Genomic and transcriptomic characterization of delta SARS-CoV-2 infection in free-ranging white-tailed deer (Odocoileus virginianus)
Genomic and transcriptomic characterization of delta SARS-CoV-2 infection in free-ranging white-tailed deer (Odocoileus virginianus)
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Full item details
- creativework.keywords - en
- Virology
- Virologie
- Immunité
- Immunity
- Genomics
- creativework.keywords - fr
- Génomique
- Transcriptomics
- Transcriptomiques
- Veterinary medicine
- Médecine vétérinaire
- dc.contributor.author
- Kotwa, Jonathon D.
- Lobb, Briallen
- Massé, Ariane
- Gagnier, Marianne
- Aftanas, Patryk
- Banerjee, Arinjay
- Banete, Andra
- Blais-Savoie, Juliette
- Bowman, Jeff
- Buchanan, Tore
- Chee, Hsien-Yao
- Kruczkiewicz, Peter
- Nirmalarajah, Kuganya
- Soos, Catherine
- Vernygora, Oksana
- Yip, Lily
- Lindsay, L. Robbin
- McGeer, Allison J.
- Maguire, Finlay
- Lung, Oliver
- Doxey, Andrew C.
- Pickering, Bradley
- Mubareka, Samira
- dc.date.accepted
- 2023-10-20
- dc.date.accessioned
- 2024-08-09T14:58:18Z
- dc.date.available
- 2024-08-09T14:58:18Z
- dc.date.issued
- 2023-10-24
- dc.date.submitted
- 2023-06-16
- dc.description.abstract - en
- White-tailed deer (WTD) are susceptible to SARS-CoV-2 and represent an important species for surveillance. Samples from WTD (n = 258) collected in November 2021 from Québec, Canada were analyzed for SARS-CoV-2 RNA. We employed viral genomics and host transcriptomics to further characterize infection and investigate host response. We detected Delta SARS-CoV-2 (B.1.617.2) in WTD from the Estrie region; sequences clustered with human sequences from October 2021 from Vermont, USA, which borders this region. Mutations in the S-gene and a deletion in ORF8 were detected. Host expression patterns in SARS-CoV-2 infected WTD were associated with the innate immune response, including signaling pathways related to anti-viral, pro- and anti-inflammatory signaling, and host damage. We found limited correlation between genes associated with innate immune response from human and WTD nasal samples, suggesting differences in responses to SARS-CoV-2 infection. Our findings provide preliminary insights into host response to SARS-CoV-2 infection in naturally infected WTD.
- dc.identifier.citation
- Kotwa, J. D., Lobb, B., Massé, A., Gagnier, M., Aftanas, P., Banerjee, A., Banete, A., Blais-Savoie, J., Bowman, J., Buchanan, T., Chee, H.-Y., Kruczkiewicz, P., Nirmalarajah, K., Soos, C., Vernygora, O., Yip, L., Lindsay, L. R., McGeer, A. J., Maguire, F., Lung, O., Doxey, A. C., Pickering, B., & Mubareka, S. (2023). Genomic and transcriptomic characterization of delta SARS-CoV-2 infection in free-ranging white-tailed deer (Odocoileus virginianus). iScience, 26(11), Article 108319. https://doi.org/10.1016/j.isci.2023.108319
- dc.identifier.doi
- https://doi.org/10.1016/j.isci.2023.108319
- dc.identifier.issn
- 2589-0042
- dc.identifier.uri
- https://open-science.canada.ca/handle/123456789/2818
- dc.language.iso
- en
- dc.publisher
- Elsevier
- dc.rights - en
- Creative Commons Attribution-NonCommercial-NoDerivatives 4.0 International (CC BY-NC-ND 4.0)
- dc.rights - fr
- Creative Commons Attribution - Pas d'utilisation commerciale - Pas de modification 4.0 International (CC BY-NC-ND 4.0)
- dc.rights.openaccesslevel - en
- Gold
- dc.rights.openaccesslevel - fr
- Or
- dc.rights.uri - en
- https://creativecommons.org/licenses/by-nc-nd/4.0/
- dc.rights.uri - fr
- https://creativecommons.org/licenses/by-nc-nd/4.0/deed.fr
- dc.subject - en
- Nature and environment
- Science and technology
- dc.subject - fr
- Nature et environnement
- Sciences et technologie
- dc.subject.en - en
- Nature and environment
- Science and technology
- dc.subject.fr - fr
- Nature et environnement
- Sciences et technologie
- dc.title - en
- Genomic and transcriptomic characterization of delta SARS-CoV-2 infection in free-ranging white-tailed deer (Odocoileus virginianus)
- dc.type - en
- Article
- dc.type - fr
- Article
- local.acceptedmanuscript.articlenum
- 108319
- local.article.journalissue
- 11
- local.article.journaltitle
- iScience
- local.article.journalvolume
- 26
- local.pagination
- 1-22
- local.peerreview - en
- Yes
- local.peerreview - fr
- Oui
- local.requestdoi
- No
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