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Slack / Private Message Drop, p.301 [SLACK_000515] · slack_pm:msg:03150

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Can you just summarise where the root should fall? I didn't follow all that chain.

In context

A single line often inverts meaning once you see what it answers, so neighbouring messages are always shown.

2020-12-06 12:06 Kristian G. Andersen open

Probable scenario - ongoing undetected transmission in Wuhan building up, then a big super spreading event at the seafood market where it gets detected. Cases following are then connected to that event and most genomes are sequenced from the super spreading event, but not the emergence. Makes sense I think
2020-12-06 12:07 Kristian G. Andersen open

The emergence itself could have been anywhere, but transmission probably got going in Wuhan (but not at the seafood market - that's a SSE)
2020-12-06 12:07 Kristian G. Andersen open

"Anywhere [in China]"
2020-12-06 12:08 Edward C. Holmes open

Total sense and I fully agree. I suspect the emergence event took place elsewhere and was imported into Wuhan.
2020-12-06 12:09 Edward C. Holmes

Can you just summarise where the root should fall? I didn't follow all that chain.
2020-12-06 12:11 Kristian G. Andersen open

WA1
2020-12-06 12:27 Andrew Rambaut open

And by WA1 we mean a haplotype identical to WA1 that was in Wuhan before the 15th January
2020-12-06 12:33 Andrew Rambaut open

Curious though that the Malaysian one is one SNP closer to RmYN02 than all the others. So possibly that one (but the January cases in Malaysia were Chinese nationals visiting)
2020-12-06 12:35 Andrew Rambaut open

So I think most parsimonious would be `Malaysia/MKAK-CL-2020-6430|EPI_ISL_416886|2020-02-04` -> `WA1` -> `WH04` -> `Wuhan-Hu-1`