A single line often inverts meaning once you see what it
answers, so neighbouring messages are always shown.
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@Kristian Andersen There's a recombination paper in the bioRxiv queue that would be good if you took a look at. Looks like garbage to me.
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I found some solid examples of recombination with B.1.1.7. No surprises but pretty clear with multiple genomes sequenced in different labs.
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This one does not look very good and talks about enhanced fitness. But I don't have time to look at it now as I haveto do another talk.
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I see it Eddie - will take a look. We have a few very recent genomes that smell like recombination to me as well - I'm pretty convinced recombination happens quite frequently, so (as discussed before), I'm not surprised. That said, need proper evidence.
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2021-03-04 12:59
Kristian G. Andersen
Yeah, junk. "The VOCs have a lot of mutations so they must be recombinants"....
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*Key* paper from South Africa here - people infected with B.1.351 fully neutralize B.1.351 viruses AND neutralizenon-B.1.351 viruses pretty well. https://www.medrxiv.org/content/10.1101/2021.01.26.21250224v2
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Also, one very interesting finding - although it's n=1. They had somebody infected by non-B.1.351 _but_ with a virus that had the E484K mutation. The serum from that patient absolutely knocked it out of the park when it came to neuttiers against both B.1.351 and non-B.1.351 - so much so, they had to exclude the individual from most analyses. Ifthis holds up, we might have a winner for near-perfect vaccine antigen - spike + E484K, 2P, and dFCS. That'd becool.
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I finally looked at this carefully. Did you see the BEAST analysis? TempEST found no temporal structure so they went ahead and used a strick clock anyway. On a 440 nt region. [shared file(s): Latrinne.NatComm20.pdf]
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You know, no point in having data get in the way of a good story.