with transportable battery-driven equipment for the portable, non-targeted detection of RNA and DNA viruses in animals from a large zoological facility, to simulate a field setting for point-of-incidence virus detection. From the resulting metagenomic data, we detected 13 vertebrate viruses from four major virus groups: (+)ssRNA, (+)ssRNA-RT, dsDNA and (+)ssDNA, including avian leukosis virus in domestic chickens (Gallus gallus), enzootic nasal tumour virus in goats (Capra hircus) and several small, circular, Rep-encoding, ssDNA (CRESS DNA) viruses in several mammal species. More significantly, we demonstrate that the mNGS method is able to detect potentially lethal animal viruses, such as elephant endotheliotropic herpesvirus in Asian elephants (Elephas maximus) and the newly described human-associated gemykibivirus 2, a human-to-animal cross-species virus, in a Linnaeus two-toed sloth (Choloepus didactylus) and its enclosure, for the first time.

AB - Metagenomic next-generation sequencing (mNGS) is receiving increased attention for the detection of new viruses and infections occurring at the human–animal interface. The ability to actively transport and relocate this technology enables in situ virus identification, which could reduce response time and enhance disease management. In a previous study, we developed a straightforward mNGS procedure that greatly enhances the detection of RNA and DNA viruses in human clinical samples. In this study, we improved the mNGS protocol with transportable battery-driven equipment for the portable, non-targeted detection of RNA and DNA viruses in animals from a large zoological facility, to simulate a field setting for point-of-incidence virus detection. From the resulting metagenomic data, we detected 13 vertebrate viruses from four major virus groups: (+)ssRNA, (+)ssRNA-RT, dsDNA and (+)ssDNA, including avian leukosis virus in domestic chickens (Gallus gallus), enzootic nasal tumour virus in goats (Capra hircus) and several small, circular, Rep-encoding, ssDNA (CRESS DNA) viruses in several mammal species. More significantly, we demonstrate that the mNGS method is able to detect potentially lethal animal viruses, such as elephant endotheliotropic herpesvirus in Asian elephants (Elephas maximus) and the newly described human-associated gemykibivirus 2, a human-to-animal cross-species virus, in a Linnaeus two-toed sloth (Choloepus didactylus) and its enclosure, for the first time.

KW - cross-species transmission

KW - field detection

KW - human–animal interface

KW - metagenomic sequencing

KW - nanopore sequencing

KW - point-of-care test (POCT)

U2 - 10.3390/v15061399

DO - 10.3390/v15061399

M3 - Journal article

C2 - 37376698

AN - SCOPUS:85164004552

VL - 15

JO - Viruses

JF - Viruses

SN - 1999-4915

IS - 6

M1 - 1399

ER -

ID: 362699116