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Science

Wuhan Lab Researcher Fully Sequences Genomes of Coronavirus Samples From 2004 to 2021, Finds No Close Relatives to SARS-CoV-2 (nature.com) 220

60-year-old Chinese virologist Shi Zhengli led the Wuhan Institute of Virology's group studying bat coronaviruses (prompting Science magazine to call her "Bat Woman"). In June of 2020 Scientific American described Zhengli as "distressed because stories from the Internet and major media have repeated a tenuous suggestion that SARS-CoV-2 accidentally leaked from her lab — despite the fact that its genetic sequence does not match any her lab had previously studied."

More than four years later, Nature writes Friday that Zhengli "reported that none of the viruses stored in her freezers are the most recent ancestors of the virus SARS-CoV-2," presenting data at a conference in Japan "on dozens of new coronaviruses collected from bats in southern China." Shi has consistently said that SARS-CoV-2 was never seen or studied in her lab. But some commentators have continued to ask whether one of the many bat coronaviruses her team collected in southern China over decades was closely related to it. Shi promised to sequence the genomes of the coronaviruses and release the data. The latest analysis, which has not been peer reviewed, includes data from the whole genomes of 56 new betacoronaviruses, the broad group to which SARS-CoV-2 belongs, as well as some partial sequences. All the viruses were collected between 2004 and 2021.

"We didn't find any new sequences which are more closely related to SARS-CoV-1 and SARS-CoV-2," said Shi, in a pre-recorded presentation at the conference... The results support her assertion that the WIV lab did not have any bat-derived sequences from viruses that were more closely related to SARS-CoV-2 than were any already described in scientific papers, says Jonathan Pekar, an evolutionary biologist at the University of Edinburgh, UK. "This just validates what she was saying: that she did not have anything extremely closely related, as we've seen in the years since," he says.

"Earlier this year, Shi moved from the WIV to the Guangzhou Laboratory, a newly established national research institute for infectious diseases."

Wuhan Lab Researcher Fully Sequences Genomes of Coronavirus Samples From 2004 to 2021, Finds No Close Relatives to SARS-CoV-2

Comments Filter:
  • The covid denialist morons, including the "it was a Chinese lab leak hoax" subtype, don't believe any of this horseshit because of evidence.

    They believe it because it lets them pretend that they've "one-upped" the big scary universe that they can't understand or control because they have "special knowledge."
    • by Local ID10T ( 790134 ) <ID10T.L.USER@gmail.com> on Saturday December 07, 2024 @07:05PM (#64998499) Homepage

      "Researcher analyzes her own work and comes to the conclusion she was not at fault."

      Yeah.. No conflict of interest there!

    • Re: (Score:2, Funny)

      by ozmartian ( 5754788 )
      But... HAHave you done your own research on Facebook yet?!?! /s
    • by MightyMartian ( 840721 ) on Saturday December 07, 2024 @08:19PM (#64998625) Journal

      I've come to the conclusion that there's no cure for stupidity. I've given up, frankly. I'll do my best to look after my family, and the human race will inevitably kill itself off because we're too fucking selfish, moronic and ignorant to persist for much longer.

      Good riddance to a vile planet-destroy moron electing species. Fuck us all.

      • "Stupidity cannot be cured with money, or through education, or by legislation. Stupidity is not a sin, the victim canâ(TM)t help being stupid. But stupidity is the only universal capital crime: the sentence is death, there is no appeal, and execution is carried out automatically and without pity." â"Robert A. Heinlein

      • So there is a cure to stupidity but it is a slow and complicated process and it often gets undone by propaganda designed to prop up corporate profits.

        But shame works. Shaming the stupid works.

        It doesn't change their minds but that's not the goal of shame. The goal of shame is to change behavior. Shame shuts stupid people the fuck up.

        Somewhere along the line we stopped shaming stupid people for being stupid. I think that's because we saw a bunch of articles about how it doesn't change their minds
        • Re: (Score:3, Insightful)

          Now if only we could agree on which set of people are stupid :)

          As it is, it seems like we already live in a world where both sides relentlessly try to shame the other, and work hard to deflect all shame coming their way.

      • by shoor ( 33382 )

        The first amphibian that crawled up on land probably couldn't walk (or even crawl) all that well. The first bird that flew probably couldn't fly all that well. We're the first species to come up with this thing we call civilization. How good do you think we are at it? How good should you expect us to be at it?

        Maybe we could evolve and perfect ourselves, but I don't know if the planet is big enough to allow us room for that. Darwinian Evolution, as I understand it, is actually pretty messy, with a lot

    • by WaffleMonster ( 969671 ) on Sunday December 08, 2024 @04:06AM (#64998989)

      The covid denialist morons, including the "it was a Chinese lab leak hoax" subtype, don't believe any of this horseshit because of evidence.

      What we know for sure is China lied, covered up data and intentionally undermined international efforts of domain experts to determine the origins of the virus.

      Someone belatedly saying look not under this rock makes no difference at this point. What would make a difference is locating the animal reservoir the virus came from assuming zoonotic spillover theory.

      They believe it because it lets them pretend that they've "one-upped" the big scary universe that they can't understand or control because they have "special knowledge."

      There is no direct affirmative evidence for either lab leak or zoonotic spillover. The only evidence that exists to date is purely inductive in nature. Anyone who thinks they know for sure what happened is only fooling themselves..

      • It's already been sequenced and found to have originated from a combination of bats and pangolins. The only debate going on right now is whether or not the initial infections were at the wet markets or among people cutting down forests and/or hunting animals for the wet markets. But yeah we know it came from wild animals because we've done the gene sequencing and found it in the wild animals. Which is exactly what the epidemiologists have been warning us was going to happen for about 20 years now

        One of
      • Anyone who thinks they know for sure what happened is only fooling themselves.

        There is at least one person who knows for sure. The rest of us will never know for sure. Anyone who is certain that they know without actually being present at the moment is full of shit regardless of how bullet-proof their logic and proof is.

    • by CEC-P ( 10248912 ) on Sunday December 08, 2024 @05:58AM (#64999105)
      Or we know China lies constantly, especially when it comes to national reputation, and perhaps we also read "The latest analysis, which has not been peer reviewed"
    • by drinkypoo ( 153816 ) <drink@hyperlogos.org> on Sunday December 08, 2024 @08:58AM (#64999231) Homepage Journal

      I'm going to lead with a disclaimer here, but try to keep it sweet and short, and then plunge in.

      Disclaimer follows: "I do not have a personal opinion on whether Covid-19 came from the lab or came from the wet market, and I believe either is possible and don't have an opinion on the exact relative plausibility either."

      On to the actual comment I want to write: "A statement from someone who works at the lab was never, ever going to move the needle on plausibility."

      Speaking as someone who absolutely does not believe that he has any special knowledge on the facts or the subject, my suspicion was raised predominantly by China's reluctance to allow timely and effective third party investigation. The fact that this is SOP for China absolutely is a reason why I am biased against believing their statements. As evidence for this not being an example of unreason, I offer you my statement that I feel this way about my own government as well on a number of issues. I don't trust anything without educated, independent oversight. I also don't comprehend how anyone can think it makes sense to simultaneously be a lab leak theory proponent and a denialist. If they deny that it exists, how can they think it could have existed to leak from a lab? Conversely, if they think it's a bioweapon, why don't they want to be inoculated against it? Either way it's just total bananas.

      I don't really honestly care much whether it was a lab leak or due to something's fluids leaking onto something else at a literally wet market because their cages were stacked, or someone fucked a bat in their soup or whatever. I take for granted that there is bioweapons research occurring and would be stunned if it was never being tested on anyone, or released intentionally, so while discovering that this was an example of such would be a good citation in the future it wouldn't be any big "Aha!" moment. Instead my objection is to bad arguments, because they only confuse issues and detract from thinking about things which are or could actually be happening. I am therefore irritated sufficiently to comment by arguments which require that I trust governments which have put out a lot of bullshit statements before, or that I trust exactly the same people who I would suspect in a scenario.

      This new statement we're ostensibly discussing doesn't move the needle in any direction for me. One would deny the accusation whether it was true or false, but only early multinational investigation with free and open access to all persons and facilities involved could have prevented reasoning people from having a lack of trust in the inevitable public statements.

      • It seem to me that rational people would be willing to admit that their pet theory may be wrong, i.e., "I think there's evidence showing zoonotic origin (and here it is), but can't completely rule out a lab leak" or "I believe the lab leak theory is most likely (and here's why), but can't deny that zoonotic origin is still a possibility."

        On top of China's bad behavior, we had politicians, health, and media figures in the US who so incredibly vehemently attacked any mention of a lab leak theory--without any

        • by Ksevio ( 865461 )

          I think that's partially because it seemed most of the people pushing the lab leak theory were also pushing anti-vax/mask/lockdown views which ruined their credibility.

          Even if Xi Jinping personally synthesized a new virus and injected it into someone in Wuhan, the response wouldn't have changed. It was still a deadly virus that spread quickly

    • by argStyopa ( 232550 ) on Sunday December 08, 2024 @10:14AM (#64999331) Journal

      Maybe it could have been sorted out more quickly if there'd been an open discussion, instead of a politically fueled attempt (even within the CDC) to silence anyone daring to ask questions?

      Almost like such behaviour spurs conspiracy theories, huh?

    • Please explain what a Covid "Denialist" is - do they deny it happened, that the virus existed, or that it was created when a pangolin gots its freak on in the jungles of China then was brought to a wet market in Wuhan?

      I know no one that "Denies" COVID-19, I know many that are critical of the "it's a complete mystery where this virus came from" position experts are taking.

      • Please explain what a Covid "Denialist" is

        They had a variety of beliefs which in some cases did include the idea that there was literally no such thing as Covid-19. Classic Dunning-Krueger action:

        a low level of education appears to be associated with low health literacy [nih.gov] [53], which corresponds to peopleâ(TM)s ability to obtain, process, and understand health-related information to make appropriate decisions (Institute of Medicine, 2004). In this regard, a recent study reported a negative association between health literacy and belief in conspi

      • I used the term in a similar vein to how "global warming denialism" covers a broad spectrum of related/correlated dumb ideas, from literal "it's not happening" to "it's natural" to "there's nothing we can do so let's keep driving towards that cliff" to "it's happening but it's not gonna be bad" which sometimes includes a double-back into profound stupid in the form of "what if it's actually good?" (usually "durr plants grow bigger with more co2")... Anyway, the things I put under this umbrella term include
  • by davidwr ( 791652 ) on Saturday December 07, 2024 @07:08PM (#64998509) Homepage Journal

    ... considering the politics (read: national government) involved, I have a hard time accepting the source as credible.

  • this really needs some outside groups to come in and manually check all the samples.

    all the samples that still exist anyway

  • Two things (Score:5, Insightful)

    by Baron_Yam ( 643147 ) on Saturday December 07, 2024 @07:16PM (#64998521)

    One: I believe the non-Chinese researchers who say the local wet market is the most likely point of origin for COVID.

    Two: Due to Chinese politics, I don't trust any claim made by someone subject to CCP when there is the smallest chance the CCP would care about the claim.

    So no, COVID didn't come from that lab, but I don't believe that is most likely true on the word of a Chinese scientist.

    • Re:Two things (Score:5, Informative)

      by quonset ( 4839537 ) on Saturday December 07, 2024 @07:32PM (#64998545)

      One: I believe the non-Chinese researchers who say the local wet market is the most likely point of origin for COVID.

      Sample analysis and medical records confirm the wet market was the most likely origin [technologyreview.com] of the outbreak [cnn.com].

      From the patchy, fragmented information he could get, Worobey traced how the first 20 covid-19 patients in three hospitals in Wuhan were diagnosed (a total of 27 cases were deemed suspicious by December 30). He found that the clinicians identified cases based on the disease’s clinical manifestation, especially features of their CT scans of the lungs, regardless of their prior exposure at Huanan. It turned out that nine of them were workers at the market, while one patient who had no market exposure had friends who worked there and had visited his home.

      Almost one-third of the first 174 people who got Covid-19 had a connection to the market, and many others without a direct connection lived around the market, within a city of 12 million people.

    • On the one hand, we have the Wuhan lab which had a history of previous leaks and was a lab that was specifically studying bat viruses and how to make them infect people, and in a communist country where high ranking military officers have a 20+ year long history of publicly stating that their country is going to make a bio weapon that will kill anybody who is not Chinese (i.e. a clear plan to be doing research into making a killer illness as policy of the CCP).

      On the other hand, we have a wet market in that

  • by AlanObject ( 3603453 ) on Saturday December 07, 2024 @07:28PM (#64998543)

    What? Are you telling me that the Internet rumor mill populated by really smart keyboardists who got a B- in high school biology and desperately crave social media adulation didn't get it right? Unpossible!

    • What? Are you telling me that the Internet rumor mill populated by really smart keyboardists who got a B- in high school biology and desperately crave social media adulation didn't get it right? Unpossible!

      B-? Aren't you giving them a lot of credit?

  • by kbahey ( 102895 ) on Saturday December 07, 2024 @07:59PM (#64998597) Homepage

    The body of evidence supports a natural emergence of the virus that caused the pandemic.
    There are no data to support the alternate hypotheses (lab leak or whatever).

    First ...

    Think about it a bit ... we had THREE outbreaks from the beta coronaviruses sub family in less than two decades.

    Two of them were pandemics, but with varying scale:

    - SARS in 2003, from civet cats
    - MERS in 2012, from camels
    - SARS-COV-2 in 2019, from raccoon dogs (or other species)

    There are 4 other coronaviruses that infect humans with common cold like (about 16% of annual cases).

    The most parsimonious explanation that accounts for all the scientifically rigorous evidence is that the jump from bats to a farmed animal (most likely raccoon dog) in southern China. Those infected animals were trucked to Wuhan's market. Either in the farm, or along the route, or in the market, two humans got infected, one with lineage A and another with lineage B. One of these lineages died out, and the other continued to spread around the world, mutating, as viruses do, and still going on ...

    But, please don't take my words for any of that though ...

    You have 3 virologists, all with Ph.Ds in the field.
    Two of them are retired virology professors at respected universities.
    One wrote the textbook, literally, on virology (Vincent Racaniello)

    TWIV 1155 [youtube.com]: Listen from 00:02:20 to 01:10:00

    They discuss two papers, one briefly (they term that a "snippet"), and the other in more depth.

    The in depth one (starting at ~ 00:30:00) is one of many that support the natural zoonotic origin, with 2 separate spillover events from animal to humans in the Huanan wet market in Wuhan.

    The paper is: Genetic tracing of market wildlife and viruses at the epicenter of the COVID-19 pandemic [cell.com].

    Also, a genetic analysis of animals in the Wuhan wet market [phys.org] is zeroing in on a short list of animals that possibly helped spread it to people.

    And it is not only the beta coronaviruses: influenza does that all the time.
    The current strain of H5N1 jumps to mammals regularly.

    For example, dozens of tigers died in Vietnam [apnews.com], and before that seals in Patagonia [apnews.com].

    And now dairy cows in the USA have been infected [jhu.edu], and there are human cases too, but it is not clear how they contracted the diseases so far (water foul, some mammal such as pet dogs who ate dead infected birds, ...).

    But you say: intelligence agencies have said the lab leak theory cannot be ruled out.
    Those are intelligence agencies and by definition they don't publish the data backing up their postulates. We have to take their word for it without any scrutiny.

    Moreover, experts are overwhelmingly for the natural origin.

    • by Dr. Tom ( 23206 )

      +1

    • Reliable news sources and appeal to reason and logic. But who are you going to believe experts in the field of epidemiology and trained journalists working for the associate press or my uncle on Facebook? I rest my case.
    • Think about it a bit ... we had THREE outbreaks from the beta coronaviruses sub family in less than two decades.

      Two of them were pandemics, but with varying scale:

      - SARS in 2003, from civet cats
      - MERS in 2012, from camels
      - SARS-COV-2 in 2019, from raccoon dogs (or other species)

      It's worth to note that you are only listing the strains that posed a threat the last 20 years. Considering the very large amount of different strains floating around in animals, a crossover event producing a variant like SARS-COV-2 was only a matter of time and it will happen again.

      • by kbahey ( 102895 )

        Considering the very large amount of different strains floating around in animals, a crossover event producing a variant like SARS-COV-2 was only a matter of time and it will happen again.

        I fully agree.

        And the same applies to influenza.
        It is only a matter of time before H5N1 (bird flu) mutates enough to infect humans.

        In early 2020, I asked my family doctor: were you expecting a pandemic?
        His answer: yes, but we [the medical community] thought it would be a flu variant.

    • All of that is true, and I tend to agree with you. But none of that directly establishes a natural origin and/or rules out a lab leak. One aspect of the whole thing that feeds the speculation is that we were able to trace the natural vector for the other coronavirus outbreaks within a few years. But covid-19 is still undetermined. That's unusual, but also does not directly confirm or rule out any particular theory.
      • by kbahey ( 102895 )

        It origin is undetermined because the Chinese government acted fast, and those actions resulted in an information blackout.
        They destroyed the animals in the market, took swabs, and then disinfected everything.
        Their actions could have been driven by: a) public health concerns (limiting the spread), or b) avoiding blame for yet another pandemic because of exotic species being consumed (SARS, then SARS CoV 2), or c) an active cover-up, or d) something else entirely. Which one is it? That is up for debate.

        The g

  • And also: "trust me to exhonerate myself" doesn't fly for speeding tickets. Why should it fly for this?

  • ...if they hadn't deleted the evidence in the first place.

    All of these sequences existed *before* the rona, but were mysteriously deleted. Even if this person is 100% telling the truth, it can't get past the distrust such an action would engender.

    The sad fact is, there never will be a smoking gun, or a complete exoneration - we live in a world where we can't trust the data, or the conclusions, or the reporting on either the data or the conclusions.

    The mind-fuck is "how much of the rest of my historical und

  • Shitou Cave (Stone Cave), Mojiang County

    Jinning Cave: Near Jinning district in Kunming, Yunnan province

    Tongguan Mine: Location: Near Tongguan village in Mojiang County.

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