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Slack / Private Message Drop, p.1025 [SLACK_001239] · slack_pm:msg:10705

Date: 2021-11-24 08:23
Type: chat message · slack
recipient: Kristian G. Andersen, Robert F. Garry, Edward C. Holmes
speaker: Andrew Rambaut

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It must surely be from a immunocompromised chronic infection. Possibly a dual infection with recombination and heavy mutation. But the random traveller in HK has me very worried

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2021-11-24 07:30 Andrew Rambaut open

Plus 69/70 del and the nsp6 del
2021-11-24 07:36 Kristian G. Andersen open

Holy shit - that is quite something. The length of that branch... :scream:. What's the N/S on the branch?
2021-11-24 07:41 Kristian G. Andersen open

Just had a look at the list of mutations - so nuts. Getting rid of a lot of serines (although also adding some new ones...) and adding in lysine - the friggin' genome is going to be made out of lysines at some point! Just nuts.
2021-11-24 08:22 Robert F. Garry open

Oh boy - it's getting more polybasic - that's not good....
2021-11-24 08:23 Andrew Rambaut

It must surely be from a immunocompromised chronic infection. Possibly a dual infection with recombination and heavy mutation. But the random traveller in HK has me very worried
2021-11-24 08:24 Andrew Rambaut open

Visited South Africa for 20 days - must be a much more prevalent virus than the sequencing suggests
2021-11-24 08:24 Andrew Rambaut open

Will cause S gene dropout and I think SA is seeing some signal of that apparently
2021-11-24 08:29 Kristian G. Andersen open

HIV patient or animal reservoir - I'll say 70/30 odds.
2021-11-24 08:32 Kristian G. Andersen open

Bob, presumably the N679K combined with P681H makes this a better FCS, correct? It's interesting to see E484A inthere too - presumably E484K was a bit too much.

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