Lifeboat Foundation

A new study used machine learning to predict potential new antibiotics in the global microbiome, which study authors say marks a significant advance in the use of artificial intelligence in antibiotic resistance research…

For this study, the researchers collected genomes and meta-genomes stored in publicly available databases and looked for DNA snippets that could have antimicrobial activity. To validate those predictions, they used chemistry to synthesize 100 of those molecules in the laboratory and then test them to determine if they could actually kill bacteria, including ‘some of the most dangerous pathogens in our society’, de la Fuente said.

One of Earth’s most consequential bursts of biodiversity—a 30-million-year period of explosive evolutionary changes spawning innumerable new species —may have the most modest of creatures to thank for the vital stage in life’s history: worms.

The digging and burrowing of prehistoric worms and other invertebrates along ocean bottoms sparked a chain of events that released oxygen into the ocean and atmosphere and helped kick-start what is known as the Great Ordovician Biodiversification Event, roughly 480 million years ago, according to new findings Johns Hopkins University researchers published in the journal Geochimica et Cosmochimica Acta.

“It’s really incredible to think how such small animals, ones that don’t even exist today, could alter the course of evolutionary history in such a profound way,” said senior author Maya Gomes, an assistant professor in the Department of Earth and Planetary Sciences. “With this work, we’ll be able to examine the chemistry of early oceans and reinterpret parts of the geological record.”

When element 61, also known as promethium, was first isolated by scientists at the Department of Energy’s Oak Ridge National Laboratory in 1945, it completed the series of chemical elements known as lanthanides. However, aspects of the element’s exact chemical nature have remained a mystery until last year, when a team of scientists from ORNL and the National Institute of Standards and Technology used a combination of experimentation and computer simulation to purify the promethium radionuclide and synthesize a coordination complex that was characterized for the first time. The results of their work were recently published in Nature.

During her chemistry Nobel Prize lecture in 2018, Frances Arnold said, “Today we can for all practical purposes read, write and edit any sequence of DNA, but we cannot compose it.” That isn’t true anymore.

The 25th Annual S. Dexter Squibb Distinguished Lecture Series in ChemistryFeaturing: Dr. Theodore Goodson IIIThe Richard Barry Bernstein Collegiate Professor…

Observations after 3 weeks of DeepMind releasing its hitherto most advanced model for biomolecular structure prediction.

Calcium oxide is a cheap, chalky chemical compound commonly used in the manufacturing of cement, plaster, paper, and steel. But the material may soon have a more high-tech application.

UChicago Pritzker School of Molecular Engineering researchers and their collaborator in Sweden have used theoretical and computational approaches to discover how tiny, lone atoms of bismuth embedded within solid calcium oxide can act as qubits — the building blocks of quantum computers and quantum communication devices.

These qubits are described in Nature Communications (“Discovery of atomic clock-like spin defects in simple oxides from first principles”).

Converting CO₂ into fuel and chemicals using electricity, also known as electrochemical conversion of CO₂, is a promising way to reduce emissions. This process allows us to use carbon captured from industries and the atmosphere and turn it into resources that we usually get from fossil fuels.

Joint research led by Yutaro Shuto, Ryoya Nakagawa, and Osamu Nureki of the University of Tokyo determined the spatial structure of various processes of a novel gene-editing tool called “prime editor.” Functional analysis based on these structures also revealed how a “prime editor” could achieve reverse transcription, synthesizing DNA from RNA, without “cutting” both strands of the double helix. Clarifying these molecular mechanisms contributes greatly to designing gene-editing tools accurate enough for gene therapy treatments. The findings were published in the journal Nature.

The 2020 Nobel Prize in Chemistry was awarded to Jennifer Doudna and Emmanuelle Charpentier for developing a groundbreaking yet simple way to edit DNA, the “blueprint” of living organisms. While their discovery opened new avenues for research, the accuracy of the method and safety concerns about “cutting” both strands of DNA limited its use for gene therapy treatments. As such, research has been underway to develop tools that do not have these drawbacks.

The prime editing system is one such tool, a molecule complex consisting of two components. One component is the prime editor, which combines a SpCas9 protein, used in the first CRISPR-Cas gene editing technology, and a reverse transcriptase, an enzyme that transcribes RNA into DNA. The second component is the prime editing guide RNA (pegRNA), a modified guide RNA that identifies the target sequence within the DNA and encodes the desired edit. In this complex, the prime editor works like a “word processor,” accurately replacing genomic information. The tool has already been successfully implemented in living cells of organisms such as plants, zebrafish, and mice. However, precisely how this molecule complex executes each step of the editing process has not been clear, mostly due to a lack of information on its spatial structure.