Nature’s photocopiers caught ‘doodling’ – and scientists say it could revolutionise how DNA is written

Nanoscale view of several interwoven fragments of ‘doodled’ DNA (orange and white strands) imaged on a near perfectly flat mica surface (shown in blue) using a custom high-speed atomic force microscope built at the University of Bristol.
Image Credit: Thomas Gorochowski

Scientific Frontline: Extended "At a Glance" Summary: DNA Polymerase "Doodling"

The Core Concept: DNA polymerases—the microscopic biological machines responsible for replicating DNA—possess an innate capability to synthesize entirely new, highly complex, and extensive DNA sequences from scratch without utilizing an existing template.

Key Distinction/Mechanism: Standard DNA replication relies on reading and mirroring an existing DNA strand. Conversely, "doodling" involves the autonomous generation of distinct genetic material ranging from simple two-base repeats to elaborate eight-base motifs. Furthermore, unlike contemporary chemical DNA synthesis, which is slow and limited to sequences of a few hundred bases, this template-free synthesis can generate fragments exceeding 85,000 bases in a single reaction. Crucially, the process can be "steered" by modulating environmental parameters, such as altering the temperature or restricting the available DNA building blocks.

Major Frameworks/Components: 

• Nanopore Sequencing: Utilized to map the full-length structures of thousands of autonomously generated DNA molecules, revealing unprecedented sequence complexity.
• Environmental Modulation: The methodology of altering reaction conditions (e.g., temperature shifts, reagent limitation) to dictate the specific repeating patterns and motifs synthesized by the polymerases.
• AI-Powered Protein Design: Proposed as an integrative framework to optimize and harness these biological machines for advanced, guided synthesis.

Building a Better Blueprint: New “Pangenome” Tool to Help Scientists Future-Proof Sorghum

Ripe sorghum plant field, at Santa Ana, El Salvador
Photo Credit: Luis Rodriguez

Scientific Frontline: Extended "At a Glance" Summary: Sorghum Pangenome

The Core Concept: The sorghum pangenome is a comprehensive, high-definition library of genetic blueprints that captures the full genomic diversity of the global sorghum crop. It replaces the traditional "one-size-fits-all" reference genome by integrating genetic variations from multiple varieties worldwide.

Key Distinction/Mechanism: Historically, researchers relied on a single reference genome, which often omitted critical DNA segments responsible for localized survival traits. The pangenome mechanism utilizes multiple complete genetic blueprints and K-mer-based genotyping, allowing researchers to quickly identify and query complex genetic changes—such as disease resistance or heat tolerance—across massive plant populations.

Major Frameworks/Components: 

• 33 Complete Genetic Blueprints: A foundational shift from one reference genome to 33 distinct genomes representing diverse global varieties.
• Massive Diversity Catalog: Integrated data on nearly 2,000 types of sorghum that links genetic codes (genotypes), gene expression (RNA), and physical field growth characteristics (phenotypes).
• K-mer-based Genotyping: A highly scalable computational approach designed to rapidly identify complex genetic variations across large populations.

Ural Bacteria Will Help Wheat Survive on Devastated Lands

The work of UrFU biologists will help plants adapt to stressful conditions.
Photo Credit: Stepan Dolgov

Scientific Frontline: Extended "At a Glance" Summary: Salinity-Resistant Biofertilizing Bacteria

The Core Concept: Researchers have identified two specific strains of bacteria (AP9 and AP12) capable of entering into a symbiotic relationship with plants to enhance survival, root development, and seedling growth in highly saline soils. These microorganisms function as living biofertilizers that protect crops, such as wheat, from osmotic and ion-specific toxicity.

Key Distinction/Mechanism: Unlike traditional mineral fertilizers (such as synthetic ammonia or nitrates) that provide a static nutrient deposit, these bacterial biofertilizers offer a prolonged, dynamic effect. They continuously synthesize phytohormones and increase nutrient availability throughout the vegetation period. By reducing oxidative stress and increasing the number of primary roots, the bacteria expand the plant's absorbent surface area and improve water and mineral uptake in otherwise hostile, saline environments.

Major Frameworks/Components: 

• Bacterial Strains AP9 and AP12: Halotolerant (salt-tolerant) microorganisms isolated from naturally saline lake ecosystems.
• Symbiotic Phytohormone Synthesis: The continuous production of plant hormones by the bacteria to stimulate crop growth.
• Oxidative Stress Reduction: Biological mitigation of the cellular damage caused by excess salt accumulation.
• Root Architecture Modification: The stimulation of primary root generation to maximize the surface area for efficient nutrient and water absorption.

Soil bacteria break down toxic chemicals in the environment

Inoculation of Rhodococcus by Selvapravin Kumaran 
Photo Credit: © Dirk Tischler

Scientific Frontline: Extended "At a Glance" Summary: Soil Bacteria in Bioremediation

The Core Concept: Rhodococcus opacus 1CP is a highly adaptable soil bacterium equipped with a uniquely large genome capable of metabolizing toxic aromatic compounds into harmless carbon dioxide.

Key Distinction/Mechanism: Unlike microbes with rigid metabolic processes, this bacterium possesses extensive genomic redundancies. If primary enzymes are disabled or environmental conditions (such as temperature or oxygen levels) shift, alternative enzymes are dynamically recruited to establish new, functional metabolic pathways for breaking down pollutants.

Major Frameworks/Components: 

• Genomic Redundancy: The encoding of multiple, overlapping enzymes within the same class that activate under varying environmental conditions.
• Dynamic Enzyme Recruitment: The biological fallback mechanism allowing the bacterium to recruit secondary enzymes (e.g., forming catechols) when primary enzymes for phenol and cresol breakdown are knocked out.
• Metabolic Conversion: The biochemical process of activating and metabolizing toxic substrates (like styrenes) to yield biological energy for the organism while off-gassing \(\ce{CO2}\).

Reinforced Enzyme Expression Drives High Production of Durable Lactate-Based Polyester

Lactate-enriched high-molecular-weight LAHB combines practical toughness with biodegradability Image caption: Reinforced expression of the lactate-polymerizing enzyme gene in recombinant bacteria leads to enhanced production of poly[(D-lactate)-co-(R)-3-hydroxybutyrate] (LAHB) with improved toughness and biodegradability.
Image Credit: Professor Seiichi Taguchi from Shinshu University, Japan
(CC BY 4.0)

Scientific Frontline: "At a Glance" Summary: Reinforced Enzyme Expression for High Production of Durable Lactate-Based Polyester

• Main Discovery: Researchers achieved the highest recorded production titer of high-molecular-weight poly[(D-lactate)-co-(R)-3-hydroxybutyrate] (LAHB) by reinforcing the gene expression of a lactate-polymerizing enzyme, successfully balancing mechanical toughness with marine biodegradability.
• Methodology: A lactate-polymerizing enzyme-expressing plasmid vector was introduced into the GS3 series of Cupriavidus necator bacteria using electroporation. The modified GSXd147 strain was then cultured through fed-batch fermentation using glucose as a carbon source, followed by mechanical, thermal, and biodegradability assessments of the purified polymer.
• Key Data: The modified bacterial strain produced 97 g/L dry cell weight comprising 70 wt% LAHB within 48 hours, yielding a record polymer titer of 68 g/L. The resulting material featured a 15.4 mol% lactate fraction, approximately 20 MPa tensile strength, 190% elongation at break, and achieved over 75% biodegradation in natural seawater within five weeks.
• Significance: Overcoming a major enzymatic bottleneck demonstrates that retaining the high molecular weight necessary for structural strength does not compromise the marine biodegradability of the polymer, establishing a highly functional and sustainable alternative to petroleum-based plastics.
• Future Application: This biotechnological approach enables the industrial-scale manufacturing of high-quality, bio-based plastic polymers for commercial packaging and goods, offering a practical solution to directly mitigate the global microplastics crisis.
• Branch of Science: Bioengineering, Biotechnology, and Polymer Chemistry.
• Additional Detail: The collaborative research involving Shinshu University, Kaneka Corporation, and the National Institute of Advanced Industrial Science and Technology will be published in Volume 246 of the journal Polymer Degradation and Stability.

Eco friendly spruce bark can replace toxic chemicals

Maria Hedberg, staff scientist at the Department of Odontology at Umeå University, has seen how spruce bark can keep microbes in check.
Photo Credit: Fotonord

Scientific Frontline: "At a Glance" Summary

• Main Discovery: A water-based spruce bark extract functions as a potent, eco-friendly biocide that effectively replaces toxic synthetic chemicals used to control harmful bacterial growth in industrial paper milling and wastewater systems.
• Methodology: Researchers developed a "decoction" by boiling spruce bark in water and pressing it to release complex bioactive compounds, such as tannins, which was then introduced directly into industrial process fluids to inhibit microbial activity.
• Key Data: In a pilot trial at a paper mill, the extract reduced bacterial levels by 99% within 16 hours, exhibiting a slower onset but a more sustained duration of action compared to traditional synthetic biocides.
• Significance: This approach valorizes abundant forestry waste that is typically burned, reducing industrial reliance on hazardous chemicals while preventing operational issues like slime accumulation and the production of explosive or foul-smelling gases.
• Future Application: The extract is being scaled for widespread use in paper pulp production and municipal wastewater treatment plants to mitigate pipe clogging and corrosion caused by microbial biofilms.
• Branch of Science: Industrial Biotechnology, Environmental Microbiology, and Agricultural Sciences 
• Additional Detail: The chemical complexity of the natural extract makes it significantly more difficult for bacteria—specifically spore-forming species like Clostridium—to develop resistance compared to single-molecule synthetic agents.

Scientists rebuild microscopic circadian clock to control genes

Image Credit: Scientific Frontline

Scientific Frontline: "At a Glance" Summary

• Main Discovery: Researchers reproduced the simplest natural circadian system found in blue-green algae (cyanobacteria) within a test tube, demonstrating how a single clock signal coordinates daily gene switching.
• Methodology: The team utilized biochemical, structural, and in vivo methods to recreate the rhythmic genetic switching process in vitro, observing how the mechanism turns off "morning" genes while simultaneously activating "evening" genes.
• Key Data: The study successfully modeled the "antiphase" gene expression where cellular processes peak distinctly at dusk and dawn, orchestrated by a simplified clocking mechanism relative to complex organisms.
• Significance: This research elucidates the fundamental molecular mechanisms by which circadian clocks regulate gene activity, revealing how immense cellular complexity is managed by a simple rhythmic system.
• Future Application: Findings may enable the development of scheduling tools for the timed biosynthesis of valuable compounds in biotechnology and offer new strategies for regulating human gut microbiota to support overall health.
• Branch of Science: Molecular Biology, Chronobiology, and Biotechnology
• Additional Detail: The study, published in Nature Structural and Molecular Biology, highlights the potential connection between unstable circadian rhythms and mental health issues, as well as the optimization of medicine administration timing.

Engineered moths could replace mice in research into “one of the biggest threats to human health”

CRISPR/Cas9 technology in Galleria mellonella (greater wax moth) enables precise gene editing and the generation of transgenic lines, enhancing its use as an ethical, low-cost in vivo model for infection biology and antimicrobial resistance research
Image Credit: Courtesy of University of Exeter

Scientific Frontline: "At a Glance" Summary

• Main Discovery: Scientists at the University of Exeter have developed the world's first genetically engineered greater wax moths (Galleria mellonella) to serve as advanced alternatives to rodents in infection research.
• Methodology: The research team adapted genetic tools originally designed for fruit flies, utilizing PiggyBac mediated transgenesis and CRISPR/Cas9 knockout techniques to create fluorescent and gene-edited moth lines.
• Key Data: Replacing just 10% of UK infection biology studies with these engineered moths would spare approximately 10,000 mice annually from the estimated 100,000 currently utilized.
• Significance: This development addresses the critical bottleneck in antimicrobial resistance (AMR) testing by providing a scalable, ethical non-mammalian model that survives at human body temperature (37°C) and mimics mammalian immune responses.
• Future Application: The creation of "sensor moths" that fluoresce upon infection or antibiotic contact will allow for real-time, visual monitoring of disease processes and rapid drug screening.
• Branch of Science: Biotechnology and Infection Biology
• Additional Detail: All developed protocols and genetic resources have been made openly available through the Galleria Mellonella Research Center to accelerate global standardization and adoption.

New Line of Bovine Embryonic Stem Cells Shows Promise for Lab-Grown Meat, Biomedical Applications

Cindy Tian of the Department of Animal Science in the College of Agriculture, Health and Natural Resources works in her lab in the Agricultural Biotechnology Laboratory (ABL). Oct. 19, 2022.
Photo Credit: Milton Levin/UConn

Scientific Frontline: "At a Glance" Summary

• Main Discovery: Researchers have established a novel line of bovine embryonic stem cells (ESCs) derived from the blastocyst stage that maintain a stable, formative pluripotent state.
• Methodology: The cells were cultured using a specialized "cocktail" medium consisting of a commercial base supplemented with specific small molecules and mouse feeder cells to prevent natural differentiation.
• Key Data: This cell line is genetically "clean," containing zero foreign genes unlike induced pluripotent stem cells (iPSCs), and possesses the unique capacity to directly induce primordial germ cell-like cells.
• Significance: The absence of genetic engineering addresses critical safety and regulatory hurdles for cultivated meat production, offering a more efficient and consistent alternative to traditional reprogramming methods.
• Future Application: These cells are intended for the commercial scaling of lab-grown muscle and fat, the development of disease-resistant cattle, and the creation of large-animal models for human medical research.
• Branch of Science: Agricultural Science, Animal Science, and Biotechnology.
• Additional Detail: Ongoing research aims to eliminate the requirement for mouse feeder cells and develop a long-term maintenance medium to reduce environmental impact and production costs.

Not only toxic but also a nutrient: guanidine as a nitrogen source

Cyanobacteria convert light energy into chemical energy through photosynthesis and are becoming increasingly important for carbon-neutral biotechnology.
Photo Credit: André Künzelmann / UFZ

Scientific Frontline: "At a Glance" Summary

• Main Discovery: Cyanobacteria possess the capability to actively absorb and catabolize guanidine (CH5N3) as their sole nitrogen source, refuting the prior scientific consensus that the compound acts exclusively as a toxic denaturant in these organisms.
• Methodology: The study utilized an interdisciplinary approach combining genome analysis, molecular microbiology, biochemical binding assays, and simulation-based process analytics to map the complete metabolic pathway and regulatory networks.
• Specific Mechanism: Uptake is facilitated by a newly identified, high-affinity ATP-binding cassette (ABC) transport system effective at low concentrations, while intracellular guanidine hydrolase converts the substrate into ammonium and urea for metabolic integration.
• Key Regulation Detail: Gene expression for the transporter and hydrolase is controlled by a specific riboswitch that directly binds guanidine, functioning as a precise sensor to regulate uptake and trigger efflux systems if intracellular levels become toxic.
• Ecological Context: These findings suggest that free guanidine is naturally available and constitutes an overlooked but integral component of global biogeochemical nitrogen cycles, providing a colonization advantage for cyanobacteria.
• Future Application: The identified riboswitch mechanism offers a novel, cost-effective molecular tool for synthetic biology, enabling researchers to finely tune gene expression in cyanobacterial "green cell factories" by modulating guanidine levels.

Beyond gene scissors: New CRISPR mechanism discovered

Cryo-electron microscope structure of the nuclease Cas12a3 cleaving the tail of a transfer RNA (tRNA).
 Image Credit: Biao Yuan / Helmholtz Zentrum für Infektionsforschung HZI

The CRISPR “gene scissors” have become an important basis for genome-editing technologies in many fields, ranging from biology and medicine to agriculture and industry. A team from the Helmholtz Institute for RNA-based Infection Research (HIRI) in Würzburg has now demonstrated that these CRISPR-Cas systems are even more versatile than previously thought. 

In cooperation with the Helmholtz Centre for Infection Research (HZI) in Braunschweig and Utah State University (USU) in Logan (USA), the scientists have discovered a novel CRISPR defense mechanism: Unlike known nucleases, Cas12a3 specifically destroys transfer ribonucleic acids (tRNA) that are vital for protein production to shut down infected cells. The team published its findings today in the journal Nature. 

Bacteria contain a wide variety of mechanisms to fend off invaders like viruses. One of these strategies involves cleaving transferring ribonucleic acids (tRNA), which are present in all cells and play a fundamental role in the translation of messenger RNA (mRNA) into essential proteins. Their inactivation limits protein production, causing the infected cell to go dormant. As a result, the attacker cannot continue to replicate and spread within the bacterial population. 

Raising strong yeast as a petroleum substitute

Strengthened Saccharomyces cerevisiae   
This common yeast is a strong contender for replacing petroleum in 2,3-butanediol production.   
Image Credit: Osaka Metropolitan University

As fossil fuels rise in cost and green initiatives gain traction, alternative methods for producing useful compounds using microorganisms have the potential to become sustainable, environmentally friendly technologies.

One such process involves the common bread yeast, Saccharomyces cerevisiae (S. cerevisiae), to produce 2,3-butanediol (2,3-BDO), an organic compound often used in pharmaceuticals and cosmetics. However, this yeast has a low tolerance for 2,3-BDO under high concentrations, which leads to a decline in its production ability and hinders the mass commercialization of this method.

Jellyfish can be used to make mayonnaise and butter

Photo Credit: Marat Gilyadzinov

Researchers at the University of Southern Denmark (SDU) have discovered that jellyfish can be used as a food stabiliser. In the future, the slimy creatures may become an important ingredient in a more sustainable food production system.

Food stabiliser.

The word might not sound particularly appetizing, but without food stabilizers, much of the food we eat would be impossible to make. It would not be able to retain its consistency or form but would split or spread out. 

Nature itself has created many stabilizers to maintain the structure of organisms, and over time, we humans have learned to use them in our food. 

The most well-known example in the home kitchen is egg yolk, which allows mayonnaise to bind together. In the industrial food sector, stabilizers are even more crucial. Here, ingredients such as starch, pectin, gelatine, and algal stabilizers are used to achieve the right consistency in everything from ketchup to chocolate milk. 

Scientists use algae to convert food waste into sustainable ingredients

C-phycocyanin
Photo Credit: King Abdullah University of Science and Technology

Researchers at King Abdullah University of Science and Technology (KAUST) have discovered something new about a very old organism and used it to transform waste from a chocolate factory into C-phycocyanin, a valuable blue pigment that is estimated to have a global market value of over US$275 million by 2030.  

The study, published in Trends in Biotechnology, outlines how Galdieria yellowstonensis, an ancient strain of red algae, can eat the sugars found in chocolate-processing waste to grow into a protein-rich biomass containing C-phycocyanin, which is used in food, cosmetics, and pharmaceutical products. Adding to the findings was the unexpected discovery that high levels of carbon dioxide promote Galdieria growth. Normally, carbon dioxide is a waste produced by microbes eating sugar. 

Genetic Engineering: Changing the Number of Chromosomes in Plants Using Molecular Scissors

For the first time, KIT researchers managed to reduce the number of chromosomes in a plant by fusing two chromosomes.
Illustration Credit: Michelle Rönspies – KIT

Higher yields, greater resilience to climatic changes or diseases – the demands on crop plants are constantly growing. To address these challenges, researchers at Karlsruhe Institute of Technology (KIT) are developing new methods in genetic engineering. In cooperation with other German and Czech researchers, they succeeded for the first time in leveraging the CRISPR/Cas molecular scissors for changing the number of chromosomes in the Arabidopsis thaliana model organism in a targeted way – without any adverse effects on plant growth. This discovery opens up new perspectives for plant breeding and agriculture.  

A system for targeted drug delivery using magnetic microrobots

Microrobots can be transported and activated in a safe and controlled manner, marking a decisive step forward in the use of these technological devices in targeted medical treatments.
Photo Credit: Courtesy of University of Barcelona

The study, led by the Swiss Federal Institute of Technology Zurich (ETH Zurich) and published in the journal Science, involves Professor Josep Puigmartí-Luis from the Faculty of Chemistry and the Institute of Theoretical and Computational Chemistry (IQTC) of the University of Barcelona. He is the only researcher from a Spanish institution to sign this paper, which is the result of the European ANGIE project, an initiative coordinated by Professor Salvador Pané (ETH) in collaboration with the Chemistry In Flow and Nanomaterials Synthesis (ChemInFlow) research group, led by Professor Puigmartí. 

The new microrobotic platform presents an innovative strategy for administering drugs in a precise and targeted manner. It is scalable and can be applied to numerous situations in which the administration of therapeutic agents is difficult to access, such as tumors, arteriovenous malformations, localized infections, or tissue injuries. 

Biotechnology: In-Depth Description

Image Credit: Scientific Frontline / stock image

Biotechnology is the integration of natural sciences and engineering sciences to apply organisms, cells, parts thereof, and molecular analogues to products and services. Its primary goal is to leverage biological systems and processes to develop technologies and products that help solve problems, improve human health, enhance food production, and create more sustainable industrial and environmental processes.

New ultrasound technique could help aging and injured brains

Raag Airan, Matine Azadian, Payton Martinez, and Yun Xiang in the lab. Azadian is holding a version of their ultrasound apparatus designed for humans.
Photo Credit: Andrew Brodhead

Just like your body needs a bath now and then, so too does your brain – but instead of a tub filled with hot water, your brain has cerebrospinal fluid, which flows around inside the brain and helps clear away waste products, misplaced blood cells, and other sometimes-toxic debris.

The trouble is, that natural brain-bathing system can break down as people age or after a brain injury, such as a stroke – and there aren’t any particularly good ways to help the brain out in those situations. Indeed, current ideas to promote cerebrospinal fluid cleaning are either rather invasive or require drugs that may not be safe or effective in people.

Fortunately, a team of Stanford researchers has found a radically simple tool that may help the brain wash itself out without the need for drugs or invasive procedures: ultrasound, the same tool obstetricians regularly use at prenatal checkups.

Fermentation waste used to make natural fabric

 

Penn State Professor Melik Demirel, to the far right, his students and their families wear biomanufactured sweaters. Pictured are Khushank Singhal and Oguzhan Colak, both affiliated with the Department of Engineering Science and Mechanics in the College of Engineering; Ceren Colak, Ela Demirel and Emir Demirel.
Photo Credit: © Oguzhan Colak

A fermentation byproduct might help to solve two major global challenges: world hunger and the environmental impact of fast fashion. The leftover yeast from brewing beer, wine or even to make some pharmaceuticals can be repurposed to produce high-performance fibers stronger than natural fibers with significantly less environmental impact, according to a new study led by researchers at Penn State and published in the Proceedings of the National Academy of Sciences. 

The yeast biomass — composed of proteins, fatty molecules called lipids and sugars — left over from alcohol and pharmaceutical production is regarded as waste, but lead author Melik Demirel, Pearce Professor of Engineering and Huck Chair in Biomimetic Materials at Penn State, said his team realized they could repurpose the material to make fibers using a previously developed process. The researchers successfully achieved pilot-scale production of the fiber — producing more than 1,000pounds — in a factory in Germany, with continuous and batch production for more than 100 hours per run of fiber spinning.

They also used data collected during this production for a lifecycle assessment, which assessed the needs and impact of the product from obtaining the raw fermentation byproduct through its life to disposal and its cost, and to evaluate the economic viability of the technology. The analysis predicted the cost, water use, production output, greenhouse gas emissions and more at every stage. Ultimately, the researchers found that the commercial-scale production of the fermentation-based fiber could compete with wool and other fibers at scale but with considerably fewer resources, including far less land — even when accounting for the land needed to grow the crops used in the fermentation processes that eventually produce the yeast biomass.   

Birch leaves and peanuts turned into advanced laser technology

Upper: The biomaterial-based random laser when activated. Lower: The same laser seen in daylight.
 Photo Credit: Zhihao Huang

Physicists at Umeå University, in collaboration with researchers in China, have developed a laser made entirely from biomaterials – birch leaves and peanut kernels. The environmentally friendly laser could become an inexpensive and accessible tool for medical diagnostics and imaging.

The results have been published in the scientific journal Nanophotonics and show how a so-called random laser can be made entirely from biological materials.

“Our study shows that it is possible to create advanced optical technology in a simple way using only local, renewable materials,” says Jia Wang, Associate Professor at the Department of Physics, Umeå University, and one of the authors of the study.

A random laser is a type of laser in which light scatters many times inside a disordered material before emerging as a focused beam. It holds great promise for applications such as medical imaging and early disease detection, and has therefore attracted significant research attention. However, conventional random laser materials are often toxic or expensive and complex to produce.