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Category: chemistry – Page 109

New Epigenome Editing Platform Enables the Precise Programming of Epigenetic Modifications

A study from the Hackett group at EMBL Rome led to the development of a powerful epigenetic editing technology, which unlocks the ability to precisely program chromatin modifications.

Understanding how genes are regulated at the molecular level is a central challenge in modern biology. This complex mechanism is mainly driven by the interaction between proteins called transcription factors, DNA regulatory regions, and epigenetic modifications – chemical alterations that change chromatin structure. The set of epigenetic modifications of a cell’s genome is referred to as the epigenome.

Advancements in Epigenome Editing.

Ozone Dynamics on Proxima Centauri b: A Key to Habitability

How can studying an exoplanet’s ozone help astronomers better understand its habitability potential? This is what a recent study published in the Monthly Notices of the Royal Astronomical Society hopes to address as a team of international researchers investigated how an ozone on the nearest exoplanet to Earth, Proxima Centauri b, could influence its own climate over time. This study holds the potential to help astronomers better understand how an exoplanet’s ozone could influence its formation, evolution, and potential habitability, and could have implications on how astronomers study Earth-like exoplanets throughout the cosmos.

“Imagine a world where ozone affects temperature and wind speed and holds the key to a planet’s very habitability,” said Dr. Assaf Hochman, who is a senior lecturer in the Institute of Earth Sciences at the Hebrew University of Jerusalem and a co-author on the study. “Our study unveils this intricate connection and underscores the importance of considering interactive ozone and other photochemical species in our quest to understand Earth-like exoplanets.”

For the study, the researchers used a series of computer simulations to ascertain how an active ozone on Proxima Centauri b could influence the exoplanet’s climate and potential habitability. In the end, the researchers discovered that an ozone layer on Proxima Centauri b could greatly influence the temperature and wind circulation patterns throughout its atmosphere. Additionally, they also found altitude also played a high role in the atmospheric temperature and temperature variances, as well. The researchers emphasized how these findings could help future researchers better understand the potential habitability of an exoplanet, noting how a potential ozone layer on Proxima Centauri b could greatly influence its climate.

AlphaFold Server Demo — Google DeepMind

Google DeepMind’s newly launched AlphaFold Server is the most accurate tool in the world for predicting how proteins interact with other molecules throughout the cell. It is a free platform that scientists around the world can use for non-commercial research. With just a few clicks, biologists can harness the power of AlphaFold 3 to model structures composed of proteins, DNA, RNA and a selection of ligands, ions and chemical modifications.

AlphaFold Server will help scientists make novel hypotheses to test in the lab, speeding up workflows and enabling further innovation. Our platform gives researchers an accessible way to generate predictions, regardless of their access to computational resources or their expertise in machine learning.

Experimental protein-structure prediction can take about the length of a PhD and cost hundreds of thousands of dollars. Our previous model, AlphaFold 2, has been used to predict hundreds of millions of structures, which would have taken hundreds of millions of researcher-years at the current rate of experimental structural biology.

AlphaFold 3 model is a Google DeepMind and Isomorphic Labs collaboration.

Links and further reading:
Find out more about AlphaFold 3 at https://blog.google/technology/ai/goo…
Read the full paper https://www.nature.com/articles/s4158…
Access AlphaFold Server: alphafoldserver.com.

Research team develops AI to perform chemical synthesis

Chemistry, with its intricate processes and vast potential for innovation, has always been a challenge for automation. Traditional computational tools, despite their advanced capabilities, often remain underutilized due to their complexity and the specialized knowledge required to operate them.

Now, researchers with the group of Philippe Schwaller at EPFL have developed ChemCrow, an AI that integrates 18 expertly designed tools, enabling it to navigate and perform tasks within chemical research with unprecedented efficiency. Their research is published in Nature Machine Intelligence.

“You might wonder why a crow?” asks Schwaller. “Because crows are known to use tools well.”

Peptides on interstellar ice: Study finds presence of water molecules is not a major obstacle for formation

A research team led by Dr. Serge Krasnokutski from the Astrophysics Laboratory at the Max Planck Institute for Astronomy at the University of Jena had already demonstrated that simple peptides can form on cosmic dust particles. However, it was previously assumed that this would not be possible if molecular ice, which covers the dust particle, contains water—which is usually the case.

Now the team, in collaboration with the University of Poitiers, France, has discovered that the presence of water molecules is not a major obstacle for the formation of peptides on such dust particles. The researchers report on their finding in the journal Science Advances.

Chemistry in the icy vacuum “We have replicated conditions similar to those in outer space in a vacuum chamber, also adding substances that occur in so-called molecular clouds,” explains Krasnokutski. These substances include ammonia, atomic carbon, and carbon monoxide. “Thus, all the chemical elements needed for simple peptides are present,” adds the physicist.

New high-throughput device to unlock the potential of advanced materials

A Birmingham researcher has developed a new high-throughput device that produces libraries of nanomaterials using sustainable mechanochemical approaches.

Dr. Jason Stafford from the University’s School of Engineering invented the platform to create highly controllable reaction conditions and reduce the substantial amount of time researchers spend generating materials in the laboratory.

The benchtop device is a fully automated unit that can be programmed for parallel synthesis to produce a series of novel materials made in subtly different ways, so creating a library of or product formulations for further testing and optimization.

Ultrathin samples with surface phonon polariton enhance photoinduced dipole force

A new study has been led by Prof. Xing-Hua Xia (State Key Lab of Analytical Chemistry for Life Science, School of Chemistry and Chemical Engineering, Nanjing University). While analyzing the infrared photoinduced force response of quartz, Dr. Jian Li observed a unique spectral response that is different from the far field infrared absorption spectrum.

Attosecond core-level spectroscopy reveals real-time molecular dynamics

Chemical reactions are complex mechanisms. Many different dynamic processes are involved, affecting both the electrons and the nucleus of the present atoms. Very often, the strongly coupled electron and nuclear dynamics induce radiation-less relaxation processes known as conical intersections. Such dynamics, which are at the basis of many biological and chemical relevant functions, are extremely difficult to detect experimentally.

In the brain, bursts of beta rhythms implement cognitive control

Bursts of brain rhythms with “beta” frequencies control where and when neurons in the cortex process sensory information and plan responses. Studying these bursts would improve understanding of cognition and clinical disorders, researchers argue in a new review.

The brain processes information on many scales. Individual cells electrochemically transmit signals in circuits but at the large scale required to produce cognition, millions of cells act in concert, driven by rhythmic signals at varying frequencies. Studying one frequency range in particular, beta rhythms between about 14–30 Hz, holds the key to understanding how the brain controls cognitive processes — or loses control in some disorders — a team of neuroscientists argues in a new review article.

Drawing on experimental data, mathematical modeling and theory, the scientists make the case that bursts of beta rhythms control cognition in the brain by regulating where and when higher gamma frequency waves can coordinate neurons to incorporate new information from the senses or formulate plans of action. Beta bursts, they argue, quickly establish flexible but controlled patterns of neural activity for implementing intentional thought.