How Injury Dressings in First-Aid Kits Can Identify Shark Species After Bite Incidents?

Injury dressings in first-aid Kits can identify shark species after bite incidents -this study published in the journal Forensic Science International: Genetics included researchers from Flinders University. It is based on three separate shark incidents where samples were collected from surf skis and a surfboard.

DateJuly 30, 2024
SourceFlinders University
SummaryResearchers have found that injury dressings in first-aid kits can be effectively used to identify shark species involved in bite incidents. By using medical gauze to collect DNA samples from aquatic equipment, such as surfboards, scientists can reliably determine the shark species responsible.
Injury Dressings in First-Aid Kits Can Identify Shark Species After Bite Incidents

If you want to know recent biology news like Injury Dressings in First-Aid Kits Can Identify Shark Species After Bite Incidents: Harnessing big data helps scientists home in on new antimicrobials, New geological datings place the first European hominids in the south of the Iberian Peninsula 1.3 million years agoHow Domestic Rabbits Become Feral in the Wild.

How Injury Dressings in First-Aid Kits Can Identify Shark Species After Bite Incidents?

  • Using PCR testing, researchers demonstrated that medical gauze could effectively collect organic tissue and DNA samples from shark bites. The team successfully identified the shark species responsible for each bite across three incidents in Australia and South Africa, including one instance over a month after the incident.
  • The researchers also compared the effectiveness of ordinary gauze to specialized forensic swabs used to collect genetic material from shark bite sites. Both methods were found to work well for species identification.
  • Dr. Belinda Martin, the study’s lead author at Flinders University’s College of Science & Engineering, emphasized the importance of rapidly identifying shark species to guide future prevention measures and reduce shark incidents. She noted that eyewitness accounts are often unreliable due to trauma, making this new DNA collection approach crucial.
  • “This technique is important for first responders, including surfers, lifesavers, police, and paramedics,” said Dr. Martin. “As long as humans engage in marine activities, shark-human interactions will continue, and although rare, they deeply affect victims and communities.”
  • Co-author Dr. Michael Doane added that the gauze method is a simple and effective alternative to forensic-grade swabs, providing reliable species identification hours to days after a shark bite.
  • He recommended that first responders use sterile gauze to collect DNA samples from the bite site as soon as possible to minimize contamination and DNA loss, increasing the likelihood of accurate species identification.

Watch Video of Shark Here

FAQ:

1. What is a first aid kit?

A first aid kit is a collection of supplies and equipment that is used to provide medical treatment in case of an injury or emergency. It typically includes items such as bandages, antiseptics, medical tape, gauze, scissors, and other basic medical supplies.

2. What items should be included in a basic first aid kit?

A basic first aid kit should include:
1. Adhesive bandages of various sizes
2. Sterile gauze pads
3. Adhesive tape
4. Antiseptic wipes
5. Antiseptic ointment
6. Tweezers
7. Scissors
8. Safety pins
9. Disposable gloves
10. A digital thermometer
11. A CPR face shield or mask
12. A first aid manual

3. Why is rapid identification of shark species important?

Rapid identification helps produce accurate information that can guide preventive measures, reduce public anxiety, and provide vital details to victims and communities affected by shark incidents.

4. What are the benefits of using medical gauze for DNA collection?

Medical gauze is widely available, easy to use, and provides a simple and effective alternative to forensic-grade sterile swabs, making it accessible for first responders and the general public.

5. What types of sharks are most commonly involved in attacks on humans?

The sharks most commonly involved in attacks on humans are:
Great White Shark
Tiger Shark
Bull Shark

It’s a Party: The underground soundwaves increase soil health

The underground soundwaves increase soil health because healthy soils generate a symphony of subtle sounds, akin to an underground rave filled with pops and clicks, though they’re mostly inaudible to human ears. Ecologists have made special recordings that capture these complex soundscapes, using them to gauge the diversity of microscopic organisms in the soil. These tiny creatures produce sounds as they move and interact with their surroundings, and this auditory chaos offers insights into the health and variety of life beneath the surface.

DateAugust 16, 2024
SourceFlinders University
SummaryEcologists from Flinders University in Australia have recorded these chaotic soundscapes, revealing that they can serve as indicators of the diversity of microscopic organisms inhabiting the soil.
The underground soundwaves increase soil health

If you want to know recent biology news like The underground soundwaves increase soil health: Smell prepares nematodes and the human gut to combat infectionsMantis Shrimp-Clam Relationship Challenges a Biological PrincipleInjury Dressings in First-Aid Kits Can Identify Shark Species After Bite IncidentsHarnessing big data helps scientists home in on new antimicrobials, New geological datings place the first European hominids in the south of the Iberian Peninsula, A New Rule of Biology Focusing on Evolution and Aging.

Watch Yesterday’s Video Here

How the underground soundwaves increase soil health

Underground soundwaves refer to the vibrations and acoustic signals produced beneath the Earth’s surface. These soundwaves can be generated by various sources, including the movement and interactions of soil organisms, natural processes such as water flow, and human activities like drilling or tunneling.

  • Healthy soils, though nearly inaudible to the human ear, generate a vibrant array of sounds, much like an underground rave filled with pops and clicks. Ecologists from Flinders University in Australia have recorded these chaotic soundscapes, revealing that they can serve as indicators of the diversity of microscopic organisms inhabiting the soil. These creatures create sounds as they move and interact with their environment. With 75% of the world’s soils degraded, the future of these underground ecosystems is at risk without restoration, warns microbial ecologist Dr. Jake Robinson from the Frontiers of Restoration Ecology Lab at Flinders University.
  • This emerging field of research seeks to explore the vast and bustling hidden ecosystems, where nearly 60% of Earth’s species reside. Restoring and monitoring soil biodiversity has never been more critical. Although still in its infancy, ‘eco-acoustics’ is becoming a promising tool for detecting and monitoring soil biodiversity and has already been applied in Australian bushland and various ecosystems in the UK.
  • The acoustic complexity and diversity are significantly higher in revegetated and remnant plots compared to cleared plots, both in situ and in sound attenuation chambers. This complexity and diversity also closely correlate with the abundance and richness of soil invertebrates.
  • In the latest study, involving Flinders University expert Associate Professor Martin Breed and Professor Xin Sun from the Chinese Academy of Sciences, researchers compared acoustic monitoring results from remnant vegetation, degraded plots, and land that was revegetated 15 years ago. The study took place in the Mount Bold region of the Adelaide Hills in South Australia, using passive acoustic monitoring tools and indices to measure soil biodiversity over five days.
  • A below-ground sampling device and sound attenuation chamber were employed to record soil invertebrate communities, which were also manually counted. “Our findings clearly show that the acoustic complexity and diversity of our samples are linked to the abundance of soil invertebrates, from earthworms and beetles to ants and spiders, reflecting overall soil health,” says Dr. Robinson. All living organisms produce sounds, and our initial results suggest that different soil organisms create unique sound profiles based on their activity, shape, appendages, and size. This technology offers great potential in addressing the global need for more effective soil biodiversity monitoring methods to protect our planet’s most diverse ecosystems.

Bacterial cells pass on memories to their offspring

A recent study has discovered that bacterial cells pass on memories to their offspring because they can ‘recall’ short-term changes in their environment and physical state. Although these changes are not written into the cell’s genetic code, the memories of them are passed on to offspring for several generations.

DateAugust 28, 2024
SourceNorthwestern University
SummaryTemporary stress can lead to inheritable changes without modifying genetics, study reveals
Bacterial cells pass on memories to their offspring

If you want to know recent biology news like Bacterial cells pass on memories to their offspring: Smell prepares nematodes and the human gut to combat infectionsMantis Shrimp-Clam Relationship Challenges a Biological PrincipleInjury Dressings in First-Aid Kits Can Identify Shark Species After Bite IncidentsHarnessing big data helps scientists home in on new antimicrobials, New geological datings place the first European hominids in the south of the Iberian Peninsula, A New Rule of Biology Focusing on Evolution and Aging.

Watch Another Bacteria’s Video Here

How bacterial cells pass on memories to their offspring

Bacterial cells can ‘recall’ brief, temporary changes to their environment and bodies, according to a study by Northwestern University and the University of Texas-Southwestern. Despite these changes not being encoded in the cells’ DNA, they are passed down to offspring for multiple generations.

This discovery challenges long-held beliefs about how simple organisms inherit traits and opens the door to potential medical applications. For instance, scientists could bypass antibiotic resistance by altering a harmful bacterium in a way that makes its descendants more vulnerable to treatment. The study, set to be published in Science Advances on August 28, demonstrates that heritable characteristics in bacteria can be determined by the regulatory relationships among genes, not just by DNA.

Lead researcher Adilson Motter from Northwestern University explained that changes in gene regulation can imprint lasting effects in a network, which are then passed to future generations. Using E. coli as a model, the researchers showed that temporary gene deactivations could trigger lasting alterations in gene regulation that persist through generations, even without DNA changes.

The team used mathematical models to simulate gene deactivation and reactivation, and they observed that these brief disruptions could result in lasting changes, likely inherited across generations. These effects could occur due to an irreversible chain reaction within the regulatory network. The researchers plan to validate these findings in lab experiments using a modified CRISPR technique.

Motter and his team suggest that non-genetic heritability may not be limited to E. coli, as similar regulatory networks exist in other organisms. The study, ‘Irreversibility in bacterial regulatory networks,’ was funded by the National Science Foundation.

FAQ:

1. What are bacterial cells?

Bacterial cells are microscopic, single-celled organisms that belong to the domain Bacteria. They are among the simplest and most ancient forms of life, existing in virtually every environment on Earth, from soil to water, and even inside other organisms.

2. How do bacteria store “memory”?

Bacterial memory can be stored through molecular changes within the cell. These changes can involve:
Genetic memory: Alterations in DNA, such as mutations or the acquisition of plasmids, that permanently change the bacterium’s capabilities.
Epigenetic memory: Chemical modifications of DNA or proteins that affect gene expression without altering the DNA sequence.
Protein-based memory: The presence or absence of specific proteins that influence cellular processes based on past conditions.

3. Can bacteria remember past exposures to antibiotics?

Yes, bacteria can “remember” past exposure to antibiotics. This can occur through:
Genetic mutations that confer resistance, allowing them to survive future exposures.
Regulatory changes where certain genes are upregulated or downregulated in response to previous antibiotic exposure, making the bacteria more prepared for future encounters with the antibiotic.

New genetically modified wood can accumulate carbon and lower emissions

However, achieving true sustainability in engineered wood has been challenging due to the reliance on volatile chemicals, significant energy consumption, and the production of considerable waste. New genetically modified wood can accumulate carbon and lower emissions. The researchers tackled this issue by editing a single gene in live poplar trees, allowing the trees to grow wood that is ready for engineering without the need for processing. The findings were published online on August 12, 2024, in the journal Matter.

DateAugust 12, 2024
SourceUniversity of Maryland
SummaryScientists have genetically engineered poplar trees to produce high-performance structural wood without the need for chemical treatments or energy-intensive processing.”
New genetically modified wood can accumulate carbon and lower emissions

If you want to know recent biology news like New genetically modified wood can accumulate carbon and lower emissions: Smell prepares nematodes and the human gut to combat infectionsMantis Shrimp-Clam Relationship Challenges a Biological PrincipleInjury Dressings in First-Aid Kits Can Identify Shark Species After Bite IncidentsHarnessing big data helps scientists home in on new antimicrobials, New geological datings place the first European hominids in the south of the Iberian Peninsula, A New Rule of Biology Focusing on Evolution and Aging.

Watch Here The Yesterday’s News

Researchers at the University of Maryland have genetically engineered poplar trees to produce high-performance structural wood without the need for chemicals or energy-intensive processing. Engineered wood, made from traditional wood, is often viewed as a renewable alternative to traditional building materials like steel, cement, glass, and plastic. It also has the potential to store carbon for extended periods, as it resists deterioration, making it valuable in efforts to reduce carbon emissions.

How New genetically modified wood can accumulate carbon and lower emissions

  • Researchers combines genetic engineering and wood engineering to sustainably sequester and store carbon in a resilient super wood form.
  • Carbon sequestration is crucial in fight against climate change, and such engineered wood could play a significant role in the future bioeconomy.
  • Before wood can be treated to gain structural properties like increased strength or UV resistance, which allows it to replace steel or concrete, it must be stripped of one of its main components, lignin.
  • Previously, UMD researchers developed methods to remove lignin using various chemicals, while others explored enzymes and microwave technology.
  • In this new research, the team aimed to create a method that avoids chemicals, eliminates chemical waste, and reduces energy consumption.
  • By using a technology called base editing to knock out a key gene known as 4CL1, the researchers were able to grow poplar trees with 12.8% lower lignin content than wild-type poplars, comparable to the results of chemical treatments used in engineered wood products.
  • Researchers grew the genetically modified trees alongside unmodified ones in a greenhouse for six months.
  • They observed no differences in growth rates or significant structural differences between the modified and unmodified trees.
  • To test the viability of their genetically modified poplar, the team used it to produce small samples of high-strength compressed wood similar to particle board, commonly used in furniture construction.
  • Compressed wood is made by soaking wood in water under a vacuum and then hot-pressing it until it is nearly one-fifth of its original thickness, which increases the density of the wood fibers.
  • In natural wood, lignin helps cells maintain their structure and prevents them from being compressed. The lower lignin content of chemically treated or genetically modified wood allows the cells to compress more densely, increasing the strength of the final product.
  • To evaluate the performance of their genetically modified trees, the team also produced compressed wood from natural poplar using untreated wood and wood treated with the traditional chemical process to reduce lignin content.
  • Researchers found that the compressed genetically modified poplar performed on par with chemically processed natural wood. Both were denser and more than 1.5 times stronger than compressed, untreated, natural wood.
  • The tensile strength of the compressed genetically modified wood was comparable to that of aluminum alloy 6061 and the chemically treated compressed wood.
  • This work paves the way for producing a variety of building products in a low-cost, environmentally sustainable manner, at a scale that could play a crucial role in the fight against climate change.
  • Thus researchers discovered new genetically modified wood can accumulate carbon and lower emissions.

Researchers discover gene that controls marsupial fur color

Fur is a defining characteristic of mammals, exhibiting a wide range of colors and patterns. Thanks to a groundbreaking study, we now understand gene that controls marsupial fur color whether a marsupial’s coat is black or grey.

DateAugust 6, 2024
SourceUniversity of Otago
SummaryFur, a distinctive feature of mammals, exhibits a vast array of colors and patterns. A groundbreaking study has identified the specific genes responsible for determining whether a marsupial’s coat is black or grey.
Researchers discover gene that controls marsupial fur color

If you want to know recent biology news like Researchers discover gene that controls marsupial fur color: Smell prepares nematodes and the human gut to combat infections, Mantis Shrimp-Clam Relationship Challenges a Biological Principle, Injury Dressings in First-Aid Kits Can Identify Shark Species After Bite Incidents, Harnessing big data helps scientists home in on new antimicrobials, New geological datings place the first European hominids in the south of the Iberian Peninsula, A New Rule of Biology Focusing on Evolution and Aging.

How researchers discover gene that controls marsupial fur color

Researchers from New Zealand’s University of Otago analyzed brushtail possum DNA to better understand the evolution of fur color variation. Published in Royal Society Open Science, the study builds on the group’s previous work of sequencing the entire genome of the New Zealand brushtail possum.

Co-lead Dr. Donna Bond, from Otago’s Department of Anatomy, explains that this is the first time genetic variation in coat color has been studied in a natural population of marsupials.

Although marsupials, such as koalas and wombats, are quite distantly related to us researchers consider them cute and cuddly because of their fur. their research now reveals why most of them have grey fur, while some are black.

The color of a mammal’s fur is intrinsic to its identity, understanding the molecular reasons for this helps relate it to other animal systems, especially under-researched marsupials.

Possums are one of the few marsupials where natural coat color variation exists. In Australia, where they are considered a cultural treasure, many Tasmanian possums are black, while on the mainland they are grey. In New Zealand, where they were introduced in the 1850s for the fur trade and are now considered a pest, these subspecies interbreed extensively.

Due to this interbreeding, we knew we could identify the genes responsible relatively easily and provide a good model for other marsupials with coat color variation that are harder to study.

The researchers also found that the protein responsible for color variation, Agouti Signalling Protein (ASIP), is rapidly evolving in carnivorous dasyurid marsupials perhaps these are most colorful and interesting marsupials based on their fur.

Picture of Marsupials

“You have the quolls, which are spotted and can be either black or grey, and the famously striped tigers and devils with blotches from Tasmania.

“We can now connect the rapid molecular evolution of coat color genes with the role of these carnivorous marsupials as predators needing to avoid detection from prey,” he says. Coat color variation is thought to have evolved in mammals many times to fulfill certain functions.

“For a nocturnal animal like the possum, black fur may help conceal it from predators in Tasmania, but perhaps this is not needed on the Australian mainland.

“As possums continue to adapt and evolve in New Zealand, where they have few predators other than humans, it will be interesting to see whether black or grey coat color is preferred in certain locations,” Associate Professor Hore adds.

Possum skins and fur are a cultural treasure in Australia, where Southern Aboriginal tribes use their skins for cloaks, depicting images and stories on them throughout life. Historically, possum fur and skin were used to make balls for sports like marngrook, which some believe influenced Australian Rules Football.

While possums are protected in Australia, they are considered a pest in New Zealand, where their fur and skin continue to be harvested for its superior insulating properties.

Visit the web story on this topic

FAQ:

1. What are marsupials?

Marsupials are a group of mammals known for carrying and nursing their young in pouches. This group includes animals like kangaroos, koalas, and wombats.

2. Where are marsupials found?

Marsupials are primarily found in Australia and nearby islands, but some species also live in the Americas, such as the opossum.

3. What distinguishes marsupials from other mammals?

The key distinction is the marsupium, or pouch, where the young continue to develop after birth. Marsupials give birth to relatively undeveloped young that complete their development in the mother’s pouch.

A lethal toxin from a sea snail could be a source of better medicines

DateAugust 20, 2024
SourceUniversity of Utah Health
SummaryResearchers are discovering insights into treating diabetes and hormone disorders from an unlikely source: a toxin from one of the world’s most venomous creatures.
A lethal toxin from a sea snail could be a source of better medicines

If you want to know recent biology news like A lethal toxin from a sea snail could be a source of better medicines: Smell prepares nematodes and the human gut to combat infectionsMantis Shrimp-Clam Relationship Challenges a Biological PrincipleInjury Dressings in First-Aid Kits Can Identify Shark Species After Bite IncidentsHarnessing big data helps scientists home in on new antimicrobials, New geological datings place the first European hominids in the south of the Iberian Peninsula, A New Rule of Biology Focusing on Evolution and Aging.

Watch Yesterday’s Video Here

How a lethal toxin from a sea snail could be a source of better medicines

Scientists are uncovering potential treatments for diabetes and hormone disorders from an unexpected source: a toxin found in one of the planet’s most venomous creatures that is a lethal toxin from a sea snail could be a source of better medicines.

A global team of researchers, led by scientists from the University of Utah, has discovered a substance in the venom of the geography cone snail that mimics somatostatin, a human hormone that regulates blood sugar and other hormones. This hormone-like toxin, which the snail uses to hunt prey, has long-lasting and specific effects that could inspire the development of improved drugs for diabetes and hormone-related disorders. Their findings were published in Nature Communications on August 20, 2024.

A Path to Better Medicines

The toxin, named consomatin, acts similarly to somatostatin by controlling blood sugar and hormone levels. However, consomatin is more stable and precise, making it a promising candidate for drug development. By studying how consomatin interacts with somatostatin’s targets in human cells, scientists found that while somatostatin affects multiple proteins, consomatin only impacts one. This specificity allows it to regulate blood sugar and hormone levels without affecting other critical molecules.

Not only is consomatin more targeted than the best synthetic drugs currently available, but it also remains active in the body longer due to the presence of a unique amino acid that makes it resistant to breakdown. This stability is valuable for designing drugs with long-lasting therapeutic effects.

Learning from Deadly Venoms

Dr. Helena Safavi, a biochemistry professor at the University of Utah and senior author of the study, explains that although it may seem counterintuitive, studying venoms can lead to important medical breakthroughs. Venomous creatures, through evolution, have developed toxins that precisely target and disrupt specific molecules in their prey’s bodies—precision that can be harnessed for medical treatments. “Venom components are fine-tuned to hit specific targets,” Safavi notes. “When we isolate one component and study how it affects physiology, that pathway is often crucial for treating diseases.”

Consomatin, which shares an evolutionary background with somatostatin, has been weaponized by the cone snail to prevent its prey’s blood sugar from rising. This toxin works in tandem with another venom component similar to insulin, which rapidly reduces blood sugar, causing the prey to become unresponsive. Consomatin then keeps the blood sugar levels low.

According to Ho Yan Yeung, a postdoctoral researcher and the study’s first author, this dual-action venom hints that other undiscovered toxins in the venom could regulate blood sugar. These toxins might pave the way for better treatments for diabetes.

While it may seem surprising that a snail can outperform human drug design, Safavi points out that cone snails have had millions of years to perfect their venom, whereas humans have only been working on drug development for a few centuries. “Cone snails have had the time to do it right,” she says.

Beetle that Uses the Light of 100 Billion Stars to Push Dung Inspires Advances in Drone and Satellite Navigation

Beetles can be found in almost every habitat on Earth, from forests and deserts to freshwater environments. They have adapted to survive in a wide range of conditions. Beetle that Uses the Light of 100 Billion Stars to Push Dung Inspires Advances in Drone and Satellite Navigation

DateAugust 21, 2024
SourceUniversity of South Australia
SummaryA species of beetle, which first appeared 130 million years ago, has inspired new research aimed at enhancing navigation systems in drones, robots, and satellites.
Beetle that Uses the Light of 100 Billion Stars to Push Dung Inspires Advances in Drone and Satellite Navigation

If you want to know recent biology news like Beetle that Uses the Light of 100 Billion Stars to Push Dung Inspires Advances in Drone and Satellite Navigation: Smell prepares nematodes and the human gut to combat infectionsMantis Shrimp-Clam Relationship Challenges a Biological PrincipleInjury Dressings in First-Aid Kits Can Identify Shark Species After Bite IncidentsHarnessing big data helps scientists home in on new antimicrobials, New geological datings place the first European hominids in the south of the Iberian Peninsula, A New Rule of Biology Focusing on Evolution and Aging.

Watch Yesterday’s Video Here

How Beetle that Uses the Light of 100 Billion Stars to Push Dung Inspires Advances in Drone and Satellite Navigation

The dung beetle is the first known species to use the Milky Way for nighttime navigation, relying on the constellation of stars to roll dung balls in a straight line, avoiding competitors. Swedish researchers discovered this behavior in 2013, and now, Australian engineers are replicating the technique to develop an AI sensor that accurately measures the Milky Way’s orientation in low-light conditions.

Professor Javaan Chahl, a remote sensing engineer from the University of South Australia, along with his PhD students, used computer vision to show that the broad band of light from the Milky Way is not impacted by motion blur, unlike individual stars.

“Nocturnal dung beetles move their head and body a lot while rolling manure, so they need a stable point in the night sky to guide them in a straight path,” says Prof Chahl. “Their compound eyes can’t clearly distinguish individual stars during movement, but the Milky Way remains highly visible.”

In experiments using a camera mounted on a moving vehicle, UniSA researchers captured images of the Milky Way, both while the vehicle was stationary and in motion. These images were used to create a computer vision system that reliably tracks the Milky Way’s orientation, marking the first step toward a new navigation system.

Beetle that Uses the Light of 100 Billion Stars to Push Dung Inspires Advances in Drone and Satellite Navigation
Beetle that Uses the Light of 100 Billion Stars to Push Dung Inspires Advances in Drone and Satellite Navigation

The findings, published in Biomimetics, highlight the potential of this orientation sensor to serve as a backup for stabilizing satellites and aiding drones and robots in navigating low-light environments, even in the presence of motion blur.

“For the next phase, I plan to test the algorithm on a drone to allow it to fly autonomously at night,” says lead author and UniSA PhD candidate Yiting Tao.

While many insects rely on the sun for daytime navigation—like wasps, dragonflies, honeybees, and desert ants—nocturnal insects use the moon or, when it’s obscured, the Milky Way, as dung beetles and some moths do. Prof Chahl emphasizes that insect vision has long provided inspiration for engineers working on navigation systems.

“Insects have been solving complex navigational challenges for millions of years with a brain consisting of only tens of thousands of neurons, while even the most advanced machines struggle to replicate these abilities,” Chahl said.”

FAQ:

1. What are beetles?

Beetles are a type of insect belonging to the order Coleoptera, which is the largest order of insects. They have hard, shell-like front wings (elytra) that protect their delicate hind wings and body.

2. How many species of beetles exist?

There are over 350,000 known species of beetles worldwide, making them the most diverse group of animals on Earth. Some estimates suggest there could be over a million species.

Researchers create an AI model that forecasts the precision of protein-DNA binding

USC researchers create an AI model that forecasts the precision of protein-DNA binding, recently published in Nature Methods, that accurately predicts how various proteins may bind to DNA. This technological breakthrough, called Deep Predictor of Binding Specificity (DeepPBS), has the potential to significantly reduce the time needed for developing new drugs and medical treatments.

DateAugust 9, 2024
SourceUniversity of Southern California
SummaryA new artificial intelligence model can predict how different proteins may bind to DNA.
Researchers create an AI model that forecasts the precision of protein-DNA binding

If you want to know recent biology news like Researchers create an AI model that forecasts the precision of protein-DNA binding: Smell prepares nematodes and the human gut to combat infectionsMantis Shrimp-Clam Relationship Challenges a Biological PrincipleInjury Dressings in First-Aid Kits Can Identify Shark Species After Bite IncidentsHarnessing big data helps scientists home in on new antimicrobials, New geological datings place the first European hominids in the south of the Iberian Peninsula, A New Rule of Biology Focusing on Evolution and Aging.

Watch Another News Video Here

How researchers create an AI model that forecasts the precision of protein-DNA binding:

  • DeepPBS is a geometric deep learning model designed to predict the binding specificity of protein-DNA interactions based on the structures of protein-DNA complexes. By inputting the structure of a protein-DNA complex into an online computational tool, researchers can determine how a protein might bind to any DNA sequence or region of the genome, bypassing the need for high-throughput sequencing or structural biology experiments.
  • “Structures of protein-DNA complexes usually involve proteins bound to a single DNA sequence,” explained Remo Rohs, professor and founding chair of the Department of Quantitative and Computational Biology at USC Dornsife College of Letters, Arts and Sciences. “DeepPBS provides a much-needed AI tool to reveal protein-DNA binding specificity.”
  • DeepPBS uses a geometric deep learning approach, analyzing data through geometric structures to predict binding specificity. The AI tool generates spatial graphs that depict protein structure and the relationship between protein and DNA representations, offering predictions for binding specificity across different protein families, something many current methods can’t do.
  • “Having a universal method for all proteins, not just those from well-studied families, is crucial for researchers. This approach also opens the door to designing new proteins,” said Rohs.
  • The field of protein-structure prediction has seen rapid advancements with tools like DeepMind’s AlphaFold, which predicts protein structure from sequences. DeepPBS complements these methods by predicting specificity for proteins lacking experimental structures.
  • Rohs highlighted that DeepPBS has numerous potential applications. It could accelerate the design of new drugs and treatments targeting specific mutations in cancer cells and contribute to breakthroughs in synthetic biology and RNA research.

FAQ on Researchers create an AI model that forecasts the precision of protein-DNA binding:

1. What is protein-DNA binding?

Protein-DNA binding refers to the interaction between a protein and a specific DNA sequence. This binding is crucial for various biological processes, such as gene regulation, DNA replication, and repair. The specific binding of proteins to DNA sequences helps control when and how genes are expressed in a cell.

2. Why is protein-DNA binding important?

Protein-DNA binding is essential for maintaining the proper functioning of cells. It regulates gene expression, allowing cells to respond to environmental changes, develop properly, and maintain homeostasis. Disruptions in protein-DNA binding can lead to diseases, including cancer and genetic disorders.

3. How do proteins recognize specific DNA sequences to bind with it?

Proteins recognize specific DNA sequences through a combination of chemical and structural interactions. The shape of the DNA helix and the specific sequence of bases allow proteins to bind selectively. Proteins typically have domains that fit into the grooves of the DNA helix, interacting with the bases to ensure precise binding.

How inflammation affects cellular communication in a new way

In the immune system, cell communication is critical for coordinating the body’s defense against pathogens. Immune cells, such as T cells and dendritic cells, use signaling molecules like cytokines to activate, regulate, and direct the immune response, ensuring that it targets harmful invaders effectively while avoiding damage to healthy tissues. So inflammation affects cellular communication by immune system.

DateAugust 14, 2024
SourceIndiana University School of Medicine
SummaryResearchers have advanced way considerably in uncovering the mechanisms of cell communication during inflammation.
Inflammation affects cellular communication

If you want to know recent biology news like inflammation affects cellular communication: Smell prepares nematodes and the human gut to combat infectionsMantis Shrimp-Clam Relationship Challenges a Biological PrincipleInjury Dressings in First-Aid Kits Can Identify Shark Species After Bite IncidentsHarnessing big data helps scientists home in on new antimicrobials, New geological datings place the first European hominids in the south of the Iberian Peninsula, A New Rule of Biology Focusing on Evolution and Aging.

Watch Here The Yesterday’s News

Cell communication refers to the process by which cells interact with each other through signaling molecules. These interactions are crucial for coordinating various cellular activities, such as growth, immune responses(because inflammation affects cellular communication), and tissue repair.

How inflammation affects cell communication:

During inflammation, cell communication is heightened as immune cells release signaling molecules to recruit other immune cells to the site of injury or infection. This communication is essential for initiating and sustaining the inflammatory response, which helps the body fight off infections and repair damaged tissues. However, dysregulated communication can lead to chronic inflammation and diseases like multiple sclerosis.

STAT4:

STAT4 (Signal Transducer and Activator of Transcription 4) is a protein that plays a critical role in the immune system. It belongs to the STAT family of transcription factors, which are essential for transmitting signals from cytokines (signaling molecules) and growth factors to the cell nucleus, where they influence gene expression.

Function of STAT4:

STAT4 is primarily involved in the development and function of Th1 cells, a subset of T cells that produce the cytokine interferon-gamma (IFN-γ). Th1 cells are essential for the immune response against intracellular pathogens. STAT4 also influences the production of other cytokines that help coordinate the immune response and inflammation.

How inflammation affects cellular communication in new way

  • Researchers at Indiana University School of Medicine have made notable strides in understanding how cells communicate during inflammation. Their five-year study, recently published in PNAS, concentrated on the molecules that facilitate cellular functions during inflammation, especially in the central nervous system, where diseases like multiple sclerosis arise.
  • Communication is crucial in any relationship, even at the cellular level where diseases are involved. The molecules enabling cell functions during inflammation act like text messages exchanged between or within cells. Researchers have been investigating which cells receive these messages and how they respond in an inflammatory environment within the central nervous system, leading to diseases such as multiple sclerosis.
  • The signaling molecule STAT4, previously thought to mainly function in T cells (a part of the immune system), was discovered by the team to play a critical role in dendritic cells—a specific cell type that reacts to the extracellular signals IL-12 and IL-23.
  • Research has shown that STAT4 could be a potential target for treating inflammatory diseases in the central nervous system. By comprehending cellular communication and STAT4’s role, researchers may develop therapies to modify immune responses and ease symptoms of diseases like multiple sclerosis.
  • The study’s lead author, Nada Alakhras, PhD, is a recent IU School of Medicine graduate who now works at Eli Lilly and Company. Other contributors include Wenwu Zhang, Nicolas Barros, James Ropa, Raj Priya, and Frank Yang, all from IU, and Anchal Sharma of Eli Lilly and Company.

Smell prepares nematodes and the human gut to combat infections

Many organisms instinctively avoid the smell of deadly pathogens, but a recent study by the University of California, Berkeley, reveals that the nematode C. elegans not only detects the odor of pathogenic bacteria but also prepares its intestinal cells to defend against a potential infection. So Smell prepares nematodes and the human gut to combat infections, the research was published on June 21 in the journal Science Advances.

DateAugust 7, 2024
SourceUniversity of California – Berkeley
SummaryIn both nematodes and humans, mitochondrial stress in the nervous system triggers a body-wide response, particularly affecting the gut.
Smell prepares nematodes and the human gut to combat infections

If you want to know recent biology news like Smell prepares nematodes and the human gut to combat infections: Harnessing big data helps scientists home in on new antimicrobials, New geological datings place the first European hominids in the south of the Iberian Peninsula 1.3 million years agoHow Domestic Rabbits Become Feral in the Wild.

A recent study revealed that in nematodes, the odor of a pathogen activates the nervous system to signal this response throughout the organism, preparing intestinal cell mitochondria to combat bacterial infection. Humans might also be able to detect pathogenic smells that prime the gut for an infection.

Just see what is C. elegans?

  • Like humans, nematodes often face gut infections from harmful bacteria. In response, C. elegans destroys iron-containing organelles called mitochondria, which are responsible for producing cellular energy, to protect iron from bacteria that steal it. Iron is crucial for many enzymatic reactions, especially in generating ATP, the cell’s energy currency.
  • The discovery of this protective response in nematodes suggests that other organisms, including mammals, may also have the ability to respond defensively to the scent of pathogens, according to Andrew Dillin, a UC Berkeley professor of molecular and cell biology and a Howard Hughes Medical Institute (HHMI) investigator.
  • So far, this response has only been observed in C. elegans. Still, the discovery is surprising, given that the nematode is one of the most extensively studied organisms in labs, where biologists have tracked every cell from embryo to death.
  • There’s evidence suggesting that beyond this mitochondrial response, a more generalized immune response might be triggered just by smelling bacterial odors. Since olfaction plays a significant role in regulating physiology and metabolism across animals, it’s entirely possible that mammals also have a similar mechanism to C. elegans.

How do Smell prepares nematodes and the human gut to combat infections?

  • Stress in the nervous system activates protective cellular responses, particularly through a suite of genes that stabilize proteins in the endoplasmic reticulum, a process known as the unfolded protein response (UPR). This UPR serves as a “first aid kit” for mitochondria, which are not only the cell’s powerhouses but also play essential roles in signaling, cell death, and growth.
  • The errors in the UPR network can lead to disease and aging and that mitochondrial stress in one cell can communicate with mitochondria across the body. What environmental factors trigger the nervous system to signal this stress?
  • Our nervous system evolved to detect environmental cues and maintain homeostasis throughout the organism. The smell neurons detect these cues and identified the specific odorants from pathogens that activate this response.
  • Mitochondria’s sensitivity to the smell of pathogenic bacteria might be a vestige from when mitochondria were free-living bacteria before becoming the power plants of eukaryotic cells about 2 billion years ago. These eukaryotes eventually evolved into multicellular organisms with specialized organs, like animals and humans.
  • The smell of pathogens triggers an inhibitory response, sending a signal throughout the body. This was evident when he ablated olfactory neurons in the worm, causing all peripheral cells, particularly intestinal cells, to exhibit the stress response typical of threatened mitochondria. The study also identified serotonin as a key neurotransmitter communicating this information body-wide.
  • Now mapping the neural circuits from smell neurons to peripheral cells and investigating the neurotransmitters involved. Researchers are also exploring whether a similar response occurs in mice in relation toSmell prepares nematodes and the human gut to combat infections.

FAQ on smell prepares nematodes and the human gut to combat infections

1. What are nematodes?

Nematodes, also known as roundworms, are a diverse group of microscopic, worm-like organisms that belong to the phylum Nematoda. They are one of the most abundant animals on Earth, found in nearly every ecosystem, including soil, water, plants, and animals.

2. Where do nematodes live?

Nematodes inhabit a wide range of environments, from deep ocean floors to arid deserts. They can be found in soil, freshwater, marine environments, and as parasites in plants, animals, and humans. Some nematodes are free-living, while others have evolved as parasites.

3. What is Caenorhabditis elegans?

Caenorhabditis elegans (commonly known as C. elegans) is a small, free-living nematode (roundworm) that is widely used as a model organism in biological research. It is about 1 millimeter long, transparent, and lives in soil, where it feeds on bacteria.

4. Why is C. elegans used as a model organism?

C. elegans is used as a model organism because of its simplicity, transparency, short lifecycle, and well-characterized genetics. It has a relatively small genome and a fully mapped cell lineage, making it ideal for studying developmental biology, genetics, neurobiology, and aging. Its short lifecycle (about 3 days from egg to adult) allows for rapid generation turnover in experiments. So smell prepares nematodes and the human gut to combat infections, this research is also based on C. elegans.

5. How was C. elegans first used in research?

C. elegans was first introduced as a model organism in the 1960s by Sydney Brenner, a pioneering molecular biologist. Brenner chose C. elegans to study the development of a simple multicellular organism, and his work laid the foundation for much of the research conducted with this nematode today. His efforts were recognized with a Nobel Prize in Physiology or Medicine in 2002.

6. What is the significance of the C. elegans genome?

The genome of C. elegans was the first multicellular organism’s genome to be fully sequenced, completed in 1998. It has approximately 20,000 genes, many of which have counterparts in humans. This makes C. elegans a valuable tool for understanding the genetic basis of development and disease.