Plant Breeding and Genetics Commons^™

Arkansas Soybean Performance Tests 2022, J. F. Carlin, R. B. Mulloy, R. D. Bond

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.

Genome-Wide Association Identifies Key Loci Controlling Blackberry Postharvest Quality, T. Mason Chizk, John R. Clark, Carmen Johns, Lacy Nelson, Hamid Ashrafi, Rishi Aryal, Margaret Worthington

Horticulture Faculty Publications and Presentations

Introduction: Blackberry (Rubus subgenus Rubus) is a soft-fruited specialty crop that often suffers economic losses due to degradation in the shipping process. During transportation, fresh-market blackberries commonly leak, decay, deform, or become discolored through a disorder known as red drupelet reversion (RDR). Over the past 50 years, breeding programs have achieved better fruit firmness and postharvest quality through traditional selection methods, but the underlying genetic variation is poorly understood.

Methods: We conducted a genome-wide association of fruit firmness and RDR measured in 300 tetraploid fresh-market blackberry genotypes from 2019-2021 with 65,995 SNPs concentrated in genic regions of the …

Exploring The Potential Of Heterosis To Improve Nitrogen Use Efficiency In Popcorn Plants, Talles De Oliveira Santos, Antônio Teixeira Do Amaral Junior, Rosimeire Barboza Bispo, Wallace De Paula Bernado, Bruna Rohem Simão, Valter Jário De Lima, Marta Simone Mendonça Freitas, Freddy Mora-Poblete, Roberto Dos Santos Trindade, Samuel Henrique Kamphorst, Weverton Pereira Rodrigues, Eliemar Campostrini, Flávia Nicácio Viana, Cosme Damião Cruz

Center for Plant Science Innovation: Faculty Publications

Nitrogen is crucial for plant growth and development, and improving nitrogen use efficiency (NUE) is a viable strategy for reducing dependence on nitrogen inputs and promoting sustainability. While the benefits of heterosis in corn are well known, the physiological mechanisms underlying this phenomenon in popcorn are less understood. We aimed to investigate the effects of heterosis on growth and physiological traits in four popcorn lines and their hybrids under two contrasting nitrogen conditions. We evaluated morpho-agronomic and physiological traits such as leaf pigments, the maximum photochemical efficiency of PSII, and leaf gas exchange. Components associated with NUE were also evaluated. …

Reaction-Diffusion System On Irregular Boundaries Reproduces Multiple Generations Of Petal Spot Patterns In Monkeyflower Hybrids, Emily Simmons

Biology and Medicine Through Mathematics Conference

No abstract provided.

Genome-Wide Association Study For Agronomic Traits In Bermudagrass (Cynodon Spp.), Lovepreet Singh

Theses and Dissertations

Bermudagrass (Cynodon spp.) breeding and cultivar development is hampered by limited information regarding its genetic and phenotypic diversity. A germplasm collection of 206 bermudagrass accessions from 29 countries was genotyped with high-throughput genotyping-by-sequencing technique. Genomic diversity in this diverse germplasm panel was assessed with multifaceted approaches including population structure, phylogenetic analysis, principal component analysis, and genetic diversity parameters. This study revealed substantial genetic variation in the Cynodon accessions, demonstrating the potential of this germplasm panel for further genetic studies and cultivar development in breeding programs. Another critical issue in turfgrass breeding is the lack of information regarding the genetic …

Evaluation Of Early Maturing Cultivars, Optimal Harvest Timing, And Canopy Reflectance Of Peanut To Maximize Grade And Yield, Joseph Bryan Whittenton

Theses and Dissertations

Peanut digging timing is difficult to predict due to indeterminate growth and peanut pods maturing underground, resulting in the need to research methods that provide consistent measurements, while reducing time and effort for farmers and researchers. Experiments were conducted to evaluate the accuracy of the Maturity Index 1 and Maturity Index 2 in predicting peanut grade, the accuracy of the North Carolina 2 degree day method in predicting peanut yield, and remote sensing vegetative indices sensitivity equivalence (SEq) to peanut Maturity Index 2 and harvest grade (TSMK) for cultivars IPG-914 and Georgia-06G in Mississippi.

Maturity Index 1 and …

Investigating Effect Of Seed Source And Developing Germination Protocols To Improve Success In Restoration Of Arkansas Tallgrass Prairies, Rhiannon Spencerosa

Graduate Theses and Dissertations

American tallgrass prairie has faced losses estimated at 87-98% of original land area since European settlement. Native seeds are often used to supplement struggling or extinct plant populations in tallgrass prairie restoration and establishment sites. Two main considerations in restoration and establishment are from where to source seed and how to obtain high germination rates. In order to determine the effect of seed source, a common garden experiment was performed in Fayetteville, Arkansas in 2022 with five prairie species: Andropogon gerardii (big bluestem), Bouteloua curtipendula (sideoats grama), Panicum virgatum (switchgrass), Schizachyrium scoparium (little bluestem), and Sorghastrum nutans (Indiangrass). Seed was …

A Genome-Wide Association Study And Genomic Prediction For Phakopsora Pachyrhizi Resistance In Soybean, Haizheng Xiong, Yilin Chen, Yong-Bao Pan, Jinshe Wang, Weiguo Lu, Ainong Shi

Horticulture Faculty Publications and Presentations

Soybean brown rust (SBR), caused by Phakopsora pachyrhizi, is a devastating fungal disease that threatens global soybean production. This study conducted a genome-wide association study (GWAS) with seven models on a panel of 3,082 soybean accessions to identify the markers associated with SBR resistance by 30,314 high quality single nucleotide polymorphism (SNPs). Then five genomic selection (GS) models, including Ridge regression best linear unbiased predictor (rrBLUP), Genomic best linear unbiased predictor (gBLUP), Bayesian least absolute shrinkage and selection operator (Bayesian LASSO), Random Forest (RF), and Support vector machines (SVM), were used to predict breeding values of SBR resistance using …

In-Situ Characterization Of Jatigede Local Roid Banana (Musa Spp.) Based On Morphological And Agronomical Characteristics, Ade Ismail, Vika Faraditha Pratiwi, Haris Maulana, Ichsan Nurul Bari, Yani Maharani, Fajar Maulana Wijaya Kusumah

Jurnal Kultivasi

Banana (Musa spp.) is one of the agricultural commodities that’s widely cultivated and used by the local community. Currently, only 101 types of local varieties of bananas are registered in Indonesia; one of them is the Roid banana from Jatigede District. Roid bananas grow wild without any mandatory special care. Continuous use without any conservation and preservation efforts can lead to scarcity of Roid banana germplasm as a genetic resource. Therefore, it is necessary to identify the distribution and diversity of Roid bananas through in situ exploration and characterization activities. This study aimed to identify the potential for genetic diversity …

Complete Genome Sequences Of Chop, Delrio, And Grandslam, Three Gordonia Phages Isolated From Soil In Central Arkansas, Heidi N. Mathes, Elijah I. Christenson, John H. Crum, Emme M. Edmondson, Kassidy E. Gray, Luke W. Lawson, Lauren E. Lee, Michael P. Lee, Jackson A. Lipscomb, Morgan E. Masengale, Hannah G. Matthews, Charles M. Mcclain 4th, Tuesday N. Melton, Trace H. Morrow, Alexis M. Perry, David R. Rainwater, Grace E. Renois, Maryann F. Rettig, Duncan C. Troup, Allie J. Wilson, Nathan S. Reyna, Ruth Plymale

School of Dentistry Faculty Publications

Chop, DelRio, and GrandSlam are phage with a Siphoviridae morphotype isolated from soil in Arkansas using the host Gordonia terrae 3612. All three are temperate, and their genomes share at least 96% nucleotide identity. These phage are assigned to cluster DI based on gene content similarity to other sequenced actinobacteriophage.

Genetic Variability, Heritability, And Path Analysis For Agronomic Characters In Hybrid Maize, Slamet Bambang Priyanto, Roy Efendi, Bunyamin Zainuddin

Jurnal Kultivasi

Genetic parameters, which include genetic variability, heritability, and correlation between characters, are essential factors in the selection process. This study aims to: 1) determine the genetic variability and heritability for agronomic characters in hybrid maize and 2) determine the characteristics that directly affect hybrid maize yield. The experiment was conducted at Indonesian Cereal Research Institute (ICERI) Maros from June to October 2021. Fourteen maize hybrids genotypes were arranged in a randomized block design (RBD) with four replications. The observed traits were plant height, ear height, stalk diameter, leaf angle, leaf length, leaf width, days to anthesis, days to silking, days …

Protease Inhibitor Asp Enhances Freezing Tolerance By Inhibiting Protein Degradation In Kumquat, Hua Yang, Ke-Wei Qiao, Jin-Jing Teng, Jia-Bei Chen, Ying-Li Zhong, Li-Qun Rao, Xing-Yao Xiong, Huang Li

Center for Plant Science Innovation: Faculty Publications

Cold acclimation is a complex biological process leading to the development of freezing tolerance in plants. In this study, we demonstrated that cold-induced expression of protease inhibitor FmASP in a Citrus-relative species kumquat [Fortunella margarita (Lour.) Swingle] contributes to its freezing tolerance by minimizing protein degradation. Firstly, we found that only cold-acclimated kumquat plants, despite extensive leaf cellular damage during freezing, were able to resume their normal growth upon stress relief. To dissect the impact of cold acclimation on this anti-freezing performance, we conducted protein abundance assays and quantitative proteomic analysis of kumquat leaves subjected to cold acclimation …

Characterization Of Physical And Biochemical Traits In Wheat And Corn Plants Using High Throughput Image Analysis, Kantilata Thapa

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

Plant phenotyping has been recognized as a rapidly growing field of research due to the labor-intensive, destructive, and time-consuming nature of traditional phenotyping methods. These phenotyping bottlenecks can be addressed by advancements in image-based phenotyping like RGB and hyperspectral imaging for the assessment of plant traits important for breeding purposes. This study aims (1) to characterize the physical and biochemical traits of wheat and corn plants using RGB and hyperspectral imaging in the greenhouse, and (2) to estimate leaf nitrogen (N), phosphorus (P), and potassium (K) content using hyperspectral imaging and an analytical spectral device (ASD spectrometer) and compare the …

Arkansas Cotton Variety Test 2022, F. Bourland, A. Beach, B. Milano, B. Guest, C. Kennedy, L. Martin, B. Robertson

Arkansas Agricultural Experiment Station Research Series

The primary goal of the Arkansas Cotton Variety Test 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 2022 tests at Rohwer were adversely affected …

Drought Susceptibility Index; A Preferred Criterion In Screening For Tolerance In Soybean, Muhammad Zeshan Zafer, Muhammad Hammad Nadeem Tahir, Muhammad Amir Bakhtavar, Essam Darwish, Mahmood Alam Khan, Zulqurnain Khan, Chahat Fatima, Ayesha Aftab, Shifa Ur Rahman, Shoaib Ur Rehman

Journal of Bioresource Management

Soybean (Glycine max L.) yield and yield related traits are constrained by drought. Adaptation of soybean to changing environment could be improved by exploitation and introgression of diverse germplasm in breeding program. In present study, the response to drought conditions, especially at flowering stage, was evaluated to determine the potential soybean germplasm for future soybean breeding programs in Pakistan. Field experiment was conducted under two water regimes i.e. well-water and water-limited, to assess the effect of drought in seed yield and yield related traits. Although, drought led to overall reduction of ~15 % in thousand seed weight but still …

Mechanism Of Sphingolipid Homeostasis Revealed By Structural Analysis Of Arabidopsis Spt-Orm1 Complex, Peng Liu, Tian Xie, Xinyue Wu, Gongshe Han, Sita D. Gupta, Zike Zhang, Jian Yue, Feitong Dong, Kenneth Gable, Somashekarappa Niranjanakumari, Wanyuan Li, Lin Wang, Wenchen Liu, Ruifeng Yao, Edgar B. Cahoon, Teresa M. Dunn, Xin Gong

Center for Plant Science Innovation: Faculty Publications

The serine palmitoyltransferase (SPT) complex catalyzes the first and rate-limiting step in sphingolipid biosynthesis in all eukaryotes. ORM/ORMDL proteins are negative regulators of SPT that respond to cellular sphingolipid levels. However, the molecular basis underlying ORM/ORMDL-dependent homeostatic regulation of SPT is not well understood.We determined the cryo–electron microscopy structure of Arabidopsis SPT-ORM1 complex, composed of LCB1, LCB2a, SPTssa, and ORM1, in an inhibited state. A ceramide molecule is sandwiched between ORM1 and LCB2a in the cytosolic membrane leaflet. Ceramide binding is critical for the ORM1-dependent SPT repression, and dihydroceramides and phytoceramides differentially affect this repression. A hybrid β sheet, formed …

Asparagus Breeding: Future Research Needs For Sustainable Production, Daniel Drost

Plants, Soils, and Climate Faculty Publications

Productivity in asparagus (Asparagus officinalis L.) is determined in part by (1) the selection of superior, adaptive genetics, (2) matching the selected genetics to the production environment, and (3) managing the crop production system in ways to maximize harvest potential that are sustainable, profitable, and efficient. Over the last 100 years, a considerable effort by asparagus researchers has gone into breeding superior genetic lines, testing those in numerous locations, and studying how asparagus responds to a multitude of inputs (fertilizers, irrigation, fungicides, herbicides, insecticides). Farmers worldwide have benefited from all of these improvements. However, as we look to the …

A Role For Heritable Transcriptomic Variation In Maize Adaptation To Temperate Environments, Guangchao Sun, Huihui Yu, Peng Wang, Martha Lopez‑Guerrero, Ravi V. Mural, Olivier N. Mizero, Marcin Grzybowski, Baoxing Song, Karin V. Van Dijk, Daniel P. Schachtman, Chi Zhang, James C. Schnable

Center for Plant Science Innovation: Faculty Publications

Background: Transcription bridges genetic information and phenotypes. Here, we evaluated how changes in transcriptional regulation enable maize (Zea mays), a crop originally domesticated in the tropics, to adapt to temperate environments.

Result: We generated 572 unique RNA-seq datasets from the roots of 340 maize genotypes. Genes involved in core processes such as cell division, chromosome organization and cytoskeleton organization showed lower heritability of gene expression, while genes involved in anti-oxidation activity exhibited higher expression heritability. An expression genome-wide association study (eGWAS) identified 19,602 expression quantitative trait loci (eQTLs) associated with the expression of 11,444 genes. A GWAS …

Soybean GmSaul1, A Bona Fide U-Box E3 Ligase, Negatively Regulates Immunity Likely Through Repressing The Activation Of GmMpk3, Jun-Mei Li, Mei-Yan Ye, Chaofeng Wang, Xiao-Han Ma, Ni-Ni Wu, Chen-Li Zhong, Yanjun Zhang, Ninghui Cheng, Paul A. Nakata, Lirong Zeng, Jian-Zhong Liu

Center for Plant Science Innovation: Faculty Publications

E3 ubiquitin ligases play important roles in plant immunity, but their role in soybean has not been investigated previously. Here, we used Bean pod mottle virus (BPMV)-mediated virusinduced gene silencing (VIGS) to investigate the function of GmSAUL1 (Senescence-Associated E3 Ubiquitin Ligase 1) homologs in soybean. When two closely related SAUL1 homologs were silenced simultaneously, the soybean plants displayed autoimmune phenotypes, which were significantly alleviated by high temperature, suggesting that GmSAUL1a/1b might be guarded by an R protein. Interestingly, silencing GmSAUL1a/1b resulted in the decreased activation of GmMPK6, but increased activation of GmMPK3 in response to flg22, …

Genome Assembly Of The Brassicaceae Diploid Orychophragmus Violaceus Reveals Complex Whole-Genome Duplication And Evolution Of Dihydroxy Fatty Acid Metabolism, Fan Huang, Peng Chen, Xinyu Tang, Ting Zhong, Taihua Yang, Chinedu Charles Nwafor, Chao Yang, Xianhong Ge, Hong An, Zaiyun Li, Edgar B. Cahoon, Chunyu Zhang

Center for Plant Science Innovation: Faculty Publications

Orychophragmus violaceus is a Brassicaceae species widely cultivated in China, particularly as a winter cover crop in northern China because of its low-temperature tolerance and low water demand. Recently, O. violaceus has also been cultivated as a potential industrial oilseed crop because of its abundant 24- carbon dihydroxy fatty acids (diOH-FAs), which contribute to superior high-temperature lubricant properties. In this study, we performed de novo assembly of the O. violaceus genome. Whole-genome synteny analysis of the genomes of its relatives demonstrated that O. violaceus is a diploid that has undergone an extra whole-genome duplication (WGD) after the Brassicaceae-specific α-WGD event, …