Private channel session 1015

8 messages over 1h 4m, 2021-02-22 – 2021-02-23.

A “conversation” here is an activity session — a run of messages with under 60 minutes of silence inside it. The channel had no native conversation boundaries.

1. 2021-02-22 23:37 Edward C. Holmes open PDF p.541
   Can I just loop back to an earlier chat: @Andrew Rambaut in A.23.1 (Uganda I think) I assume you don't see Doug and Phil (the mutation in nsp12)? So, the elevated number of changes in this lineage is due to a different evolutionary pathway facilitated by another 'enabling' mutation like Doug (or Phil)? Do you see mutations that arestructurally/functionally similar to Doug and Phil? I'm just wondering if this parallel evolutionary process provides some important clues?
2. 2021-02-23 00:03 Andrew Rambaut open PDF p.541
   It doesn't have Doug but it does have his brother Q613H. No Phil (a minority of them have nsp12 mutations but haven't dug into those yet). Does also have a bunch of NSP6 mutations in similar places to the deletion.
3. 2021-02-23 00:05 Andrew Rambaut open PDF p.541
   Also I have had some backtracking about the P323L coming up in monkeys - data looks dodgy apparently.
4. 2021-02-23 00:07 Andrew Rambaut open PDF p.542
   A.23.1 also has a cluster in the UK with E484K
5. 2021-02-23 00:10 Edward C. Holmes open PDF p.542
   Fascinating. So, D614G or Q613H (and perhaps linked mutations) push the virus down a particular evolutionary 'corridor' which then means that only certain subsequent mutations will follow?
6. 2021-02-23 00:18 Andrew Rambaut open PDF p.542
   Interestingly it seems that P681R arose after Q613H: [shared file(s): A.23.1_2021-02-02.tree.png]
7. 2021-02-23 00:25 Edward C. Holmes open PDF p.542
   Ha. So that parallels P681H in B.1.1.7?
8. 2021-02-23 00:41 Edward C. Holmes open PDF p.542
   Reminds me of this: https://science.sciencemag.org/content/328/5983/1272