Chat message

Slack / Private Message Drop, p.23 [SLACK_000237] · slack_pm:msg:00229

Date: 2020-05-12 21:15
Type: chat message · slack
recipient: Robert F. Garry, Edward C. Holmes, Andrew Rambaut
speaker: Kristian G. Andersen

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Yeah, either cell culture or animal passage. I find animal passage to be unlikely, since those are complicated experiments. I'm starting to worry about cell culture again because of some of the things we're noticing in the cell culture sequencing experiments (plus all their historical work of exactly that type of work - but we have already discussed that).

In context

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

2020-05-12 21:08 Edward C. Holmes open

https://www.youtube.com/watch?v=eD3ztjqYGbg
2020-05-12 21:12 Kristian G. Andersen open

Yeah, I think that's the one I shared too? The amount of stupidity makes my head hurt.
2020-05-12 21:12 Edward C. Holmes open

There's so many I've lost track!
2020-05-12 21:13 Edward C. Holmes open

Bob/Kristian - can you give me your latest thinking about whether any lab manipulation would involve cell culture orlive animal passage? Can we exclude the former?
2020-05-12 21:15 Kristian G. Andersen

Yeah, either cell culture or animal passage. I find animal passage to be unlikely, since those are complicated experiments. I'm starting to worry about cell culture again because of some of the things we're noticing in the cell culture sequencing experiments (plus all their historical work of exactly that type of work - but we have already discussed that).
2020-05-12 21:20 Edward C. Holmes open

What do we now think about the o-linked glycans and the low dn/ds values? Can they be used to rule anything in/out?
2020-05-12 21:22 Kristian G. Andersen open

Initially we thought the O-linked glycans could somewhat rule out lab culture (or wouldn't be consistent with), but I'm much less sure now - I'm not convinced they actually form a glycan shield and instead may help regulate the site itself. The low dN/dS value - primarily in the spike - has always been peculiar to me and a tiny bit suggestive ofculturing.
2020-05-12 21:24 Edward C. Holmes open

Thanks. Very important.
2020-05-12 21:25 Edward C. Holmes open

My first look at the virus suggested that the pattern of distribution of sequence variation across the genome looked natural, but that may too broad brush.

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