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This 5,000-year-old man had the earliest known strain of plague

The oldest strain of Yersinia pestis — the bacteria behind the plague that caused the Black Death, which may have killed as much as half of Europe’s population in the 1300s — has been found in the remains of a 5,000-year-old hunter-gatherer. A genetic analysis publishing June 29 in the journal Cell Reports reveals that this ancient strain was likely less contagious and not as deadly as its medieval version.
“What’s most astonishing is that we can push back the appearance of Y. pestis 2,000 years farther than previously published studies suggested,” says senior author Ben Krause-Kyora, head of the aDNA Laboratory at the University of Kiel in Germany. “It seems that we are really close to the origin of the bacteria.”
The plague-carrying hunter-gatherer was a 20- to 30-year old man called “RV 2039.” He was one of two people whose skeletons were excavated in the late 1800s in a region called Rinnukalns in present-day Latvia. Soon after, the remains of both vanished until 2011, when they reappeared as part of German anthropologist Rudolph Virchow’s collection. After this re-discovery, two more burials were uncovered from the site for a total of four specimens, likely from the same group of hunter-fisher-gatherers.
Krause-Kyora and his team used samples from the teeth and bone of all four hunter-gatherers to sequence their genomes and then tested them for bacterial and viral pathogens. They were surprised to find evidence of Y. pestis in RV 2039 — and after reconstructing the bacteria’s genome and comparing it to other ancient strains, the researchers determined that the Y. pestis RV 2039 carried was indeed the oldest strain ever discovered. It was likely part of a lineage that emerged about 7,000 years ago, only a few hundred years after Y. pestis split from its predecessor, Yersinia pseudotuberculosis.
“What’s so surprising is that we see already in this early strain more or less the complete genetic set of Y. pestis, and only a few genes are lacking. But even a small shift in genetic settings can have a dramatic influence on virulence,” says Krause-Kyora.
In particular, this ancient strain lacked one crucial thing: the gene that first let fleas act as vectors to spread the plague. This gene was responsible for efficient transmission of the bacterium to human hosts, which resulted in the growth of the infamously grotesque pus-filled buboes in the sick associated with the medieval bubonic plague. Flea-based transmission also required the death of the human host, which means that the appearance of the gene could have driven the evolution of a deadlier disease.
From RV 2039, it likely took more than a thousand years for Y. pestis to acquire all the mutations needed for flea-based transmission. And it’s not clear to what extent RV 2039 experienced the effects of the plague at all.
Y. pestis was found in his bloodstream, meaning he most likely died from the bacterial infection — although, the researchers think the course of the disease might have been fairly slow. They observed that he had a high number of bacteria in his bloodstream at his time of death, and in previous rodent studies, a high bacterial load of Y. pestis has been associated with less aggressive infections. Additionally, the people he was buried near were not infected and RV 2039 was carefully buried in his grave, which the authors say also makes a highly contagious respiratory version of the plague less likely.
Instead, this 5,000-year-old strain likely was transmitted directly via a bite from an infected rodent and probably didn’t spread beyond the infected person. “Isolated cases of transmission from animals to people could explain the different social environments where these ancient diseased humans are discovered. We see it in societies that are herders in the steppe, hunter-gatherers who are fishing, and in farmer communities — totally different social settings but always spontaneous occurrence of Y. pestis cases,” says Krause-Kyora.
These conclusions — that the early form of Y. pestis likely was a slow-moving disease and wasn’t very transmissible — challenge many theories about the development of human civilization in Europe and Asia. For example, some historians have suggested that infectious diseases like Y. pestis evolved mostly in megacities of over 10,000 people near the Black Sea. However, 5,000 years ago — the age of RV 2039’s strain — was long before the formation of large cities. Instead, agriculture was just beginning to appear in Central Europe, and populations were much sparser.
This timeline, plus the less contagious and deadly nature of this early Y. pestis strain, also contradicts the hypothesis that Y. pestis led to the large population declines in Western Europe at the end of the Neolithic Age.
The authors say that examining the history of Y. pestis could also potentially shed light on human genomic history. “Different pathogens and the human genome have always evolved together. We know Y. pestis most likely killed half of the European population in a short time frame, so it should have a big impact on the human genome,” says Krause-Kyora. “But even before that, we see major turnover in our immune genes at the end of the Neolithic Age, and it could be that we were seeing a significant change in the pathogen landscape at that time as well.”
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Increased use of household fireworks creates a public health hazard

Fireworks are synonymous in the United States with the celebration of Independence Day and other special events, but the colorful displays have caused a growing risk to public safety in recent years, according to a study by environmental health researchers at the University of California, Irvine.
Relying on real-time air quality measurements crowdsourced from a network of more than 750 automated sensors distributed throughout California, scientists from UCI’s Program in Public Health found that short-term, extremely high-particulate-matter air pollution from the widespread use of fireworks spiked during the periods of late June through early July in 2019 and 2020.
The increase was most pronounced in Southern California counties where fireworks regulations are less strict than in northern parts of the state and where the illegal use of do-it-yourself pyrotechnics is also more prevalent. This and other findings are the subject of a study published recently in the International Journal of Environmental Research and Public Health.
“You may have seen discussions on social media lately about people worrying for their pets on nights when the skies are filled with exploding fireworks, but we’ve found that there is a real threat to human well-being too,” said co-author Jun Wu, UCI professor of public health. “And like many other environmental justice issues, we find the worst impacts among residents of low-income communities.”
Aerial explosions cause the release of fine particles less than 2.5 micrometers in diameter. Airborne particulate matter of this size is hazardous because when inhaled, it can be absorbed by the lungs and passed to other tissues inside the body. Fireworks get their distinct colors from compounds containing barium, copper, magnesium, potassium and strontium. As rockets burst in the sky, they release these chemicals, trace redox-active metals and water-soluble ions, which inevitably fall on those below.
“These fine particles are known to cause a wide range of adverse health effects, including premature mortality, respiratory and cardiovascular diseases, adverse pregnancy outcomes, and neurological diseases,” Wu said.
The UCI team used data accumulated via a statewide network of PurpleAir sensors, low-cost devices deployed in households. Utilizing this method, the researchers built a high-resolution map tracking levels of airborne particulate matter less than 2.5 micrometers in diameter before, during and after Fourth of July fireworks during the study period.
“The PurpleAir network includes sensors that monitor air continuously, which offers advantages over the traditional monitoring installations that are often positioned away from residential areas and take intermittent measurements that may miss peak days such as the Fourth of July,” said lead author Amirhosein Mousavi, a postdoctoral scholar in UCI’s Program in Public Health. “By taking data from a large, distributed sensor network that’s always collecting data in neighborhoods where people from various socioeconomic profiles live, we were able to get a much clearer characterization of the health risks posed by do-it-yourself fireworks.”
The team found that among all 58 California counties, Los Angeles County experienced the highest daily PM2.5 levels around the Fourth of July holiday in both 2019 and 2020. They believe this was the result of larger numbers of individuals shooting off their own rockets in neighborhoods where they lived, as well as the nature of L.A.’s topography, which has long been known to facilitate the buildup of air pollution.
In addition, researchers believe they detected a COVID-19 effect in their data. PM2.5 concentrations on July 4 and 5 in 2020 were, on average, 50 percent higher than in 2019, likely due to the increased use of household-level fireworks during the pandemic lockdowns.
The team also learned that peak fireworks pollution was two times higher in communities with lower socioeconomic status, larger minority-group populations and higher asthma rates.
“This work highlights the important role that policy and enforcement can play in reducing fireworks-related air pollution and protecting public health,” Wu said. “As there is a patchwork of different restrictions and regulations regarding fireworks in our state, it’s clear that a more coordinated approach would help people breathe easier during times of celebration.”
Paving the way to artificial photosynthesis — effect of doping on the photocatalyst SrTiO3

For many years, researchers have been focused on developing technologies that can help us fight the imminent climate change crisis. They have one goal in common: finding sustainable energy sources that can replace the environmentally toxic fossil fuels. “Photocatalysts” that drive an artificial process that replicates photosynthesis (in which solar energy is converted to useful materials) are promising in this regard, given that we are able to develop the technology needed for them. Crystalline materials, such as strontium titanate (SrTiO3), which can serve as “photocatalysts” in solar devices, can lead us in the direction.
SrTiO3 is attractive owing to various other reasons too, such as its potential applications in resistive switches and fuel cell components. The versatile nature of SrTiO3 has motivated physicists to study its various materials properties in detail. But to dig deeper into the properties of SrTiO3, we need to understand a little more about them.
Photocatalytic materials such as SrTiO3 are usually “doped” with chemicals like niobium (Nb) that help to improve their electrical properties. But a process called “charge recombination” can occur in photocatalysts, which hampers with their efficiency. In this process, mobile charge carriers present in the material, such as “electrons” and “holes,” when exposed to light, can annihilate each other. Some studies have shown that charge recombination is affected by the presence of defects in crystals. So how does Nb doping affect the material properties of SrTiO3? This is exactly what a team of researchers at Nagoya Institute of Technology, Japan, led by Prof. Masashi Kato, wanted to find out.
In their study published in Journal of Physics D: Applied Physics, the researchers looked at the effects of low-concentration Nb doping, as well as no doping, on the surface recombination in SrTiO3 crystals. Prof. Kato explains, “Quantitatively measuring the effects of surfaces and niobium impurities in SrTiO3 on carrier recombination can help us design photocatalysts with an optimal structure for artificial photosynthesis.”
The scientists first analyzed the surface recombination, or “decay,” patterns of undoped SrTiO3 samples as well as those doped with different concentrations of Nb, using a technique called “microwave photoconductivity decay.” To further probe into the bulk carrier recombination properties of doped samples and different energy levels introduced by Nb doping, another technique called “time-resolved photoluminescence” was used.
The researchers found that the recombination of excited carriers was not dependent on their concentration, indicating that they recombined via “surface”” and “Shockley-Read-Hall” processes (which are insensitive to exciting carrier concentration). Moreover, the doped sample showed faster decay curves, which could be due to the introduction of a recombination center by Nb doping. Doping the material with high concentrations of Nb showed negative effects on carrier doping. Moreover, the size of the photocatalyst, and not its shape, influenced surface recombination and ultimately its overall efficiency.
The study concluded that moderately Nb-doped SrTiO3 could actually be more beneficial than pure SrTiO3, especially when operated at higher operating temperatures. These findings can help us design SrTiO3 photocatalysts with a lower surface recombination and higher energy conversion, leading to the development of efficient, sustainable sources of energy.
Prof. Kato optimistically concludes, “We are confident that our findings can accelerate the development of artificial photosynthesis technologies, ultimately contributing towards a greener, more sustainable society.”
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New study sheds light on evolution of photosynthesis

A Rutgers-led study sheds new light on the evolution of photosynthesis in plants and algae, which could help to improve crop production.
The paper appears in the journal New Phytologist.
The scientists reviewed research on the photosynthetic amoeba Paulinella, which is a model to explore a fundamental question about eukaryote evolution: why was there a single origin of algae and plants? That is, why did photosynthesis by primary plastid endosymbiosis not originate multiple times in the tree of life?
Photosynthesis is the process by which plants and other organisms use sunlight to synthesize foods from carbon dioxide and water, which generates oxygen as a byproduct.
Endosymbiosis is a relationship between two organisms wherein one cell resides inside the other. This interaction, when stable and beneficial for the “host” cell, can result in massive genetic innovation. Despite its critical evolutionary role, there is limited knowledge about how endosymbiosis is initially established.
Primary plastid endosymbiosis, which evolved about 1.5 billion years ago, is the process in which a eukaryote — which are organisms such as plants and algae whose cells have a membrane-bound nucleus and tiny organs called organelles — engulfs a prokaryote, which are organisms such as bacteria that lack a membrane-enclosed nucleus. The plastid is a membrane-bound organelle within the cells of plants and algae.
“It turns out that photosynthesis results in enormous risks because it produces harmful chemicals and heat as byproducts that can damage the host cell,” said senior author Debashish Bhattacharya, a Distinguished Professor in the Department of Biochemistry and Microbiology at Rutgers University-New Brunswick. “Therefore, creating a novel organelle is a highly complex process that makes it fleetingly rare in evolution. Paulinella, which is the only known case of an independent plastid primary endosymbiosis other than in algae and plants, offers many clues to this process that helps explain why it is so rare.”
The origin of photosynthesis in algae and plants changed our planet by providing a major source of oxygen and supporting many ecosystems, due to their primary production, of fixed carbon (sugars and lipids). Understanding how this critical process happened will help us potentially engineer it in synthetic systems as well as to improve crop production.
“Because Paulinella is an independent origin of photosynthesis, it provides key clues to how this process occurs and what costs it imposes on the host cell,” said lead author Timothy G. Stephens, a postdoctoral researcher at Rutgers. “The genome of Paulinella contains many independently evolved genes involved in photosynthesis and dealing with the associated stresses that can potentially be engineered in algae and plants could help to improve their ability to withstand stresses such as high light levels or salt stress.”
The study included researchers from the Carnegie Institution.
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Pop-up coffee table — no assembly required

Deployable structures — objects that transition from a compact state to an expanded one — are used everywhere from backyards to Mars. But as anyone who has ever struggled to open an uncooperative folding chair knows, transforming two-dimensional forms into three-dimensional structures is sometimes a challenge.
Now, researchers from the Harvard John A. Paulson School of Engineering and Applied Sciences (SEAS) and the Harvard Graduate School of Design have developed a deployable system that is light, compact, inexpensive, easy to manufacture, and, most importantly, easy to deploy. By harnessing the mechanical instabilities in curved beams, the system can transform objects into elaborate and customizable 3D configurations on a range of scales, from large-scale furniture to small medical devices.
“Most buckling-induced deployable structures, like folding chairs, are activated by compressive forces that are created through the linear displacement of elements,” said Saurabh Mhatre, a research associate at GSD and first author of the paper. “Our approach is different in that the compression force is generated through a rotational movement, which in turn induces buckling as the trigger for the 2D-to-3D transformation.”
The interdisciplinary research team of designers and engineers used a combination of experiments and numerical analyses to understand the geometry of curved, slender beams and what happens when those beams rotate and buckle. By harnessing buckling — a normally undesirable phenomenon in design and engineering — the researchers were able to design deployable structures with a simple rotational motion.
To demonstrate the system, the team built a lampshade that can be rotated to let in more or less light and a coffee table that can fold flat and pop-up in one simple motion.
“This new platform can be extended to realize functional structures and devices from the millimeter to meter scale using a variety of different materials,” said Katia Bertoldi, the William and Ami Kuan Danoff Professor of Applied Mechanics at SEAS and senior author of the study. “These structures could be used as medical devices, optical devices like camera focusing mechanisms, deployable wheels and turbines, furniture, or deployable shelters.”
The research was published recently in Advanced Materials. It was co-authored by Elisa Boatti, David Melancon, Ahmad Zareei, Maxime Dupont and Martin Bechthold. It was supported in part by the National Science Foundation through the Harvard University Materials Research Science and Engineering Center under grants DMR2011754 and DMR-1922321.
