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Slack / Private Message Drop, p.179 [SLACK_000393] · slack_pm:msg:01839

Date: 2020-09-17 14:07
Type: chat message · slack
recipient: Kristian G. Andersen, Robert F. Garry, Andrew Rambaut
speaker: Edward C. Holmes
Topics: Natural origin / zoonotic spillover

Recipients on this medium are inferred from channel membership, not per-message addressing.

The pangolin viruses were Sanger sequenced here and this paper clearly shows that these animals are sick: https://www.biorxiv.org/content/10.1101/2020.06.22.164442v1

Links shared

preprint https://www.biorxiv.org/content/10.1101/2020.06.22.164442v1

Extracted statements

Rule-extracted, not adjudicated. The grade says what may be done with each one; read the document above before relying on any of them.

Statement	Grade	Attribution	Stance
The pangolin viruses were Sanger sequenced here and this paper clearly shows that these animals are sick: https://www.biorxiv.org/content/10.1101/2020.06.22.164442v1	own voice, substantive	speaker_own	asserts

Statement

Grade

Attribution

Stance

The pangolin viruses were Sanger sequenced here and this paper clearly shows that these animals are sick: https://www.biorxiv.org/content/10.1101/2020.06.22.164442v1

own voice, substantive

speaker_own

asserts

In context

A single line often inverts meaning once you see what it answers, so neighbouring messages are always shown.

2020-09-17 14:05 Edward C. Holmes open

No, the pango data is elsewhere. Just look in Tommy's paper. It was RmYN02 that went to the Chinese databases. Let me make this very clear: the Guangdong pangolin viruses have been sequenced multiple times by multiple groups. They have also been Sanger sequenced. Plus there are Pangolins from Guangxi that have been sequenced. There is nothing wrong with the pangolin sequences. Inspector Clouseau's argument is that Guangdong pangolins are a single outbreak - and she's right about that - and then she seems to think that Guangdong pangolins may have gotten their viruses from humans which is just crazy. She also persistently claims that all the pangolin sequences were all derived from the one in the Viruses paper (pre-pandemic of course) which is untrue: there's aseparate assembly in Tommy's paper.
2020-09-17 14:07 Edward C. Holmes

The pangolin viruses were Sanger sequenced here and this paper clearly shows that these animals are sick: https://www.biorxiv.org/content/10.1101/2020.06.22.164442v1
2020-09-17 14:08 Edward C. Holmes open

Do not fall into the stupid narrative set by Alina Chan. The idea that these viruses are fake is insulting.
2020-09-17 14:10 Kristian G. Andersen open

"the Guangdong pangolin viruses have been sequenced multiple times by multiple groups. They have also been Sanger sequenced. Plus there are Pangolins from Guangxi that have been sequenced" Yup, I know this - hence I have no concerns about the data. Would still be nice to be able to say "yes, I looked at itdummy, and the data is perfectly fine" (as I just did with RaTG13). I'll grab the data and play around with it a bit.
2020-09-17 14:16 Edward C. Holmes open

The pangolin viruses from the Viruses paper were first assembled in that Virological post.
2020-09-17 14:21 Edward C. Holmes open

All reads from Tommy's paper are on the SRA. The Guangdong ones are P1L and P2S. P2S is from the scales and at a bit patchy. All explained in the paper.

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