EpiStack

O-42 - Host-specific wildlife viruses (raccoon-dog amdoparvovirus, bamboo-rat betacoronavirus, civet kobuvirus) were recovered from the market, phylogenetically traceable to southern-China farms

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observation
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O-42
statement
Mostly-complete genomes of three host-specific wildlife viruses — a raccoon-dog amdoparvovirus, a bamboo-rat betacoronavirus, and a civet kobuvirus — were reconstructed from market samples, each phylogenetically nested among viruses shed by a single host species, and co-located with that host's mtDNA; the bamboo-rat betacoronavirus was a close recent relative of a virus from bamboo rats on a Guangxi farm (2019).
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linked
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S-35 - Crits-Christoph et al. — Genetic tracing of market wildlife and viruses at the epicenter of the COVID-19 pandemic (Cell)
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Results (Wildlife stalls contain other mammalian viruses), Figure 4
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close relatives of a raccoon dog amdoparvovirus, a bamboo rat betacoronavirus, and a civet kobuvirus were sufficiently abundant to reconstruct mostly complete genome sequences
data_basis

Because these viruses have narrow, known host ranges and were found where their host’s mtDNA was, they indicate that live, productively infected animals of those species (raccoon dog, bamboo rat, civet) were physically present in the market in late 2019, and their phylogenetic links to southern-China (Guangxi/Yunnan) farms trace a wildlife-trade conduit into Wuhan. Recovered from the same D-1 metagenomic reads.

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