Live data from Hacker News

The Lab Leak Hypothesis

nymag.com

241–244 of 244 posts

Re: The Lab Leak Hypothesis

#241
post #185

Earlier quoted context omitted.

Given that it took a year for the virus to have any effect in Spain, then all of a sudden it was very intense, wouldn't it be more likely that the test was botched? There are a lot of false positives with PCR (0.8 - 4% according to this article https://www.thelancet.com/journals/lanres/article/PIIS2213-2... ), so that makes a lot more sense than the virus being more or less dormant for a year then going wild.

> wouldn't it be more likely that the test was botched? That's what I want to find out. From what you just wrote, the probability the test result is correct is at least 96%. But, as the result is so surprising and the tests aren't 100% reliable, it should still be checked. You shouldn't assume it's a false positive simply because it doesn't fit in with our current understanding. Maybe our current understanding is wro…

"Then they ran tests on samples taken between January 2018 and December 2019 and found the presence of the virus genome in one of them, collected on March 12, 2019."

If they did 100 samples you would expect between 1 and 4 false positives. (It doesn't go into detail about how many, but it's clearly more than one).

Re: The Lab Leak Hypothesis

#242
post #233
post #230

Earlier quoted context omitted.

The 60% drop is not part of a wider national trend only because national birth rates started dropping when the government first implemented birth control policies in the 1960s: https://data.worldbank.org/indicator/SP.DYN.CBRT.IN?view=cha... Xinjiang is slightly lagging behind, but it's very much the same policies in play. In the New York Times article I linked above, it is mentioned that "From 1980 to 2014, according…

National birth rates where 13 in 2016 vs 9.3 in Beijing demonstrating it’s a poor fit for national trends. It’s an interesting spin attempt, but clearly fails even when looking at the data you provided. In terms of IUD rates. 324 million IUD’s over 34 years vs a current population of 1.4 billion don’t on their own get 60% drop in birth rates. Further, it isn’t like Xinjinang was completely outside of the national tre…

> National birth rates where 13 in 2016 vs 9.3 in Beijing demonstrating it’s a poor fit for national trends.

Yes, it's harder to avoid the government's wrath if you live right under their eyes in the capital, so national policies are more likely to be enforced in Beijing than elsewhere.

> In terms of IUD rates. 324 million IUD’s over 34 years vs a current population of 1.4 billion don’t on their own get 60% drop in birth rates.

Did you do the math on that? 1.4 billion population total corresponds to roughly 700 million women; adding 324 million IUDs and 107 million tubal ligations amounts to 431 million sterilizations, about 62% of all Chinese women.

Of course it's not just the sterilizations that cause a drop in birth rates, but also having to pay a fine per "superfluous" child, not qualifying for government benefits, the rising cost of living making raising a child more expensive etc. It's no wonder that many women would choose to have no or fewer children under these circumstances, especially if they know other women who can tell them exactly what it's like.

> Further, it isn’t like Xinjinang was completely outside of the national trends and suddenly caught up,

I do think they were outside national trends in terms of percentage of women sterilized and "caught up" by sterilizing women en masse even when they gave birth years ago; while those sterilizations would have happened routinely after childbirth in Beijing.

I guess we'll see whether birth rates in Xinjiang will continue to drop below even the level of Beijing, stagnate at the current level or bounce back slightly once the figures for 2020 are published (but then there's the pandemic as a confounder...)

Re: The Lab Leak Hypothesis

#243

Earlier quoted context omitted.

The only thing we REALLY know is that these types of coronaviruses originate in Southern China and somehow got to the point of being suspiciously well adapted to ACE2 by the time it exploded in Wuhan. That, however, can also be achieved purely by natural causes over a long time - not just in a lab. Maybe Wuhan is simply the point at which the first very infectious form of SARS-CoV-2 occurred - not the first overall o…

It's plausible, and could be proven very easily that this happened. Presumably, some progenitor strain is out there, spreading more slowly and making less of a mess. Eventually, a SARS-CoV-2 screen will turn it up and we'll sequence it. Then we will see a strain that's diverged from all other sequences in the phylogenetic tree, with a common ancestor back further than ~1ya.

But this depends on catching that strain and evolution has likely led to its near full displacement by more infectious strains at this time.

Re: The Lab Leak Hypothesis

#244

Earlier quoted context omitted.

And the well adapted to humans furin site is just plain luck? Its not like this has not happen before, SARS like virus's have crossed species within modern history that we have detected, and they all flame out eventually. I'm no virologist, but I believe its typically because of selection pressure and the mutations needed to start to adapt to humans don't come easily once a jump occurs, it usually takes a few jumps t…

Furin cleavage sites naturally occur in coronaviruses [1] > The spike protein is a focused target of COVID-19, a pandemic caused by SARS-CoV-2. A 12-nt insertion at S1/S2 in the spike coding sequence yields a furin cleavage site, which raised controversy views on origin of the virus. Here we analyzed the phylogenetic relationships of coronavirus spike proteins and mapped furin recognition motif on the tree. Furin cle…

You have to quantify "relatively rare". Its closest relatives of high genetic match do not have this furin site, as they admit in the paper you linked to, only the sister clade does:

"Moreover, SARS-CoV-2 is the only virus in subgenus Sarbecovirus having this feature, while even its closest relatives, bat coronavirus RaTG13 (sequence identity 97.7%) and pangolin coronaviruses (92.9%–90.7%), do not have furin site. However, in Hibecovirus, the sister clade of Sarbecovirus, a Hipposideros bat coronavirus collected in 2013 at Zhejiang Province in China has furin site at S1/S2. Interestingly, the other member in Hibecovirus lacks such site, similar to the situation of SARS-CoV-2 and its close relatives. Interestingly, the other member in Hibecovirus lacks such site, similar to the situation of SARS-CoV-2 and its close relatives. "

Notice they don't publish the genetic match of the sister clade. Howe exactly does it jump clade when its closest relatives don't have the site?

This is what they point out in the podcast. Can it occur naturally, yes, but what are the chances if its closest relatives do not have it at all and none in the same clade? What exactly is the mechanism that this can occure? Its not just the furin site, they also discuss 4 other amino acid chains present that expanded its infectiousness. If this was a relatively chance combination of bat and pangolin incubated mutation that someone also gained the furin site and 4 other amino chains, why has it not flamed out like past jumps such as MERS which had the same? Pretty fortunate for a new mutation.

>>The lab theory requires not only a lab leak but the active suppression of the sequence(s) of the viral isolate(s) used in the hypothetical gain-of-function experiment.

Agreed, and although I don't necessarily think highly of the sources (Daily Mail), there does appear to be suppression of evidence even recently:

https://www.dailymail.co.uk/news/article-9129681/New-cover-f...

I believe Bret's podcast also talks about a database that was also taken down shortly after the outbreak from the Wuhan lab that may contain the sequence of the virus SARS Cov 2, which is standard practice for engineered viruses for study. I've also heard that there were samples destroyed in China during the early outbreak. If they were truly transparent they would release all records and backups of their databases going back a year or 2 before the outbreak to prove no such sequencing took place. So far I have not seen that. Keep in mind that all these level 4 labs globally are at risk of being shut down if any of this gets proved. They become political hot potatoes. If the public became fully aware (as in the laymen on the street knew) that multiple companies exist that can print any virus DNA sequence for $30,000 USD, and one of them escaped, they would likely be horrified.

I do agree that this can arise naturally, but the confluence of rare events arising a couple blocks from a level 4 lab studying exactly this gives me pause.

Post reply on HN