It’s possible that I shall make an ass of myself. But in that case one can always get out of it with a little dialectic. I have, of course, so worded my proposition as to be right either way (K.Marx, Letter to F.Engels on the Indian Mutiny)
Thursday, February 09, 2023
Current microbiome analyses may falsely detect species that are not actually present
Study of simulated microbial communities shows analyses are flawed by incomplete DNA databases
Common approaches to analyze DNA from a community of microbes, called a microbiome, can yield erroneous results, in large part due to the incomplete databases used to identify microbial DNA sequences. A team led by Aiese Cigliano of Sequentia Biotech SL, and Clemente Fernandez Arias and Federica Bertocchini of the Centro de Investigaciones Biologicas Margarita Salas, report these findings in a paper published February 8 in the open-access journal PLOS ONE.
Microbiomes have been the focus of intense research efforts in recent decades. These studies range from attempts to understand conditions such as obesity and autism by examining the human gut, to finding microbes that degrade toxic compounds or produce biofuels by studying environmental communities. The most commonly used methods for studying microbial communities rely on comparing the DNA obtained from a biological sample to sequences in genome databanks. Therefore, researchers can only identify DNA sequences that are already in the databases – a fact that may severely compromise the reliability of microbiome data in unexpected ways.
To test the consistency of current methods of microbiome analysis, researchers used computer simulations to create virtual microbiome communities that imitate real-world bacterial populations. They used standard techniques to analyze the virtual communities and compared the results with the original composition. The experiment showed that results from DNA analyses can bear little resemblance to the actual composition of the community, and that a large number of the species “detected” by the analysis are not actually present in the community.
For the first time, the study demonstrates significant flaws in the techniques currently used to identify microbial communities. The researchers conclude that there is a need for increased efforts to collect genome information from microbes and to make that information available in public databases to improve the accuracy of microbiome analysis. In the meantime, the results of microbiome studies should be interpreted with caution, especially in cases where the available genomic information from those environments is still scarce.
The authors add: “This study reveals intrinsic constraints in metagenomic analysis stemming from current database limitations and how genomic information is used. To enhance the reliability of metagenomic data, a research effort is necessary to improve both database contents and analysis methods. Meanwhile, metagenomic data should be approached with great care.”
Citation: Serrano-Antón B, Rodríguez-Ventura F, Colomer-Vidal P, Cigliano RA, Arias CF, Bertocchini F (2023) The virtual microbiome: A computational framework to evaluate microbiome analyses. PLoS ONE 18(2): e0280391. https://doi.org/10.1371/journal.pone.0280391
Author Countries: Spain
Funding: FB and CFA gratefully acknowledge support by the Roechling foundation. BS was partially supported by MINECO grant MTM2017-85020-P. The funders had no role in study design, data collection and analysis, decision to publish, or preparation of the manuscript.
Pesticides have proven effective in protecting crop yield against plant pathogens, but the environmental detriment to nontarget organisms has prompted a tug-of-war between organic and conventional agriculture practices. This poses the question: How can growers and farmers sustain their business in the safest, most responsible way? While copper, a naturally occurring pesticide, has been widely implemented in response to this question, finding additional biocontrol methods will reduce copper use and further contribute to sustainable solutions.
A study by Sophie Hermann and colleagues, recently published in Plant Disease, revealsanother promising biocontrol alternative. Since the licorice plant has broadly benefitted other industries, the researchers tested its impact as a pesticide—discovering that the licorice leaf extract is a potent bactericide and fungicide. Corresponding author Adam Schikora explains, “In the pharmaceutical, cosmetic, and food industries, the interest focuses primarily on roots of the licorice plant. The leaves and upper parts of the plant are byproducts and often neglected. However, we show their potential as a base for plant protection products, which may be utilized in both conventional and organic agriculture systems.”
Using plant efficacy trials, the researchers tested the impact of licorice leaf extract on the virulence of common, highly pathogenic bacteria in the model plant Arabidopsis and in tomato. Their results demonstrate that licorice leaf extract modulates plant immune responses to pathogens, involving both salicylic acid and ethylene-based responses. The extract also acts against a particular late blight-causing oomycete that is resistant to metalaxyl, the active ingredient in several synthetic fungicides.
Altogether, these exciting results offer a potential way to naturally control plant diseases caused by a vast range of pathogens, including bacteria and oomycetes. Schikora comments, “The possibility to develop biological alternatives for plant protection that are sustainable and employ otherwise unused materials will not only help in our agricultural approaches, but also support local, circular economies.”
Further studies can help extract every bit of potential that licorice leaf extract holds as an alternative plant protection measure in the production of economically important crops.
INTERNATIONAL INSTITUTE FOR APPLIED SYSTEMS ANALYSIS
A new study analyzes the factors that drive environmental concern among Europeans in an effort to understand how we can bolster popular support for combatting climate change.
While we can already feel the effects of climate change on our skins, the majority of the European population still does not consider climate change, the environment, and energy to be among the most pressing issues for national policymaking. Support from the public, however, is crucial to enable stringent and sustainable environmental policy in democracies.
To raise the motivation of the general population towards climate action, we need to know which factors drive concern in people for the climate and the environment. In a new study published in Global Environmental Change, Jonas Peisker, a researcher in the IIASA Population and Just Societies Program, addressed how environmental preferences in 206 European regions are shaped by socioeconomic, geographical, and meteorological circumstances.
“I wanted to offer a data-driven perspective on the determinants of environmental concern that highlights the relevance of individuals’ embeddedness in socioeconomic and environmental contexts,” explains Peisker. “While previous research has only considered a few contextual influences at a time, this study allows for a comparison of their relative importance, including also factors that differ mostly between regions, such as inequality, income level, or geographical features.”
To find determinants of environmental concern, Peisker used the method of Bayesian Model Averaging based on 25 Eurobarometer surveys conducted between 2009 and 2019 combined with measures of the regional economy, population, geography, environmental quality, and meteorological events.
The study found that favorable economic contexts, such as a relatively high income level and low inflation, foster environmental concern. This is likely related to the idea of a “finite pool of worry” in which more immediate issues like economic security crowd out less immediate issues like climate policy. Interestingly, rising energy prices only lowered environmental concerns up to a certain point at which environmental concerns started to rise as well. At this point, energy supply could become an issue which raises environmental concerns in itself.
The results showed that a more equal distribution of income and wealth had a positive impact on the prioritization of environmental issues, suggesting that social cohesion is beneficial for green concerns. Moreover, Peisker found that regions with greenhouse gas-intensive industries had lower environmental concern among locals. This could be related to worries about the potential effects of environmental policies on economic competitiveness in the transition from fossil to clean technology. While environmental factors, such as having a low-elevation coastline, also influence environmental concern, overall, the socioeconomic context proved more important.
“The results of the study emphasize that social cohesion and a just transition to carbon neutrality are key for the bottom-up support for environmental policy,” says Peisker. “Climate policy and environmental protection are likely to be unpopular if they are increasing income and wealth inequality, inflation, and unemployment. Therefore, a way to support climate action could be to emphasize the co-benefits of environmental policy, for instance, positive employment effects of the transition to renewable energy sources.”
Reference
Peisker, J. (2023) Context matters: The drivers of environmental concern in European regions. Global Environmental Change. DOI: 10.1016/j.gloenvcha.2023.102636
About IIASA: The International Institute for Applied Systems Analysis (IIASA) is an international scientific institute that conducts research into the critical issues of global environmental, economic, technological, and social change that we face in the twenty-first century. Our findings provide valuable options to policymakers to shape the future of our changing world. IIASA is independent and funded by prestigious research funding agencies in Africa, the Americas, Asia, and Europe.
INSTITUTE FOR OPERATIONS RESEARCH AND THE MANAGEMENT SCIENCES
INFORMS Journal Management Science New Study Key Takeaways:
Researchers develop an optimal way to utilize “direct load control contracts,” to help utilities mitigate electricity demand surges, increase grid reliability and reduce electricity cost.
For utilities that use “direct load control contracts,” figuring out how to allocate these temporary power cuts can be a complex, challenging task.
With the tool, utilities can quickly determine which customers to reduce power to, and for how long, while limiting the amount of time in a year that any one customer is affected.
BALTIMORE, MD, February 8, 2023 – Concerns are mounting among policymakers and utility companies amid the impact of severe weather on the nation’s electrical grids. In recent months, electrical grids in Texas have been tested to the point of near failure. So it seems like perfect timing that new research in the INFORMS journal Management Science identifies a new method that provides the best way to utilize “direct load control contracts” to mitigate electricity demand surges, increase grid reliability and reduce electricity cost. All of this right down to the individual household.
“With this tool, utilities can quickly determine which customers to reduce power to, and for how long, while limiting the amount of time in a year that any one customer is affected,” says Ali Fattahi of Johns Hopkins University. “Direct load control contracts affect only households that volunteer (in exchange for a break on their electricity bills).”
The study, “Peak Load Energy Management by Direct Load Control Contracts,” finds that by allowing utilities to mitigate demand surges by controlling air conditioners and other devices in residential and commercial units, more reliance can be placed on electrical grids, calming fears nationwide.
This research provides a more efficient way to design direct load control contracts to reduce total cost of generating electricity during peak times.
“Let’s say you’re going to be away from your house for an extended period, one or two months. With this program, you can coordinate with the power company to reduce the load your house is placing on the grid during that time, freeing up energy that can be directed to people on your grid who are home,” says Fattahi.
Fattahi, alongside study co-authors, Sriram Dasu and Reza Ahmadi of the University of Southern California, Los Angeles, say that while utilities could rely on rolling blackouts or widespread brownouts to reduce peak demand, demand-response mechanisms such as direct load control contracts mean that power cuts will affect only households that volunteer.
To test the model, the authors used electricity consumption figures for three California utilities between 2009 and 2014.
“Our results suggest the model could reduce the utilities’ peak-demand energy costs by about 5%. And it showed a reduction in summer peak demand from 36,000 to 32,000 megawatt hours,” says Dasu, professor in the Marshall School of Business at the University of Southern California, Los Angeles.
Management Science is a premier peer-reviewed scholarly journal focused on research using quantitative approaches to study all aspects of management in companies and organizations. It is published by INFORMS, the leading international association for operations research and analytics professionals. More information is available at www.informs.org or @informs.
“Peak Load Energy Management by Direct Load Control Contracts”
UK Scientists make major breakthrough in developing practical quantum computers that can solve big challenges of our time
Universal of Sussex and Universal Quantum scientists have, for the first time, connected quantum microchips together, like a jigsaw puzzle, to make powerful quantum computers and with record breaking connection speed and accuracy
Researchers from the University of Sussex and Universal Quantum have demonstrated for the first time that quantum bits (qubits) can directly transfer between quantum computer microchips and demonstrated this with record-breaking speed and accuracy. This breakthrough resolves a major challenge in building quantum computers large and powerful enough to tackle complex problems that are of critical importance to society.
Today, quantum computers operate on the 100-qubit scale. Experts anticipate millions of qubits are required to solve important problems that are out of reach of today’s most powerful supercomputers [1, 2]. There is a global quantum race to develop quantum computers that can help in many important societal challenges from drug discovery to making fertilizer production more energy efficient and solving important problems in nearly every industry, ranging from aeronautics to the financial sector.
In the research paper, published today (from 10:00 GMT, Wednesday 8 February 2023) in Nature Communications, the scientists demonstrate how they have used a new and powerful technique, which they dub ‘UQ Connect’, to use electric field links to enable qubits to move from one quantum computing microchip module to another with unprecedented speed and precision. This allows chips to slot together like a jigsaw puzzle to make a more powerful quantum computer.
The University of Sussex and Universal Quantum team were successful in transporting the qubits with a 99.999993% success rate and a connection rate of 2424/s, both numbers are world records and orders of magnitude better than previous solutions.
Professor Winfried Hensinger, Professor of Quantum Technologies at the University of Sussex and Chief Scientist and Co-founder at Universal Quantum said: “As quantum computers grow, we will eventually be constrained by the size of the microchip, which limits the number of quantum bits such a chip can accommodate. As such, we knew a modular approach was key to make quantum computers powerful enough to solve step-changing industry problems. In demonstrating that we can connect two quantum computing chips – a bit like a jigsaw puzzle – and, crucially, that it works so well, we unlock the potential to scale-up by connecting hundreds or even thousands of quantum computing microchips.”
While linking the modules at world-record speed, the scientists also verified that the ‘strange’ quantum nature of the qubit remains untouched during transport, for example, that the qubit can be both 0 and 1 at the same time.
Dr Sebastian Weidt, CEO and Co-founder of Universal Quantum, and Senior Lecturer in Quantum Technologies at the University of Sussex said: “Our relentless focus is on providing people with a tool that will enable them to revolutionise their field of work. The Universal Quantum and University of Sussex teams have done something truly incredible here that will help make our vision a reality. These exciting results show the remarkable potential of Universal Quantum’s quantum computers to become powerful enough to unlock the many lifechanging applications of quantum computing.”
Universal Quantum has just been awarded €67 million from the German Aerospace Center (DLR) to build two quantum computers where they will deploy this technology as part of the contract. The University of Sussex spin-out was also recently named as one of the 2022 Institute of Physics award winners in the Business Start-up category.
Weidt added: “The DLR contract was likely one of the largest government quantum computing contracts ever handed out to a single company. This is a huge validation of our technology. Universal Quantum is now working hard to deploy this technology in our upcoming commercial machines.”
Dr Mariam Akhtar led the research during her time as Research Fellow at the University of Sussex and Quantum Advisor at Universal Quantum. She said: “The team has demonstrated fast and coherent ion transfer using quantum matter links. This experiment validates the unique architecture that Universal Quantum has been developing – providing an exciting route towards truly large-scale quantum computing.”
Professor Sasha Roseneil, Vice-Chancellor of the University of Sussex, said: “It’s fantastic to see that the inspired work of the University of Sussex and Universal Quantum physicists has resulted in this phenomenal breakthrough, taking us a significant step closer to a quantum computer that will be of real societal use. These computers are set to have boundless applications – from improving the development of medicines, creating new materials, to maybe even unlocking solutions to the climate crisis. The University of Sussex is investing significantly in quantum computing to support our bold ambition to host the world’s most powerful quantum computers and create change that has the potential to positively impact so many people across the world. And with teams spanning the spectrum of quantum computing and technology research, the University of Sussex has both a breadth and a depth of expertise in this. We are still growing our research and teaching in this area, with plans for new teaching programmes, and new appointments.”
Professor Keith Jones, Interim Provost and Pro-Vice Chancellor for Research and Enterprise at the University of Sussex, said of the development: “This is a very exciting finding from our University of Sussex physicists and Universal Quantum. It proves the value and dynamism of this University of Sussex spin-out company, whose work is grounded in rigorous and world-leading academic research. Quantum computers will be pivotal in helping to solve some of the most pressing global issues. We're delighted that Sussex academics are delivering research that offers hope in realising the positive potential of next-generation quantum technology in crucial areas such as sustainability, drug development, and cybersecurity.”
For over 60 years the aim of our courses, research, culture and campus has been to stimulate, excite and challenge. So, from scientific discovery to global policy, from student welfare to career development, the University of Sussex innovates and takes a lead. And today, in every part of society and across the world, you will find someone from the University of Sussex making an original and valuable contribution. Visit www.sussex.ac.uk
ABOUT UNIVERSAL QUANTUM
Universal Quantum builds quantum computers that will one day help humanity solve some of its most pressing problems in areas such as drug discovery and climate change as well as shed light on its biggest scientific mysteries. To achieve this, quantum computers with millions of qubits are required, which is often described as one of the biggest technology challenges of our time.
Universal Quantum has developed a unique modular architecture to solve exactly that challenge. Its trapped ion-based electronic quantum computing modules are manufactured using available silicon technology. Individual modules are connected using its record-breaking UQ Connect technology to form an architecture that can scale to millions of qubits.
With 15+ years of quantum computing experience, Universal Quantum is a spin-out from the University of Sussex, founded by Dr Sebastian Weidt and Professor Winfried Hensinger in 2018 and supported by leading investors. Visit www.universalquantum.com
University of Sussex and Universal Quantum scientists, Professor Winfried Hensinger and Dr Sebastian Weidt in University of Sussex quantum computing labs.
Quantum computer setup at the University of Sussex with two quantum computer microchips where quantum bits are transferred from one microchip to another with record speed.
A high-fidelity quantum matter-link between ion-trap microchip modules
ARTICLE PUBLICATION DATE
8-Feb-2023
COI STATEMENT
The authors declare the following competing interests: M.A., F.B., F.R.L.-G., S.W. and W.K.H. are associated and/or hold shares with quantum computing company Universal Quantum Ltd. that will make use of some of the findings of this article in the quantum computers they develop. The remaining authors declare no other competing interests.
Air pollution linked with blood pressure in London teens
Associations between pollutant levels and blood pressure were stronger for girls than boys in study
In a new analysis involving adolescents living in London, exposure to higher levels of the pollutant nitrogen dioxide was associated with lower systolic blood pressure, while exposure to higher levels of particulate matter 2.5 (PM2.5) was associated with higher systolic blood pressure. Alexis Karamanos of King’s College London and colleagues present these findings in the open-access journal PLOS ONE on February 8, finding that these associations are stronger for girls than for boys.
Exposure to air pollutants is linked to greater risk of cardio-respiratory disease, hospital visits, and death. Adolescents’ rapidly growing bodies may be particularly susceptible to long-lasting effects of exposure to air pollutants, including effects on blood pressure. However, most prior studies on air pollution and blood pressure have focused on adults.
To better understand these associations in adolescents, Karamanos and colleagues analyzed data collected as part of the Determinants of Adolescent Social Well-Being and Health (DASH) study, which tracks the well-being of thousands of ethnically diverse London schoolchildren over time. For this analysis, they used data on 3,284 adolescents in DASH to examine associations between blood pressure and exposure to pollution in the form of nitrogen dioxide and PM2.5; exposures were estimated based on annual mean levels of pollutants where each participant lived.
The researchers found that greater estimated exposure to nitrogen dioxide was associated with lower systolic blood pressure, and greater estimated exposure to PM2.5 was associated with higher systolic blood pressure. These associations were stronger in girls than in boys. No evidence of a relationship between nitrogen dioxide/PM2.5 and diastolic blood pressure was observed.
For example, a 1μg/m 3 increase in nitrogen dioxide was associated with a 0.30 mmHg (95% CI 0.18 to 0.40) decrease in systolic blood pressure for girls and 0.19 mmHg (95% CI 0.07 to 0.31) decrease in systolic blood pressure for boys. Meanwhile, a 1μg/m 3 increase in PM2.5 was associated with a 1.34 mmHg (95% CI 0.85 to 1.82) increase in systolic blood pressure for girls and 0.57 mmHg (95% CI 0.04 to 1.03) increase in systolic blood pressure for boys. The associations between pollutants and blood pressure were consistent regardless of ethnicity, body size, or socioeconomic status.
Eighty percent of the adolescents studied were from ethnic minority groups, and the residential estimates suggest that these adolescents were exposed to higher levels of the pollutants than their white peers.
The researchers call for further studies to help confirm and clarify these findings, particularly among young people from different socioeconomic backgrounds. They also note that levels of nitrogen dioxide and PM2.5 in London remain well above World Health Organization Guidelines, suggesting opportunities to reduce pollution and improve lifelong health for adolescents in the city.
Seeromanie Harding, from King’s College, London, adds: “This longitudinal study provides a unique opportunity to track exposures of adolescents living in deprived neighborhoods. Given that more than 1 million under 18s live in neighborhoods where air pollution is higher than the recommended health standards, there is an urgent need for more of these studies to gain an in-depth understanding of the threats and opportunities to young people’s development.”
Citation: Karamanos A, Lu Y, Mudway IS, Ayis S, Kelly FJ, Beevers SD, et al. (2023) Associations between air pollutants and blood pressure in an ethnically diverse cohort of adolescents in London, England. PLoS ONE 18(2): e0279719. https://doi.org/10.1371/journal.pone.0279719
Author Countries: UK, China, Brazil
Funding: The study was funded by the MRC (10.13039/N4 501100000265, MC_U130015185/MC_UU_12017/1/ MC_UU_12017/13) North Central London Consortium and the Primary Care Research Network. This work was also supported by the MRC Centre for Environment and Health, which is currently funded by the Medical Research Council (MR/S019669/1, 2019-2024). Infrastructure support for the Department of Epidemiology and Biostatistics was provided by the NIHR Imperial Biomedical Research Centre. The funders had no role in study design, data collection and analysis, decision to publish, or preparation of the manuscript.
A study of adolescents aged 11-16 in London has found long-term exposure to PM2.5 is associated with higher blood pressure, with stronger associations seen in girls.
Findings also show that exposure to high levels of nitrogen dioxide is associated with lower blood pressure in this group.
The paper, published today in PLOS One by researchers from King’s College London, examines the possible effects of long-term exposure to air pollution in children attending 51 schools across the capital.
Senior author Professor Seeromanie Harding, from King’s College London, said: “This longitudinal study provides a unique opportunity to track exposures of adolescents living in deprived neighbourhoods. Given that more than 1 million under 18s live in neighbourhoods where air pollution is higher than the recommended health standards, there is an urgent need for more of these studies to gain an in-depth understanding of the threats and opportunities to young people’s development.”
Air pollution particles are inhaled into the body and can get into the bloodstream, causing damage to blood vessels and airways. While the effect of air pollution on adult blood pressure is well known, few longitudinal studies have examined adolescents.
The period between 11-16 years of age is particularly important as adolescents continue to grow and develop. Negative effects on their organs at this stage could lead to life-long complications.
Researchers analysed data of 3284 adolescents and followed up from ages 11-13 and 14-16 years old. They measured systolic and diastolic blood pressure at participants schools.
The results show Particulate Matter (PM2.5), tiny pollutants in the air that come from car exhaust fumes, building and industry materials, were associated with higher blood pressure across all ages, and were particularly felt among girls (a μg/m3 increase in PM2.5 was associated with 1.34 mmHg increase in systolic BP for girls and 0.57 mmHg increase in systolic BP for boys). Higher blood pressure can raise the risk of hypertension, heart attacks and strokes in adulthood.
Interestingly, nitrogen dioxide (NO2), a pollutant which in London is predominately due to diesel traffic, was associated with lower blood pressure. Systolic blood pressure decreased by ~5 mmHg for boys and ~8 mmHg for girls when NO2 almost doubled from a low to a high concentration .
Previous research has shown NO2 may have damaging effects on the respiratory system, but the impacts of the pollutant on the cardiovascular system is less clear. However, a recent study from this group found that sitting next to a lit gas cooker - which emits NO2 - acutely lowers blood pressure in healthy adult volunteers by ~5 mmHg. That effect was explained by a rapid increase in circulating nitrite (NO2-) concentration in the blood.
Co-author Dr Andrew Webb from King’s College London said: “The effect of NO2 on blood pressure is similar to what we and other researchers have observed previously after ingesting green leafy vegetables or beetroot juice. These are rich in dietary nitrate (NO3-) which increases circulating nitrite (NO2-) concentration in the blood and lowers blood pressure, an effect which may also be sustained over weeks or months with continued ingestion of nitrate-rich vegetables. As NO2 also increases circulating nitrite (NO2-) concentration, this provides a potential explanation as to why elevated NO2 appears to be associated with lower blood pressure in the adolescents over years.”
Researchers also found adolescents from ethnic minority groups were exposed to higher annual average concentrations of pollution at home than their White UK peers, but impact of pollutants on blood pressure did not vary according to ethnicity, BMI, or economic status.
A study in 2021 found that 3.1m children across England go to schools in areas exceeding WHO limits on PM2.5 and 98 per cent of schools in London are in areas exceeding World Health Organization pollution limits.
Corresponding author Dr Alexis Karamanos, from King’s College London, said: “The findings highlight the potential detrimental role of exposure to higher concentrations of particulate matter on adolescents' blood pressure levels.”
"Further studies following the same adolescents over time in different socio-economic contexts are needed to understand whether and how exposure to higher pollutant concentrations may affect differently the cardiovascular health of children and adolescents.”
Data was taken from the DASH study, a multi-ethnic longitudinal study which reflects the diversity of London. DASH seeks to understand what contributes to ethnic differences in physical and mental health over the life course and is one of few studies worldwide which includes BP measurement data in childhood and adolescence.