Tuesday, July 01, 2025

 

Extending classical CNOP method for deep-learning atmospheric and oceanic forecasting



New approach reveals when and where input uncertainty matters most




Institute of Atmospheric Physics, Chinese Academy of Sciences

Sea temperature prediction 

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The sea temperature in the South China Sea has a significant impact on the regional marine ecosystem as well as the high-impact ocean-atmosphere events. Therefore, accurate forecasting of ocean temperature is crucial. This study presents a method that aims to enhance the forecast skill of deep learning forecasting models by optimizing the deployment strategy of limited observational resources.

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Credit: Ziqing Zu





In recent years, deep learning methods have been increasingly applied in atmospheric and oceanic forecasting, showing superior forecast skills. Unlike time-stepping numerical models, deep learning forecasting models (DLMs) typically adopt a “multi-time-slice input” structure. This structure breaks the deterministic causality in the time dimension that exists in the numerical models. In this case, the forecast errors in DLMs should be attributed to all input slices, rather than any single one. This fundamental difference limits the applicability of the classical conditional nonlinear optimal perturbation (CNOP) method, as CNOP is defined at a single time slice, specifically, the initial time.

Recently, researchers have extended the CNOP method in the time dimension and proposed the CNOP-DL method. Designed specifically for DLMs with multi-time-slice inputs, CNOP-DL includes perturbations across multiple times of the inputs, revealing the sensitivity of forecast errors to input errors in both time and space dimensions. The new method is published in Advances in Atmospheric Sciences.

 

“CNOP-DL is useful in the targeted observation studies, as it allows us to identify not only where, but also when additional observations should be deployed to reduce the input errors, ultimately to significantly mitigate the forecast errors,” said Dr. Ziqing Zu from National Marine Environmental Forecasting Center of China, the lead author of the study. “This is especially valuable for improving the forecasts of rapidly developing systems such as typhoons and mesoscale eddies, where observational resources are often limited.”

 

To demonstrate the utility of the method, they applied CNOP-DL to a case study of sea surface temperature (SST) forecasting in the South China Sea. The CNOP-DL included six time slices in the time dimension. Therefore, the optimal time can be identified according to the temporal structure of the perturbation energies. Furthermore, the results revealed that forecast errors are more sensitive to the time of the input perturbations than to the location. In other words, determining when to deploy additional observations can be more critical than determining where.

 

“In conventional targeted observation studies, the focus is typically on identifying the optimal locations for targeted observations at the initial time. By extending CNOP in the time dimension, CNOP-DL can identify which time steps in the inputs are more critical, thereby broadening the scope of conventional targeted observation studies.” said Professor Mu Mu from Fudan University, the corresponding author of the study. “By highlighting the importance of time sensitivity, CNOP-DL holds the potential for guiding practical field campaigns that optimize both spatial and temporal deployment of observational platforms such as moored buoys, gliders, and research vessels.”

 

CNOP-DL is also useful in predictability studies. The authors demonstrate that there are significant differences between CNOP-DL and CNOP, and that CNOP-DL can lead to larger forecast errors, thereby providing a more accurate estimate of the upper bound of forecast uncertainty. This is because, essentially, CNOP searches for the optimal solution within a subset of the CNOP-DL space; thus, CNOP can be regarded as a special case of CNOP-DL.

 

Next, the authors plan to calculate CNOP-DL for a lot of forecast cases, and then conduct composite analyses of CNOP-DL results. By identifying common patterns in sensitive regions and key time windows, they aim to design an optimal observational network in the South China Sea, particularly for moored buoy arrays. Such a system could provide valuable observations to improve significantly operational forecasts, using limited observational resources.

 

Other contributors include Jiangjiang Xia from Key Laboratory of Regional Climate-Environment for Temperate East Asia at CAS IAP in Beijing, China and Qiang Wang from College of Oceanography, Hohai University in Nanjing, China.

 

Thunderstorms are a major driver of tree death in tropical forests



Cary-led paper reveals an underestimated and growing threat to tropical forests and the carbon they store




Cary Institute of Ecosystem Studies


Cary Institute forest ecologist Evan Gora stands near the roots of a tree knocked over by winds from a thunderstorm. 

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Cary Institute forest ecologist Evan Gora stands near the roots of a tree knocked over by winds from a thunderstorm. 

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Credit: Steve Yanoviak/University of Louisville




Trees in tropical forests are dying at an increased rate, with consequences for biodiversity, carbon storage, and the global climate. While deforestation is the primary cause of forest loss, intact forests are also experiencing a rise in tree death. Drought, higher temperatures, and fires have been the leading suspects, but a new paper led by Evan Gora, a forest ecologist at Cary Institute of Ecosystem Studies, identifies an underappreciated threat: thunderstorms, which are becoming more frequent with climate change.

Not to be confused with hurricanes or cyclones, these convective storms tend to be short-lived but powerful, with tree-toppling winds and lightning. In a perspective paper in Ecology Letters, Gora and colleagues lay out the case for why such storms could be a major driving force behind the rising death toll of tropical trees. As they become more common in the warming tropics, thunderstorms are a growing threat to trees and the carbon they store.

“Tropical forests have massive effects on global climate. They're like the lungs of the Earth, and we're seeing trees in them dying at higher rates than in the past, and the composition of forests is changing, too,” said Gora. “That could be really problematic for the future of not just tropical forests, but for the planet.” 

Understanding what’s causing the trends in tree death is critical to guiding decisions about which tree species to plant or conserve in a forest, so that forest managers can ensure forests continue thriving and storing carbon long into the future.

“Being in the forest during a tropical storm is unforgettable,” said coauthor Vanessa Rubio, a forest ecologist in Gora’s lab at Cary Institute. “As the storm quickly builds, the sky darkens, humidity changes drastically, and strong winds shake the trees. Then, thunder and lightning come. Leaves and branches fall to the ground, rain pours down, and your instinct is to get back to the field station as quickly as possible.” 

Despite their obvious danger to people, storms had been overlooked and understudied as a potential culprit in tree mortality trends. But when the team reanalyzed data from previous studies on tropical forest carbon stocks, they found that storms were at least as good as drought and temperature in explaining the patterns of tree mortality and forest carbon storage. 

“We were surprised to find that storms may be the largest single factor causing tree death in these forests, and they’re largely overlooked by research into carbon storage in the tropics,” said Gora. “Our estimates suggest that storms are responsible for 30 to 60% of tree mortality in the past, and that number must be increasing as storm activity increases by 5 to 25% each decade.”

The team also added storms to the largest plot-based study of forest biomass carbon dynamics to date. That study had previously concluded that when temperatures go above a certain threshold, tropical forests experience a fast decline in carbon stocks. “But when you add storms, that relationship goes away,” said Gora. “It basically shows that you have to include storms, or you might not get the answers right.”

Storms and droughts are not mutually exclusive, the scientists note — the same forests can experience both high storm activity and drought stress. They found high convective storm activity across the southern Amazon, where water stress is also high and patterns of change are among the most extreme.

“During my studies on threats to tropical forests, my professors, our textbooks, and even overall climate policy never mentioned small, convective storms as a potential source of forest mortality,” said coauthor Ian McGregor, a Cary Institute forest ecologist in Gora’s lab. “I don't remember seeing them in global climate models used to inform climate policy. Given our findings, however, it's clear we need a more thorough understanding of these storms to have more accurate climate models, and thus more effective policy.” 

There are good reasons why scientists have overlooked storms until now. Temperature and water stress can be monitored with meteorological stations and readily connected to long-term forest plot data. It is much harder to detect storms and track their highly localized damage. Mortality caused by thunderstorms is not easily detected via satellite, and it’s not practical for researchers on foot to survey large forested areas frequently enough to pinpoint the damage caused by a specific storm. 

Gigante, a project led by Gora and co-author Adriane Esquivel-Muelbert from the University of Birmingham, offers one way to overcome these challenges. The project combines a lightning location system, drone scouts, and on-the-ground experts to sample large areas of tropical forest frequently. With these tools, they are starting to quantify when, where, and why tropical trees are dying, and which species are most affected.

Understanding current and future threats to tropical forests is crucial to informing long-term conservation and restoration efforts. 

“If we make decisions about which species to plant or conserve based on an incorrect understanding of what's actually killing these trees and which species are most vulnerable, those forests won’t reach their full potential,” said Gora. Storms are most deadly to mature trees, so the consequences of misguided reforestation efforts might not be known until decades after the trees are planted.

“However,” Gora continued, “if we can build a more holistic picture of what’s driving forest change, we can be a lot more confident in guiding forest management practices for long-term sustainability.”

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Multiple trees damaged by lightning



Multiple trees damaged by lightning - tree top view



Snapped tree, storm damage

Credit

Evan Gora/Cary Institute of Ecosystem Studies


Authors

  • Evan M. Gora - Cary Institute of Ecosystem Studies, Smithsonian Tropical Research Institute

  • Ian R. McGregor - Cary Institute of Ecosystem Studies

  • Helene C. Muller-Landau - Smithsonian Tropical Research Institute

  • Jeffrey C. Burchfield - University of Alabama, Huntsville

  • KC Cushman - Oak Ridge National Laboratory

  • Vanessa E. Rubio - Cary Institute of Ecosystem Studies

  • Gisele Biem Mori - National Institute for Amazon Research, Universidade do Estado de Mato Grosso

  • Martin J. P. Sullivan -  Manchester Metropolitan University

  • Matthew W. Chmielewski - University of Louisville

  • Adriane Esquivel-Muelbert - University of Birmingham

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Funding was provided in part by the National Science Foundation (NSF) grants DEB-2213245 and DEB-2241507 to EMG, and NE/W003872/1 to MS and EMG. AE-M was further funded by the Royal Society Standard Grant RGS\R1\221115 ‘MegaFlora’, the UK Research and Innovation/Natural Environment Research Council (NERC) TreeScapes NE/V021346/1 ‘MEMBRA’, the NERC/NSF Gigante NE/Y003942/1, and the Foundation for Research on Biodiversity/Centre for the Synthesis and Analysis of Biodiversity ‘Syntreesys’.

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Cary Institute of Ecosystem Studies is an independent nonprofit center for environmental research. Since 1983, our scientists have been investigating the complex interactions that govern the natural world and the impacts of climate change on these systems. Our findings lead to more effective resource management, policy actions, and environmental literacy. Staff are global experts in the ecology of: cities, disease, forests, and freshwater.

 

 

 

New study provides breakthrough in pig-to-human kidney transplantation



A pioneering study has provided unprecedented insights into the immune response following pig-to-human kidney xenotransplantation.



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Beyond





(Monday 30 June 2025, London, United Kingdom) A pioneering study has provided unprecedented insights into the immune response following pig-to-human kidney xenotransplantation.1

The findings, presented today at the ESOT Congress 2025, mark a significant step forward in overcoming the biggest challenge in xenotransplantation: rejection by the human immune system.

Using cutting-edge spatial molecular imaging, researchers mapped how human immune cells interact with pig kidney tissue in transplanted organs, revealing critical early markers of rejection and potential intervention strategies. The study, led by Dr. Valentin Goutaudier and a collaborative international research team (Paris Institute for Transplantation and Organ Regeneration & NYU Langone Transplant Institute), highlights key molecular mechanisms that could shape the future of xenotransplantation.

One of the most striking discoveries was that human immune cells were found in every part of the pig kidney's filtering system after the transplant. Researchers observed early molecular signs of antibody-mediated rejection as soon as Day 10 and peaking at Day 33, reinforcing previous findings that rejection begins rapidly but progresses over time.2 By tracking these immune responses for up to 61 days, the team identified a crucial window for targeted therapeutic intervention.

“Our study provides the most detailed molecular map to date of how the human immune system engages with a transplanted pig kidney,” explained Dr. Goutaudier. “By pinpointing specific immune cell behaviours and gene expressions, we can refine anti-rejection treatments and improve transplant viability.”

The study’s innovative approach used a bioinformatic pipeline to distinguish human immune cells from pig structural cells, allowing for precise mapping of immune infiltration patterns. Notably, macrophages and myeloid cells were the most prevalent immune cell types across all time points, further confirming their role as key mediators in xenograft rejection.

When targeted therapeutic interventions were introduced, immune-mediated signs of rejection were successfully weakened. Combined with novel spatial insights into how immune cells interact with pig kidney tissue, this marks a major breakthrough — paving the way for more refined anti-rejection strategies. These advances come at a pivotal time as the first US-based clinical trials of pig kidney transplantation into living human recipients begin in 2025.

With xenotransplantation poised to address the global organ shortage crisis, these findings bring researchers one step closer to making genetically modified pig kidneys a viable long-term solution. The next phase will focus on optimising anti-rejection treatments, refining genetic modifications in donor pigs, and developing early detection protocols to monitor and manage rejection responses.

“Understanding the specific immune interactions at a molecular level allows us to develop targeted interventions that can prevent rejection before it escalates,” explained Dr. Goutaudier. “This research lays the groundwork for safer and more effective pig-to-human transplants in the near future.”

As scientific progress accelerates, researchers remain cautiously optimistic that genetically modified pig kidneys could become a routine transplant option within the next decade. However, regulatory approvals will require consistent demonstration of safety and efficacy in diverse patient populations.

 

END

 

Note to editors:

A reference to the ESOT Congress 2025 must be included in all coverage and/or articles associated with this study.

For more information or to arrange an expert interview, please contact Luke Paskins on press@esot.org.

About the study author:

Dr. Valentin Goutaudier is a researcher in transplant immunology and xenotransplantation, affiliated with the Paris Institute for Transplantation and Organ Regeneration (PITOR) and Inserm U970. His work focuses on understanding immune responses in allo- and xenotransplantation, utilising advanced molecular imaging and bioinformatics to develop targeted anti-rejection therapies. The PITOR work on kidney xenotransplantation is performed in collaboration with the NYU Langone Transplant Institute led by Prof. Robert A. Montgomery.

About ESOT:

The European Society for Organ Transplantation (ESOT) was founded 40 years ago and is dedicated to the pursuit of excellence in organ transplantation. Facilitating a wealth of international clinical trials and research collaborations over the years, ESOT remains committed to its primary aim of improving patient outcomes in transplantation. With a community of over 8000 members from around the world, ESOT is an influential international organisation and the facilitator of the biennial congress which hosts approximately 3500 experts who come to meet to explore and discuss the latest scientific research.

References:

  1. Goutaudier V., Williams, C., Morgand, E., et al.  Application of a Novel Spatial Transcriptomic 6000-Plex Panel in Pig-to-Human Xenotransplantation. Presented at ESOT Congress 2025; 30th June 2025; London, United Kingdom.
  2. Loupy, A., Goutaudier, V., Giarraputo, A. et al. (2023). Immune response after pig-to-human kidney xenotransplantation: A multimodal phenotyping study. The Lancet, 402(10408), 1158–1169. https://doi.org/10.1016/S0140-6736(23)01855-3
  3. Montgomery RA, Stern JM, Lonze BE, Tatapudi VS, Mangiola M, Wu M, Weldon E, Lawson N, Deterville C, Dieter RA, Sullivan B, Boulton G, Parent B, Piper G, Sommer P, Cawthon S, Duggan E, Ayares D, Dandro A, Fazio-Kroll A, Kokkinaki M, Burdorf L, Lorber M, Boeke JD, Pass H, Keating B, Griesemer A, Ali NM, Mehta SA, Stewart ZA. Results of Two Cases of Pig-to-Human Kidney Xenotransplantation. N Engl J Med. 2022 May 19;386(20):1889-1898. doi: 10.1056/NEJMoa2120238. PMID: 35584156.


 

Flying smart: triple-camera drone detects crop stress for smarter sesame farming




The Hebrew University of Jerusalem

A small drone fleet near a young sesame experimental plot 

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A small drone fleet near a young sesame experimental plot

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Credit: Yaniv Tubul




A new study unveils an advanced drone-based system that offers, for the first time, a smarter way to monitor sesame health. By combining hyperspectral, thermal, and RGB imagery with deep learning, researchers have developed a powerful method for detecting simultaneous nitrogen and water deficiencies in field-grown sesame. This innovative approach leverages cutting-edge UAV-imaging technology and artificial intelligence to improve the accuracy of stress detection in crops. The integration of multiple data sources enables identification of combined nutrient and water-related deficiencies. This significant step forward in the field of precision farming not only enhances crop management but also supports more sustainable and efficient use of water and fertilizerskey components in building climate-resilient food systems.

[Hebrew University of Jerusalem]– A team of researchers led by Dr. Ittai Herrmann at The Hebrew University of Jerusalem in collaboration with Virginia State University, University of Tokyo and the Volcani Institute, has applied an advanced drone-based system that accurately detects combined nitrogen and water deficiencies in field-grown sesame paving the way for more efficient and sustainable farming.

Published in the ISPRS Journal of Photogrammetry and Remote Sensing, the study showcases how unmanned aerial vehicles (UAVs) equipped with hyperspectral, thermal, and RGB sensors can work in tandem with artificial intelligence models to diagnose complex crop stress scenarios. Traditional remote sensing methods often fall short in detecting combined environmental stresses like water and nutrient shortages. This study is among the first to successfully address this challenge in an indeterminate crop such as sesame.

“By integrating data from multiple UAV-imaging sources and training deep learning models to analyze it, we can now distinguish between stress factors that were previously challenging to tell apart,” said Dr. Herrmann. “This capability is vital for precision agriculture and for adapting to the challenges of climate change.”

The team’s multimodal ensemble approach improved classification accuracy of combined nutrient and water stress from just 40–55% using conventional methods to an impressive 65–90% with their custom-developed deep learning system.

The field experiment was conducted at the Experimental Farm of Robert H. Smith Faculty of Agriculture in Rehovot. Seeds were supplied by Prof, Zvi Peleg. Rom Tarshish, an MSc student at the time, grew sesame plants under varied irrigation and nitrogen treatments and acquired plant traits and leaf level spectral data. Dr. Maitreya Mohan Sahoo analyzed the UAV-imagery through machine learning pipelines to generate maps of leaf nitrogen content, water content, and other physiological traits, which helped identify early stress markers.

Sesame, a climate-resilient oilseed crop with growing global demand, was chosen due to its nutritional importance and potential for expansion into new agro-ecosystems. This new remote-sensing method may enable growers to reduce fertilizer and water use while maintaining yield, improving both economic and environmental outcomes.


 

Study reveals most common medical emergencies in schools



Findings can help schools prioritize readiness efforts for timely response, including staff training and availability of key medications




Ann & Robert H. Lurie Children's Hospital of Chicago






The three most common reasons schools called emergency medical services (EMS) were for neurological crises such as seizures, psychiatric conditions or substance abuse, and trauma related injuries, according to data from the national EMS registry analyzed by researchers from Ann & Robert H. Lurie Children’s Hospital of Chicago.

During the study period (2018-2022), school-based medical emergencies constituted 11 percent of EMS encounters for children and two-thirds resulted in transport to the hospital. Findings, published in Pediatrics, can help schools prioritize training so staff can respond even before EMS arrival.

“While many schools have taken steps to ensure they are prepared for medical emergencies, many can still enhance their preparedness,” said lead author Michael Harries, MD, MAT, MA, Pediatric Emergency Medicine Fellow at Lurie Children’s. “Our study results highlight specific target areas for training of school staff, given that timeliness of treatment in an emergency is essential. We also stress that certain emergency medications should be available in the school setting, including benzodiazepine for seizures, epinephrine for food allergies and albuterol for asthma.”

The authors point out that national advocacy efforts around passing Seizure Safe Schools legislation are ongoing and effective. Nineteen states passed relevant legislation as of 2022. The model bill recommended by the Epilepsy Foundation seeks to ensure not only that staff are trained, but that seizure medication is available and first-aid responders are legally protected.

The American Academy of Pediatrics policy statement on medical emergencies in schools, issued in 2022, specifies the available training programs for school staff, and the medications and equipment that schools should have on hand to respond quickly to potentially life-threatening emergencies.

The study found that physical trauma occurred more frequently in elementary school age students (17 percent), while psychiatric conditions and substance abuse were more common among adolescents (18 percent).

“Given the ongoing mental health crisis in youth, we were not surprised to find that psychiatric conditions and substance abuse were among the most common emergencies in schools,” said senior author Sriram Ramgopal, MD, Emergency Medicine physician at Lurie Children’s and Assistant Professor of Pediatrics at Northwestern University Feinberg School of Medicine. “Our findings underscore the need for schools to proactively address mental health needs of students, especially teenagers. This may include establishing relationships with local mental health care facilities and improved training for staff on how best to respond to a psychiatric crisis. Overall, we need consistent policies across the country to ensure that all schools are prepared for common medical emergencies.”

Ann & Robert H. Lurie Children’s Hospital of Chicago is a nonprofit organization committed to providing access to exceptional care for every child. It is the only independent, research-driven children’s hospital in Illinois and one of less than 35 nationally. This is where the top doctors go to train, practice pediatric medicine, teach, advocate, research and stay up to date on the latest treatments. Exclusively focused on children, all Lurie Children’s resources are devoted to serving their needs. Research at Lurie Children’s is conducted through Stanley Manne Children’s Research Institute, which is focused on improving child health, transforming pediatric medicine and ensuring healthier futures through the relentless pursuit of knowledge. Lurie Children’s is the pediatric training ground for Northwestern University Feinberg School of Medicine. It is ranked as one of the nation’s top children’s hospitals by U.S. News & World Report. Emergency medicine-focused research at Lurie Children’s is conducted through the Grainger Research Program in Pediatric Emergency Medicine.