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Shared Common Ancestry of Rodent Alphacoronaviruses Sampled Globally

Abstract : The recent discovery of novel alphacoronaviruses (alpha-CoVs) in European and Asian rodents revealed that rodent coronaviruses (CoVs) sampled worldwide formed a discrete phylogenetic group within this genus. To determine the evolutionary history of rodent CoVs in more detail, particularly the relative frequencies of virus-host co-divergence and cross-species transmission, we recovered longer fragments of CoV genomes from previously discovered European rodent alpha-CoVs using a combination of PCR and high-throughput sequencing. Accordingly, the full genome sequence was retrieved from the UK rat coronavirus, along with partial genome sequences from the UK field vole and Poland-resident bank vole CoVs, and a short conserved ORF1b fragment from the French rabbit CoV. Genome and phylogenetic analysis showed that despite their diverse geographic origins, all rodent alpha-CoVs formed a single monophyletic group and shared similar features, such as the same gene constellations, a recombinant beta-CoV spike gene, and similar core transcriptional regulatory sequences (TRS). These data suggest that all rodent alpha CoVs sampled so far originate from a single common ancestor, and that there has likely been a long-term association between alpha CoVs and rodents. Despite this likely antiquity, the phylogenetic pattern of the alpha-CoVs was also suggestive of relatively frequent host-jumping among the different rodent species.
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https://hal-anses.archives-ouvertes.fr/anses-03388167
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Submitted on : Wednesday, October 20, 2021 - 11:39:30 AM
Last modification on : Wednesday, November 3, 2021 - 4:44:21 AM
Long-term archiving on: : Friday, January 21, 2022 - 7:38:10 PM

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viruses-11-00125-v2.pdf
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Theocharis Tsoleridis, Joseph G Chappell, Okechukwu Onianwa, Denise A. Marston, Anthony R Fooks, et al.. Shared Common Ancestry of Rodent Alphacoronaviruses Sampled Globally. Viruses, MDPI, 2019, 11 (2), pp.125. ⟨10.3390/v11020125⟩. ⟨anses-03388167⟩

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