Critically, they’ve shown how the production of these molecules can be efficiently managed so as not to hamper normal plant growth.

Pheromones are complex chemicals produced and released by an organism as a means of communication. They allow members of the same species to send signals, which includes letting others know they’re looking for love.

Farmers can hang pheromone dispersers among their crops to mimic the signals of female insects, trapping or distracting the males from finding a mate. Some of these molecules can be produced by chemical processes but chemical synthesis is often expensive and creates toxic byproducts.

Dr Nicola Patron, who led this new research and heads the Synthetic Biology Group at the Earlham Institute, uses cutting-edge science to get plants to produce these valuable natural products.

Synthetic biology applies engineering principles to the building blocks of life, DNA. By creating genetic modules with the instructions to build new molecules, Dr Patron and her group can turn a plant such as tobacco into a factory that only needs sunlight and water.

“Synthetic biology can allow us to engineer plants to make a lot more of something they already produced, or we can provide the genetic instructions that allow them to build new biological molecules, such as medicines or these pheromones,” said Dr Patron.

In this latest work, the team worked with scientists at the Plant Molecular and Cell Biology Institute in Valencia to engineer a species of tobacco, Nicotiana benthamiana, to produce moth sex pheromones. The same plant has previously been engineered to produce ebola antibodies and even coronavirus-like particles for use in Covid vaccines.

The Group built new sequences of DNA in the lab to mimic the moth genes and introduced a few molecular switches to precisely regulate their expression, which effectively turns the manufacturing process on and off.

An important component of the new research was the ability to fine tune the production of the pheromones, as coercing plants to continuously build these molecules has its drawbacks.

“As we increase the efficiency, too much energy is diverted away from normal growth and development,” explained Dr Patron.

“The plants are producing a lot of pheromone but they’re not able to grow very large, which essentially reduces the capacity of our production line. Our new research provides a way to regulate gene expression with much more subtlety.”

In the lab, the team set about testing and refining the control of genes responsible for producing the mix of specific molecules that mimic the sex pheromones of moth species, including navel orangeworm and cotton bollworm moths.

They showed that copper sulphate could be used to finely tune the activity of the genes, allowing them to control both the timing and level of gene expression. This is particularly important as copper sulphate is a cheap and readily-available compound already approved for use in agriculture.

They were even able to carefully control the production of different pheromone components, allowing them to tweak the cocktail to better suit specific moth species.

“We’ve shown we can control the levels of expression of each gene relative to the others,” said Dr Patron. “This allows us to control the ratio of products that are made.

“Getting that recipe right is particularly important for moth pheromones as they’re often a blend of two or three molecules in specific ratios. Our collaborators in Spain are now extracting the plant-made pheromones and testing them in dispensers to see how well they compare to female moths.”

The team hope their work will pave the way to routinely using plants to produce a wide range of valuable natural products.

“A major advantage of using plants is that it can be far more expensive to build complex molecules using chemical processes,” said Dr Patron. “Plants produce an array of useful molecules already so we’re able to use the latest techniques to adapt and refine the existing machinery.

“In the future, we may see greenhouses full of plant factories — providing a greener, cheaper and more sustainable way to manufacture complex molecules.”

The research is part of the SUSPHIRE project, which received support from ERACoBiotech funded by the Horizon 2020 research and innovation program and the UKRI Biotechnology and Biological Sciences Research Council (BBSRC).

“Cas A represents our best opportunity to look at the debris field of an exploded star and run a kind of stellar autopsy to understand what type of star was there beforehand and how that star exploded,” said Danny Milisavljevic of Purdue University in West Lafayette, Indiana, principal investigator of the Webb program that captured these observations.

“Compared to previous infrared images, we see incredible detail that we haven’t been able to access before,” added Tea Temim of Princeton University in Princeton, New Jersey, a co-investigator on the program.

Cassiopeia A is a prototypical supernova remnant that has been widely studied by a number of ground-based and space-based observatories, including NASA’s Chandra X-ray Observatory. The multi-wavelength observations can be combined to provide scientists with a more comprehensive understanding of the remnant.

Dissecting the Image

The striking colors of the new Cas A image, in which infrared light is translated into visible-light wavelengths, hold a wealth of scientific information the team is just beginning to tease out. On the bubble’s exterior, particularly at the top and left, lie curtains of material appearing orange and red due to emission from warm dust. This marks where ejected material from the exploded star is ramming into surrounding circumstellar gas and dust.

Interior to this outer shell lie mottled filaments of bright pink studded with clumps and knots. This represents material from the star itself, which is shining due to a mix of various heavy elements, such as oxygen, argon, and neon, as well as dust emission.

“We’re still trying to disentangle all these sources of emission,” said Ilse De Looze of Ghent University in Belgium, another co-investigator on the program.

The stellar material can also be seen as fainter wisps near the cavity’s interior.

Perhaps most prominently, a loop represented in green extends across the right side of the central cavity. “We’ve nicknamed it the Green Monster in honor of Fenway Park in Boston. If you look closely, you’ll notice that it’s pockmarked with what look like mini-bubbles,” said Milisavljevic. “The shape and complexity are unexpected and challenging to understand.”

Origins of Cosmic Dust — and Us

Among the science questions that Cas A may help answer is: Where does cosmic dust come from? Observations have found that even very young galaxies in the early universe are suffused with massive quantities of dust. It’s difficult to explain the origins of this dust without invoking supernovae, which spew large quantities of heavy elements (the building blocks of dust) across space.

However, existing observations of supernovae have been unable to conclusively explain the amount of dust we see in those early galaxies. By studying Cas A with Webb, astronomers hope to gain a better understanding of its dust content, which can help inform our understanding of where the building blocks of planets and ourselves are created.

“In Cas A, we can spatially resolve regions that have different gas compositions and look at what types of dust were formed in those regions,” explained Temim.

Supernovae like the one that formed Cas A are crucial for life as we know it. They spread elements like the calcium we find in our bones and the iron in our blood across interstellar space, seeding new generations of stars and planets.

“By understanding the process of exploding stars, we’re reading our own origin story,” said Milisavljevic. “I’m going to spend the rest of my career trying to understand what’s in this data set.”

The Cas A remnant spans about 10 light-years and is located 11,000 light-years away in the constellation Cassiopeia.

The answer: You see how it impacts things that you can see. In the case of dark matter, astronomers watch how light from distant galaxies bends around it.

An international team of astrophysicists and cosmologists have spent the past year teasing out the secrets of this elusive material, using sophisticated computer simulations and the observations from the one of the most powerful astronomical cameras in the world, the Hyper Suprime-Cam (HSC). The team is led by astronomers from Princeton University and the astronomical communities of Japan and Taiwan, using data from the first three years of the HSC sky survey, a wide-field imaging survey carried out with the 8.2-meter Subaru telescope on the summit of Maunakea in Hawai’i. Subaru is operated by the National Astronomical Observatory of Japan; its name is the Japanese word for the cluster of stars we call the Pleiades.

The team presented their findings at a webinar attended by more than 200 people, and they will share their work at the “Future Science with CMB x LSS” conference in Japan.

“Our overall goal is to measure some of the most fundamental properties of our universe,” said Roohi Dalal, a graduate student in astrophysics at Princeton. “We know that dark energy and dark matter make up 95% of our universe, but we understand very little about what they actually are and how they’ve evolved over the history of the universe. Clumps of dark matter distort the light of distant galaxies through weak gravitational lensing, a phenomenon predicted by Einstein’s General Theory of Relativity. This distortion is a really, really small effect; the shape of a single galaxy is distorted by an imperceptible amount. But when we make that measurement for 25 million galaxies, we’re able to measure the distortion with quite high precision.”

To jump to the punchline: The team has measured a value for the “clumpiness” of the universe’s dark matter (known to cosmologists as “S₈“) of 0.776, which aligns with values that other gravitational lensing surveys have found in looking at the relatively recent universe — but it does not align with the value of 0.83 derived from the Cosmic Microwave Background, which dates back to the universe’s origins.

The gap between these two values is small, but as more and more studies confirm each of the two values, it doesn’t appear to be accidental. The other possibilities are that there’s some as-yet unrecognized error or mistake in one of these two measurements or the standard cosmological model is incomplete in some interesting way.

“We’re still being fairly cautious here,” said Michael Strauss, chair of Princeton’s Department of Astrophysical Sciences and one of the leaders of the HSC team. “We’re not saying that we’ve just discovered that modern cosmology is all wrong, because, as Roohi has emphasized, the effect that we’re measuring is a very subtle one. Now, we think we’ve done the measurement right. And the statistics show that there’s only a one in 20 chance that it’s just due to chance, which is compelling but not completely definitive. But as we in the astronomy community come to the same conclusion over multiple experiments, as we keep on doing these measurements, perhaps we’re finding that it’s real.”

Hiding and uncovering the data

The idea that some change is needed in the standard cosmological model, that there is some fundamental piece of cosmology yet to be discovered, is a deliciously enticing one for some scientists.

“We are human beings, and we do have preferences. That’s why we do what we call a ‘blinded’ analysis,” Strauss said. “Scientists have become self-aware enough to know that we will bias ourselves, no matter how careful we are, unless we carry out our analysis without allowing ourselves to know the results until the end. For me, I would love to really find something fundamentally new. That would be truly exciting. But because I am prejudiced in that direction, we want to be very careful not to let that influence any analysis that we do.”

To protect their work from their biases, they quite literally hid their results from themselves and their colleagues — month after month after month.

“I worked on this analysis for a year and didn’t get to see the values that were coming out,” said Dalal.

The team even added an extra obfuscating layer: they ran their analyses on three different galaxy catalogs, one real and two with numerical values offset by random values.

“We didn’t know which of them was real, so even if someone did accidentally see the values, we wouldn’t know if the results were based on the real catalog or not,” she said.

On February 16, the international team gathered together on Zoom — in the evening in Princeton, in the morning in Japan and Taiwan — for the “unblinding.”

“It felt like a ceremony, a ritual, that we went through,” Strauss said. “We unveiled the data, and ran our plots, immediately we saw it was great. Everyone went, ‘Oh, whew!’ and everyone was very happy.”

Dalal and her roommate popped a bottle of champagne that night.

A huge survey with the world’s largest telescope camera

HSC is the largest camera on a telescope of its size in the world, a mantle it will hold until the Vera C. Rubin Observatory currently under construction in the Chilean Andes, begins the Legacy Survey of Space and Time (LSST) in late 2024. In fact, the raw data from HSC is processed with the software designed for LSST. “It is fascinating to see that our software pipelines are able to handle such large quantities of data well ahead of LSST,” said Andrés Plazas, an associate research scholar at Princeton.

The survey that the research team used covers about 420 square degrees of the sky, about the equivalent of 2000 full moons. It’s not a single contiguous chunk of sky, but split among six different pieces, each about the size that you could cover with an outstretched fist. The 25 million galaxies they surveyed are so distant that instead of seeing these galaxies as they are today, the HSC recorded how they were billions of years ago.

Each of these galaxies glows with the fires of tens of billions of suns, but because they are so far away, they are extremely faint, as much as 25 million times fainter than the faintest stars we can see with the naked eye.

“It is extremely exciting to see these results from HSC collaboration, especially as this data is closest to what we expect from Rubin Observatory, which the community is working towards together,” said cosmologist Alexandra Amon, a Senior Kavli Fellow at Cambridge University and a senior researcher at Trinity College, who was not involved in this research. “Their deep survey makes for beautiful data. For me, it is intriguing that HSC, like the other independent weak lensing surveys, point to a low value for S₈ — it’s important validation, and exciting that these tensions and trends force us to pause and think about what that data is telling us about our Universe!”

The standard cosmological model

The standard model of cosmology is “astonishingly simple” in some ways, explained Andrina Nicola of the University of Bonn, who advised Dalal on this project when she was a postdoctoral scholar at Princeton. The model posits that the universe is made up of only four basic constituents: ordinary matter (atoms, mostly hydrogen and helium), dark matter, dark energy and photons.

According to the standard model, the universe has been expanding since the Big Bang 13.8 billion years ago: it started out almost perfectly smooth, but the pull of gravity on the subtle fluctuations in the universe has caused structure — galaxies enveloped in dark matter clumps — to form. In the present-day universe, the relative contributions of ordinary matter, dark matter, dark energy are about 5%, 25% and 70%, plus a tiny contribution from photons.

The standard model is defined by only a handful of numbers: the expansion rate of the universe; a measure of how clumpy the dark matter is (S₈); the relative contributions of the constituents of the universe (the 5%, 25%, 70% numbers above); the overall density of the universe; and a technical quantity describing how the clumpiness of the universe on large scales relates to that on small scales.

“And that’s basically it!” Strauss said. “We, the cosmological community, have converged on this model, which has been in place since the early 2000s.”

Cosmologists are eager to test this model by constraining these numbers in various ways, such as by observing the fluctuations in the Cosmic Microwave Background (which in essence is the universe’s baby picture, capturing how it looked after its first 400,000 years), modeling the expansion history of the universe, measuring the clumpiness of the universe in the relatively recent past, and others.

“We’re confirming a growing sense in the community that there is a real discrepancy between the measurement of clumping in the early universe (measured from the CMB) and that from the era of galaxies, ‘only’ 9 billion years ago,” said Arun Kannawadi, an associate research scholar at Princeton who was involved in the analysis.

Five lines of attack

Dalal’s work does a so-called Fourier-space analysis; a parallel real-space analysis was led by Xiangchong Li of Carnegie Mellon University, who worked in close collaboration with Rachel Mandelbaum, who completed her physics A.B. in 2000 and her Ph.D. in 2006, both from Princeton. A third analysis, a so-called 3×2-point analysis, takes a different approach of measuring the gravitational lensing signal around individual galaxies, to calibrate the amount of dark matter associated with each galaxy. That analysis was led by Sunao Sugiyama of the University of Tokyo, Hironao Miyatake (a former Princeton postdoctoral fellow) of Nagoya University and Surhud More of the Inter-University Centre for Astronomy and Astrophysics in Pune, India.

These five sets of analyses each use the HSC data to come to the same conclusion about S₈.

Doing both the real-space analysis and the Fourier-space analysis “was sort of a sanity check,” said Dalal. She and Li worked closely to coordinate their analyses, using blinded data. Any discrepancies between those two would say that the researchers’ methodology was wrong. “It would tell us less about astrophysics and more about how we might have screwed up,” Dalal said.

“We didn’t know until the unblinding that two results were bang-on identical,” she said. “It felt miraculous.”

Sunao added: “Our 3×2-point analysis combines the weak lensing analysis with the clustering of galaxies. Only after unblinding did we know that our results were in beautiful agreement with those of Roohi and Xiangchong. The fact that all these analyses are giving the same answer gives us confidence that we’re doing something right!”

The Johns Hopkins University team reports for the first time the mechanisms by which a protein known as histone H3 controls when and how worm embryos produce both highly specific cells and pluripotent cells, cells that can turn certain genes on and off to produce varying kinds of body tissue. The details are published today in Science Advances.

The new research could shed light on how mutations associated with these proteins influence various diseases. In children and young adults, for example, histone H3 is closely associated with various cancers.

“These mutations are highly prevalent in different cancers, so understanding their normal role in regulating cell fate and potentially differentiation of tissues may help us understand why some of them are more prevalent in certain diseases,” said lead author Ryan J. Gleason, a postdoctoral fellow in biology at Johns Hopkins. “The histones that we’re looking at are some of the most mutated proteins in cancer and other diseases.”

Histones are the building blocks of chromatin, the structural support of chromosomes within a cell’s nucleus. While histone H3 is particularly abundant in multicellular organisms such as plants and animals, unicellular organisms teem with a nearly identical variant of H3. That’s why scientists think the difference in rations of H3 and its variant hold crucial clues in the mystery of why pluripotent cells are so versatile during early development.

The researchers revealed that as C. elegans roundworm embryos grew, increasing H3 levels in their systems restricted the potential or “plasticity” of their pluripotent cells. When the team changed the worm’s genome to lower the amount of H3, they successfully prolonged the window of time for pluripotency that is normally lost in older embryos.

“As cells differentiate, you start to get a hundredfold histone H3 being expressed at that time period, which coincides with that lineage-specific regulation,” Gleason said. “When you lower the amount of H3 during embryogenesis, we were able to change the normal path of development to adopt alternative paths of cell fate.”

In pluripotent cells, histones help switch certain genes on and off to commit to specific cell types, be they neurons, muscles, or other tissue. Highly regulated by histones, genes act as a voice that tell cells how to develop. How quiet or loud a gene is determines a cell’s fate.

The new findings come from the gene-editing technique CRISPR, which helped the team track the role the two histones played as the worm’s offspring developed. CRISPR has made it much easier for scientists in the last decade to study the nuts and bolts of changing genetic material and spot what that does to animal, plant, and microbe traits, Gleason said.

Even though the C. elegans roundworm gives finer insights into how these pluripotent cells evolve, further research is needed to zero in on how histones might also underpin embryogenesis in humans and animals composed of hundreds of types of cells, said Xin Chen, a Johns Hopkins biology professor and co-investigator.

“Even though we are using this small worm to make these discoveries, really this finding should not be specific to one animal,” Chen said. “It’s hard to imagine the findings are only going to be applicable to one histone or one animal but, of course, more research needs to be done.”

The team includes Yanrui Guo of Johns Hopkins, Christopher S. Semancik of Tufts University, Cindy Ow of University of California, San Francisco, and Gitanjali Lakshminarayanan of Dana-Farber Cancer Institute.

The research is supported by grants NIGMS/NIH F32GM119347, NICHD/NIH K99HD09605, NIGMS/NIH R35GM127075, and a Faculty Scholarship and Investigator program from Howard Hughes Medical Institute.

The intestinal epithelium, made up of a layer of cells that lines the intestine, plays an important role in IBD because it can be easily disrupted during gut inflammation. A specialized type of epithelial cells are Paneth cells. The antimicrobial peptides these cells produce help regulate the gut microbiota, or the community of microorganisms that exist in the gut.

A research team led by Declan F. McCole, a biomedical scientist and IBD expert at the University of California, Riverside, reports in their mouse study that reduced activity of the IBD risk gene PTPN2 in intestinal epithelial cells can lead to a decrease in the production of Paneth cell antimicrobial peptides.

The study, published in the journal Cellular and Molecular Gastroenterology and Hepatology, establishes a critical link between PTPN2 and Paneth cells that plays a major role in maintaining normal gut microbe properties.

“This study develops our focus on improving personalized medicine approaches in IBD by understanding how patients with variants in the PTPN2 gene develop IBD,” said McCole, a professor of biomedical sciences in the School of Medicine. “Loss of PTPN2 can lead also to selective loss of Paneth cells in the intestinal epithelium. This loss of PTPN2 causes significant changes in the gut microbiota and increases a particular E. coli.”

Escherichia coli, or E. coli, are bacteria found in the environment, foods, and intestines of people and animals. McCole explained that the E. coli in question, the adherent-invasive E. coli, or AIEC, is increased in IBD and worsens inflammation. First identified in Crohn’s disease patients, AIEC can adhere to and invade epithelial cells as well as immune cells called macrophages.

“AIEC are the strongest candidate for a causal role for bacteria in IBD,” he said.

According to McCole, Paneth cells do not function properly in many patients living with IBD, and this can serve as a marker of disease. The antimicrobial peptides these cells produce are crucially relevant to the intestine’s protective barrier for regulating the relative proportions of bacteria and their interactions with each other. They also help neighboring intestinal stem cells function better.

“We know that in IBD, Paneth cells are often unable to produce sufficient antimicrobial peptides or respond appropriately to gut bacteria,” McCole said. “These functional defects can also be associated with changes in the structure of Paneth cells that reduce their ability to secrete the protective antimicrobial peptides, leading to increases in the populations of bacteria associated with IBD, such as AIEC. These structural changes in the appearance of Paneth cells can also serve as a marker of disease in IBD, especially Crohn’s disease.”

McCole was joined in the study by Vinicius Canale, Marianne R. Spalinger, Rocio Alvarez, Anica Sayoc-Becerra, Golshid Sanati, Salomon Manz, Pritha Chatterjee, Alina N. Santos, Hillmin Lei, Sharon Jahng, Timothy Chu, and Ali Shawki of UCR; Elaine Hanson and Lars Eckmann of UC San Diego; and André J. Ouellette of the University of Southern California.

The study was supported by the Crohn’s and Colitis Foundation; Swiss National Science Foundation; American Gastroenterological Association; Science Without Borders Program; and California Institute of Regenerative Medicine.

“This work sets the foundation for our new research project that will identify pharmacologic agents capable of rescuing Paneth cell function and reducing the contributions of microbes to intestinal inflammation,” McCole said.

How OH itself forms in the atmosphere was viewed as a complete story, but in new research published in Proceedings of the National Academy of Sciences, a research team that includes Sergey Nizkorodov, a University of California, Irvine professor of chemistry, report that a strong electric field that exists at the surface between airborne water droplets and the surrounding air can create OH by a previously unknown mechanism.

It’s a finding that stands to reshape how scientists understand how the air clears itself of things like human-emitted pollutants and greenhouse gases, which OH can react with and eliminate. “You need OH to oxidize hydrocarbons, otherwise they would build up in the atmosphere indefinitely,” said Nizkorodov.

“OH is a key player in the story of atmospheric chemistry. It initiates the reactions that break down airborne pollutants and helps to remove noxious chemicals such as sulfur dioxide and nitric oxide, which are poisonous gases, from the atmosphere,” said Christian George, an atmospheric chemist at the University of Lyon in France and lead author of the new study. “Thus, having a full understanding of its sources and sinks is key to understanding and mitigating air pollution.”

Before, researchers assumed that sunlight was the chief driver of OH formation.

“The conventional wisdom is that you have to make OH by photochemistry or redox chemistry. You have to have sunlight or metals acting as catalysts,” Nizkorodov said. “What this paper says in essence is you don’t need any of this. In the pure water itself, OH can be created spontaneously by the special conditions on the surface of the droplets.”

The team built on research from Stanford University scientists led by Richard Zare that reported spontaneous formation of hydrogen peroxide on the surfaces of water droplets. The new findings help interpret the unexpected results from the Zare group.

The team measured OH concentrations in different vials — some containing an air-water surface and others containing only water without any air — and tracked OH production in darkness by including a “probe” molecule in the vials that fluoresces when it reacts with OH.

What they saw is that OH production rates in darkness mirror those and even exceed rates from drivers like sunlight exposure. “Enough of OH will be created to compete with other known OH sources,” said Nizkorodov. “At night, when there is no photochemistry, OH is still produced and it is produced at a higher rate than would otherwise happen.”

The findings, Nizkorodov reported, alter understanding of the sources of OH, something that will change how other researchers build computer models that attempt to forecast how air pollution happens.

“It could change air pollution models quite significantly,” Nizkorodov said. “OH is an important oxidant inside water droplets and the main assumption in the models is that OH comes from the air, it’s not produced in the droplet directly.”

To determine whether this new OH production mechanism plays a role, Nizkorodov thinks the next step is to perform carefully designed experiments in the real atmosphere in different parts of the world.

But first, the team expects the results to make a splash in the atmospheric research community.

“A lot of people will read this but will not initially believe it and will either try to reproduce it or try to do experiments to prove it wrong,” said Nizkorodov. “There will be many lab experiments following up on this for sure.”

He added that UCI is a prime place for such science to continue happening, because other labs at UCI, like that of Ann Marie Carlton, professor of chemistry, focus their efforts on the role water droplets play in the atmosphere.

This project, which was funded by the European Research Council, involved researchers from France’s University Claude Bernard, China’s Guangdong University of Technology, and Israel’s Weizmann Institute.