Category: Science

Carolyn Shoemaker Developed Tacit Knowledge of Presence of Comets and Asteroids

(p. B6) Carolyn Shoemaker, who for more than a decade managed a telescopic camera with her husband from a high-altitude observatory in California and became widely regarded, without academic training, as the world’s foremost detector of comets and asteroids, died on Aug. 13 [2021] at a hospital in Flagstaff, Ariz.

. . .

In the afternoons, Dr. Shoemaker would take the film they had used the previous night and develop it in a darkroom, then turn over the negatives to Ms. Shoemaker. Using a stereoscope, she would compare exposures of the same block of sky at different times. If anything moved against the relatively fixed background of stars, it would appear to float in the viewing device’s eyepiece.

Ms. Shoemaker was charged with discerning what was the grain of the film (and perhaps dust on it) and what was an actual image of light emitted by an object hurtling through space. “With time,” she wrote, “I saw fainter and fainter objects.”

It took a few years before she found her first new comet, in 1983. By 1994 she had discovered, in addition to hundreds of asteroids, 32 comets, a number considered by the United States Geological Survey and others to represent the world record at the time.

. . .

One comet, known as Shoemaker-Levy 9 (named in part for their associate David Levy), had stood out from the rest. Rather than making a lonely journey through the cosmic vacuum, Shoemaker-Levy 9 was on a collision course with Jupiter.

. . .

“Carolyn Shoemaker is one of the most revered and respected astronomers in history,” Jennifer Wiseman, a senior scientist overseeing the Hubble Space Telescope, said by phone. “Her discoveries, her tenacious care in how she did her work — those things have created a legacy and a reputation that has inspired people who have come into the field after her.”

. . .

. . . scientists still depend on methods that Ms. Shoemaker perfected.

“She and her colleagues set the stage for how to identify what we would call minor bodies in our solar system, such as comets and asteroids,” Dr. Wiseman said. “We still use the technique of looking for the relatively fast transverse motions of comets and asteroids in our own solar system, as compared to the slower or more fixed position of stars.”

For the full obituary, see:

Alex Traub. “Carolyn Shoemaker, 92, a Stargazer Who Spotted Comets and Asteroids.” The New York Times (Monday, September 6, 2021): B6.

(Note: ellipses, and bracketed year, added.)

(Note: the online version of the obituary was updated Sept. 4, 2021, and has the title “Carolyn Shoemaker, Hunter of Comets and Asteroids, Dies at 92.”)

China Removed Gene Sequences from NIH Data Base Related to Covid-19 Origin

(p. A3) Chinese researchers directed the U.S. National Institutes of Health to delete gene sequences of early Covid-19 cases from a key scientific database, raising concerns that scientists studying the origin of the pandemic may lack access to key pieces of information.

. . .

The removal of the sequencing data is described in a new paper posted online Tuesday by Jesse Bloom, a virologist at the Fred Hutchinson Cancer Research Center in Seattle. The paper, which hasn’t been peer reviewed, says the missing data include sequences from virus samples collected in the Chinese city of Wuhan in January and February of 2020 from patients hospitalized with or suspected of having Covid-19.

. . .

. . . Dr. Bloom said their removal sows doubts about China’s transparency in the continuing investigation into the origin of the pandemic.

Some other scientists agreed.

“It makes us wonder if there are other sequences like these that have been purged,” said Vaughn S. Cooper, a University of Pittsburgh evolutionary biologist who wasn’t involved in the new paper and said he hasn’t studied the deleted sequences himself.

For the full story see:

Amy Dockser Marcus, Betsy McKay and Drew Hinshaw. “Covid-19 Gene Data Removed at NIH.” The Wall Street Journal (Thursday, June 24, 2021): A3.

(Note: ellipses added.)

(Note: the online version of the story was updated June 23, 2021, and has the title “Chinese Covid-19 Gene Data That Could Have Aided Pandemic Research Removed From NIH Database.”)

Center-Left Biothreat Expert Says Many Scientists Rejected Wuhan Lab Origin, Not Due to Evidence, but Due to Trump

(p. A13) A few months before Covid-19 became a pandemic, Filippa Lentzos started reading about unusual flu cases in Wuhan, China. Ms. Lentzos, a social scientist who studies biological threats, belongs to an email group she describes as consisting of “ex-intelligence, bioweapons specialists, experts, former State Department diplomats” and others “who have worked in arms control, biological disarmament.”

As Chinese authorities struggled to contain the outbreak, she recalls, the expert circle asked questions about the pathogen’s origin: “Is this security related? Is it military? Is there something dodgy going on? What information are we not getting here?”

. . .

. . . in February 2020, a group of scientists had published a statement in the Lancet calling out “conspiracy theories suggesting that COVID-19 does not have a natural origin.” The New York Times and Washington Post dutifully attacked Mr. Cotton as unhinged. Media, with an assist from some virologists, dismissed the lab-leak theory as “debunked.”

Ms. Lentzos, who places her own politics on the Swiss “center left,” thought that conclusion premature and said so publicly. In May 2020, she published an article in the Bulletin of the Atomic Scientists weighing whether “safety lapses in the course of basic scientific research” caused the pandemic. While acknowledging there was, “as of yet, little concrete evidence,” she noted “several indications that collectively suggest this is a serious possibility that needs following up by the international community.”

. . .

The article barely made a ripple. “If you look at the argumentation that’s used today, it’s exactly the same basically as what I laid out, which was, accidents happen,” she says. “We know that they’re having questions around safety. We know they were doing this field work. We see videos where they’re in breach of standard biosafety protocol. We know China is manipulating the narrative, closing down information sources—all of that stuff. All of that is in there. But it didn’t get much traction.”

. . .

American liberals—including many scientists—conflated open-mindedness about the question with support for Mr. Trump. Ms. Lentzos was one of the few who could separate their distaste for him from their analysis of the pandemic.

. . .

The most significant problem came from the scientific community. “Some of the scientists in this area very quickly closed ranks,” she says, and partisanship wasn’t their only motive: “Like most things in life, there are power plays. There are agendas that are part of the scientific community. Just like any other community, there are strong vested interests. There were people that did not talk about this, because they feared for their careers. They feared for their grants.”

Ms. Lentzos counsels against idealizing scientists and in favor of “seeing science and scientific activity, and how the community works, not as this inner sacred sanctum that’s devoid of any conflicts of interests, or agendas, or any of that stuff, but seeing it as also a social activity, where there are good players and bad players.”

Take Peter Daszak, the zoologist who organized the Lancet letter condemning lab-leak “conspiracy theories.” He had directed millions of dollars to the Wuhan Institute of Virology through his nonprofit, EcoHealth Alliance. A lab mistake that killed millions would be bad for his reputation. Other researchers have taken part in gain-of-function research, which can make viruses deadlier or easier to transmit. Who would permit, much less fund, such research if it proved so catastrophic? Yet researchers like Marion Koopmans, who oversees an institution that has conducted gain-of-function research, had an outsize voice in media. Both she and Mr. Daszak served on the World Health Organization’s origin investigation team.

. . .

Ms. Lentzos has experience working with United Nations agencies, including the World Health Organization. “It was incredibly exciting to finally go in. And then you become more disillusioned when you see how things operate, how things don’t operate,” she says. “Like any large organization, they are slow, and inflexible, and bureaucratic.”

For the full interview see:

Adam O’Neal, interviewer. “THE WEEKEND INTERVIEW; A Scientist Who Said No to Covid Groupthink.” The Wall Street Journal (Saturday, June 12, 2021): A13.

(Note: ellipses added.)

(Note: the online version of the interview has the date June 11, 2021, and has the same title as the print version.)

Dreams May Be a Byproduct of Brain Repair, Without Deep Meaning

(p. 20) Dr. J. Allan Hobson, a psychiatrist and pioneering sleep researcher who disputed Freud’s view that dreams held hidden psychological meaning, died on July 7 [2021] at his home in East Burke, Vt.

. . .

“He showed that sleep isn’t a nothing state,” Ralph Lydic, who conducted research with Dr. Hobson in the 1980s and is a professor of neuroscience at the University of Tennessee, said in a phone interview.

“He demonstrated that the brain is as active during R.E.M. sleep as it is during wakefulness,” he added, referring to sleep characterized by rapid eye movement. “We know as much about sleep as we do in part because of him.”

One of his most influential contributions to dream research came in 1977, when Dr. Hobson and a colleague, Robert McCarley, produced a cellular and mathematical model that they believed showed how dreams occur. Dreams, they said, are not mysterious codes sent by the subconscious but rather the brain’s attempt to attribute meaning to random firings of neurons in the brain.

This view, that dreams are the byproduct of chemical reactions, was a departure from psychological orthodoxy and heresy to Freudians, and it remains in dispute.

But to Dr. Hobson, the content of dreams was not as important as the electrical activity of the brain during the dream state.

. . .

“I’m skeptical about any absolute set of rules, scientific rules, moral rules, behavioral rules,” he said in a 2011 interview with The Boston Globe.

For the full obituary, see:

Katharine Q. Seelye. “J. Allan Hobson, 88, Who Took Sleep Seriously, Dies.” The New York Times, First Section (Sunday, August 1, 2021): 20.

(Note: ellipses, and bracketed year, added.)

(Note: the online version of the obituary has the date July 28, 2021, and has the title “Dr. J. Allan Hobson, Who Studied the Dreaming Brain, Dies at 88.”)

Choppin at Hughes Medical Institute Hired Good Scientists and Let Them Pursue Hunches and Serendipitous Insights

(p. A27) Purnell Choppin, whose research on how viruses multiply helped lay the foundation for today’s fight against the Covid-19 pandemic, died on July 3 [2021] at his home in Washington, one day shy of his 92nd birthday.

. . .

Dr. Choppin (pronounced show-PAN) focused on measles and influenza, but his research, and the methods he developed to conduct it, proved critical for later work on other viruses, including severe acute respiratory syndrome coronavirus 2, the virus behind the Covid-19 pandemic, said David Baltimore, an emeritus professor of biology at the California Institute of Technology and a winner of the 1975 Nobel Prize in Physiology or Medicine.

“The issue of how viruses infect cells was very much on his mind, and the mechanisms he worked out studying influenza were central to thinking about coronaviruses,” Dr. Baltimore said. “Thanks to his work and that of so many others, when the pandemic hit, we were able to formulate questions about the virus in quite precise terms.”

Dr. Choppin was equally well known as an administrator, first at Rockefeller and then at the Howard Hughes Medical Institute, which hired him in 1985 as its chief medical officer. He later ran the institute for 12 years, turning it from a modest-size research organization into a global research powerhouse.

. . .

With a calm, easygoing demeanor that disguised a fierce, visionary ambition, Dr. Choppin took an innovative approach to funding. Unlike other institutions, which provide grants for specific projects, he focused on identifying top researchers and then showering them with money and resources. Even better, he did not ask them to move to the institute, in Chevy Chase, Md. — they could stay where they were and let the Hughes largesse come to them.

. . .

While Dr. Choppin was sometimes criticized for making safe bets on established scientists who probably didn’t need his help, he made no apologies, and had the track record to prove the soundness of his approach: Dozens of Hughes researchers had gone on to become members of the National Academy of Sciences, and six won the Nobel Prize.

“We bet on people who look like they are going to be winners,” he told The Washington Post in 1988. “You look for originality. How they pick a problem and stick to it. Their instinct for the scientific jugular.”

For the full obituary, see:

Clay Risen. “Purnell Choppin, 91, Researcher Who Focused on Viruses.” The New York Times, First Section (Sunday, July 25, 2021): 27.

(Note: ellipses, and bracketed year, added.)

(Note: the online version of the obituary has the date July 23, 2021, and has the title “Purnell Choppin, 91, Dies; Researcher Laid Groundwork for Pandemic Fight.”)

Scientist Phillippy Co-Led DNA Completion Because Gaps “Were Just Really Bugging Me”

People with different ways of thinking are better at doing different kinds of work. For instance those who are obsessive/compulsive or have some types of Asperger’s, may be better at careful detailed work that requires perfectionism. (I do not know anything about Phillippy beyond the article quoted below, so I am in no way suggesting that he is an examplar of either of these ways of thinking.)

(p. A10) Two decades after the draft sequence of the human genome was unveiled to great fanfare, a team of 99 scientists has finally deciphered the entire thing. They have filled in vast gaps and corrected a long list of errors in previous versions, giving us a new view of our DNA.

. . .

In 2019, two scientists — Adam Phillippy, a computational biologist at the National Human Genome Research Institute, and Karen Miga, a geneticist at the University of California, Santa Cruz — founded the Telomere-to-Telomere Consortium to complete the genome.

Dr. Phillippy admitted that part of his motivation for such an audacious project was that the missing gaps annoyed him. “They were just really bugging me,” he said. “You take a beautiful landscape puzzle, pull out a hundred pieces, and look at it — that’s very bothersome to a perfectionist.”

Dr. Phillippy and Dr. Miga put out a call for scientists to join them to finish the puzzle. They ended up with 99 scientists working directly on sequencing the human genome, and dozens more pitching in to make sense of the data. The researchers worked remotely through the pandemic, coordinating their efforts over Slack, a messaging app.

. . .

Dr. Altemose plans on using the complete genome to explore a particularly mysterious region in each chromosome known as the centromere. Instead of storing genes, centromeres anchor proteins that move chromosomes around a cell as it divides. The centromere region contains thousands of repeated segments of DNA.

In their first look, Dr. Altemose and his colleagues were struck by how different centromere regions can be from one person to another. That observation suggests that centromeres have been evolving rapidly, as mutations insert new pieces of repeating DNA into the regions or cut other pieces out.

While some of this repeating DNA may play a role in pulling chromosomes apart, the researchers have also found new segments — some of them millions of bases long — that don’t appear to be involved. “We don’t know what they’re doing,” Dr. Altemose said.

But now that the empty zones of the genome are filled in, Dr. Altemose and his colleagues can study them up close. “I’m really excited moving forward to see all the things we can discover,” he said.

For the full story, see:

Carl Zimmer. “Scientists Have Finally Filled in All the Gaps in the Human Genome.” The New York Times (Saturday, July 24, 2021): A17.

(Note: ellipses added.)

(Note: the online version of the story was updated July 26, 2021, and has the title “Scientists Finish the Human Genome at Last.”)

Leading American Scientists Endorsed False Soviet Denial of Anthrax Lab Leak

(p. A4) YEKATERINBURG, Russia — Patients with unexplained pneumonias started showing up at hospitals; within days, dozens were dead. The secret police seized doctors’ records and ordered them to keep silent. American spies picked up clues about a lab leak, but the local authorities had a more mundane explanation: contaminated meat.

It took more than a decade for the truth to come out.

In April and May 1979, at least 66 people died after airborne anthrax bacteria emerged from a military lab in the Soviet Union. But leading American scientists voiced confidence in the Soviets’ claim that the pathogen had jumped from animals to humans. Only after a full-fledged investigation in the 1990s did one of those scientists confirm the earlier suspicions: The accident in what is now the Russian Urals city of Yekaterinburg was a lab leak, one of the deadliest ever documented.

Nowadays, some of the victims’ graves appear abandoned, their names worn off their metal plates in the back of a cemetery on the outskirts of town, where they were buried in coffins with an agricultural disinfectant. But the story of the accident that took their lives, and the cover-up that hid it, has renewed relevance as scientists search for the origins of Covid-19.

It shows how an authoritarian government can successfully shape the narrative of a disease outbreak and how it can take years — and, perhaps, regime change — to get to the truth.

“Wild rumors do spread around every epidemic,” Joshua Lederberg, the Nobel-winning American biologist, wrote in a memo after a fact-finding trip to Moscow in 1986. “The current Soviet account is very likely to be true.”

Many scientists believe that the virus that caused the Covid-19 pandemic evolved in animals and jumped at some point to humans. But scientists are also calling for deeper investigation of the possibility of an accident at the Wuhan Institute of Virology.

There is also widespread concern that the Chinese government — which, like the Soviet government decades before it, dismisses the possibility of a lab leak — is not providing international investigators with access and data that could shed light on the pandemic’s origins. Continue reading “Leading American Scientists Endorsed False Soviet Denial of Anthrax Lab Leak”

Warburg Focused on Cancer’s “Ravenous” Metabolizing of Sugars

(p. A15) Hours before Nazi Germany invaded the Soviet Union in 1941, SS leader Heinrich Himmler convened a perplexing meeting. He and his minions put aside preparations for the offensive to chitchat about a gay biochemist of Jewish descent in Berlin. Not to rage about the man, or plot his downfall—to the contrary, the Nazis believed this scientist could save the Reich, by ridding it of a threat they feared every bit as much as Jews, homosexuals and communists—the scourge of cancer.

That scientist, Otto Warburg, is the subject of “Ravenous: Otto Warburg, the Nazis, and the Search for the Cancer–Diet Connection,” an eye-opening work by journalist Sam Apple.

. . .

There’s no doubt Warburg was brilliant—the greatest biochemist of his day—and in the 1930s he focused on cancer, a major concern of the Nazis. Cancer deaths skyrocketed 287% in Germany between 1876 and 1910, “making a quiet mockery of the extraordinary march of German science,” Mr. Apple notes. From the Führer down, Nazi leaders trembled at the disease, and they enacted surprisingly modern measures to fight cancer. They railed against cigarettes, encouraged women to examine their breasts for lumps and worked to eliminate pesticides and artificial preservatives in food.

In his lab, Warburg made seemingly fundamental discoveries about how cancer worked.

. . .

The second half of “Ravenous” shifts into the (somewhat tenuous) links between Warburg’s research and our modern understanding of cancer. The biochemical complexities get a bit gnarly—there’s a dizzying amount of detail, making it hard to follow the main thread on occasion. Among other things, Warburg discovered that cancer cells gobble up far more glucose (a sugar) than their nonmalignant neighbors—“eating like shipwrecked sailors,” Mr. Apple writes. Oddly, cancer cells also metabolize sugars through fermentation, in a manner analogous to yeast cells. Biochemically, fermentation is normally a backup power generator for human cells, used only when oxygen runs low. Warburg found that cancer cells were running the backup generator all the time.

. . .

. . ., it’s not clear how much credit Warburg deserves. I walked away from “Ravenous” thinking of Otto Warburg as a sort of Sigmund Freud of cancer research. Freud got One Big Thing right—that the unconscious drives much of human behavior. But he was wrong on nearly every detail. Similarly, Warburg explicitly rejected good evidence for the insulin-cancer link during his lifetime, among other blunders, making it tricky to uphold him as a pioneer of modern cancer research.

Nevertheless, history will show that Otto Warburg always insisted that cancer was intimately tied to metabolism. As one latter-day biologist noted, marveling over Warburg’s rehabilitation, “We found out that son of a bitch was right.”

For the full review, see:

Sam Kean. “BOOKSHELF; Untangling a Disease.” The Wall Street Journal (Wednesday, June 16, 2021): A15.

(Note: ellipses added.)

(Note: the online version of the review has the date June 15, 2021, and has the title “BOOKSHELF; ‘Ravenous’ Review: Untangling a Disease.”)

The book under review is:

Apple, Sam. Ravenous: Otto Warburg, the Nazis, and the Search for the Cancer-Diet Connection. New York: Liveright Publishing Corp., 2021.

Media Used “Censorship and Vilification” to Suppress Wuhan Lab-Leak Theory

(p. A23) If it turns out that the Covid pandemic was caused by a leak from a lab in Wuhan, China, it will rank among the greatest scientific scandals in history: dangerous research, possibly involving ethically dubious techniques that make viruses more dangerous, carried out in a poorly safeguarded facility, thuggishly covered up by a regime more interested in propaganda than human life, catastrophic for the entire world.

But this possible scandal, which is as yet unproved, obscures an actual scandal, which remains to be digested.

I mean the long refusal by too many media gatekeepers (social as well as mainstream) to take the lab-leak theory seriously. The reasons for this — rank partisanship and credulous reporting — and the methods by which it was enforced — censorship and vilification — are reminders that sometimes the most destructive enemies of science can be those who claim to speak in its name.

. . .

Was it smart for science reporters to accept the authority of a February 2020 letter, signed by 27 scientists and published in The Lancet, feverishly insisting on the “natural origin” of Covid? Not if those reporters had probed the ties between the letter’s lead author and the Wuhan lab (a fact, as the science writer Nicholas Wade points out in a landmark essay in The Bulletin of the Atomic Scientists, that has been public knowledge for months).

Was it wise to suppose that the World Health Organization, which has served as a mouthpiece for Chinese regime propaganda, should be an authority on what counted as Covid “misinformation” by Facebook, which in February [2021] banned the lab-leak theory from its platform? Not if the aim of companies like Facebook is to bring the world closer together, as opposed to laundering Chinese government disinformation while modeling its illiberal methods.

. . .

Yet the lab-leak theory, whether or not it turns out to be right, was always credible. Even if Tom Cotton believed it. Even if the scientific “consensus” disputed it. Even if bigots — who rarely need a pretext — drew bigoted conclusions from it.

Good journalism, like good science, should follow evidence, not narratives. It should pay as much heed to intelligent gadflies as it does to eminent authorities. And it should never treat honest disagreement as moral heresy.

Anyone wondering why so many people have become so hostile to the pronouncements of public-health officials and science journalists should draw the appropriate conclusion from this story. When lecturing the public about the dangers of misinformation, it’s best not to peddle it yourself.

For the full commentary, see:

Bret Stephens. “The Lab-Leak Theory and The Media.” The New York Times (Tuesday, June 1, 2021): A23.

(Note: ellipses, and bracketed year, added; italics in original.)

(Note: the online version of the commentary has the date May 31, 2021, and has the title “Media Groupthink and the Lab-Leak Theory.”)

“If It’s Consensus, It Isn’t Science”

(p. C9) . . . science itself is not conducted by polls, regardless of how often we are urged to heed a “scientific consensus” on climate. As the science-trained novelist Michael Crichton summarized in a famous 2003 lecture at Caltech: “If it’s consensus, it isn’t science. If it’s science, it isn’t consensus. Period.” Mr. Koonin says much the same in “Unsettled.”

. . .

As for “denying,” Mr. Koonin makes it clear, on the book’s first page, that “it’s true that the globe is warming, and that humans are exerting a warming influence upon it.”

The heart of the science debate, however, isn’t about whether the globe is warmer or whether humanity contributed. The important questions are about the magnitude of civilization’s contribution and the speed of changes; and, derivatively, about the urgency and scale of governmental response. Mr. Koonin thinks most readers will be surprised at what the data show. I dare say they will.

As Mr Koonin illustrates, tornado frequency and severity are also not trending up; nor are the number and severity of droughts. The extent of global fires has been trending significantly downward. The rate of sea-level rise has not accelerated. Global crop yields are rising, not falling. And while global atmospheric CO2 levels are obviously higher now than two centuries ago, they’re not at any record planetary high—they’re at a low that has only been seen once before in the past 500 million years.

. . .

Mr. Koonin’s science credentials are impeccable—unlike, say, those of one well-known Swedish teenager to whom the media affords great attention on climate matters. He has been a professor of physics at Caltech and served as the top scientist in Barack Obama’s Energy Department. The book is copiously referenced and relies on widely accepted government documents.

. . .

Never have so many spent so much public money on the basis of claims that are so unsettled.

For the full review, see:

Mark P. Mills. “The ‘Consensus’ On Climate.” The Wall Street Journal (Monday, April 26, 2021): C9.

(Note: ellipses added.)

(Note: the online version of the review has the date April 25, 2021, and has the title “‘Unsettled’ Review: The ‘Consensus’ On Climate.”)

The book under review is:

Koonin, Steven E. Unsettled: What Climate Science Tells Us, What It Doesn’t, and Why It Matters. Dallas, TX: BenBella Books, 2021.

Mainstream Elevates Wuhan Lab COVID-19 Origin That They “Once Dismissed as a Conspiracy Theory”

(p. A1) DANAOSHAN, China—On the outskirts of a village deep in the mountains of southwest China, a lone surveillance camera peers down toward a disused copper mine smothered in dense bamboo. As night approaches, bats swoop overhead.

This is the subterranean home of the closest known virus on Earth to the one that causes Covid-19. It is also now a touchpoint for escalating calls for a more thorough probe into whether the pandemic could have stemmed from a Chinese laboratory.

In April 2012, six miners here fell sick with a mysterious illness after entering the mine to clear bat guano. Three of them died.

Chinese scientists from the Wuhan Institute of Virology were called in to investigate and, after taking samples from bats in the mine, identified several new coronaviruses.

Now, unanswered questions about the miners’ illness, the viruses found at the site and the research done with them have elevated (p. A12) into the mainstream an idea once dismissed as a conspiracy theory: that SARS-CoV-2, the virus that causes Covid-19, might have leaked from a lab in Wuhan, the city where the first cases were found in December 2019. Continue reading “Mainstream Elevates Wuhan Lab COVID-19 Origin That They “Once Dismissed as a Conspiracy Theory””