Friday, March 22, 2024

Bridging the gap: USUS computer scientists develop model to enhance water data from satellites


Pursuing NSF-funded research, Utah State University researchers publish findings in AGU's 'Water Resources Research' journal



UTAH STATE UNIVERSITY

USU Computer Scientists Develop Hydro-GAN Model to Enhance Satellite Water Data 

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UTAH STATE UNIVERSITY COMPUTER SCIENTISTS POUYA HOSSEINZADEH, LEFT, DOCTORAL STUDENT, WITH FACULTY MENTOR SOUKAINA FILALI BOUBRAHIMI, RIGHT, ASSISTANT PROFESSOR IN THE DEPARTMENT OF COMPUTER SCIENCE, PUBLISHED A DESCRIPTION OF A MACHINE LEARNING METHOD TO ENHANCE WATER DATA COLLECTED BY SATELLITES IN AN AGU JOURNAL. HOSSEINZADEH PRESENTS THE RESEARCH AT USU'S 2024 SPRING RUNOFF CONFERENCE MARCH 26-27, IN LOGAN, UTAH, USA. 

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CREDIT: USU/M. MUFFOLETTO




LOGAN, UTAH, USA -- Satellites encircling the Earth collect a bounty of water data about our planet, yet distilling usable information from these sources about our oceans, lakes, rivers and streams can be a challenge.

“Water managers need accurate data for water resource management tasks, including lake coastal zone monitoring, rising seas border shift detection and erosion monitoring,” says Utah State University computer scientist Pouya Hosseinzadeh. “But they face a trade-off when reviewing data from currently deployed satellites, which yield complementary data that are either of high spatial or high temporal resolutions. We’re trying to integrate the data to provide more accurate information.”

Varied data fusion approaches present limitations, including sensitivity to atmospheric disturbances and other climatic factors that can result in noise, outliers and missing data.

A proposed solution, say Hosseinzadeh, a doctoral student, and his faculty mentor Soukaina Filali Boubrahimi, is the Hydrological Generative Adversarial Network – known as Hydro-GAN. The scientists developed the Hydro-GAN model with USU colleagues Ashit Neema, Ayman Nassar and Shah Muhammad Hamdi, and describe this tool in the March 13, 2024, online issue of the American Geophysical Union journal Water Resources Research.

The team’s research is supported by the National Science Foundation.

Hydro-GAN, says Filali Boubrahimi, assistant professor in USU’s Department of Computer Science, is a novel machine learning-based method that maps the available satellite data at low resolution to a high-resolution data counterpart.

“In our paper, we describe integrating data collected by MODIS, a spectroradiometer aboard the Terra Earth Observing System satellite, and the Landsat 8 satellite, both of which have varied spatial and temporal resolutions,” she says. “We’re trying to bridge the gap by generating new data samples from images collected by these satellites that improve the resolution of the shape of water boundaries.”

The dataset used in this research consists of image data collected during a seven-year span (2015-2021) of 20 reservoirs in the United States, Australia, Mexico and other countries. The authors present a case study of Lake Tharthar, a salt water lake in Iraq, comparable in size to Great Salt Lake and facing similar climate and usage pressures.

“Using seven years of data from MODIS and Landsat 8, we evaluated our proposed Hydro-GAN model on Lake Tharthar’s shrinking and expansion behaviors,” Hosseinzadeh says. “Using Hydro-GAN, we were able to improve our predictions about the lake’s changing area.”

Such information is critical for the region’s hydrologists and environmental scientists, he says, who need to monitor seasonal dynamics and make decisions about how to sustain the lake’s water supply.

The scientists demonstrate Hydro-GAN can generate high-resolution data at historical time steps, which is otherwise unavailable, for situations where a large amount of historical data is needed for accurate forecasting.

“We think this will be a valuable tool for water managers and, moving forward with similar models, we can employ a multi-modal approach to provide data in addition to images, including information about topology, snow data amounts, streamflow, precipitation, temperature and other climate variables,” says Hosseinzadeh, who presents the research during USU’s 2024 Spring Runoff Conference March 26-27 at the Cache County Fairgrounds and Utah State’s Logan campus.

 

Best way to bust deepfakes? Use AI to find real signs of life, say Klick Labs scientists


Researchers identify audio deepfakes with new algorithm and vocal biomarkers



KLICK APPLIED SCIENCES





NEW YORK, NY / TORONTO, ON – March, 21, 2024 – Artificial intelligence may make it difficult for even the most discerning ears to detect deepfake voices – as recently evidenced in the fake Joe Biden robocall and the bogus Taylor Swift cookware ad on Meta – but scientists at Klick Labs say the best approach might actually come down to using AI to look for what makes us human.

Inspired by their clinical studies using vocal biomarkers to help enhance health outcomes, and their fascination with sci-fi films like “Blade Runner,” the Klick researchers created an audio deepfake detection method that taps into signs of life, such as breathing patterns and micropauses in speech.

“Our findings highlight the potential to use vocal biomarkers as a novel approach to flagging deepfakes because they lack the telltale signs of life inherent in authentic content,” said Yan Fossat, senior vice president of Klick Labs and principal investigator of the study. “These signs are usually undetectable to the human ear, but are now discernible thanks to machine learning and vocal biomarkers.”

‘Investigation of Deepfake Voice Detection using Speech Pause Patterns: Algorithm Development and Validation,’ published today in the open-access journal JMIR Biomedical Engineering, describes how vocal biomarkers, along with machine learning, can be used to distinguish between deepfakes and authentic audio with reliable precision. As part of the study, Fossat and his team at Klick Labs looked at 49 participants from diverse backgrounds and accents. Deepfake models were then trained on voice samples provided by the participants, and deepfake audio samples were generated for each person. After analyzing speech pause metrics, the scientists discovered their models could distinguish between the real and fakes with approximately 80 percent accuracy.

These findings follow recent high-profile voice cloning scams, Meta’s announced plan to introduce AI-generated content labels, and the Federal Communications Commission’s February ruling to make deepfake voices in robocalls illegal. In December, a PBS NewsHour report cited public policy and AI experts’ concerns that deepfake usage will increase with the upcoming U.S. presidential election.

While the new study offers one solution to this growing problem, Fossat acknowledged the need to keep evolving detection technology as deepfakes become more and more realistic. 

Today’s news highlights Klick’s ongoing work in vocal biomarkers and AI. In October, it announced groundbreaking research in Mayo Clinic Proceedings: Digital Health around the AI model it created to detect Type 2 diabetes using 10 seconds of voice.
 

About Klick Applied Sciences (including Klick Labs)

Klick Applied Sciences’ diverse team of data scientists, engineers, and biological scientists conducts scientific research and develops AI/ML and software solutions as part of the company’s work to support commercial efforts using its proven business, scientific, medical, and technological expertise. Its 2019 Voice Assistants Medical Name Comprehension study laid the scientific foundation for rigorously testing voice assistant consumer devices in a controlled manner. Klick Applied Sciences is part of the Klick Group of companies, which also includes Klick Health (including Klick Katalyst and btwelve), Klick Media Group, Klick Consulting, Klick Ventures, and Sensei Labs. Established in 1997, Klick has offices in New York, Philadelphia, Toronto, London, São Paulo, and Singapore. Klick has consistently been ranked a Best Managed Company, Great Place to Work, Best Workplace for Women, Best Workplace for Inclusion, Best Workplace for Professional Services, and Most Admired Corporate Culture.

 

For more information, or a copy of the abstract, please contact Klick PR at pr@klick.com or 416-214-4977.

 

Kulangareth NV, Kaufman J, Oreskovic J, Fossat Y

Investigation of Deepfake Voice Detection Using Speech Pause Patterns: Algorithm Development and Validation

JMIR Biomed Eng 2024;9:e56245

URL: https://biomedeng.jmir.org/2024/1/e56245/   

doi: 10.2196/56245

 

International graduate and postdoctoral trainees in biomedicine are struggling with career confidence, study says


Peer-Reviewed Publication

UNIVERSITY OF NORTH CAROLINA HEALTH CARE

Self-Efficacy Graph 

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MAIN EFFECTS OF CITIZENSHIP AND GENDER ON TRAINEE CAREER SELF-EFFICACY. 

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CREDIT: CHATTERJEE ET AL (2024)




Chapel Hill, NC – Biomedical programs in the United States attract a significant number of graduate and postdoctoral trainees from around the world. Non-citizen trainees face several systemic barriers that negatively affect their confidence in their careers and ability to take charge of their career decisions, termed career self-efficacy.

Using national data from 6,000 respondents across 17 institutions, a new study in PLOS ONE found that citizenship status and gender were associated with different levels of career self-efficacy. Most notably, international and female trainees reported lower career-self-efficacy across the national sample.

Rebekah L. Layton, PhD, director of professional development programs in the Office of Graduate Education (OGE) at the UNC School of Medicine, and Ana T. Nogueira, PhD, an education research scholar and postdoctoral research fellow in the UNC Department of Pharmacology, co-led the study on this multi-institutional team.

“The challenges addressed resonate deeply with my experiences as an international woman in the United States,” said Nogueira, who is also a former education research fellow in the OGE and co-first author on the study. “The study highlights how much barriers limit and impact international trainees and their own perceived and actual career options, depending on visa status, lived experience, and access to professional development support.”

Deepshikha Chatterjee, PhD, assistant professor of psychology at Baruch College and the Graduate Center at the City University of New York, and Sunita Chaudhary, PhD, associate professor at Rutgers Robert Wood Johnson Medical School and director of research education at Rutgers Cancer Institute of New Jersey, co-led the study as well.

Chaudhary echoes the sentiments of many others on the research team who, at some point in their careers, worked as international trainees in the United States.

“The findings of this study resonate with my lived experience as a brown woman who immigrated to United States for my own PhD degree,” said Chaudhary, who as co-senior author on the study.

Systemic barriers, such as complex visa regulations, significantly limit the opportunities of non-citizen trainees. Visas can also restrict where non-citizen trainees intern or work off-campus. During the COVID-19 pandemic, for example, the United States government issued a policy that international students must leave the country if all their classes had been moved online.

“I hope this work inspires urgent conversations around the precarious conditions facing our talented and highly skilled trainees due to a US immigration system that creates barriers and disparities which marginalize our human capital and limit potential,” said Chatterjee, who was co-first author on the study.

“This study sheds light on how immigration status intersects with individuals’ perceptions of their own capabilities, influencing their career trajectories and opportunities for advancement,” added Christiann Gaines, PhD, assistant director of doctoral success in the OGE. “Visa restrictions, cultural adaptation, and limited access to resources, can significantly impact trainees’ confidence in navigating career paths within the biomedical field.”

In addition to assessing how trainees’ race and citizenship relate to career-efficacy, the current study also examined how these factors relate to their pursuit of research-intensive principal investigator-focused careers. Researchers found that trainees that are on the principal investigator career pathway had higher self-efficacy compared to trainees displaying diverse career interests.

Additionally, trainees who reported higher career self-efficacy felt more supported by their graduate program and/or department. Layton says that these results will help draw attention to the specific needs of the international trainee community within graduate and postdoctoral training, with a renewed focus on the value of offering tailored opportunities for career and professional development.

“Our work suggests that different career pathways, citizenship status, and gender combinations could benefit from tailored programming to address needs that may not currently be met, based on data from across the country,” said Layton.

This study represents another step in the right direction. By recognizing and addressing these intersecting factors, researchers and graduate educators will be able to work towards creating more inclusive environments and pathways for all aspiring scientists, regardless of their background or citizenship status. It is equally important to keep engaging in discussions and resolving obstacles that students face when trying to further their education, training, and career development.

“Understanding the barriers, and then providing a means for quantifying how these barriers affect learning, allow us to continue creating interventions and programs that have the potential to increase student support and success, no matter where they are from,” said Nisan M. Hubbard, PhD, who was a former UNC SPIRE Fellow and co-author on the paper.

The author team looks forward to continuing to explore factors that impact career success for biomedical graduate students and postdoctoral scholars. Read more about companion paper on career self-efficacy in underrepresented biomedical scientists at: https://news.unchealthcare.org/2023/03/researchers-examine-career-confidence-in-underrepresented-biomedical-scientist-trainees/.

This paper extends from Layton’s NIH R01 SCISIPBIO project on graduate education, training, and biomedical workforce development. The team’s ongoing work can be found at the UNC’s PhD Integrated Research on Education and Career Training Lab (PhDIRECT).

 

The next antioxidant superfood? Canadian sea buckthorn berries offer diabetes and obesity potential


Peer-Reviewed Publication

SOCIETY OF CHEMICAL INDUSTRY

Renan Danielski, co-author of the study with powdered sea buckthorn berries 

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RENAN DANIELSKI, CO-AUTHOR OF THE STUDY WITH POWDERED SEA BUCKTHORN BERRIES

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CREDIT: RENAN DANIELSKI, MEMORIAL UNIVERSITY OF NEWFOUNDLAND




New research, published in SCI’s Journal of the Science of Food and Agriculture illuminates the untapped potential of the shrub sea buckthorn as a rich source of natural antioxidants in North America. 

The study, which was carried out by researchers at the Memorial University of Newfoundland in Canada and led by Professor Fereidoon Shahidi, outlines the unique nutritional profile of sea buckthorn berries grown in Canada and highlights their commercial potential as a bioactive-loaded superfood.

Sea buckthorn is a deciduous, thorny plant found along the coasts of northwestern Europe as well as temperate regions of central Asia. Its berries and leaves are widely used for their nutritional, pharmaceutical and functional properties – sea buckthorn oil is rich in omega-3 and omega-6 fatty acids, vitamins E, B, and A and polyphenols.

In Canada, the plant was introduced in the early 2000s following research by governmental agencies on the crop's commercial potential. As Renan Danielski, a PhD student at the University of Newfoundland and author on the study explains, ‘Sea buckthorn is a unique crop with vast potential for utilisation. Popular in Asia and North-Western Europe, there is an opportunity to replicate this success in North America by leveraging the unique qualities of locally grown varieties.’

Motivated by the experimental status and limited commercialisation of sea buckthorn in North America to date, the researchers set out to characterise the unique composition of polyphenols, a class of compounds with antioxidative properties, in Canadian cultivars. 

‘Understanding how our cultivar compares globally can help communicate the benefits to consumers and establish a market presence,’ notes Fereidoon Shahidi, Professor of Biochemistry at Memorial University of Newfoundland and corresponding author of the study.

The study's findings highlight the presence of key polyphenolic compounds in sea buckthorn pomace and seeds, each boasting potential health benefits ranging from cardiovascular protection to anti-inflammatory properties. Importantly, geographical factors influence the polyphenolic profile of sea buckthorn berries, with the researchers identifying several distinct compounds with enhanced bioactivity which are only contained in the sea buckthorn cultivar grown in Newfoundland.

Moreover, the sea buckthorn extracts demonstrated promising in vitro antidiabetic and anti-obesity potential, paving the way for further investigation into their mechanisms and potential therapeutic applications.

‘This is a first step in understanding how sea buckthorn polyphenols can modulate our physiology in a beneficial manner. Future research needs to focus on understanding the mechanisms behind those effects and further experimentation using animal models and humans. If these effects are confirmed in vivo, we can envision the use of sea buckthorn polyphenols for therapeutic and pharmacological purposes, aiding in the prevention and treatment of diabetes, obesity, and many other conditions,’ remarked Danielski.

The findings of this study pave the way for harnessing sea buckthorn berries as a valuable source of natural antioxidants in North America. As consumer interest in functional foods and “nutraceuticals” continues to grow, sea buckthorn presents itself as a sustainable and health-enhancing option.

 

University of Calgary research finds a direct communication path between the lungs and the brain



Findings show that communication can alter the way the brain functions and the way someone behaves



UNIVERSITY OF CALGARY





University of Calgary researchers have discovered the lungs communicate directly with the brain when there is an infection. Findings show the brain plays a critical role in triggering the symptoms of sickness, which may change the way we treat respiratory infections and chronic conditions.  

“The lungs are using the same sensors and neurons in the pain pathway to let the brain know there’s an infection,” says Dr. Bryan Yipp, MD '05, MSc'05, clinician researcher at the Cumming School of Medicine and senior author on the study. “The brain prompts the symptoms associated with sickness; that overall feeling of being unwell, feeling tired and loosing your appetite. The discovery indicates we may have to treat the nervous system as well as the infection.”

Prior to this study, conducted in mice, it was thought infections in the lungs and pneumonia induce inflammatory molecules that eventually made their way to the brain through the blood stream. Sickness was thought to be a consequence of the immune system kicking into action. However, findings reveal that sickness results from nervous system activation in the lung.

Understanding the lung-brain dialogue is important for treatment because bacteria that cause lung infections can produce a biofilm, a coating to surround themselves so the nervous system can’t see them. That allows the bug to hide out in the lungs for a long time, which may shed light across diverse serious lung infections that are less symptomatic. For example, an unexplained anomaly Yipp witnessed in the intensive care unit (ICU) during COVID. The phenomenon, coined “happy hypoxia”, was being recorded in ICUs throughout the world.

“We would have patients whose oxygen levels were extremely low and x-rays confirmed they may need to be put on life support. Yet, when I went to see the patient, they would say I feel fine,” says Yipp. “These people were experiencing limited sickness symptoms even though the virus was aggressively damaging their lungs.”

Yipp says understanding the lung brain communication pathways may also have broad implications for people with chronic lung infections like cystic fibrosis (CF). Many people with CF have a biofilm bacterium in their lungs and are asymptomatic. They feel okay, but then have a flare where they can become very ill. The reason for the flare can’t always be traced.  

"It is possible the flare is also neurological that these people live asymptomatically because bacteria are hiding out,” says Yipp.

The findings, published in Cell, are the work of an interdisciplinary team including experts in neurobiology, microbiology, immunology, and infectious disease.

“Physician specialties are usually based on individual organs, with pulmonologists caring for the lungs and neurologists caring for the brain. Our study shows the lung is altering the brain and the brain is altering the organ. This intersection of communication is a different way of thinking about disease,” says Yipp. “It’s all connected to the brain and there are probably even more complex circuits that are happening. We can now think about targeting neurocircuitry along with antibiotics to deal with infections and the sickness they cause.”

University of Calgary researchers Drs. Christophe Altier, PhD, Joe Harrison, PhD, and Deborah Kurrasch, PhD, along with Dr. Jaideep Bains, PhD, Krembil Research Institute, Toronto, are corresponding authors on the study.

The researchers add there was one more unique finding. Male mice were much sicker than the females even though they had the same bacterial infection. Researchers found that male sickness was more dependent on neuronal communications then females. Yipp says this finding could lend credibility to the so-called “man flu”, a colloquial term where men are thought to wildly exaggerate sickness due to respiratory infections. Turns out they may not be exaggerating, after all.  

University of Calgary researchers have discovered the lungs communicate directly with the brain when there is an infection. Findings show the brain plays a critical role in triggering the symptoms of sickness, which may change the way we treat respiratory infections and chronic conditions.  

“The lungs are using the same sensors and neurons in the pain pathway to let the brain know there’s an infection,” says Dr. Bryan Yipp, MD '05, MSc'05, clinician researcher at the Cumming School of Medicine and senior author on the study. “The brain prompts the symptoms associated with sickness; that overall feeling of being unwell, feeling tired and loosing your appetite. The discovery indicates we may have to treat the nervous system as well as the infection.”

Prior to this study, conducted in mice, it was thought infections in the lungs and pneumonia induce inflammatory molecules that eventually made their way to the brain through the blood stream. Sickness was thought to be a consequence of the immune system kicking into action. However, findings reveal that sickness results from nervous system activation in the lung.

Understanding the lung-brain dialogue is important for treatment because bacteria that cause lung infections can produce a biofilm, a coating to surround themselves so the nervous system can’t see them. That allows the bug to hide out in the lungs for a long time, which may shed light across diverse serious lung infections that are less symptomatic. For example, an unexplained anomaly Yipp witnessed in the intensive care unit (ICU) during COVID. The phenomenon, coined “happy hypoxia”, was being recorded in ICUs throughout the world.

“We would have patients whose oxygen levels were extremely low and x-rays confirmed they may need to be put on life support. Yet, when I went to see the patient, they would say I feel fine,” says Yipp. “These people were experiencing limited sickness symptoms even though the virus was aggressively damaging their lungs.”

Yipp says understanding the lung brain communication pathways may also have broad implications for people with chronic lung infections like cystic fibrosis (CF). Many people with CF have a biofilm bacterium in their lungs and are asymptomatic. They feel okay, but then have a flare where they can become very ill. The reason for the flare can’t always be traced.  

"It is possible the flare is also neurological that these people live asymptomatically because bacteria are hiding out,” says Yipp.

The findings, published in Cell, are the work of an interdisciplinary team including experts in neurobiology, microbiology, immunology, and infectious disease.

“Physician specialties are usually based on individual organs, with pulmonologists caring for the lungs and neurologists caring for the brain. Our study shows the lung is altering the brain and the brain is altering the organ. This intersection of communication is a different way of thinking about disease,” says Yipp. “It’s all connected to the brain and there are probably even more complex circuits that are happening. We can now think about targeting neurocircuitry along with antibiotics to deal with infections and the sickness they cause.”

University of Calgary researchers Drs. Christophe Altier, PhD, Joe Harrison, PhD, and Deborah Kurrasch, PhD, along with Dr. Jaideep Bains, PhD, Krembil Research Institute, Toronto, are corresponding authors on the study.

The researchers add there was one more unique finding. Male mice were much sicker than the females even though they had the same bacterial infection. Researchers found that male sickness was more dependent on neuronal communications then females. Yipp says this finding could lend credibility to the so-called “man flu”, a colloquial term where men are thought to wildly exaggerate sickness due to respiratory infections. Turns out they may not be exaggerating, after all.  

 

Species diversity promotes ecosystem stability



Biodiversity loss may accelerate ecosystem destabilization


MCGILL UNIVERSITY

Diversity in coral reef 

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FROM TROPICAL RAINFORESTS TO CORAL REEFS, SOME OF EARTH’S MOST DIVERSE ECOSYSTEMS ARE ALSO THE MOST STABLE. THIS STAGGERING DIVERSITY STANDS IN OPPOSITION TO ECOLOGICAL THEORY, WHICH FOR DECADES HAS PREDICTED THAT DIVERSITY BEGETS INSTABILITY. BY USING A DIFFERENT APPROACH TO MODELLING SPECIES GROWTH, BASED ON EXTENSIVE DATA, THE RESEARCH SUGGESTS THAT ALTHOUGH ALL SPECIES IN ECOSYSTEMS INITIALLY GROW EXPONENTIALLY, THIS GROWTH EVENTUALLY SLOWS, CREATING A BALANCED ECOSYSTEM. [

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CREDIT: PHOTOS: RHETT BUTLER AND MAX PLANCK INSTITUTE




Species diversity promotes ecosystem stability

Biodiversity loss may accelerate ecosystem destabilization

What maintains stability within an ecosystem and prevents a single best competitor from displacing other species from a community? Does ecosystem stability depend upon the presence of a wide variety of species, as early ecologists believed, or does diversity do the exact opposite, and lead to instability, as modern theory predicts?

Resolving a long-standing debate among ecologists

A new study from McGill University and the Max Planck Institute and published recently in Science suggests an answer to this question that has been a subject of debate among ecologists for half a century.

The researchers approached the question of population growth using a model that, so far, had not been used in this context – though it aligns with conventional wisdom and the way that people have traditionally modelled individual growth (from birth to maturity).  

The researchers used data about population abundance, growth and biomass from a variety of species – including insects, fish and mammals – from across the globe, collected over the past 60 years. Their results, based on extensive analysis, suggests that, contrary to contemporary ecological theory, species diversity leads to ecosystem stability, as early ecologists had believed.

Growth in populations slows with density

“While nearly all prior theory assumes that populations grow exponentially, there is growing evidence that species actually follow a slightly different course, one in which exponential growth continuously slows down. It’s a bit like the law of diminishing returns in economics.”  says Ian Hatton, a research associate in the Department of Earth and Planetary Sciences, at McGill University and the corresponding author on the paper.

“What’s amazing is that such a small difference in population growth can have such a large effect on community interactions, completely reversing the predictions from decades of theory.”

Dangers of disturbing the balance

Their findings raise alarming questions about the potential large-scale impacts of biodiversity loss.

“This research is becoming increasingly urgent given the current rates of species extinction and loss of biodiversity,” says Hatton. “In addition to better aligning theory with data, the model makes an unsettling prediction: losses in biodiversity can further destabilize an ecosystem and prevent them from recovering after a disturbance.”

The study:

Diversity begets stability: sublinear growth and competitive coexistence across ecosystems” by I. Hatton et al was published in Science

DOI: 10.1126/science.adg8488