Chat message

Slack / Private Message Drop, p.70 [SLACK_000284] · slack_pm:msg:00716

Date: 2020-06-11 15:20
Type: chat message · slack
recipient: Kristian G. Andersen, Robert F. Garry, Andrew Rambaut
speaker: Edward C. Holmes
Topics: Furin cleavage site and molecular features

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Also, the Zhou et al. paper never call it a furin cleavage site insertion and I think the alignment in that paper is the optimal one. If so, it is not a simple 'shift' but rather a complex set of indel events.

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Statement	Grade	Attribution	Stance
Also, the Zhou et al. paper never call it a furin cleavage site insertion and I think the alignment in that paper is the optimal one.	needs context	uncertain explicit hedge	asserts

Statement

Grade

Attribution

Stance

Also, the Zhou et al. paper never call it a furin cleavage site insertion and I think the alignment in that paper is the optimal one.

needs context

uncertain explicit hedge

asserts

In context

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

2020-06-11 15:16 Kristian G. Andersen open

(BUT, the inserted site _is not_ the same as in the paper - that would have been a dead giveaway)
2020-06-11 15:16 Edward C. Holmes open

We're going round in circles...that's the Follis paper...the first paper we discussed and I sent you in early Feb.
2020-06-11 15:18 Edward C. Holmes open

My take is that furin cleavage sites are *everywhere* in natural viruses e.g. MERS. I'm revising a paper on avianavulaviruses and they have one. To me, there is a strong natural prior.
2020-06-11 15:18 Kristian G. Andersen open

Yes - I have been aware of the Follis paper all along - I was _not_ aware that their insertion was exactly where it is inSARS2
2020-06-11 15:20 Edward C. Holmes

Also, the Zhou et al. paper never call it a furin cleavage site insertion and I think the alignment in that paper is the optimal one. If so, it is not a simple 'shift' but rather a complex set of indel events.
2020-06-11 15:20 Kristian G. Andersen open

Here's the paper from Baric - not the insertion, but showing that cleavage broadens host range (https://pubmed.ncbi.nlm.nih.gov/31801868/) - which is what furin does. This is also not a new paper - I have been aware of this all along as well, so not a smoking gun, but there are several concerns here related to tissue culture
2020-06-11 15:21 Kristian G. Andersen open

I don't think the Zhou et al. paper shows that this is multiple indels - to me it just looks like a region not aligning very well?
2020-06-11 15:22 Kristian G. Andersen open

Let me spend some time on a table with things that bothers me - because there are several.
2020-06-11 15:23 Edward C. Holmes open

That would be useful. Thanks.

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