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1. 2021-04-13 14:39 Edward C. Holmes open
   Very interesting. I'll see if any more pangolin viruses are on the go.
2. 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]
3. 2021-04-13 14:41 Robert F. Garry open
   @Eddie Holmes On it! But hopefully others are as well.
4. 2021-04-13 14:42 Andrew Rambaut open
   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).
5. 2021-04-13 14:45 Andrew Rambaut
   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.
6. 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.
7. 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
8. 2021-04-13 14:52 Andrew Rambaut open
   Had a lovely afternoon of geeky genomic virology.
9. 2021-04-13 14:52 Edward C. Holmes open
   Intermediate host has a complex bat-pangolin recombinant?

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