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Category: chemistry

Watching atoms roam before they decay

Together with an international team, researchers from the Molecular Physics Department at the Fritz Haber Institute have revealed how atoms rearrange themselves before releasing low-energy electrons in a decay process initiated by X-ray irradiation. For the first time, they have gained detailed insights into the timing of the process—shedding light on related radiation damage mechanisms. Their research is published in the Journal of the American Chemical Society.

High-energy radiation, for example in the X-ray range, can cause damage to our cells. This is because energetic radiation can excite atoms and molecules, which then often decay—meaning that biomolecules are destroyed and larger biological units can lose their function. There is a wide variety of such decay processes, and studying them is of great interest in order to better understand and avert radiation damage.

In the study, researchers from the Molecular Physics Department, together with international partners, investigated a radiation-induced decay process that plays a key role in radiation chemistry and biological damage processes: electron-transfer-mediated decay (ETMD). In this process, one atom is excited by irradiation. Afterward, this atom relaxes by stealing an electron from a neighbor, while the released energy ionizes yet another nearby atom.

Recently, variable length dystrophin constructs have been characterized in models of Duchenne muscular dystrophy (DMD)

Here, Hichem Tasfaout & team describe a new method for using proteomics to evaluate the efficacy of three dystrophin-replacement approaches using AAV vectors.

1Department of Biochemistry, Molecular Biology and Biophysics, University of Minnesota — Twin Cities, Minneapolis, Minnesota, USA.

2Department of Neurology.

3Senator Paul D. Wellstone Muscular Dystrophy Specialized Research Center, and.

4Department of Biochemistry, University of Washington School of Medicine, Seattle, Washington, USA.

Enzyme as Maxwell’s Demon: Steady-State Deviation from Chemical Equilibrium by Enhanced Enzyme Diffusion

NoteL This is elegant theoretical physics showing an intriguing possibility, not a confirmed biological mechanism. It’s a “what if” scenario that could change how we view enzymes, but only if the controversial premise (EED) turns out to be real.

Enhanced enzyme diffusion (EED), in which the diffusion coefficient of an enzyme transiently increases during catalysis, has been extensively reported experimentally, although its existence remains under debate. In this Letter, we investigate what macroscopic consequences would arise if EED exists. Through numerical simulations and theoretical analysis, we demonstrate that such enzymes can act as Maxwell’s demons: They use their enhanced diffusion as a memory of the previous catalytic reaction, to gain information and drive steady-state chemical concentrations away from chemical equilibrium. Our theoretical analysis identifies the conditions under which this process could operate and discusses its possible biological relevance.

Scientists just overturned a 100-year-old rule of chemistry, and the results are “impossible”

Chemists at UCLA are showing that some of organic chemistry’s most famous “rules” aren’t as unbreakable as once thought. By creating bizarre, cage-shaped molecules with warped double bonds—structures long considered impossible—the team is opening the door to entirely new kinds of chemistry.

Off-the-shelf kitchen chemistry could make Li–S batteries thinner

Demand is booming for batteries that are faster, thinner and cheaper. We want electric cars and bikes that travel further, devices that last longer, charge quicker and cost less. Today, lithium-ion batteries (LIBs) set the benchmark. But after decades of research, this technology is approaching its limits, and each new gain is harder to achieve.

Lithium–sulfur (Li–S) batteries are a promising next-generation technology. They store far more energy than LIBs by weight and are made from cheap, readily available materials.

But here’s the catch. Current Li–S batteries take up around 1.5 to 2.0 times more space than LIBs. In other words, their volumetric capacities are much lower. That’s a serious bottleneck because in many real-world applications, space matters more than weight. From portable electronics, electric vehicles to aerospace systems, every inch of space matters.

Biology-based brain model matches animals in learning, enables new discovery

A new computational model of the brain based closely on its biology and physiology not only learned a simple visual category learning task exactly as well as lab animals, but even enabled the discovery of counterintuitive activity by a group of neurons that researchers working with animals to perform the same task had not noticed in their data before, says a team of scientists at Dartmouth College, MIT, and the State University of New York at Stony Brook.

Notably, the model produced these achievements without ever being trained on any data from animal experiments. Instead, it was built from scratch to faithfully represent how neurons connect into circuits and then communicate electrically and chemically across broader brain regions to produce cognition and behavior. Then, when the research team asked the model to perform the same task that they had previously performed with the animals (looking at patterns of dots and deciding which of two broader categories they fit), it produced highly similar neural activity and behavioral results, acquiring the skill with almost exactly the same erratic progress.

“It’s just producing new simulated plots of brain activity that then only afterward are being compared to the lab animals. The fact that they match up as strikingly as they do is kind of shocking,” says Richard Granger, a professor of psychological and brain sciences at Dartmouth and senior author of a new study in Nature Communications that describes the model.

Neutrophil extracellular trapping network-associated biomarkers in liver fibrosis: machine learning and experimental validation

The diagnostic and therapeutic potential of neutrophil extracellular traps (NETs) in liver fibrosis (LF) has not been fully explored. We aim to screen and verify NETs-related liver fibrosis biomarkers through machine learning.

In order to obtain NETs-related differentially expressed genes (NETs-DEGs), differential analysis and WGCNA analysis were performed on the GEO dataset (GSE84044, GSE49541) and the NETs dataset. Enrichment analysis and protein interaction analysis were used to reveal the candidate genes and potential mechanisms of NETs-related liver fibrosis. Biomarkers were screened using SVM-RFE and Boruta machine learning algorithms, followed by immune infiltration analysis. A multi-stage model of fibrosis in mice was constructed, and neutrophil infiltration, NETs accumulation and NETs-related biomarkers were characterized by immunohistochemistry, immunofluorescence, flow cytometry and qPCR. Finally, the molecular regulatory network and potential drugs of biomarkers were predicted.

A total of 166 NETs-DEGs were identified. Through enrichment analysis, these genes were mainly enriched in chemokine signaling pathway and cytokine-cytokine receptor interaction pathway. Machine learning screened CCL2 as a NETs-related liver fibrosis biomarker, involved in ribosome-related processes, cell cycle regulation and allograft rejection pathways. Immune infiltration analysis showed that there were significant differences in 22 immune cell subtypes between fibrotic samples and healthy samples, including neutrophils mainly related to NETs production. The results of in vivo experiments showed that neutrophil infiltration, NETs accumulation and CCL2 level were up-regulated during fibrosis. A total of 5 miRNAs, 2 lncRNAs, 20 function-related genes and 6 potential drugs were identified based on CCL2.

Eco-Friendly Agrochemicals: Embracing Green Nanotechnology

In the pursuit of sustainable agricultural practices, researchers are increasingly turning to innovative approaches that blend technology and environmental consciousness. A recent study led by M.R. Salvadori, published in Discover Agriculture, delves into the promising world of green nanotechnology in agrochemicals. This research investigates how nanoscale materials can enhance the effectiveness of agrochemicals while minimizing their environmental footprint. The findings suggest that this novel approach may revolutionize crop protection and nutrient delivery systems.

Nanotechnology involves manipulating materials at the nanoscale, typically between 1 and 100 nanometers. At this scale, materials exhibit unique properties that differ significantly from their bulk counterparts. These properties can be harnessed to improve the delivery and efficacy of agrochemicals. For instance, nanosized fertilizers can increase the availability of nutrients to plants, enhancing growth and reducing waste. This targeted approach is essential in combating soil nutrient depletion and ensuring food security in an era of burgeoning global population.

Traditional agrochemicals often come with the burden of negative environmental impacts, including soil and water contamination. The introduction of green nanotechnology aims to address these concerns by developing more biodegradable and environmentally friendly agrochemicals. By using nanomaterials derived from natural sources, researchers hope to create a symbiotic relationship between agricultural practices and ecological health. This paradigm shift could pave the way for a new era of environmentally responsible farming.

Greener method recovers critical metals from spent batteries

Researchers have developed a breakthrough method to recover high-purity nickel, cobalt, manganese and lithium from spent lithium-ion batteries using a mild, sustainable solvent.

The process, detailed in the journal Sustainable Materials and Technologies, offers a safer and more environmentally friendly alternative to traditional high-temperature or chemical-intensive recycling methods.

Globally, around 500,000 metric tons of spent lithium-ion batteries (LIBs) have already accumulated, and about 10% of spent batteries are fully recycled in Australia.

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