A single line often inverts meaning once you see what it
answers, so neighbouring messages are always shown.
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South African N501Y lineage also has E484K but not much else I think. It has a very long unsampled branch with some USA ones as an outgroup. So no real evidence of a big bunch of mutations happening together.
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Andrew, what's the best representative sequence for the UK lineage? All on GISAID?
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Actually the earliest one is a pretty good one: `England/MILK-9E05B3/2020|2020-09-20`
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That additional mutation in the South African lineage is quite interesting - E484K is a flip of charge and K is novel inthis position across all the CoVs. @Robert Garry - any chance you can please take a look at that mutation to see ifyou might have any insights? The mutation has popped up a few times independently across the tree.
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2020-12-19 10:45
Andrew Rambaut
486 is a contact residue, right? Crops up in the Dutch mink.
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Yup - it's F in SC2, but L in SC1 and many of the bat viruses (I believe also L in the mink?)
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yup
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I pinged Andrew Ward this morning to see if he could get one of his structural guys to take a close look at all of this -I'm sure you're already doing it too, but good to get a bunch of eyes on this. What's interesting about the SA link is that if we're really seeing this explosive growth, then it's down to N501Y and not all the other mutations. Which seems a little strange to me.
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(as in - probably not N501Y alone, but N501Y with some other 'contextual' mutations)