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Slack / Private Message Drop, p.699 [SLACK_000913] · slack_pm:msg:07337

Date: 2021-04-13 14:42
Type: chat message · slack
recipient: Kristian G. Andersen, Robert F. Garry, Edward C. Holmes
speaker: Andrew Rambaut
Topics: Natural origin / zoonotic spillover

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Really interesting but I haven't fully got my head around it - basically it means that the bat-like NTD is sub-optimal for humans, B.1.1.7 has converged on whatever the pangolin has as an adaptation to humans (given that B.1.1.7 is the most human adapted virus yet).

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Statement	Grade	Attribution	Stance
Really interesting but I haven't fully got my head around it - basically it means that the bat-like NTD is sub-optimal for humans, B.1.1.7 has converged on whatever the pangolin has as an adaptation to humans (given that B.1.1.7 is the most human adapted virus yet).	own voice, substantive	speaker_own	asserts

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own voice, substantive

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In context

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2021-04-13 14:35 Robert F. Garry open

Have been meaning to put this expanded alignment up as a supplement to Holmes 2021 - should do that at some point.
2021-04-13 14:39 Edward C. Holmes open

Very interesting. I'll see if any more pangolin viruses are on the go.
2021-04-13 14:40 Robert F. Garry open

Looking at it this way you can see the relationships in the sarbecos pretty clearly. [shared file(s): image.png]
2021-04-13 14:41 Robert F. Garry open

@Eddie Holmes On it! But hopefully others are as well.
2021-04-13 14:42 Andrew Rambaut

Really interesting but I haven't fully got my head around it - basically it means that the bat-like NTD is sub-optimal for humans, B.1.1.7 has converged on whatever the pangolin has as an adaptation to humans (given that B.1.1.7 is the most human adapted virus yet).
2021-04-13 14:45 Andrew Rambaut open

So 69-70 deletion and the 144 deletion provide greater infectivity (and presumably when combined with 501Y RBD and 681H furin site) result in higher transmissibility.
2021-04-13 14:49 Andrew Rambaut open

Other thing I got today was that the 3 nucleotide mutation in the middle of N that arose in the early Italian lineage probably create a new sgRNA - the resulting nucleotide sequence is complementary to the sgRNA transcriptionleader at the 5' end. That 3 nucleotide mutation had been bugging me for ages.
2021-04-13 14:51 Andrew Rambaut open

The cool thing is that explains the N:D3L (also a 3 nucleotide mutation) in B.1.1.7 - Sheffield showed this probably enhances the recombination with the leader two - so it may be compensating to create more N
2021-04-13 14:52 Andrew Rambaut open

Had a lovely afternoon of geeky genomic virology.

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