Slack / Private Message Drop — page 640

[Kristian Andersen] So for the cage they have no PCR results, but they have sequencing results? I don't quite understand what the yellow/red cells with percentages mean. [2021-03-26 14:28:12] [Robert Garry] True - that's strange- they must have tried to sequence everything and gotten some sequences from pcr negative samples. Q61 is the same- pcr negative ngs positive - I think we've seen this on occasion in some of the Lassa samples. [2021-03-26 14:29:36] [Robert Garry] Here: https://pubmed.ncbi.nlm.nih.gov/32457420/ [2021-03-26 14:30:12] [Kristian Andersen] Nah - gotta have PCR results to get any sequencing results with this virus [2021-03-26 14:30:34] [Eddie Holmes] Is there a WIV used lab animal stall? [2021-03-26 14:30:35] [Kristian Andersen] For Lassa it's down to divergence - not so for this virus [2021-03-26 14:31:26] [Eddie Holmes] Let's wait for the report - doubtless will be dealt with in detail [2021-03-26 14:32:42] [Eddie Holmes] https://www.washingtonpost.com/local/md-politics/redfield-hogan-wuhan-coronavirus/2021/03/26/0d93dabe-8e63-1 1eb-a6bd-0eb91c03305a_story.html [2021-03-26 14:32:53] [Robert Garry] Good point! Diversity yeah - the PCRS for lASV only 70-75% sensitive vs NGS. [2021-03-26 14:38:26] [Robert Garry] WashPost editorial team needs to step aside too BTW. Here's the article in case you're locked out. [shared file(s): Hogan adviser Robert Redfield urged to step down over Wuhan virus remarks - The Washington Post.pdf] [2021-03-26 14:41:31] [Kristian Andersen] @Andrew Rambaut - take a look at this alignment, comparing the Tanzania variant to the very early lineages, including the Malaysia one and WA1. This one appears to be closer to RaTG13, plus a bunch of private mutations (separately, I aligned to various B lineages, but didn't do this in a structured way). Here's what I can gather so far on the mutations that are shared. Ancestral (RaTG13), missing in Tanzania variant 18,060 Ancestral, private in Tanzania variant