New Algorithm Disentangles Intrinsic Brain Patterns from Sensory Inputs

Image Credit: Omid Sani, Using Generative Ai

Maryam Shanechi, Dean’s Professor of Electrical and Computer Engineering and founding director of the USC Center for Neurotechnology, and her team have developed a new machine learning method that reveals surprisingly consistent intrinsic brain patterns across different subjects by disentangling these patterns from the effect of visual inputs.

The work has been published in the Proceedings of the National Academy of Sciences (PNAS).

When performing various everyday movement behaviors, such as reaching for a book, our brain has to take in information, often in the form of visual input — for example, seeing where the book is. Our brain then has to process this information internally to coordinate the activity of our muscles and perform the movement. But how do millions of neurons in our brain perform such a task? Answering this question requires studying the neurons’ collective activity patterns, but doing so while disentangling the effect of input from the neurons’ intrinsic (aka internal) processes, whether movement-relevant or not.

That’s what Shanechi, her PhD student Parsa Vahidi, and a research associate in her lab, Omid Sani, did by developing a new machine-learning method that models neural activity while considering both movement behavior and sensory input.

Better diagnosis and treatment of cryptococcosis

Photo Credit: Courtesy of University of Cologne

Global guideline for the management of cryptococcosis, a fungal infection that can have serious health consequences, published in the journal ‘The Lancet Infectious Diseases’

A group of international mycology experts led by Professor Dr Oliver A. Cornely at the University of Cologne has jointly drafted a guideline for the diagnosis and treatment of cryptococcosis, which aims at improving infection management and thus the survival rate of patients. Cryptococcosis is a fungal infection of mainly the lungs that might lead to meningitis. The article ‘Global guideline for the diagnosis and management of cryptococcosis’ was published in the journal The Lancet Infectious Diseases.

Cryptococcosis, especially cryptococcal meningitis (CM) as the most fatal form, is responsible for a high fatality rate among patients. It is one of the most widespread invasive fungal infections in the world and is a major threat particularly to people suffering from immunodeficiencies. For example, around one million cases of cryptococcal meningoencephalitis are diagnosed worldwide every year in people with HIV alone, and more than 600,000 people die from the disease each year. Patients who have undergone a bone marrow transplant or organ transplant are also at high risk of infection. It is transmitted through the inhalation of spores from soil. Other organs are then also infected via the bloodstream. The lungs, brain, skin and bones are most frequently affected.

Compounds released by bleaching coral reefs promote bacteria

Field site in Moʻorea, French Polynesia.
Photo Credit: Milou Arts of NIOZ

On healthy reefs, corals, algae, fishes and microbes live interconnected and in balance—exchanging nutrients, resources and chemical signals. New research led by the University of Hawaiʻi at Mānoa and the Royal Netherlands Institute for Sea Research (NIOZ) revealed that when coral bleaching occurs, corals release unique organic compounds into the surrounding water that not only promote bacterial growth overall, but also promote bacteria that may further stress reefs and pose the risk for more damage.

“Our results demonstrate how the impacts of both short-term thermal stress and long-term bleaching may extend beyond coral and into the water column,” said Wesley Sparagon, co-lead author, postdoctoral researcher in the UH Mānoa College of Tropical Agriculture and Human Resources and previous doctoral student with the UH Mānoa School of Ocean and Earth Science and Technology (SOEST).

The research team, which included scientists from UH Mānoa, NIOZ, Scripps Institution of Oceanography and University of California, Santa Barbara, conducted experiments on bleached and unbleached corals gathered during a bleaching event in Moorea, French Polynesia in 2019.

“Although coral bleaching is a well-documented and increasingly widespread phenomenon in reefs across the globe, there has been relatively little research on the implications for reef water column microbiology and biogeochemistry,” said Craig Nelson, senior author on the study and professor in SOEST.

Discovery of new plant protein fold may be seed for anti-cancer drugs

The new protein fold from AhyBURP is found in the roots of the peanut plant. The protein uses copper and oxygen to form cyclic peptides. We can investigate how this chemistry occurs more thoroughly now that we know what the protein structure looks like.
Image Credit: Lisa Mydy / University of Michigan

University of Michigan researchers are celebrating their discovery of a new plant biochemistry and its unusual ability to form cyclic peptides—molecules that hold promise in pharmaceuticals as they can bind to challenging drug targets.

Cyclic peptides are an emerging and promising area of drug research.

A new study, led by U-M College of Pharmacy researchers Lisa Mydy and Roland Kersten, revealed a mechanism by which plants generate cyclic peptides.

Mydy identified the new plant protein fold and its novel chemistry, which she said had never been seen before. The protein can generate cyclic peptides, one of which holds potential as an anti-cancer drug.

“It’s extremely exciting,” said Mydy, a postdoctoral research fellow in the Department of Medicinal Chemistry. “This type of discovery doesn’t happen too often.”

A standard blood test can predict a heart attack

Researchers have proceeded from the hypothesis that several important biological processes are active during the months before a heart attack and that these could be detected using a simple blood test.
Photo Credit: Fernando Zhiminaicela

Using the results of a standard blood test and an online tool, you can find out if you are at increased risk of having a heart attack within six months. The tool has been developed by a research group at Uppsala University in the hope of increasing patients’ motivation to change their lifestyle.

Heart attacks are the most common cause of death in the world and are increasing globally. Many high-risk people are not identified or do not take their preventive treatment.

Now researchers led by Professor Johan Sundström at Uppsala University have found that heart attacks can be predicted with a standard blood test.

The problem, according to the researchers, is that risk factors have previously been verified in studies involving five to ten years of follow-up, where only factors that are stable over time can be identified.

“However, we know that the time just before a heart attack is very dynamic. For example, the risk of a heart attack doubles during the month after a divorce, and the risk of a fatal heart event is five times as high during the week after a cancer diagnosis,” says Sundström, who is a cardiologist and professor of epidemiology at Uppsala University.

Fundamental Equation for Superconducting Quantum Bits Revised

Cryogenic microwave setup used for quantum device measurements.
Photo Credit: Qinu GmbH

Quantum bits can be described more precisely with the help of newly 

Physicists from Forschungszentrum Jülich and the Karlsruhe Institute of Technology have uncovered that Josephson tunnel junctions – the fundamental building blocks of superconducting quantum computers – are more complex than previously thought. Just like overtones in a musical instrument, harmonics are superimposed on the fundamental mode. As a consequence, corrections may lead to quantum bits that are 2 to 7 times more stable. The researchers support their findings with experimental evidence from multiple laboratories across the globe, including the University of Cologne, Ecole Normale Supérieure in Paris, and IBM Quantum in New York.

It all started in 2019, when Dr. Dennis Willsch and Dennis Rieger – two PhD students from FZJ and KIT at the time and joint first authors of the paper – were having a hard time understanding their experiments using the standard model for Josephson tunnel junctions. This model had won Brian Josephson the Nobel Prize in Physics in 1973. Excited to get to the bottom of this, the team led by Professor Ioan Pop scrutinized further data from the Ecole Normale Supérieure in Paris and a 27-qubit device at IBM Quantum in New York, as well as data from previously published experiments. Independently, researchers from the University of Cologne were observing similar deviations of their data from the standard model.

Red nets signal “stop” to insect pests, reduce need for insecticides

Field test in Kyoto, Japan. The type of Welsh onions used in the experiment were a variety called Kujo leek, or Kujo negi in Japanese. These onions are a traditional vegetable of the Kyoto region and a staple part of local cooking.
Photo Credit: © 2024 Tokumaru et al./Scientific Reports

Red nets are better at keeping away a common agricultural insect pest than typical black or white nets, according to a new study. Researchers experimented with the effect of red, white, black and combination-colored nets on deterring onion thrips from eating Kujo leeks, also called Welsh onions. In both lab and field tests, red nets were significantly better at deterring the insect than other colors. Also, in field tests, onion crops which were either partially or fully covered by red netting required 25-50% less insecticide than was needed for a totally uncovered field. Changing agricultural nets from black or white to red could help reduce pesticide use and the related negative impact it can have on the environment, while supporting more sustainable and effective agricultural practices.

Insect pests can be a nightmare for any gardener. No sooner do fresh buds appear than they are covered in aphids, beetles and other bugs looking for a tasty snack. While synthetic insecticides are widely used to control pests in gardens and on agricultural crops, many are known to cause damage to the natural environment by leaching into the soil and water supplies, and poisoning plants, wildlife and harmless insects. Some pests are also becoming resistant to the chemicals, so farmers are running out of options for what to use and needing to apply more often.

Satellites unveil the size and nature of the world’s coral reefs

A satellite photo from the Allen Coral Atlas showing shallow coral reefs off Fiji
Image Credit: Courtesy of Allen Coral Atlas

University of Queensland-led research has shown there is more coral reef area across the globe than previously thought, with detailed satellite mapping helping to conserve these vital ecosystems.

Dr Mitchell Lyons from UQ’s School of the Environment, working as part of the Allen Coral Atlas project, said scientists have now identified 348,000 square kilometers of shallow coral reefs, up to 20-30 meters deep.

“This revises up our previous estimate of shallow reefs in the world’s oceans,” Dr Lyons said.

“Importantly, the high-resolution, up-to-date mapping satellite technology also allows us to see what these habitats are made from.

“We’ve found 80,000 square kilometers of reef have a hard bottom, where coral tends to grow, as opposed to soft bottom like sand, rubble or seagrass.

Discovery of Unexpected Ultramassive Galaxies May Not Rewrite Cosmology, But Still Leaves Questions

Infrared view of the universe captured by the James Webb Space Telescope.
Image Credit: NASA, ESA, CSA and STScI.

Ever since the James Webb Space Telescope (JWST) captured its first glimpse of the early universe, astronomers have been surprised by the presence of what appear to be more “ultramassive” galaxies than expected. Based on the most widely accepted cosmological model, they should not have been able to evolve until much later in the history of the universe, spurring claims that the model needs to be changed.

This would upend decades of established science.

“The development of objects in the universe is hierarchical. You start small and get bigger and bigger,” said Julian Muñoz, an assistant professor of astronomy at The University of Texas at Austin and co-author of a recent paper that tests changes to the cosmological model. The study concludes that revising the standard cosmological model is not necessary. However, astronomers may have to revisit what they understand about how the first galaxies formed and evolved.

Cosmology studies the origin, evolution and structure of our universe, from the Big Bang to the present day. The most widely accepted model of cosmology is called the Lambda Cold Dark Matter (ΛCDM) model or the “standard cosmological model.” Although the model is very well informed, much about the early universe has remained theoretical because astronomers could not observe it completely, if at all.

Concordia researchers identify a decline in microbial genetic richness in the western Arctic Ocean

With the warming and freshening of the Arctic Ocean comes a decrease of nutrients that are important for photosynthesis
Photo Credit: Davide Cantelli

The Arctic region is experiencing climate change at a much faster rate than the rest of the world. Melting ice sheets, runoff from thawing permafrost and other factors are rapidly changing the composition of the Arctic Ocean’s water. And that change is being experienced all the way down to the microbial level.

In a Concordia-led study published in the journal ISME Communications, researchers analyzed archival samples of bacteria and archaea populations taken from the Beaufort Sea, bordering northwest Canada and Alaska. The samples were collected between 2004 and 2012, a period that included two years — 2007 and 2012 — in which the sea ice coverage was historically low. The researchers looked at samples taken from three levels of water: the summer mixed layer, the upper Arctic water below it and the Pacific-origin water at the deepest level.

The study examined the microbes’ genetic composition using bioinformatics and statistical analysis across the nine-year time span. Using this data, the researchers were able to see how changing environmental conditions were influencing the organisms’ structure and function.

The researchers found subtle but statistically significant changes in the communities they studied.