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Slack / Private Message Drop, p.311 [SLACK_000525] · slack_pm:msg:03265

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There is one intermediate with some of the mutations... hence thought of a chronic shedder

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2020-12-14 09:44 Andrew Rambaut open

This is the set of mutations that are unique to this cluster: [shared file(s): image.png]
2020-12-14 09:44 Kristian G. Andersen open

Yes, agreed. Although reinfections also a concern here - I'm worried about selection in e.g., healthcare settings.Mink transmission also a concern here.My default is always "probably not an issue", but SARS2 really does appear to be pretty 'adaptable' and there's ALOT of transmission going on.
2020-12-14 09:44 Andrew Rambaut open

Here is the tree... [shared file(s): Kent_N501Y_836.ml_annotated_collapsed_tree.pdf]
2020-12-14 09:44 Kristian G. Andersen open

That's A LOT of mutations - all in one 'jump'?
2020-12-14 09:45 Andrew Rambaut

There is one intermediate with some of the mutations... hence thought of a chronic shedder
2020-12-14 09:46 Kristian G. Andersen open

Yeah, the spike mutations would suggest chronic - but a lot of mutations outside spike too, which is a little peculiar tome.
2020-12-14 09:51 Robert F. Garry open

Chronic shedding with immune selection definitely a possibility. N501 is next to a short disordered region in S structures - a clear signal that it's an epitope.
2020-12-14 09:56 Robert F. Garry open

P681H is also VERY interesting....how common is this?
2020-12-14 10:06 Andrew Rambaut open

There is an ORF8 stop at amino acid 27 and then a number appear after that suggesting it has become non functional.