Mary Wilson
Well-known member
this version posted June 6, 2022
bioRxiv preprint doi: https://doi.org/10.1101/2022.06.02.494559
Sana Naderi1, Peter Chen2, Carmen Lía Murall1,3, Raphael Poujol4, Susanne Kraemer3, Bradley S. Pickering5,6,7, Selena M. Sagan1,8*, B. Jesse Shapiro1,9*
Abstract
Severe Acute Respiratory Syndrome Coronavirus 2 (SARS-CoV-2) is a generalist virus, infecting and evolving in numerous mammals, including captive and companion animals, free-ranging wildlife, and humans. Transmission among non-human species poses considerable risk for the establishment of SARS-CoV-2 reservoirs, makes eradication difficult, and provides the virus with opportunities for new evolutionary trajectories, including selection of adaptive mutations and emergence of new variant lineages. Here we use publicly available viral genome sequences and phylogenetic analysis to systematically investigate transmission of SARS-CoV-2 between mammalian species, both non-human and human, to identify mutations associated with each species. We found the highest frequency of animal-to-human transmission from mink, compared with negligible transmission from other sampled species (cat, dog, and deer). Although inferred transmission events could be limited by potential sampling biases, our results provide a useful baseline for further studies. Using genome-wide association studies, no single nucleotide variants (SNVs) were significantly associated with cats and dogs; however, three SNVs strongly associated with mink and 26 with deer. These SNVs are candidates for future experiments to identify their role in differential pathogenesis, immune escape and host response modulation. Together, our results are consistent with sustained deer-to-deer transmission and highlight the importance of studying animal-associated SARS-CoV-2 mutations to assess their potential impact on human and animal health.
https://www.biorxiv.org/content/10.1101/2022.06.02.494559v1.full.pdf
bioRxiv preprint doi: https://doi.org/10.1101/2022.06.02.494559
Sana Naderi1, Peter Chen2, Carmen Lía Murall1,3, Raphael Poujol4, Susanne Kraemer3, Bradley S. Pickering5,6,7, Selena M. Sagan1,8*, B. Jesse Shapiro1,9*
Abstract
Severe Acute Respiratory Syndrome Coronavirus 2 (SARS-CoV-2) is a generalist virus, infecting and evolving in numerous mammals, including captive and companion animals, free-ranging wildlife, and humans. Transmission among non-human species poses considerable risk for the establishment of SARS-CoV-2 reservoirs, makes eradication difficult, and provides the virus with opportunities for new evolutionary trajectories, including selection of adaptive mutations and emergence of new variant lineages. Here we use publicly available viral genome sequences and phylogenetic analysis to systematically investigate transmission of SARS-CoV-2 between mammalian species, both non-human and human, to identify mutations associated with each species. We found the highest frequency of animal-to-human transmission from mink, compared with negligible transmission from other sampled species (cat, dog, and deer). Although inferred transmission events could be limited by potential sampling biases, our results provide a useful baseline for further studies. Using genome-wide association studies, no single nucleotide variants (SNVs) were significantly associated with cats and dogs; however, three SNVs strongly associated with mink and 26 with deer. These SNVs are candidates for future experiments to identify their role in differential pathogenesis, immune escape and host response modulation. Together, our results are consistent with sustained deer-to-deer transmission and highlight the importance of studying animal-associated SARS-CoV-2 mutations to assess their potential impact on human and animal health.
https://www.biorxiv.org/content/10.1101/2022.06.02.494559v1.full.pdf