Updated October 2, 2025:
KANSAS SOYBEAN COMMISSION FINAL REPORT OF PROGRESS
Title: “Breeding soybean to improve climate and disease resilience and compositional quality”
Accomplishments for FY2025 (July 1, 2024 – June 30, 2025)
Population and Germplasm Development
In 2025, about 100 new populations were created using more than 39 different parents. Over 60% of the single cross populations involved at least one parent resistant to soybean cyst nematode, several included drought and herbicide tolerance, and others incorporated novel traits such as reduced flower abortion or improved oil quality. Most of this work generates valuable germplasm and genetic tools that both public and private breeders can use to deliver new varieties. This ensures Kansas-developed germplasm remains in the commercial pipeline and ultimately reaches farmers.
Field Trials
The breeding program is currently evaluating more than 8,000 soybean genotypes planted in over 14,000 plots across Kansas. These evaluations include over 7,000 F4:5 progeny rows, providing the critical first look at early-generation material with potential to advance. Among these progeny, more than 2,000 lines were derived from high oleic parents to improve oil quality traits, while another 2,000 originated from slow-wilting or drought-tolerant parents aimed at improving resilience under water-limited conditions. In addition, more than 800 K-lines from maturity groups III through V are being tested in preliminary yield trials to identify promising candidates for advancement. Over 100 K-lines have progressed to the Kansas Advanced Yield Trials, which provide rigorous, multi-location testing under farmer-representative conditions. Beyond our program, over 230 breeding lines contributed by public programs nationwide, including 33 K-lines, are being tested in Uniform and cooperative trials across the U.S., providing an important measure of how Kansas germplasm performs relative to other breeding efforts. Finally, more than 400 experimental genotypes and plant introductions are under evaluation in specialized drought, remote sensing, and diversity yield trials, which are designed to expand genetic diversity and accelerate the identification of traits that will contribute to long-term yield stability and adaptability.
Variety Release
KS4525NS was officially released in FY25 as the latest public variety developed through the Kansas State University breeding program. The release notice and tables summarizing its multi-year performance across Kansas environments are shown in the attached document. While production of public varieties like KS4525NS is typically on a smaller commercial scale, the release plays an important role in advancing soybean improvement by making new genetics available to both farmers and breeders. The variety was licensed for commercial production, providing growers with an additional option for local adaptation, and it has also been exchanged with other breeding programs through material transfer agreements.
Germplasm Releases
After years of cooperative research, a valuable set of non-nodulating soybean lines has been developed through the joint efforts of the Department of Agronomy, Kansas State University, the Institute of Plant Breeding, Genetics and Genomics and Department of Crop and Soil Sci., University of Georgia, the Crop Genetics Research Unit, USDA-ARS, Stoneville, Mississippi, and the Department of Crop, Soil and Environmental Sciences, University of Arkansas, Fayetteville, Arkansas. The release announcement for this germplasm can be found in the attached document. This germplasm represents a unique and powerful resource for advancing our understanding of biological nitrogen fixation and nitrogen management in relation to soybean yield and seed composition. The lines have been deposited in the National Plant Germplasm System and are already being distributed to U.S. researchers, ensuring broad access to material that can drive both fundamental discoveries and practical advances in soybean improvement. A research article describing this work and germplasm has been accepted for publication in the Journal of Plant Registrations.
Breeding Technologies
• Genetic gain. Over the past several years we have worked to integrate spectral reflectance data into a predictive tool for yield. Spectral images were evaluated as predictors of soybean yield across multiple environments and years using a combination of mixed model and machine learning approaches. High-throughput reflectance measurements were collected with drone-based sensors at repeated sampling dates within each location, providing time-series data for a suite of vegetation indices including NDVI, NDRE, and related canopy metrics. Mixed linear models were used to generate BLUPs for both agronomic and spectral traits, incorporating genotype, location, and genotype × location effects while testing different strategies for aggregating spectral data across dates versus modeling each date individually. To extend beyond traditional variance-component methods, machine learning algorithms were applied to the spectral BLUPs to develop predictive models for yield, enabling comparisons of accuracy and robustness across environments. This integrated approach demonstrated that while prediction accuracy varied depending on trait, index, and environment, spectral reflectance data—particularly when combined with Machine Learning Methods—can capture genetic variation relevant to yield potential and provide a promising framework for accelerating early-generation selection in soybean breeding.
• Biotech traits. We have focused efforts on crossing two of our transgenic lines (hpRNAi-Y25 and hpRNAi-Prp17) for SCN resistance into Kansas adaptive lines that are both susceptible and moderately resistant to SCN Hg type 7 as well as crossing the two transgenes together. Currently we have F4 generations to test. We are also continuing our work on two events (hpRNAi-cytoP450 and hpRNAi-Lacc2) showing promise for Dectes stem borer tolerance. We were unable to acquire the proper field release permits for the summer of 2025 due to personnel changes within the USDA earlier this year. However, we have continued advancing these lines in the greenhouse and begun crossing these two lines into KS adaptive lines.
Drought and Heat Tolerance
• Abiotic stress. Data analysis continued on an a field experiment conducted in 2020, 2021 and 2022 to evaluate the response of a diversity panel of over 300 genotypes to heat stress. Phenotypic data collected included: days to physiological maturity (R8), seed quality, seed yield (kg/ha), seed weight (100 seed weight in grams), lodging, plant height (cm), and seed composition (oil, protein linoleic, linolenic, palmitic, stearic, raffinose, and sucrose concentrations). Genome-Wide Association and Genomic Prediction studies were conducted to identify genomic regions responsible for the phenotypic traits with the goal of developing improved heat-tolerant germplasm. These analyses should be completed in 2024.
Training, Outreach and Knowledge Dissemination
This project continues to strengthen both the soybean breeding pipeline and the broader agricultural community by training new scientists, engaging farmers, and contributing to the scientific literature. Multiple undergraduate students worked and trained with the breeding program throughout the year, while graduate students focused on applying remote sensing and machine learning to breeding research, and post-doctoral associates advance genomic evaluation and studies of physiological stress response. These training opportunities not only provide valuable research experience but also ensure a strong pipeline of future professionals in soybean improvement.
At the same time, project results are actively shared with producers and the scientific community. Findings are delivered through extension publications, news releases, radio interviews, experiment station reports, field days, extension meetings, and tours. Online resources provide up-to-date information on new germplasm releases, pest resistance, and results from SCN surveys, giving farmers practical insights for variety selection and management. Research on high temperature stress, host plant resistance, and SCN resistance is also disseminated at scientific conferences and through peer-reviewed publications.
Publications from FY25 include journal articles in Theoretical and Applied Genetics, Agronomy Journal, in silico Plants, and Crop Science, along with multiple abstracts presented at national meetings of the American Society of Agronomy, Crop Science Society of America, Soil Science Society of America, and the American Society of Plant Biologists. Together, these publications demonstrate the scientific rigor of the project and ensure that Kansas-led soybean research informs breeding and production decisions both locally and nationally.
Journal articles
Menke, Ethan, Clinton J. Steketee, Qijian Song, William T. Schapaugh, Thomas E. Carter Jr., Benjamin Fallen, and Zenglu Li. 2024. Genetic mapping reveals the complex genetic architecture controlling slow canopy wilting in soybean PI 471938. Theoretical and Applied Genetics DOI : 10.1007/s00122-024-04609-w.
Jenny Koebernick, Anne M. Gillen, Robert Fett, Sejal Patel, Ben Fallen, Vince Pantalone, Grover Shannon, Zenglu Li, Andrew Scaboo, William Schapaugh, Rouf Mian, Quentin D. 2024. Soybean test weight in relation to genotype, environment, and genotype × environment interaction in the Southern United States. Agronomy J. https://doi.org/10.1002/agj2.21551.
Chiozza, M.V., Parmley, K., Schapaugh, W.T., Asebedo, A.R., Singh, A.K. 2024. Changes in the leaf area-seed yield relationship in soybean driven by genetic, management, and environments: implications for high-throughput phenotyping. in silico Plants, 6(2): 123-135.
Wartha, C. A., Campbell, B. W., Ramasubramanian, V., Nice, L., Brock, A., Cai, G., Eskandari, M. M., Graef, G., Hudson, M. E., Hyten, D., Mahan, A. L., Martin, N. F., McHale, L., Miranda, C., Dominguez, E. M., Nelson, R., Rainey, K., Rajcan, I., Scaboo, A., … Lorenz, A. J. (2025). Genomic analysis and predictive modeling in the Northern Uniform Soybean Tests. Crop Science, 65, e70138. https://doi.org/10.1002/csc2.70138.
Abstracts
U.C. Jha, S. Saffi, D. Chatti, W.T. Schapaugh, R. Welti, and P.V.V. Prasad. 2024. Transcriptome and Lipidome Dynamics of Soybean Floral Buds Under Heat Stress. American Society of Plant Biologists (ASPB) Midwest Section Meeting, March 16-17, 2024, at Purdue University in West Lafayette, Indiana.
Lima, J. E., Bolouri, F., Awan, A. S., Pramanik, S., Sari-Sarraf, H., Caragea, D., Turner, C., Dhandapani, R., Schapaugh, W. T. Jr., Ahmad, N., Ichinose, Y., Saini, D. K., Bangari, M. P. S., Bardhan, K., Mehla, M. K., Ye, H., Nguyen, H. T., Patil, G., Shekoofa, A., Fischel, L., Cruz, A., Somayanda, I., & Jagadish, K. (2024) Soybean Phenotyping Under Irrigated and Drought Conditions: A Machine Learning Approach for Flower and Pod Counting [Abstract]. ASA, CSSA, SSSA International Annual Meeting, San Antonio, TX. https://scisoc.confex.com/scisoc/2024am/meetingapp.cgi/Paper/161863.
Chatti, D., Walta, D., Todd, T., Ikeogu, U., Rainey, K. M., McHale, L., & Schapaugh, W. T. Jr. (2024) Phenotypic Selection for Seed Yield Using Spectral Imagery in Soybean Progeny Rows [Abstract]. ASA, CSSA, SSSA International Annual Meeting, San Antonio, TX. https://scisoc.confex.com/scisoc/2024am/meetingapp.cgi/Paper/159654.
Chatti, D., Schapaugh, W. T. Jr., Bakshi, A., Caragea, D., & Prasad, P. V. V. (2024) High Throughput Phenotyping to Evaluate Post Flowering Heat Tolerance in Soybean Using Pollen Germination [Abstract]. ASA, CSSA, SSSA International Annual Meeting, San Antonio, TX. https://scisoc.confex.com/scisoc/2024am/meetingapp.cgi/Paper/159051.
Schapaugh, W. T. Jr., Ikeogu, U., Hessel, R., Li, Z., Ray, J. D., & Purcell, L. C. (2024) Non-Nodulating and Nodulating Isolines Developed from Two Donor Sources and an Elite Soybean Cultivar [Abstract]. ASA, CSSA, SSSA International Annual Meeting, San Antonio, TX. https://scisoc.confex.com/scisoc/2024am/meetingapp.cgi/Paper/158977.
Acknowledgments
We sincerely thank Kansas soybean farmers for your continued support of this project through the Kansas Soybean Commission. The faculty, graduate students, post-doctoral scientists, and staff involved in this work all recognize that your checkoff dollars make this research possible. Because of your investment, we can develop new soybean germplasm, test innovative tools, and generate information that directly addresses the challenges you face in the field.
Your support allows us to stay focused on problems that matter most to Kansas agriculture—managing pests like soybean cyst nematode, improving tolerance to drought and heat, and enhancing seed quality traits that add value in the marketplace. While some of our varieties are released on a smaller scale, the germplasm, knowledge, and training produced by this program strengthen both public and private breeding pipelines. That means the improvements we make here ultimately reach your farms through better genetics and more resilient varieties.
On behalf of the entire team, thank you for trusting us with this responsibility. We value the opportunity to work for you, and we are committed to ensuring that every dollar invested in this program returns benefits to Kansas soybean farmers, now and in the years ahead.
View uploaded report 
Final Project Results
Breeding Soybean to Improve Climate and Disease Resilience and Compositional Quality
Kansas Soybean Commission – FY2025
Introduction
Soybeans are a cornerstone of Kansas agriculture, but farmers face growing challenges from pests, diseases, and extreme weather. This project, supported by the Kansas Soybean Commission, focused on developing soybean lines and tools to make soybeans more resilient to drought, heat, and diseases while also improving seed quality traits such as protein and oil. The project also trained future scientists and shared findings directly with farmers and the scientific community.
Key Accomplishments
Building Better Genetic Resources
In 2025, the breeding program created about 100 new soybean populations using more than 39 different parents. Over 60% of these new populations included at least one parent with resistance to soybean cyst nematode (SCN), the most damaging soybean pest in the U.S. Others included parents with drought tolerance, herbicide tolerance, or improved oil quality. While most Kansas farmers do not plant public soybean varieties directly, the germplasm developed here becomes a vital resource for other breeding programs, ensuring that Kansas traits make their way into the commercial pipeline.
Large-Scale Field Testing
More than 8,000 soybean genotypes were planted in over 14,000 plots across Kansas. This included:
Over 7,000 early-generation lines, many with traits like drought tolerance or high oleic oil for improved quality.
More than 800 K-lines tested in preliminary trials.
Over 100 K-lines tested in the Kansas Advanced Yield Trials, providing rigorous evaluation under farmer-like conditions.
230 breeding lines from across the U.S. tested in Uniform and cooperative trials, including 33 from Kansas.
Over 400 lines tested in specialized drought, remote sensing, and diversity trials.
These evaluations help identify the best candidates for future breeding and ensure Kansas varieties are competitive nationally.
Variety and Germplasm Releases
KS4525NS, a new soybean variety, was officially released in FY25. Though public varieties are produced on a smaller commercial scale, KS4525NS demonstrates the success of the program and provides farmers with another option adapted to Kansas conditions. Importantly, it has also been shared with other breeding programs so its traits can contribute to future improvements.
A unique set of non-nodulating soybean lines was released through cooperation with other universities and USDA. These lines help researchers better understand biological nitrogen fixation and nitrogen management in soybeans. They have been deposited into the National Plant Germplasm System, ensuring long-term access for researchers and breeders nationwide.
New Breeding Tools and Technologies
Drones and Remote Sensing: Drone-mounted sensors collected images of soybean plots across multiple dates, capturing information about plant health and stress before it could be seen with the naked eye. These data were analyzed using machine learning models to predict yield and select the most promising lines earlier in the breeding cycle.
Biotech Traits: Experimental lines carrying new forms of SCN resistance and tolerance to Dectes stem borer were advanced in greenhouse and breeding tests. While regulatory delays prevented field testing in 2025, work continues to move these traits into Kansas-adapted varieties.
Heat and Drought Tolerance: Multi-year trials of over 300 genotypes measured yield, seed quality, and other traits under high heat. Genomic tools are being applied to identify markers that can be used to accelerate breeding for stress tolerance.
Training and Outreach
Multiple undergraduate students, two graduate students, and two post-doctoral researchers worked on this project, gaining hands-on experience with advanced tools like machine learning and genomic selection.
Results were shared with farmers through field days, extension meetings, news releases, and radio interviews, as well as with scientists at national conferences and in peer-reviewed journals.
Benefits to Farmers
While most Kansas soybean farmers may not plant public varieties directly, this project delivers real benefits in several ways:
Innovation Pipeline: Germplasm and knowledge developed here feed into both public and private breeding programs, helping ensure that commercial varieties available to Kansas farmers include traits like SCN resistance, drought tolerance, and better oil quality.
Resilience to Stress: With Kansas weather becoming more unpredictable, developing soybeans that can handle drought and heat is critical to stabilizing yields and protecting profitability.
Pest and Disease Resistance: By diversifying resistance sources for SCN and developing new biotech approaches, this project reduces the risk of yield loss from pests and diseases.
Training the Next Generation: Farmers’ checkoff dollars support the education and training of future scientists who will carry soybean improvement forward.
Faster Breeding Progress: Advanced tools like drones, remote sensing, and machine learning shorten the time it takes to deliver improved soybean varieties.
Conclusion
This project shows how farmer investment through the Kansas Soybean Commission pays off. By combining traditional breeding with cutting-edge technologies, we are developing soybean varieties and germplasm that are better able to withstand pests, diseases, and Kansas weather extremes. At the same time, we are ensuring that this progress is shared broadly through collaboration with other breeders, publications, and training of new scientists.
Although many of the benefits are indirect, the impact is significant: Kansas farmers ultimately gain access to improved genetics, better tools for managing production risks, and varieties that keep Kansas soybeans competitive in national and global markets.
On behalf of the entire team, we thank Kansas soybean farmers for your continued support. Your investment ensures that soybean breeding remains strong in Kansas, delivering both immediate and long-term benefits to your farms and communities.