Genomic and transcriptomic characterization of delta SARS-CoV-2 infection in free-ranging white-tailed deer ( Odocoileus virginianus ).

Autor:	Kotwa JD; Sunnybrook Research Institute, Toronto, ON M4N 3M5, Canada., Lobb B; Department of Biology, University of Waterloo, Waterloo, ON N2L 3G1, Canada., Massé A; Ministère de l'Environnement, de la Lutte contre les changements climatiques, de la Faune et des Parcs, Québec City, QC G1S 4X4, Canada., Gagnier M; Ministère de l'Environnement, de la Lutte contre les changements climatiques, de la Faune et des Parcs, Québec City, QC G1S 4X4, Canada., Aftanas P; Shared Hospital Laboratory, Toronto, ON M4N 3M5, Canada., Banerjee A; Department of Biology, University of Waterloo, Waterloo, ON N2L 3G1, Canada.; Vaccine and Infectious Disease Organization, University of Saskatchewan, Saskatoon, SK S7N 5E3, Canada.; Department of Veterinary Microbiology, University of Saskatchewan, Saskatoon, SK S7N 5A2, Canada.; Department of Laboratory Medicine and Pathobiology, Temerty Faculty of Medicine, University of Toronto, Toronto, ON M5S 1A1, Canada.; Department of Biochemistry and Molecular Biology, Faculty of Medicine, University of British Columbia, Vancouver, BC V6T 1Z4, Canada., Banete A; Sunnybrook Research Institute, Toronto, ON M4N 3M5, Canada., Blais-Savoie J; Sunnybrook Research Institute, Toronto, ON M4N 3M5, Canada., Bowman J; Wildlife Research and Monitoring Section, Ontario Ministry of Natural Resources and Forestry, Peterborough, ON K9J 8M5, Canada., Buchanan T; Wildlife Research and Monitoring Section, Ontario Ministry of Natural Resources and Forestry, Peterborough, ON K9J 8M5, Canada., Chee HY; Sunnybrook Research Institute, Toronto, ON M4N 3M5, Canada.; Global Health Research Center and Division of Natural and Applied Sciences, Duke Kunshan University, Kunshan, Jiangsu 215316, China., Kruczkiewicz P; National Centre for Foreign Animal Disease, Canadian Food Inspection Agency, Winnipeg, MB R3E 3M4, Canada., Nirmalarajah K; Sunnybrook Research Institute, Toronto, ON M4N 3M5, Canada., Soos C; Ecotoxicology and Wildlife Health Division, Environment and Climate Change Canada, Saskatoon, SK S7N 3H5, Canada.; Department of Veterinary Pathology, Western College of Veterinary Medicine, University of Saskatchewan, Saskatoon, SK S7N 5E3, Canada., Vernygora O; National Centre for Foreign Animal Disease, Canadian Food Inspection Agency, Winnipeg, MB R3E 3M4, Canada., Yip L; Sunnybrook Research Institute, Toronto, ON M4N 3M5, Canada., Lindsay LR; National Microbiology Laboratory, Public Health Agency of Canada, Winnipeg, MB R3E 3L5, Canada., McGeer AJ; Department of Laboratory Medicine and Pathobiology, Temerty Faculty of Medicine, University of Toronto, Toronto, ON M5S 1A1, Canada.; Sinai Health System, Toronto, ON M5G 1X5, Canada., Maguire F; Faculty of Computer Science, Dalhousie University, Halifax, NS B3H 4R2, Canada.; Department of Community Health & Epidemiology, Faculty of Medicine, Dalhousie University, Halifax, NS B3H 4R2, Canada.; Shared Hospital Laboratory, Toronto, ON M4N 3M5, Canada., Lung O; National Centre for Foreign Animal Disease, Canadian Food Inspection Agency, Winnipeg, MB R3E 3M4, Canada.; Department of Biological Sciences, University of Manitoba, Winnipeg, MB R3T 2N2, Canada., Doxey AC; Department of Biology, University of Waterloo, Waterloo, ON N2L 3G1, Canada., Pickering B; National Centre for Foreign Animal Disease, Canadian Food Inspection Agency, Winnipeg, MB R3E 3M4, Canada.; Department of Veterinary Microbiology and Preventative Medicine, College of Veterinary Medicine, Iowa State University, Ames, IA 50011, USA.; Department of Medical Microbiology and Infectious Diseases, University of Manitoba, Winnipeg, MB R3T 2N2, Canada., Mubareka S; Sunnybrook Research Institute, Toronto, ON M4N 3M5, Canada.; Department of Laboratory Medicine and Pathobiology, Temerty Faculty of Medicine, University of Toronto, Toronto, ON M5S 1A1, Canada.
Jazyk:	angličtina
Zdroj:	IScience [iScience] 2023 Oct 24; Vol. 26 (11), pp. 108319. Date of Electronic Publication: 2023 Oct 24 (Print Publication: 2023).
DOI:	10.1016/j.isci.2023.108319
Abstrakt:	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. Competing Interests: The authors declare no conflicts relevant to this article. (© 2023 The Authors.)
Databáze:	MEDLINE
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