Scientists uncover history of ancient viruses as far back as 30 million years ago

Researchers from Boston College, US, have revealed the global spread of an ancient group of retroviruses that affected about 28 of 50 modern mammals’ ancestors some 15 to 30 million years ago.

Retroviruses are abundant in nature and include human immunodeficiency viruses (HIV-1 and -2) and human T-cell leukemia viruses. The scientists’ findings on a specific group of these viruses called ERV-Fc, to be published in the journal eLife, show that they affected a wide range of hosts, including species as diverse as carnivores, rodents, and primates.

The distribution of ERV-Fc among these ancient mammals suggests the viruses spread to every continent except Antarctica and Australia, and that they jumped from one species to another more than 20 times.

The study also places the origins of ERV-Fc at least as far back as the beginning of the Oligocene epoch, a period of dramatic global change marked partly by climatic cooling that led to the Ice Ages. Vast expanses of grasslands emerged around this time, along with large mammals as the world’s predominate fauna.

“Viruses have been with us for billions of years, and exist everywhere that life is found. They therefore have a significant impact on the ecology and evolution of all organisms, from bacteria to humans,” says co-author Welkin Johnson, Professor of Biology at Boston College where his team carried out the research.

“Unfortunately, viruses do not leave fossils behind, meaning we know very little about how they originate and evolve. Over the course of millions of years, however, viral genetic sequences accumulate in the DNA genomes of living organisms, including humans, and can serve as molecular ‘fossils’ for exploring the natural history of viruses and their hosts.”

Using such “fossil” remnants, the team sought to uncover the natural history of ERV-Fc. They were especially curious to know where and when these pathogens were found in the ancient world, which species they infected, and how they adapted to their mammalian hosts.

To do this, they first performed an exhaustive search of mammalian genome sequence databases for ERV-Fc loci and then compared the recovered sequences. For each genome with sufficient ERV-Fc sequence, they reconstructed the sequences of proteins representing the virus that colonized the ancestors of that particular species. These sequences were then used to infer the natural history and evolutionary relationships of ERV-Fc-related viruses.

The studies also allowed the team to pinpoint patterns of evolutionary change in the genes of these viruses, reflecting their adaptation to different kinds of mammalian hosts.

Perhaps most interestingly, the researchers found that these viruses often exchanged genes with each other and with other viruses, suggesting that genetic recombination played a significant role in their evolutionary success.

“Mammalian genomes contain hundreds of thousands of ancient viral fossils similar to ERV-Fc,” says lead author William E. Diehl from the University of Massachusetts, who conducted the study while a post-doctoral researcher at Boston College.

“The challenge will now be to use ancient viral sequences for looking back in time, which may prove insightful for predicting the long-term consequences of newly emerging viral infections. For example, we could potentially assess the impact of HIV on human health 30 million years from now. The method will allow us to better understand when and why new viruses emerge and how long-term contact with them impacts the evolution of host organisms.”

Source: eLife

Source: Scientists uncover history of ancient viruses as far back as 30 million years ago | Science Codex

New target could help to reduce symptoms of asthma attacks, research shows

An international team of researchers from the Universities of Leicester and Naples has examined the role of a receptor in the body that could help to prevent or reduce the effects of asthma attacks.

In a new paper, published in the British Journal of Pharmacology, the team examined the role in the body of nociceptin, a peptide that activates the nociceptin receptor, better known for its association with pain processing.

In asthma there is a constriction of the airways and an increase in immune activation – typically these are treated with a dilator (salbutamol) and a steroid (to reduce immune response).

The study identified that nociceptin has substantial activity in asthma models given before or during an asthma attack – and that a single molecule reduces both the immune response and causes dilation.

It is hoped through the observation that scientists can demonstrate effects before or during asthma that the discovery could help to prevent or reduce established asthma attacks in people suffering from the disease.

Professor David Lambert, Professor of Anaesthetic Pharmacology from the University of Leicester’s Department of Cardiovascular Sciences and Leicester’s Hospitals said: “I have been working on the pain related and immune modulatory actions of nociceptin for many years and it is really exciting to see this translated into a further therapeutic arena; the devastating airways disease of asthma.”

Professor Chris Brightling, NIHR Senior Investigator and Honorary Consultant from the University of Leicester’s Department of Infection, Immunity and Inflammation and Leicester’s Hospitals added: “In spite of good treatments for asthma many people with asthma still have ongoing symptoms and frequent attacks. This exciting research presents an entirely new approach for asthma that needs to be tested in clinical trials.”

Professor Bruno D’Agostino from the University of Naples said: “For many years, my research group has been working on the role of nociceptin in the regulation of airway responsiveness in animal models, and it is very interesting translating our results into clinic area regarding asthma, a disease that is forecast to grow over the next years.”

This study was part funded by Airway Disease Predicting Outcomes through Patient Specific Computational Modelling (AirPROM), Asthma UK, and the National Institute for Health Research (NIHR) Leicester Respiratory Biomedical Research Unit.

Work in Italy was funded by PRIN 2010-2011 n. 2010Y4WMCR_005 from the Italian Ministry of Education, University and Research (MIUR).

AirPROM is funded from the European Union under grant agreement n° 270194 and brings together experts and current research to build a multi-scale computational model of the lung as a new way of characterising asthma and COPD.

Dr Erika Kennington, Head of Research at Asthma UK, added: “There’s nothing as terrifying as not being able to breathe, yet every 10 seconds someone in the UK has a potentially life threatening asthma attack. This research is exciting because the protein identified here may relieve not just the symptoms, but the inflammation of the lungs and the tightening of the airways that cause asthma too. We urgently need more investment in asthma research to turn these findings into new treatments.”

Source: University of Leicester

Source: New target could help to reduce symptoms of asthma attacks, research shows | Science Codex

Sea level rise threatens larger number of people than earlier estimated

Rising sea level threatens larger number of people that earlier estimated. Shanghai with over 24 million inhabitants is one of the megacities that will suffer from the projected sea level rise and intensified storms. Credit: Olli Varis / Aalto University

More people live close to sea coast than earlier estimated, assess researchers in a new study. These people are the most vulnerable to the rise of the sea level as well as to the increased number of floods and intensified storms. By using recent increased resolution datasets, Aalto University researchers estimate that 1.9 billion inhabitants, or 28% of the world’s total population, live closer than 100 km from the coast in areas less than 100 meters above the present sea level.

By 2050 the amount of people in that zone is predicted to increase to 2.4 billion, while population living lower than 5 meters will reach 500 million people. Many of these people need to adapt their livelihoods to changing climate, say Assistant Professor Matti Kummu from Aalto University.

The study found that while population and wealth concentrate by the sea, food must be grown further and further away from where people live. Highlands and mountain areas are increasingly important from food production point of view, but also very vulnerable to changes in climate.

 

  • Over the past century there has been a clear tendency that cropland and pasture areas have grown most in areas outside the population hotspots, and decreased in coastal areas. This will most probably only continue in the future, summarises Professor Olli Varis from Aalto University.

 

Even though people and wealth continue to accumulate in coastal proximity, their growth is even faster in inland and mountainous areas, the study reveals. This contradicts the existing studies. In the future, the world will be less diverse in terms of urbanisation and economic output, when assessing it from geospatial point of view.

For the analysis, researchers used several global gridded datasets. They first created a geographic zoning in relation to the elevation and proximity to coast. This was then used to study the factors included in the study, which were grouped into five clusters: climate, population, agriculture, economy, and impact on environment. For the factors with temporal extent, the researchers also assessed their development over time period of 1900-2050.

source: Aalto University

Source: Sea level rise threatens larger number of people than earlier estimated | Science Codex

New discoveries on the connection between nicotine and type 2 diabetes

Researchers at Lund University in Sweden have made two new discoveries with regard to the beta cells’ ability to release insulin. The findings can also provide a possible explanation as to why smokers have an increased risk of type 2 diabetes.

The study was conducted on mice and donated beta cells from humans, and is now published in the scientific journal Cell Reports.

The researchers have discovered that so-called nicotinic acetylcholine (nicotine-sensitive) receptors influence the normal release of insulin. They also show that a specific genetic alteration renders dysfunctional nicotine-receptors affecting the number of functional nicotine-sensitive receptors found in beta cells. A reduced number of functional receptors leads to a decrease in insulin secretion, thereby increasing the risk of developing type 2 diabetes.

“The receptors in the beta cells that stimulate the release of insulin are normally activated by the signal substance acetylcholine, but they can also be activated by nicotine. Never before has the importance of nicotine-sensitive receptors been shown in terms of the function of beta cells. Our research indicates that people who lack these receptors are at higher risk of developing type 2 diabetes”, says Isabella Artner, researcher at Lund University responsible for the study.

Isabella Artner and her colleagues have also discovered that the gene MafA (muscoloaponeurotic fibrosacoma oncogene family A) found in insulin-producing beta cells control the number of nicotine-sensitive receptors and thereby their ability to receive signals from the central nervous system.

“The effect that this single gene, MafA, alone has on insulin secretion was previously unknown, and nicotine receptors have never before been connected to type 2 diabetes”, says Isabella Artner, and continues:

“We know that smokers have an increased risk of developing type 2 diabetes, but the reason why has not been firmly established. Perhaps it has to do with the nicotine-sensitive receptors we describe. Our findings increase knowledge about the connection between smoking and type 2 diabetes.

Source: Lund University

Source: New discoveries on the connection between nicotine and type 2 diabetes | Science Codex

Mitochondrial troublemakers unmasked in lupus | Science Codex

Lupus low-density granulocytes spontaneously undergo NETosis — a process in which the immune cell throws out genetic material (DNA, blue) and antimicrobial molecules such as elastase (green) in a web-like structure Credit: Elkon Lab/University of Washington

New findings expose how mitochondria might instigate lupus-like inflammation.

Mitochondria are the power stations in living cells, but they also have many other sidelines. The byproducts of their respiration and energy conversion, for instance, include molecules eager to participate in chemical changes. These reactive oxygen species are two-edged swords that can harm the body or protect it.

For reasons yet unknown, certain white blood cells in lupus and in other chronic inflammatory diseases produce elevated amounts of mitochondrial reactive oxygen species.

Researchers at the University of Washington and the National Institutes of Health are discovering more about how these chemicals and other mitochondrial materials provoke the body’s self-attack in systemic lupus erythematosus.

“Because mitochondria are a potent source of reactive oxygen species, and because mitochondrial DNA has been implicated recently in inflammatory responses,” the researchers noted, “we wanted to examine their role in this autoimmune disorder.”

Lupus is more common in young women and varies in its constellation of symptoms from patient to patient. Its severity ranges from mild to disabling. In some patients, lupus is life-threatening. Currently no treatment exists to cure it. Periodic flares can affect one or more parts of the body. During a flare, a burning rash, which early doctors thought resembled the scratch of a wolf’s paw, often reddens the cheeks. The joints, kidneys, and the sack surrounding the heart can become swollen and painful. If the brain is under autoimmune siege, headaches, seizures or episodes of psychosis can occur.

Neutrophils – the white blood cells that normally capture pathogens – are among the suspects in autoimmune disorders. Germs, as well as damaged cells and immune particles the body manufactures, can goad a neutrophil to create a mesh outside itself in an attempt to ensnare offenders.

Past studies suggest that these traps also could promote the organ damage of lupus. The formation of neutrophil extracellular traps, or NETs, can lead to a type of cell death called NETosis. Either aberrant NETosis or impaired NET clearance likely plays a role in several autoimmune disorders, including lupus. In mouse studies, drugs that inhibit NETosis result in improvements in lupus. These drugs also reduce hardening of the arteries and abnormal clotting.

How these traps are generated, however, and how they provoke inflammation when no infection is present, are both unclear.

These questions, and the contribution of these phenomena to lupus-like disease, are being explored by a research team jointly led by Keith B. Elkon, UW professor of rheumatology, and Mariana J. Kaplan, chief of the Systemic Autoimmunity Branch of the National Institute of Arthritis and Musculoskeletal and Skin Diseases.

Their most recent results appear this week in Nature Medicine.

They report that the RNA-protein immune complexes commonly found in lupus patients induce cell death by NETosis in a process dependent on mitochondrial reactive oxygen species.

Usually the cell has mechanisms that prevent oxidative DNA damage. In the case of immune complex stimulated NETosis, the cell’s survival mode is disrupted. The nuclear membrane disintegrates, leaving genomic DNA exposed to reactive oxygen species. Mitochondrial DNA is more vulnerable than genomic DNA to oxidant damage, the researchers explained.

After the immune complexes spur the neutrophils, the cells’ mitochondria rise to the cell surface. They spew oxidized mitochondrial DNA into their environment through the neutrophil extracellular trap.

In lab studies, the researchers noted, this extracellular release of oxygenated mitochondrial DNA promotes an inflammatory reaction. When this DNA is injected into mice, its unwelcome presence is detected by DNA sensors and leads to activation of a protein called STING. A chemical warning goes off. The resulting type 1 interferon signaling calls up antimicrobial defenses and other immune responses.

In a related study on a mouse model of lupus, the researchers treated the mice with scavengers that clean up the overflow of mitochondrial reactive oxygen species. They found this could reduce type I interferon responses, as well as the severity of the lupus.

This finding is clinically relevant to autoimmune diseases, according to the research report, because various reactive oxygen species inhibitors are currently being tested in clinical settings for other diseases. They could be studied as potential therapeutic agents for systemic autoimmunity.

In the clinical part of the research project, a distinct class of neutrophils – low-density granulocytes – were obtained in blood samples from individuals with systematic lupus erythematosus and people with chronic granulomatous disease. The researchers noted that mitochondrial reactive oxygen species played a necessary role in the spontaneous NETosis cell death of low-density granulocytes. Furthermore, the released NETs contained large amounts of oxidized mitochondrial DNA.

The authors noted, “Together these findings highlight a role for mitochondria in the generation of neutrophil extracellular traps, and also in the generation of pro-inflammatory oxidized mitochondrial DNA in autoimmune diseases.”

The results, in summary, offer evidence that neutrophil extracellular traps enriched with mitochondrial DNA could help drive lupus-like diseases and could lead to novel therapeutic approaches.

source: University of Washington Health Sciences/UW Medicine

Source: Mitochondrial troublemakers unmasked in lupus | Science Codex