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The Data are Insufficient to Confidently Root the SARS-CoV-2 Phylogenetic Tree

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I also demonstrate clear evidence of bias among the earliest available sequences, and explain why the root of the SARS-CoV-2 tree cannot be conclusively resolved with the current data. ... Here, I explain why the data are still insufficient to confidently root the tree, and discuss how biases in the available early sequences and possible reversion mutations could affect efforts to root the tree.

The correct rooting of the early SARS-CoV-2 phylogenetic tree is uncertainSupported

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As quoted

For SARS-CoV-2, these two basic rooting principles are in conflict: the first collected sequences (which are mostly from people who visited or worked at the Huanan Market) are not the sequences that are most similar to SARS-CoV-2's bat coronavirus relatives.

Outgroup-based and date-based rooting methods give conflicting results for the early SARS-CoV-2 phylogenetic treeVerified

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The Data are Insufficient to Confidently Root the SARS-CoV-2 Phylogenetic Tree

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A Critical Reexamination of Recovered SARS-CoV-2 Sequencing Dataunknown1 claimResponds to it faithfully, on 1 claim.

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Link: https://academic.oup.com/mbe/article/42/6/msaf118/8158589
Archived copy: https://web.archive.org/web/20260226142013/https://academic.oup.com/mbe/article/42/6/msaf118/8158589
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Versions: One known
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Facts checked: Nov 9, 2026

History 2

Nov 9, 2026FactsFacts fetcher · Facts looked up
Nov 7, 2026Entered the graphEntered the graph; no copy stored