There has been much recent misinformation about COVID-19 origins that we can now debunk.

A thread on 2 topics:
A. How the ODNI report debunks multiple lab origins rumors.
B. Where these inaccurate media reports originated, and why we knew they were wrong.
dni.gov/files/ODNI/doc…
Overview of ODNI report:
1. No evidence for genetic engineering (virologists agree!)
2. Rumors of sick researchers at the WIV are uninformative of COVID-19 origins, and previously reported details are wrong.
3. The virus was not at the WIV before late Dec 2019 outbreak.
Part A:
ODNI states there is no evidence of a "biosafety incident" at the WIV, and a biosafety training in 2019 was completely routine. This directly debunks a GOP report and reporting by ProPublica on this topic, which suffered from a myriad of issues.
https://t.co/kvECQH4COh
Now, we can get to the recent media circus and conspiracy speculation over sick researchers.

The ODNI report does two things: (a) debunks specific claims made by the sources this information was leaked by, and (b) firmly concludes this rumor is not informative of origins.
There are hundreds of scientists working at the WIV, it is an institution comparable to Scripps or Fred Hutch here in the US. It is of course not a surprise that a few people there were sick in the fall!
But let's get into the specific claims made this report debunks:
The rumor that the researchers were hospitalized for COVID-19 symptoms is directly debunked. This misinformation was reported by a variety of sources, just a few examples:
@JCalvertST
@KatherineEban https://t.co/EBDe9vdF8C https://t.co/xwheV9aMq2thetimes.co.uk/article/inside…
vanityfair.com/news/2021/06/t…
The further rumor that the researchers were severely ill, or that their symptoms were indicative of COVID-19, is directly debunked by this work.


Presumably, the rumor that the wife of a researcher died (see Times above) is also debunked by this section. https://t.co/g2SGFACve9wsj.com/articles/intel…
The rumor that there were "three" researchers working in the lab of Shi Zheng-li or on coronaviruses fails to be confirmed. Indeed, all it says is that some researchers had "historically conducted research into animal respiratory viruses", which sounds like anyone at WIV.
Hopefully, the list of inaccuracies above can convince folks that the "anonymous" (see below) sources for these claims, the reporters relying on them, and the twitter personalities boosting them, are just not trustworthy on this topic.
Now, let's get into part (B): where do these lab leak rumors come from? And how did we know that the recent media speculation was all but certainly going to be wrong?
The claim that members of Shi's lab went to the hospital with COVID-19-like symptoms in 2019 started from a 2021 Trump administration State Department "fact sheet", put out days before the administration left. 2017-2021.state.gov/fact-sheet-act…
This report was not the work of super-spies with top secret intel: instead, it was the concoction of a few ex-Trump officials at the State Department: David Asher, Miles Yu, maybe one or two others (a right-wing think-tank kind of crowd).
The sick lab workers claim, in the way that lies do, grew slowly since then:
"several researchers" became "three". Soon, they worked "in the coronavirus lab". Next, they had "loss and smell and ground glass opacities". They even said one's wife died!
Remember, the report directly debunks many specific claims from these sources. It tells us symptoms were not severe, not indicative of COVID-19, and they were not hospitalized. There is no indication that they were in Shi's lab, could be any of the 100s of scientists at WIV.
So, ex-Trump officials went around last month trying to sell a new story to reporters: that they had the names of three members of Shi's lab who were sick. They sent their same story to dozens of journalists to find one to fool. But they made a mistake...
Two scientists they named, Ben Hu and Yan Zhu are in Shi's lab. They are authors on the first paper on SARS-CoV-2:

(Yes, they actually want you to believe that Ben Hu's research killed his wife and weeks later he wrote a pretend paper about the virus)nature.com/articles/s4158…
The final name they gave was "Yu Ping" (Yu is her surname) a Masters student co-advised by Shi. She graduated in summer 2019, and submitted her thesis in June, see below. She is on one paper with Shi, published in Apr 2019. Her work was computational.
drive.google.com/drive/folders/…
Unlikely that Yu was in Shi's lab in Nov 2019 after graduation. Her last paper with the lab was Apr 2019.

But her thesis (in Chinese) was shared in 2021 by Twitter conspiracy theorists as proof that Shi's lab was hiding... something. (note: the thesis was published publicly)
So they named (and the media parroted): "Ben Hu, Yan Zhu, Yu Ping".
But there is a strange inconsistency. The first two names are written the western way: family name second. The third the Chinese way: family name first. Why report the names inconsistently? h/t @zhihuachen
But that gave it all away. The reason why the name orders were inconsistent is because Asher and crew got Ben Hu's and Yan Zhu's names from their paper, but Ping Yu's name from the chinese copy of her thesis shared through conspiracy circles, so her ordering is the Chinese way.
Multiple lab-leak fanatic journalists (e.g. @zeynep) parroting these claims repeated the same three names over with this inconsistency, a game of telephone that appears to lead back to an origin in conspiracy tweets (and an awkward lack of basic fact checking).
So, to recap: this claim was about a co-advised computational student who graduated in June 2019, we only know this from ex-Trump grifters confirmed lying about other facts, they can't even get her name straight, and it seems like they just ripped it from conspiracy tweets.
Remember, the reporters above didn't just get the facts wrong: the articles above really seemed to purposefully try to confuse readers by obscuring that their "sources" were just a couple of ex-government Trump officials, who they laundered the opinions of uncritically
And take the time to note how the usual lab origins twitter fanatics needed nothing more than anonymous unsupported claims to basically proclaim victory last week for their otherwise still completely baseless hypothesis...
In science, you ask for evidence. Even if it wasn't kinda obvious that the three names were a fabrication, they'd still have to present *methods and evidence* for it. Where would the data come from? What was the source?
The current major push from conspiracy theorists is now that the US government is also hiding "proof" of COVID-19 laboratory origins from the public. China, the virology community, and now the US gov: the conspiracy grows!
It will grow and grow. There will always be an explanation why they find nothing. There will always be an explanation for how the conspiracy could twist around the data and the facts, so "you can't prove it didn't happen".

your choice is whether to follow them down that road
In an ideal world journalists would be covering the points above, and more, for all of us. But truth is in our world there are few to no incentives to speak out about this stuff- there's little upside and those who have tried in the past get viciously attacked.
And we end up in a position where half the world, especially the most qualified people, find the news like above is so ridiculous, tiring, and endless, that it isn't worth responding to, and where the other half takes each "bombshell article" completely seriously.
All you can do is speak out a bit about it, but in the end it's hopeless - twitter is a right wight platform where conspiracy theories dominate! But hope a little bit can help.
@PatrickSSte The Huanan Market.

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More from @acritschristoph

Apr 28
Glad to see someone else really have a proper look at the data, and to see our raw analysis be replicated. After looking briefly at Jesse's results, I agree, it largely in agreement!
That said there are some enormous issues in interpretation and presentation here to address (1/7) Image
Most inaccurate to me is table 1. It relies on an arbitrary 20% cutoff of all chordates to dismiss many samples with wildlife DNA/RNA. I've put it below, with a corrected version on the right without this cutoff. Multiple viral positive samples had raccoon dog DNA. (2/7) Image
This cutoff is wrong for a few reasons. #1: wildlife samples have naturally more species diversity, so fewer hits >20%. #2: the virus is generally rare in the samples, and the host likely is too. #3: mammalian DNA% is really what is relevant for guessing who shed the virus. (3/7)
Read 7 tweets
Apr 3
(A weekend SARS2 origins thread)
Last week Liu et al. provided an extensive update to their preprint on sampling the Huanan market:
chinaxiv.org/abs/202303.103…

Their supplementary notes locations of all samples in the market, so we can map Jan 2020 positivity rate across the market:
The above plots the significance of relative sample positivity (comparing + vs - samples) across the market, and confirms a prediction from Worobey et al. 2022 Science: samples from the southwest corner of the market where wildlife was sold were more likely to test positive.
72 stalls were sampled 3+ times in first half of Jan 2020.

Only 6 had a positivity rate >30%: 4/6 were in the southwest corner. Wildlife stall #6-29 had the single highest positivity rate of these. This stall had DNA/RNA from raccoon dogs and other wildlife at the epicenter.
Read 20 tweets
Mar 22
Hoped to not have to, but briefly before I logout to get work done:
1. Now known that the team did not violate GISAID ToS. Shocked at how people who were supposedly advocates of open data on this issue attacked for that: the hypocrisy of that contingent has never been clearer
2. The main finding was that susceptible animals were in fact exactly where they were predicted to be, in two wildlife stalls on the side of the market where the earliest cases were, and the area where most positive swabs were taken. That conclusion is robust.
3. There were 6 swabs positive for raccoon dog from these stalls, not 1. Yes, one swab had very high abundance, and likely RNA, strongly indicating animal recency. That swab was not SARS2 PCR-positive, which indicates viral load was low, but was adjacent to other positive swabs.
Read 6 tweets
Nov 22, 2022
[CW: politics]
Another conspiracy bites the dust, and now there are a great number of people who owe Anthony Fauci and others an enormous apology. Here Fauci and Collins asked for honest evaluation of the evidence, alerting authorities, and pushing for a WHO investigation Image
And here Fauci first pushes for what would become the WHO investigations into the origins of COVID-19, at the suggestion of Jeremy Farrar. All of the new emails here *should* be bigger news than the original conspiracies were - especially with any upcoming drama from House Rs ImageImage
No response here but sadness and fury at how many conspiratorial lies here have been repeated about this over and over- by @aychan, @WashburneAlex, @emilyakopp, @Biol4Ever, @R_H_Ebright, Rand Paul, etc- and how many scientists have been duped by these lies
Read 6 tweets
Nov 13, 2022
I know he was a climate change denier... but presumably at one point he understood basic principles of evolution, given his biology books... But now he has no clue how recombination works or how to read a phylogeny. How consistently does this conspiracy turn brains to mush?
RaTG13 is not the most similar virus to SARS-CoV-2 at the whole genome level: BANAL-20-52 is. (96.8% for BANAL-52 and 96.1% for RaTG13) At the whole genome level, RaTG13 and SARS-CoV-2 diverged several decades ago.
But prolific natural recombination between betacoronaviruses means that some parts of the genome have different ancestry (and thus closest relatives) than others. That is what the work these pundits (Ridley, Ebright, Kopp, etc) are commenting on was about:
Read 17 tweets
Oct 21, 2022
Alright, I had a look last night and will quickly do a thread on it.
There are many kinds of 'wrong' in science, but this preprint is False. There are many reasons (links at end), but the main one: the “unusual” sites are all *exactly* found in natural bat coronaviruses. 1/n
The authors focus on cut sites of BsaI and BsmIB. Why these two REs? The simple answer is there is no good reason- they were just cherry-picked as the “most unusual”. Here's a plot of just a few RE cut sites possibilities across coronavirus genomes (SARS-CoV-2 at top)
And here are the two they happened to choose. Not because they are the most commonly used - or the best choice - but post-hoc rationalized because one of them was used previously in an old coronavirus paper from UNC.
Read 22 tweets

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