Unbiased Virus Detection in a Danish Zoo Using a Portable Metagenomic Sequencing System
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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 journal › Journal article › Research › peer-review
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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