New biosensors shine a light on CRISPR gene editing

Detecting the activity of CRISPR gene editing tools in organisms with the naked eye and an ultraviolet flashlight is now possible using technology developed at the Department of Energy’s Oak Ridge National Laboratory.

Scientists demonstrated these real-time detection tools in plants and anticipate their use in animals, bacteria and fungi with diverse applications for biotechnology, biosecurity, bioenergy and agriculture. The team described the successful development of the UV system in Horticulture Research and their proof-of-principle demonstration in ACS Synthetic Biology.

CRISPR technologies have quickly become the primary tools of bioengineering, and new versions are continually in development. Identifying whether an organism has been modified by CRISPR technology was previously a complex and time-consuming process.

“Before this, the only way to tell if genome engineering occurred was to do a forensic analysis,” said Paul Abraham, a bioanalytical chemist and head of ORNL’s Secure Ecosystem Engineering and Design Science Focus Area. “To be successful, you would need to know what the genome looked like before it was rewritten. We wanted to design a platform where we could proactively observe CRISPR activity.”

The research team developed an efficient self-detect solution that takes advantage of the way CRISPR works to trigger the technology to reveal itself. Under normal conditions, CRISPR works by connecting with a short RNA sequence, known as the guide RNA, as it leads CRISPR to a matching DNA sequence. When the target DNA is found, CRISPR modifies the DNA by acting like tiny molecular scissors to cut through one or both strands of DNA, depending on the type of CRISPR technology in use.

The tetra-neutron – a miniature neutron star

Dr. Roman Gernhäuser at the target chamber. The tetra-neutron particles were created in the center of this chamber. The reaction was detected using an extremely sensitive magnetic spectrograph.
Image: Uli Benz / Tum

Experiment finds evidence for a long-sought particle comprising four neutrons The tetra-neutron – a miniature neutron star

While all atomic nuclei except hydrogen are composed of protons and neutrons, physicists have been searching for a particle consisting of two, three or four neutrons for over half a century. Experiments by a team of physicists of the Technical University of Munich (TUM) at the accelerator laboratory on the Garching research campus now indicate that a particle comprising four bound neutrons may well exist.

While nuclear physicists agree that there are no systems in the universe made of only protons, they have been searching for particles comprising two, three or four neutrons for more than 50 years.

Should such a particle exist, parts of the theory of the strong interaction would need to be rethought. In addition, studying these particles in more detail could help us better understand the properties of neutron stars.

"The strong interaction is literally the force that holds the world together at its core. Atoms heavier than hydrogen would be unthinkable without it," says Dr. Thomas Faestermann, who directed the

Novel model can aid decisions in electricity generation, stream water quality

A student working in a geosciences class with Susan L. Brantley, Barnes Professor of Geosciences, takes a water sample in central Pennsylvania. Students in the class noticed that some streams near power plants showed improvements in water quality and thought that power plants switching from coal to natural gas may explain the positive results. A Penn State-led research team developed a novel model to detect if power plants shifting from coal to natural gas is affecting stream water quality regionally. Credit: Susan Brantley / Penn State

Switching from coal to natural gas in power plants can reduce how much sulfur dioxide, a gas that smells like a freshly struck match, is emitted into the atmosphere and ultimately how much sulfate pollution enters waterways, according to a Penn State-led research team that has developed a model to detect if the recent switch from coal to gas is affecting streams.

“The number of power plants switching from coal to natural gas is increasing, and sulfur dioxide emissions in Pennsylvania and across the United States are decreasing dramatically,” said Xianzeng Niu, assistant research professor in Penn State’s Earth and Environmental Systems Institute (EESI). “Both technology and the shift of fuels have contributed to this trend. We wanted to look at how this trend has affected water quality.”

Coal- and natural gas-burning power plants emit sulfur dioxide into the atmosphere, but coal has a much higher sulfur content than natural gas and releases more sulfur dioxide when burned. The sulfur particles eventually fall back down to earth and can acidify streams. Too much sulfur, which enters waterways in the form of sulfate, can cause water chemistry to become harmful to ecosystems.

Almost two-thirds of species at deep-sea hydrothermal vents are at risk of extinction

Image of a deep-sea Hydrothermal Vent taken by a Remotely Operate Vehicle (ROV).
Photo credit to Marum Universitat Bremen.

New research from Queen’s University Belfast has led to 184 deep-sea species being added to the global Red List of Threatened Species. With almost two-thirds of the species assessed listed as threatened, it highlights the urgent need to protect them from extinction.

The International Union for Conservation of Nature (IUCN)’s Red List of Threatened Species is the world’s foremost conservation authority, with universally recognized extinction risk categories (e.g. Endangered, Critically Endangered, etc.) used to raise awareness of species’ conservation needs to industry, policy makers, and the general public. More than 140,000 species have been Red Listed but less than 15% are from marine environments and barely any are from the deep sea.

The deep sea is the largest environment on earth with thousands of unique species living in extreme habitats. The remoteness of these seafloor habitats means they are often understudied, making it difficult to understand and communicate their conservation requirements.

Hydrothermal vents are just one of these unique deep-sea ecosystems. Vent habitats host a similar density of life as tropical rainforests and coral reefs. There are approximately 600 of these hotspots known worldwide and most are one-third of a football field in size. Vent communities are also distinctly different from the surrounding seafloor, making these highly insular habitats.

Dinosaurs’ Last Spring: Study Pinpoints Timing of Asteroid Impact

Credit: Florida Atlantic University/Getty Images

A groundbreaking study led by researchers at Florida Atlantic University and an international team of scientists conclusively confirms the time year of the catastrophic Chicxulub asteroid, responsible for the extinction of dinosaurs and 75 percent of life on Earth 66 million years ago. Springtime, the season of new beginnings, ended the 165-million-year reign of dinosaurs and changed the course of evolution on Earth. 

Robert DePalma (left) and Anton Oleinik, Ph.D. at the site in North Dakota.
Credit: Florida Atlantic University

Results of the study, published in the journal Scientific Reports , greatly enhances the ability to trace the first stages of damage to life on Earth. FAU’s Robert DePalma, senior author and an adjunct professor in the Department of Geosciences, Charles E. Schmidt College of Science, and a doctoral student at the University of Manchester; and Anton Oleinik, Ph.D., second author and an associate professor, FAU’s Department of Geosciences, contribute to a major scientific advancement in the ability to understand the massive impact that brought an end to the dinosaurs.

“Time of year plays an important role in many biological functions such as reproduction, feeding strategies, host-parasite interactions, seasonal dormancy, and breeding patterns,” said DePalma. “Hence, it is no surprise that the time of year for a global-scale hazard can play a big role in how harshly it impacts life. The seasonal timing of the Chicxulub impact has therefore been a critical question for the story of the end-Cretaceous extinction. Until now, the answer to that question has remained unclear.”

A new super-cooled microwave source boosts the scale-up of quantum computers

Artistic impression of an on-chip microwave source controlling qubits.
Credit: Aleksandr Kakinen

A newly designed microwave source could replace existing bulky control systems that hinder the scalability of quantum computers

A research consortium led by Aalto University and VTT Technical Research Centre of Finland has now developed a key component of the solution to this conundrum. ‘We have built a precise microwave source that works at the same extremely low temperature as the quantum processors, approximately -273 degrees,’ says Mikko Möttönen, Professor at Aalto University and VTT Technical Research Centre of Finland, who led the team.

The new microwave source is an on-chip device that can be integrated with a quantum processor. Less than a millimeter in size, it potentially removes the need for high-frequency control cables connecting different temperatures. With this low-power, low-temperature microwave source, it may be possible to use smaller cryostats while still increasing the number of qubits in a processor.

‘Our device produces one hundred times more power than previous versions, which is enough to control qubits and carry out quantum logic operations,’ says Möttönen. ‘It produces a very precise sine wave, oscillating over a billion times per second. As a result, errors in qubits from the microwave source are very infrequent, which is important when implementing precise quantum logic operations.’

However, a continuous-wave microwave source, such as the one produced by this device, cannot be used as is to control qubits. First, the microwaves must be shaped into pulses. The team is currently developing methods to quickly switch the microwave source on and off.

Atomic structure of antifungal drug confirms unusual mechanism, opens door to less-toxic derivatives

Illinois chemistry professor Martin Burke co-led a team that mapped the unusual aggregate structure of the antifungal drug amphotericin B, illuminating the path to develop less-toxic forms of the drug.  Photo by L. Brian Stauffer

Advanced molecular imaging technology has now mapped the structure of a drug widely used to treat fungal infections but whose workings have mystified researchers and physicians for nearly 70 years.

In a new study, researchers at the University of Illinois Urbana-Champaign, the University of Wisconsin, Madison and the National Institutes of Health described in atomistic detail the structure of the drug amphotericin B, a powerful but toxic antifungal agent.

Seeing the structure provides illumination in the researchers’ quest to formulate less-toxic AmB derivatives, said Dr. Martin D. Burke, a professor of chemistry at Illinois and a member of the Carle Illinois College of Medicine, as well as a medical doctor. Burke co-led the study with Chad Rienstra, a Wisconsin professor of biochemistry, and Taras Pogorelov, an Illinois research professor of chemistry. The researchers reported their findings in the journal Nature Structural & Molecular Biology.

“It’s like we were driving in the dark at night, and all of a sudden we were able to put the lights on. With the clarity of this structure, we can see where we need to go to reach our goal of a less-toxic antifungal drug,” Burke said.

Previously, researchers and physicians thought that AmB killed fungal cells by forming channels in the cell membrane, the outer envelope that encases the cell. However, in 2014, while Rienstra was a professor at Illinois, Burke and Rienstra’s group found that amphotericin primarily kills cells by robbing the membrane of sterol molecules – cholesterol in human cells and ergosterol in fungal cells. Individual amphotericin molecules aggregated into a larger structure that absorbed sterol molecules out of cell membranes like a sponge, causing the cells to die.

Stretchy, washable battery brings wearable devices closer to reality

Dr. Ngoc Tan Nguyen and his colleagues have created a battery that is both flexible and washable. It works even when twisted or stretched to twice its normal length, or after being washed multiple times. Photo credit: Kai Jacobson

UBC researchers have created what could be the first battery that is both flexible and washable. It works even when twisted or stretched to twice its normal length, or after being tossed in the laundry.

“Wearable electronics are a big market and stretchable batteries are essential to their development,” says Dr. Ngoc Tan Nguyen (he/him), a postdoctoral fellow at UBC’s faculty of applied science. “However, up until now, stretchable batteries have not been washable. This is a critical addition if they are to withstand the demands of everyday use.”

The battery developed by Dr. Nguyen and his colleagues offers a number of engineering advances. In normal batteries, the internal layers are hard materials encased in a rigid exterior. The UBC team made the key compounds—in this case, zinc and manganese dioxide—stretchable by grinding them into small pieces and then embedding them in a rubbery plastic, or polymer. The battery comprises several ultra-thin layers of these polymers wrapped inside a casing of the same polymer. This construction creates an airtight, waterproof seal that ensures the integrity of the battery through repeated use.

New State of Matter: Crystalline and Flowing at the Same Time

Cluster crystals consist of a core of organic polymers surrounded by DNA molecules (right). Pressed together (left), they exhibit properties of crystals and liquids at the same time.
© Natasa Adzic, University of Vienna

More than 20 years ago, researchers predicted that with sufficiently high density certain particles of matter would form a new state of matter that features the properties of both crystalline solids and flowing liquids. Scientists from Forschungszentrum Jülich, the University of Siegen, and the University of Vienna have now succeeded in creating this state in a laboratory. Their experimental concept opens up the possibility for further development and could pave the way for further discoveries in the world of complex states of matter.

Through their research efforts, the team was able to finally disprove an intuitive assumption that in order for two particles of matter to merge and form larger units (i.e. aggregates or clusters), they must be attracted to each other. As early as the turn of the century, a team of soft matter physicists headed by Christos Likos of the University of Vienna predicted on the basis of theoretical considerations that this does not necessarily have to be the case. They suggested that purely repulsive particles could also form clusters, provided they are fully overlapping and that their repulsion fulfils certain mathematical criteria.

A new layer-by-layer built inorganic-organic material enables optical switching of magnetic properties

Materials chemists have developed a facile process for piling ultrathin inorganic and organic layers in a pre-designed manner into flexible room-temperature thin-film magnets, whose magnetic properties can be controlled with successive external light illuminations.

In the big data era, photo-controlled room-temperature magnets could open new horizons for high-density information storage, in particular, if these materials could be synthesized from non-critical raw materials and fabricated in device-integrable thin-film form. Now a team of Aalto University researchers from the Department of Chemistry and Material Science and the Department of Applied Physics report such dream-of-the-dream materials.

For the material fabrication, the Aalto researchers utilize the Millennium Prize awarded ALD (atomic layer deposition) technology, which they have modified so that within the ALD-grown ferrimagnetic inorganic layers ultrathin photo-switchable organic layers can be deposited through additional MLD (molecular layer deposition) cycles.

The inorganic component harnessed by the researchers into these thin films is unique itself, as it possesses an extremely high magnetic coercivity field, but is at the same time really simple in its chemical composition, being composed of iron and oxygen only.