Plant Breeding and Genetics Commons^™

Summaries Of Arkansas Cotton Research 2025, Fred M. Bourland

Arkansas Agricultural Experiment Station Research Series

Planted cotton acreage in Arkansas decreased in 2025 to 520,000 acres compared to 650,000 planted acres in 2024. Arkansas producers harvested 515,000 acres, which was a decrease of 125,000 acres from the 640,000 acres harvested in 2024 (https://www.nass.usda.gov/Quick_Stats/Ag_Overview/stateOverview.php?state=Arkansas&year=2025). The 515,000 harvested acres ranked Arkansas third nationally, trailing only Texas and Georgia in harvested acres (https://esmis.nal.usda.gov/sites/default/release-files/795725/cropan26.pdf). The average cotton yield, as reported by the USDA, was 1,239 lb lint/ac, which ranked fourth nationally, behind California, Louisiana, and Arizona. Arkansas farmers produced an estimated 1.329 million bales, which is a decrease from 1.788 million bales produced in 2024. This production still ranks …

Stephen Baenziger, Unl Agronomy & Horticulture, Breeding New Wheat Varieties, Mark Griep, P. Stephen Baenziger

UNL ORCA Interview Series

Stephen Baenziger awarded the ORCA in 2011. He was born in 1951 in Toronto, Canada. When he was an infant, his family immigrated to the U.S., where he grew up in Des Plaines, Illinois. He earned a bachelor's in biological chemistry magna cum laude from Harvard University in Cambridge, Massachusetts. Next, he earned a master's and doctorate in plant breeding and genetics at Purdue University in West Lafayette, Indiana. Over the next decade, he worked for the USDA at Beltsville Agricultural Research Center in Maryland and then at the Monsanto Corporation in St. Louis, Missouri. In 1986, he joined the …

Can Generative Ai Make Farming Decisions? Current Status And Future Pathways: A Case Study In Row Crop Production With Chatgpt, Nipuna Chamara, Yufeng Ge, Joe Luck, Yu Pan, Saleh Taghvaeian, Cory Walters, Christopher Proctor, Daran Rudnick, Daren Redfearn

Department of Agricultural and Biological Systems Engineering: Faculty Publications

The agricultural decision-making process is experience-based, knowledge-dependent, time-sensitive, complex, and driven by historical data. Planting, fertilization, irrigation, and chemigation are key categories in farm decision-making, and currently there is no one-shot decision-support tool that covers all these activities. Generative Artificial Intelligence (AI) models are more advanced than traditional machine learning and deep learning models. These models have been trained on vast amounts of data from the internet, allowing them to accept unstructured data in various forms and generate human-like text, solutions to problems, and scenario predictions. Given this capability, we became interested in exploring the potential of generative AI in …

Arkansas Soybean Research Studies 2024, Jeremy Ross

Arkansas Agricultural Experiment Station Research Series

The 2024 Arkansas Soybean Research Studies includes research reports on topics pertaining to soybean across several disciplines from breeding to post-harvest processing. Research reports contained in this publication may represent preliminary or only data from a single year or limited results; therefore, these results should not be used as a basis for long-term recommendations. Several research reports in this publication will appear in other University of Arkansas Division of Agriculture’s Arkansas Agricultural Experiment Station publications. This duplication is the result of the overlap in research coverage between disciplines and our effort to inform Arkansas soybean producers of the research being …

Arkansas Cotton Variety Tests 2025, F. Bourland, J. Gann, B. Lovelady, B. Guest Jr, J. Mcalee, L. Martin, Z. Treadway, C. Henderson

Arkansas Agricultural Experiment Station Research Series

The primary goal of the Arkansas Cotton Variety Tests is to provide unbiased data regarding the agronomic performance of cotton varieties and advanced breeding lines in the major cotton-growing areas of Arkansas. This information helps seed companies establish marketing strategies and assists producers in choosing varieties to plant. These annual evaluations will then facilitate the inclusion of new, improved genetic material in Arkansas cotton production. Adaptation of varieties is determined by evaluating the lines at five University of Arkansas Division of Agriculture research sites (Manila, Keiser, Judd Hill, Marianna, and Rohwer). The tests at Rohwer were abandoned due to undefined …

Spider Mite Response, Agronomic Performance, And Stability Of A Urochloa Spp. Diversity Panel Under Field Conditions, Adrian Mating’I Kimani, David Kariuki Muruu, Paula Espitia-Buitrago, Sylvia Henga, Catherine Muui, Frank Chidawanyika, Rosa Noemi Jauregui

All Peer-Reviewed Publications

Spider mites (Oligonychus trichardti) are emerging as a major constraint to Urochloa forage productivity in East Africa; however, knowledge of genotypic variation and tolerance remains limited. Herein, 55 Urochloa genotypes were evaluated under field-infested and non-infested conditions across two seasons using an alpha-lattice design. Agronomic and physiological traits, including plant height (PH), tiller number (TN), the Normalized Difference Vegetation Index (NDVI), total dry weight (TDW), and mite damage indices (visual severity index (VSI) and stress tolerance index (STI)) were assessed. Infestation reduced biomass by 22.4% on average, with reductions of up to 45% in susceptible genotypes. Significant genotypic variation was …

Supplemental Bibliographic Details. From 2001 Mars Odyssey To Earth’S Climate Crisis: Integrating Gamma Spectroscopy, Martian Soil Simulants, And Plant Genomes For Agroecology, Anchored In Sri Lanka’S Mars-Context Serpentinites, Suniti Karunatillake, Maheshi Dassanayake, Carlos Gary Bicas

Planetary Science Lab

Bibliographic details follow to supplement hyperlinked citations in the multinational GANGOTRI-supporting project conceived by Karunatillake, Dassanayake, and Gary-Bicas

Pumpkin Variety Demonstration In West Michigan, 2025, Benjamin P. Werling, Justin Adams

Midwest Vegetable Trial Reports

Pumpkin variety demonstrations were conducted in 2025 at the West Central Michigan Research and Extension Center in Hart, MI, to compare yield, size class, and irrigation response among 21 pumpkin varieties representing jack-o’-lantern, large carving, and decorative cultivars. Demonstration plots were established on sandy soil under standard commercial fertility, pest management, and weed control practices. To assess irrigation effects under dry conditions, approximately 60% of each plot received supplemental sprinkler irrigation.

Jack-o’-lantern varieties varied in size distribution, with some producing a mix of 60, 45, and 30–35 count fruit with few larger-sized pumpkins. Others skewed toward larger bin count classes. …

Artificial Light At Night Can Worsen Competitive Outcomes Between Native And Invasive Grasses, Shannon M. Murphy, Kylee Grenis, Anna A. Sher

Biological Sciences: Faculty Scholarship

Artificial light at night (ALAN) is an important global disturbance that affects community dynamics, but how it affects species interactions, such as competition, is not well understood and needs investigation. In plant communities, some exotic-invasive plant species seem to be facilitated by ALAN, which may alter competitive outcomes with native plant communities and promote invasion. Despite these intriguing results, whether ALAN affects competitive outcomes between native and invasive species is understudied. Here we tested how ALAN affects competitive outcomes between two native prairie grasses and two grasses that are exotic-invasive in North America. We planted each native species with a …

Purple Tomatoes Boost Nutrition Crop Value And Create New Opportunities For United States (U.S) Agriculture, Tariq Alam

Agronomic Crops

The agricultural landscape in the United States is continually evolving, with growers and the tomato industry seeking innovative ways to meet consumer demands while enhancing profitability. The introduction of both bioengineered and classically bred anthocyanins-enriched purple tomatoes presents a unique opportunity for U.S. growers to cultivate a high-value crop that appeals to niche markets and commands premium pricing. Bioengineered purple tomatoes achieve high anthocyanin levels through the introduction of snapdragon transcription factors, while classically bred 'Indigo Rose' purple tomatoes are developed via classical breeding methods, providing an alternative for consumers who prefer traditionally bred products. Specifically, the purple tomato holds …

Agricultural Biotechnology In The Courts: Judicial Opinions And Commentary, Drew L. Kershen

Faculty Articles

Seven jurisdictions from around the world have issued judicial opinions that address fundamental issues about the governance and regulatory systems of agricultural biotechnology. This article summarizes these legal proceedings and describes their impact upon agricultural biotechnology. The article then provides a commentary and critique of the legal proceedings and resulting judicial opinions.

Use Of High-Throughput Phenomics With And Without Fungicide As A Wheat Breeding Tool, Gerardo Ivan Rivera Collazo

Dissertations and Doctoral Documents, University of Nebraska-Lincoln, 2023–

Wheat (Triticum aestivum) is an important food staple for many countries around the world and current consumption and production data demonstrate a production deficit. Breeders are challenged to help close this gap in production by selecting better cultivars with improved yields. Several methods aim to accelerate the breeding process to reduce the time required for releasing an elite variety. One of the main breeding bottlenecks is the lack of fast and reliable phenotypic data acquisition that could dissect physiological and morphological plant data. High-throughput remote sensing could have the potential to reduce this bottleneck by streamlining data acquisition, …

Yield And Pungency Of Eight Onion Varieties And Their Response To Sulfur Fertilizer On Fine-Textured Soil, Charlie Rohwer, Jesen Hosch, Brianna Hayward, Cindy Tong

Midwest Vegetable Trial Reports

Onions are notable for their pungency, caused by sulfur-containing compounds. Fine-textured soils high in organic matter, or soils fertilized with organic amendments, are unlikely to require additional sulfur for maximum onion yield. We were interested in the impacts of additional sulfur (in such a situation, unlikely to be sulfur-limited) on pungency, soluble solids, and yield in eight onion varieties. We carried out a study in 2024 in southern Minnesota, designed as a split-plot (onion variety as the whole-plot) with four replicates. Heavy rainfall caused substantial unmarketability in our trial, with ‘Ringmaster’ suffering the most loss (11% of planted ‘Ringmaster’ were …

Integrating High Throughput Phenotyping Approaches To Characterize Plant Traits And Support Nutrient Management Research, Katie J. Bathke

Department of Agricultural and Biological Systems Engineering: Dissertations, Theses, and Student Research

Over the past decade, considerable research has addressed the social, economic, and agronomic challenges posed by imbalanced nutrient applications, particularly nitrogen and, more recently, sulfur. In response, high throughput plant phenotyping, as one of the latest approaches, has contributed to the development of innovative techniques for assessing key plant phenotypes under stress over time in both field and greenhouse environments. However, there is a limited number of studies applying these techniques for nutrient management, particularly in scenarios where two abiotic stressors coexist, such as the combination of water stress and nitrogen deficiency, or concurrent nitrogen and sulfur deficiencies.

In chapter …

Summaries Of Arkansas Cotton Research 2024, Fred M. Bourland

Arkansas Agricultural Experiment Station Research Series

Planted cotton acreage in Arkansas increased in 2024 to 670,000 planted acres, which was 160,000 acres more than in 2023 when Arkansas producers planted approximately 510,000 acres of cotton. A wet spring, and two hurricanes in three weeks in late summer/early fall led to a slight decrease in harvested acres that culminated in a final number of 640,000 (https://www.nass.usda.gov/Quick_Stats/Ag_Overview/stateOverview.php?state=ARKANSAS). Producers harvested 640,00 acres of cotton, which ranked third nationally, behind Texas and Georgia (https://downloads.usda.library.cornell.edu/usda-esmis/files/k3569432s/nk324887m/qn59s0097/cropan25.pdf). The total harvested acreage is the greatest amount since 680,000 acres in 2011. The average cotton yield in Arkansas in 2024 was …

Lethal And Sublethal Effects Of Cotton Expressing Single And Pyramided Proteins Of Bacillus Thuringiensis (Bt) On Helicoverpa Armigera (Lepidoptera: Noctuidae), Spodoptera Litura (Lepidoptera: Noctuidae), And Spodoptera Frugiperda (Lepidoptera: Noctuidae), Sharna Holman, Paul Grundy, Helen Spafford, Michael Furlong

Grain and Other Field Crops Research Articles

The susceptibility to proteins from Bacillus thuringiensis (Bt) can vary among lepidopteran pest species. While Bollgard 3 cotton (BG3) effectively controls the primary pest Helicoverpa armigera (Hübner) in Australia, its effectiveness against other pests, such as Spodoptera litura (Fabricius) and Spodoptera frugiperda (J. E. Smith), is unknown. This laboratory study assessed the survival and development of H. armigera, S. litura, and S. frugiperda larvae when fed foliage from a non-transgenic cotton variety (CC) and 3 transgenic cotton varieties: Bollgard (BG1) expressing Cry1Ac, Bollgard II (BG2) expressing Cry1Ac and Cry2Ab, and Bollgard 3 (BG3) expressing Cry1Ac, Cry2Ab, and Vip3A. Pyramided …

Integrating Genomic And Phenomic Breeding Tools For Wheat Stem Sawfly Resistance In Hard Winter Wheat, Sydney E. Graham

Dissertations and Doctoral Documents, University of Nebraska-Lincoln, 2023–

The wheat stem sawfly (WSS; Cephus cinctus) is an insect pest that affects wheat (Triticum aestivum) in the Northern Great Plains. This pest causes stem cutting that makes the plants susceptible to lodging and results in up to 30% yield loss. The primary management strategy for producers is utilizing host plant resistance, for which the main trait is stem solidness. This trait increases the pith thickness and provides resistance to the WSS by increasing larval mortality and reducing stem cutting. While stem solidness is largely controlled by a known major gene (SSt1), the phenotypic expression is also …

Leveraging Historical Data For Estimating Genetic Gain And Implementing Genomic Selection In A Student Led Barley Breeding Program, Sydney Graham

Department of Statistics: Dissertations, Theses, and Student Research

In Nebraska, winter feed barley presents an emerging market for producers and an opportunity to diversify cropping systems. The University of Nebraska Barley Breeding Program aims to develop high-yielding, winter-hardy varieties. A unique aspect of this program is that doctoral students serve as barley breeders and are responsible for crossing, data collection, and advancement decisions. While this provides hands-on experience for the students, the impact of student leadership has not been examined.

This study used a historical data set to evaluate the realized genetic gain of the breeding program, and as a training population for genomic selection. The dataset consisted …

Arkansas Cotton Variety Tests 2024, F. Bourland, J. Gann, B. Lovelady, B. Guest Jr., J. Mcalee, L. Martin, Z. Treadway, C. Henderson

Arkansas Agricultural Experiment Station Research Series

The primary goal of the Arkansas Cotton Variety Tests is to provide unbiased data regarding the agronomic performance of cotton varieties and advanced breeding lines in the major cotton-growing areas of Arkansas. This information helps seed companies establish marketing strategies and assists producers in choosing varieties to plant. These annual evaluations will then facilitate the inclusion of new, improved genetic material in Arkansas cotton production. Adaptation of varieties is determined by evaluating the lines at five University of Arkansas System Division of Agriculture research sites (Manila, Keiser, Judd Hill, Marianna, and Rohwer). The 2024 tests at Keiser were adversely affected …

Hordeum I Genome Unlocks Adaptive Evolution And Genetic Potential For Crop Improvement, Hao Feng, Qingwei Du, Ying Jiang, Yong Jia, Tianhua He, Yibin Wang, Brett Chapman, Jiaxin Yu, Hiawen Zhang, Mengxue Gu, Mengwei Jiang, Shanshan Gao, Xinjie Zhang, Yameng Song, Vanika Garg, Rajeev K. Varshney, Jianhua Wei, Chengdao Li, Xingtan Zhang, Ruifen Li

Grain and Other Field Crops Research Articles

Crop wild relatives (CWRs) are invaluable for crop improvement. Among these, Hordeum I-genome species exhibit exceptional tolerance to alkali and salt stresses. Here we present a chromosome-scale genome assembly of Hordeum brevisubulatum (II, 2n = 2x =14) and genome resequencing of 38 diploid germplasms spanning 7 I-genome species. We reveal that the adaptive evolution of the H. brevisubulatum genome is shaped by structural variations, some of which may contribute to its adaptation to high alkali and salt environments. Evolutionary duplication of the stress sensor-responder module CaBP-NRT2 and the horizontally transferred fungal gene Fhb7 were identified as novel alkaline–saline …

Arkansas Soybean Performance Tests 2024, J. F. Carlin, R. D. Bond, T. C. Swanson, J. C. Mccoy

Arkansas Agricultural Experiment Station Research Series

Soybean variety and strain performance tests are conducted each year in Arkansas by the University of Arkansas System Division of Agriculture’s Arkansas Crop Variety Improvement Program. The tests provide information to companies developing varieties and/ or marketing seed within the state and aid the Arkansas Cooperative Extension Service in formulating variety recommendations for soybean producers.

Arkansas Soybean Research Studies 2023, Jeremy Ross

Arkansas Agricultural Experiment Station Research Series

The 2023 Arkansas Soybean Research Studies includes research reports on topics pertaining to soybean across several disciplines from breeding to post-harvest processing. Research reports contained in this publication may represent preliminary or only data from a single year or limited results; therefore, these results should not be used as a basis for long-term recommendations.

Several research reports in this publication will appear in other University of Arkansas System Division of Agriculture’s Arkansas Agricultural Experiment Station publications. This duplication is the result of the overlap in research coverage between disciplines and our effort to inform Arkansas soybean producers of the research …

A Barley Pan-Transcriptome Reveals Layers Of Genotype-Dependent Transcriptional Complexity, Wenbin Guo, Miriam Schreiber, Vanda B. Marosi, Paolo Bagnaresi, Morten Egevang Jorgensen, Katarzyna B. Braune, Ken J. Chalmers, Brett Chapman, Viet Hoang Dang, Christoph Dockter, Anne Fiebig, Geoffrey B. Fincher, Agostino Fricano, John Fuller, Allison Haaning, Georg Haberer, Axel Himmelbach, Murukarthick Jayakodi, Yong Jia, Nadia Kamal, Peter Langridge, Chengdao Li

Grain and Other Field Crops Research Articles

A pan-transcriptome describes the transcriptional and post-transcriptional consequences of genome diversity from multiple individuals within a species. We developed a barley pan-transcriptome using 20 inbred genotypes representing domesticated barley diversity by generating and analyzing short- and long-read RNA-sequencing datasets from multiple tissues. To overcome single reference bias in transcript quantification, we constructed genotype-specific reference transcript datasets (RTDs) and integrated these into a linear pan-genome framework to create a pan-RTD, allowing transcript categorization as core, shell or cloud. Focusing on the core (expressed in all genotypes), we observed significant transcript abundance variation among tissues and between genotypes driven partly by RNA …

Arkansas Corn And Grain Sorghum Performance Tests 2024, J. F. Carlin, R. D. Bond, J. C. Mccoy, T. C. Swanson

Arkansas Agricultural Experiment Station Research Series

Corn and grain sorghum performance tests are conducted each year in Arkansas by the University of Arkansas System Division of Agriculture. The tests provide information to companies marketing seed within the state and aid the Arkansas Cooperative Extension Service in formulating recommendations for producers.

The 2024 corn performance tests contained 44 hybrids and were conducted at the Northeast Rice Research and Extension Center (NERREC) at Harrisburg, the Lon Mann Cotton Research Station (LMCRS) near Marianna, the Rohwer Research Station (RRS) near Rohwer, and the Rice Research and Extension Center (RREC) near Stuttgart. The 2024 grain sorghum performance tests contained 16 …

2025 Standard-Sized Seedless Watermelon Cultivar Evaluation In Indiana, Wenjing Guan, Dennis Nowaskie, Cesar Escalante

Midwest Vegetable Trial Reports

Indiana ranked fifth in watermelon production in the United States. In 2024, Indiana growers planted approximately 8,100 acres of watermelons. Watermelon cultivar evaluation trials have been conducted annually at the Southwest Purdue Agricultural Center (SWPAC) in Vincennes, IN, for over 30 years. In 2025, 25 standard-sized seedless watermelons were evaluated, and yield and fruit quality parameters were assessed.

Divergent Floral And Vegetative Trait Responses To Abiotic Factors Drive Phenotypic Diversity In Platanthera Dilatata (Orchidaceae) Across Alaska, Marlin L. Bowles, Lisa E. Wallace

Biological Sciences Faculty Publications

Multiple traits make up an integrated phenotype, but traits may be shaped by differing drivers. It is often assumed that selection by biotic agents drives floral variation, but abiotic factors are also known to influence floral traits. Understanding trait covariations and their association with diverse environmental factors is a central question in evolution and ecology. Here, we studied covariation in floral and vegetative traits in relation to climate and topo-edaphic variation in the orchid Platanthera dilatata. In Platanthera, nectar spur length is associated with pollinator tongue length, but much variation exists in other traits too, likely to be …

Diversity Of Gibberellin 2-Oxidase Genes In The Barley Genome Offers Opportunities For Genetic Improvement, Jingye Cheng, Yong Jia, Camilla Hill, Tianhua He, Ke Wang, Ganggang Guo, Sergey Shabala, Meixue Zhou, Yong Han, Chengdao Li

Grain and Other Field Crops Research Articles

Introduction

Gibberellin (GA) is a vital phytohormone in regulating plant growth and development. During the “Green Revolution”, modification of GA-related genes created semi-dwarfing phenotype in cereal crops but adversely affected grain weight. Gibberellin 2-oxidases (GA2oxs) in barley act as key catabolic enzymes in deactivating GA, but their functions are still less known.

Objectives

This study investigates the physiological function of two HvGA2oxgenes in barley and identifies novel semi-dwarf alleles with minimum impacts on other agronomic traits.

Methods

Virus-induced gene silencing and CRISPR/Cas9 technology were used to manipulate gene expression of HvGA2ox9 and HvGA2ox8ain barley and RNA-seq …

Pangenome And Pantranscriptome As The New Reference For Gene-Family Characterization: A Case Study Of Basic Helix-Loop-Helix (Bhlh) Genes In Barley, Cen Tong, Yong Jia, Haifei Hu, Zhanghui Zeng, Brett Chapman, Chengdao Li

Grain and Other Field Crops Research Articles

Genome-wide identification and comparative gene-family analyses have commonly been performed to investigate species-specific evolution linked to various traits and molecular pathways. However, most previous studies have been limited to gene screening in a single reference genome, failing to account for the gene presence/absence variations (gPAVs) in a species. Here, we propose an innovative pangenome-based approach for gene-family analyses based on orthologous gene groups (OGGs). Using the basic helix-loop-helix (bHLH) transcription factor family in barley as an example, we identified 161–176 bHLHs in 20 barley genomes, which can be classified into 201 OGGs. These 201 OGGs were further classified into 140 …

Are You Planting Resistant Weeds With Your Crop Seed?, Department Of Primary Industries And Regional Development, Western Australia

Grains and other field crops factsheets

Key messages

• West Australian (WA) grain growers have significant weed seed contamination in their crop seed.

• WA growers are sowing herbicide resistant weed seed into their cropping paddocks.

• Crop hygiene (harvest, seeding, transporting) is important to minimise spread of weeds.

Harvest is well underway throughout the WA grainbelt, and growers will be harvesting grain and collecting seed for next year’s crop.

However, this crop seed can be contaminated with weed seeds and, if seed cleaning operations are only partially effective, this weed seed may be sown into paddocks with crop seed in the following season.

B.R. Wells Arkansas Rice Research Studies 2023, J. Hardke, X. Sha, N. Bateman

Arkansas Agricultural Experiment Station Research Series

Arkansas is the leading rice producer in the United States. The state represents 49.0% of total U.S. rice production and 49.6% of the total acres planted to rice in 2023. Rice cultural practices vary across the state and across the U.S. However, these practices are also dynamic and continue to evolve in response to changing political, environmental, and economic times. This survey was initiated in 2002 to monitor and record changes in the way Arkansas rice producers approach their livelihood. The survey was conducted by polling county extension agents in each of the counties in Arkansas that produce rice. Questions …