Science
Did failure to adequately treat HIV patients give rise to the Omicron variant?
The Omicron variant, now current in at the very least 23 international locations all over the world, was in all probability incubated within the physique of an individual with an immune system battered by HIV or one other immune-compromising situation that may trigger a chronic coronavirus an infection, in line with the South African scientist who detected the fast-spreading genetic mutant.
Tulio De Oliveira mentioned the emergence of Omicron in a affected person unable to clear the virus rapidly was “probably the most believable” origin story for the world’s latest variant of concern.
There’s good motive to suppose so.
Researchers in america and Europe have seen coronaviruses with scary mutations come up in COVID-19 sufferers whose pure defenses have been suppressed by medicine to battle most cancers, handle autoimmune issues like rheumatoid arthritis, or maintain transplanted organs from being rejected.
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De Oliveira has been warning for months that the individuals principally more likely to spawn such mutations in sub-Saharan Africa are the roughly 8 million with unrecognized or poorly handled HIV. Largely younger, unvaccinated and with debilitated immune methods, these individuals might “turn out to be a manufacturing unit of variants for the entire world,” he mentioned.
In June, his workforce chronicled the emergence of greater than 30 genetic adjustments in SARS-CoV-2 specimens taken from a single South African girl with superior uncontrolled HIV. The mutations they noticed — together with a number of that might erode vaccine safety and enhance illness transmission — appeared over a interval of six months.
Now De Oliveira worries {that a} comparable situation might need given rise to Omicron. Final week, he alerted the World Well being Group that his workforce had detected a variant with dozens of recent mutations that was circulating in Gauteng, South Africa’s most densely populated province, and in neighboring Botswana. The samples the scientists studied had been collected between Nov. 12 and Nov. 20.
Greater than 30 of the mutations they noticed had been within the code for the essential spike protein of the virus — the important thing that picks the lock to human cells and initiates an an infection. Lots of the adjustments had been acquainted to De Oliveira from his examine of HIV sufferers with extended coronavirus infections.
The Omicron variant seems to have performed a key function in driving the dramatic rise in new instances amongst college students, most of them younger adults, at Tshwane College of Know-how in Gauteng, mentioned De Oliveira, director of the Centre for Epidemic Response and Innovation at Stellenbosch College.
With Johannesburg at its coronary heart, Gauteng province is the epicenter of South Africa’s HIV epidemic. It’s dwelling to roughly 20% of South Africa’s 7.5 million individuals residing with HIV.
Throughout the nation, 2.2 million individuals are contaminated with HIV that’s undetected, untreated or poorly managed. These sufferers’ immune methods are “fairly closely suppressed,” mentioned Dr. Jonathan Li, a Harvard infectious-diseases specialist who was among the many first to element intensive coronavirus mutations in an immunosuppressed affected person. Beneath assault by HIV, their T cells are usually not offering very important help that the immune system’s B cells must an clear an infection.
“The sheer variety of mutations that arose unexpectedly right here is basically paying homage to what we’ve seen,” Li mentioned. “If I needed to guess, I’d say that is possible how Omicron happened.”
Dr. Bruce Walker, an immunologist and founding director of the Ragon Institute in Cambridge, Mass., warned in opposition to stigmatizing sufferers whose situations might give rise to variants. However Omicron’s emergence from a affected person with extended an infection is a reasonably good guess, he mentioned.
“We all know that within the setting of extreme immune compromise, the virus can keep in somebody’s physique for a very long time, and the longer it may make copies of itself, the virus could make errors and may escape from what’s left of such a affected person’s immune system,” Walker mentioned.
A brand new variant will bear no telltale signature of how or the place it got here into existence, he added. However “statistically talking, there are a selection of causes of immune suppression. And in southern Africa, one of many main causes is HIV.”
In an essay printed in Thursday’s version of the journal Nature, De Oliveira and three South African colleagues warned that “Africa is being utterly left behind,” as COVID-19 vaccines, medicines and testing provides are hoarded by the world’s prosperous international locations. If these international locations fail to assist African international locations management each HIV and COVID-19, the scientists wrote, it is going to undermine their efforts to extinguish the pandemic worldwide.
Whereas almost 40% of the worldwide inhabitants has been totally vaccinated in opposition to COVID-19, the speed for Africa is lower than 7%, the scientists wrote. In South Africa, 24% of the general public has been totally vaccinated, in line with Our World in Knowledge.
To complicate issues, the continent’s fitful progress in securing vaccines has prompted public well being officers to focus first on aged sufferers. The result’s that just about all of Africa’s younger adults stay unvaccinated. And since 80% of these with HIV throughout the continent are beneath 50 years outdated, vanishingly few sufferers who’re prone to harboring a chronic coronavirus an infection have been vaccinated.
In an interview this week, De Oliveira mentioned there may very well be different explanations for the sudden emergence of a variant with so many mutations.
It’s potential Omicron has been circulating for months some other place, steadily accumulating genetic adjustments. (It was current within the Netherlands by Nov. 19, almost every week earlier than De Oliveira’s announcement.) If the variant matured in international locations the place genetic sequencing is uncommon or absent, it might need flown beneath the radar till it arrived in South Africa — the continent’s genetic sequencing powerhouse — already laden with mutations, he mentioned.
Walker, who known as the detection of Omicron “a completely world-class efficiency” by the South African scientists, mentioned that wherever it got here from, the world can not afford to permit the pandemic to rage unchecked on any continent.
“It’s within the nature of the virus to mutate,” he mentioned. “It’s not like, if there have been no HIV an infection, we wouldn’t have to fret about this.”
Science
FDA sets limits for lead in many baby foods as California disclosure law takes effect
The U.S. Food and Drug Administration this week set maximum levels for lead in baby foods such as jarred fruits and vegetables, yogurts and dry cereal, part of an effort to cut young kids’ exposure to the toxic metal that causes developmental and neurological problems.
The agency issued final guidance that it estimated could reduce lead exposure from processed baby foods by about 20% to 30%. The limits are voluntary, not mandatory, for food manufacturers, but they allow the FDA to take enforcement action if foods exceed the levels.
It’s part of the FDA’s ongoing effort to “reduce dietary exposure to contaminants, including lead, in foods to as low as possible over time, while maintaining access to nutritious foods,” the agency said in a statement.
Consumer advocates, who have long sought limits on lead in children’s foods, welcomed the guidance first proposed two years ago, but said it didn’t go far enough.
“FDA’s actions today are a step forward and will help protect children,” said Thomas Galligan, a scientist with the Center for Science in the Public Interest. “However, the agency took too long to act and ignored important public input that could have strengthened these standards.”
The new limits on lead for children younger than 2 don’t cover grain-based snacks such as puffs and teething biscuits, which some research has shown contain higher levels of lead. And they don’t limit other metals such as cadmium that have been detected in baby foods.
The FDA’s announcement comes just one week after a new California law took effect that requires baby food makers selling products in California to provide a QR code on their packaging to take consumers to monthly test results for the presence in their product of four heavy metals: lead, mercury, arsenic and cadmium.
The change, required under a law passed by the California Legislature in 2023, will affect consumers nationwide. Because companies are unlikely to create separate packaging for the California market, QR codes are likely to appear on products sold across the country, and consumers everywhere will be able to view the heavy metal concentrations.
Although companies are required to start printing new packaging and publishing test results of products manufactured beginning in January, it may take time for the products to hit grocery shelves.
The law was inspired by a 2021 congressional investigation that found dangerously high levels of heavy metals in packaged foods marketed for babies and toddlers. Baby foods and their ingredients had up to 91 times the arsenic level, up to 177 times the lead level, up to 69 times the cadmium level, and up to five times the mercury level that the U.S. allows to be present in bottled or drinking water, the investigation found.
There’s no safe level of lead exposure for children, according to the U.S. Centers for Disease Control and Prevention. The metal causes “well-documented health effects,” including brain and nervous system damage and slowed growth and development. However, lead occurs naturally in some foods and comes from pollutants in air, water and soil, which can make it impossible to eliminate entirely.
The FDA guidance sets a lead limit of 10 parts per billion for fruits, most vegetables, grain and meat mixtures, yogurts, custards and puddings and single-ingredient meats. It sets a limit of 20 parts per billion for single-ingredient root vegetables and for dry infant cereals. The guidance covers packaged processed foods sold in jars, pouches, tubs or boxes.
Jaclyn Bowen, executive director of the Clean Label Project, an organization that certifies baby foods as having low levels of toxic substances, said consumers can use the new FDA guidance in tandem with the new California law: The FDA, she said, has provided parents a “hard and fast number” to consider a benchmark when looking at the new monthly test results.
But Brian Ronholm, director of food policy for Consumer Reports, called the FDA limits “virtually meaningless because they’re based more on industry feasibility and not on what would best protect public health.” A product with a lead level of 10 parts per billion is “still too high for baby food. What we’ve heard from a lot of these manufacturers is they are testing well below that number.”
The new FDA guidance comes more than a year after lead-tainted pouches of apple cinnamon puree sickened more than 560 children in the U.S. between October 2023 and April 2024, according to the CDC.
The levels of lead detected in those products were more than 2,000 times higher than the FDA’s maximum. Officials stressed that the agency doesn’t need guidance to take action on foods that violate the law.
Aleccia writes for the Associated Press. Gold reports for The Times’ early childhood education initiative, focusing on the learning and development of California children from birth to age 5. For more information about the initiative and its philanthropic funders, go to latimes.com/earlyed.
Science
NASA punts Mars Sample Return decision to the next administration
Anyone hoping for a clear path forward this year for NASA’s imperiled Mars Sample Return mission will have to wait a little longer.
The agency has settled on two potential strategies for the first effort to bring rock and soil from another planet back to Earth for study, NASA Administrator Bill Nelson said Tuesday: It can either leverage existing technology into a simpler, cheaper craft or turn to a commercial partner for a new design.
But the final decision on the mission’s structure — or whether it should proceed at all — “is going to be a function of the new administration,” Nelson said. President-elect Donald Trump will take office Jan. 20.
“I don’t think we want the only [Mars] sample return coming back on a Chinese spacecraft,” Nelson said, referencing a rival mission that Beijing has in the works. “I think that the [Trump] administration will certainly conclude that they want to proceed. So what we wanted to do was to give them the best possible options so that they can go from there.”
The call also contained words of encouragement for NASA’s Jet Propulsion Laboratory in La Cañada Flintridge, which leads the embattled mission’s engineering efforts.
“To put it really bluntly, JPL is our Mars center in NASA science,” said Nicky Fox, associate administrator of the Science Mission Directorate. “They are the people who landed us on Mars, together with our industry partners. So they will be moving forward, regardless of which path, with a key role in the Mars Sample Return.”
In April, after an independent review found “near zero probability” of Mars Sample Return making its proposed 2028 launch date, NASA put out a request for alternative proposals to all of its centers and the private sector. JPL was forced to compete for what had been its own project.
The independent review board determined that the original design would probably cost up to $11 billion and not return samples to Earth until at least 2040.
“That was just simply unacceptable,” said Nelson, who paused the mission in late 2023 to review its chances of success.
Ensuing cuts to the mission’s budget forced a series of layoffs at JPL, which let go of 855 employees and 100 on-site contractors in 2024.
The NASA-led option that Nelson suggested Tuesday includes several elements from the JPL proposal, according to a person who reviewed the documents. This leaner, simpler alternative will cost between $6.6 billion and $7.7 billion, and will return the samples by 2039, he said. A commercial alternative would probably cost $5.8 billion to $7.1 billion.
Nelson, a former Democratic U.S. senator from Florida, will step down as head of the space agency when Trump takes office. Trump has nominated as his successor Jared Isaacman, a tech billionaire who performed the first private space walk, who must be confirmed by the Senate.
NASA has not had any conversations with Trump’s transition team about Mars Sample Return, Nelson said. How the new administration will prioritize the project is not yet clear.
“It’s very uncertain how the new administration will go forward,” said Casey Dreier, chief of space policy for the Planetary Society, a Pasadena nonprofit that promotes space research. “Cancellation is obviously still on the table. … It’s hard to game this out.”
Planetary scientists have identified Mars Sample Return as their field’s highest priority in the last three decadal surveys, reports that the National Academies of Sciences, Engineering, and Medicine prepare every 10 years in order to advise NASA.
Successfully completing the mission is “key for the nation’s leadership in space science,” said Bethany L. Ehlmann, a planetary scientist at Caltech in Pasadena. “I hope the incoming administrator moves forward decisively to select a plan and execute. There are extraordinary engineers at JPL and NASA industry partners eager and able to get to work to make it happen.”
Science
Panama Canal’s Expansion Opened Routes for Fish to Relocate
Night fell as the two scientists got to work, unfurling long nets off the end of their boat. The jungle struck up its evening symphony: the sweet chittering of insects, the distant bellowing of monkeys, the occasional screech of a kite. Crocodiles lounged in the shallows, their eyes glinting when headlamps were shined their way.
Across the water, cargo ships made dark shapes as they slid between the seas.
The Panama Canal has for more than a century connected far-flung peoples and economies, making it an essential artery for global trade — and, in recent weeks, a target of President-elect Donald J. Trump’s expansionist designs.
But of late the canal has been linking something else, too: the immense ecosystems of the Atlantic and the Pacific.
The two oceans have been separated for some three million years, ever since the isthmus of Panama rose out of the water and split them. The canal cut a path through the continent, yet for decades only a handful of marine fish species managed to migrate through the waterway and the freshwater reservoir, Lake Gatún, that feeds its locks.
Then, in 2016, Panama expanded the canal to allow supersize ships, and all that started to change.
In less than a decade, fish from both oceans — snooks, jacks, snappers and more — have almost entirely displaced the freshwater species that were in the canal system before, scientists with the Smithsonian Tropical Research Institute in Panama have found. Fishermen around Lake Gatún who rely on those species, chiefly peacock bass and tilapia, say their catches are growing scarce.
Researchers now worry that more fish could start making their way through from one ocean to the other. And no potential invader causes more concern than the venomous, candy-striped lionfish. They are known to inhabit Panama’s Caribbean coast, but not the eastern Pacific. If they made it there through the canal, they could ravage the defenseless local fish, just as they’ve done in the Gulf of Mexico and the Caribbean.
Already, marine species are more than occasional visitors in Lake Gatún, said Phillip Sanchez, a fisheries ecologist with the Smithsonian. They’re “becoming the dominant community,” he said. They’re “pushing everything else out.”
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