Agricultural Science Commons^™

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

Department of Agronomy and Horticulture: 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 …

Recombination Hotspots In Soybean [Glycine Max (L.) Merr.], Samantha Mcconaughy, Keenan L. Amundsen, Qijian Song, Vince Pantalone, D. Hyten

Department of Agronomy and Horticulture: Faculty Publications

Recombination allows for the exchange of genetic material between two parents, which plant breeders exploit to make improved cultivars. This recombination is not distributed evenly across the chromosome. Recombination mostly occurs in euchromatic regions of the genome and even then, recombination is focused into clusters of crossovers termed recombination hotspots. Understanding the distribution of these hotspots along with the sequence motifs associated with them may lead to methods that enable breeders to better exploit recombination in breeding. To map recombination hotspots and identify sequence motifs associated with hotspots in soybean [Glycine max (L.) Merr.], two biparental recombinant inbred lines …

Large And Stable Genome Edits At The Sorghum Alpha Kafirin Locus Result In Changes In Chromatin Accessibility And Globally Increased Expression Of Genes Encoding Lysine Enrichment, J. Preston Hurst, Abou Yobi, Aixia Li, Shirley Sato, Thomas E. Clemente, Ruthie Angelovici

Department of Agronomy and Horticulture: Faculty Publications

Introduction: Sorghum is a resilient and widely cultivated grain crop used for feed and food. However, it’s grain is deficient in lysine, an essential amino acid. This is due to the primary seed storage proteins, the alpha-kafirins, lacking lysine. It has been observed that reductions in alpha-kafirin protein results in rebalancing of the seed proteome and a corresponding increase in non-kafirin proteins which leads to an increased lysine content. However, the mechanisms underlying proteome rebalancing are unclear. This study characterizes a previously developed gene edited sorghum line, with deletions at the alpha kafirin locus.

Methods: A single consensus …

Large And Stable Genome Edits At The Sorghum Alpha Kafirin Locus Result In Changes In Chromatin Accessibility And Globally Increased Expression Of Genes Encoding Lysine Enrichment, J. Preston Hurst, Abou Yobi, Aixia Li, Shirley Sato, Thomas E. Clemente, Ruthie Angelovici, David R. Holding

Department of Agronomy and Horticulture: Faculty Publications

Introduction: Sorghum is a resilient and widely cultivated grain crop used for feed and food. However, it’s grain is deficient in lysine, an essential amino acid. This is due to the primary seed storage proteins, the alpha-kafirins, lacking lysine. It has been observed that reductions in alpha-kafirin protein results in rebalancing of the seed proteome and a corresponding increase in non-kafirin proteins which leads to an increased lysine content. However, the mechanisms underlying proteome rebalancing are unclear. This study characterizes a previously developed gene edited sorghum line, with deletions at the alpha kafirin locus.

Methods: A single consensus …

Protecting Wa Crops Issue 28 - March 2023, Department Of Primary Industries And Regional Development, Western Australia

Protecting WA Crops

Protecting WA Crops Issue 28 - March 2023 contents:

• GRDC Perth Research Updates 2023 - Entomology
• Russian wheat aphid thresholds in WA and using biological control for RLEM
• Lessons learnt from native budworm activity in wheat, relative to traditional hosts lupins, pulses and canola
• Meet Crop Protection team member – Svetlana Micic

The Use Of Open Data Kit (Odk) In Characterizing The Cacao Industry Sites In Panay Island, Rhea J. Subong-Espina, Reynold D. Tan, Christine Mae D. Hernando

The Philippine Agricultural Scientist

Cacao is one of the world's most valuable export commodities and cash crops. Western Visayas, along with the other regions in the Philippines, has committed to participate in national efforts to strengthen the production capacity of the cacao industry and address prospects and opportunities for the industry growth and development. This paper presents the results of a region-wide study that mapped out and assessed key cacao-producing areas in Western Visayas, specifically Aklan, Antique, Capiz, and Iloilo. The study sought their current production levels, important agricultural properties of farming areas, production densities, and growth potentials. Geospatial data was generated, analyzed, and …

Validation Of Newly Designed Ssr Markers For Eight Rice (Oryza Sativa L.) Genotypes With Variable Heat Tolerance Responses Based On Agromorphic Data And Pollen Fertility Analysis [Research Note], Monaliza B. Magat, Norvie L. Manigbas, Jessica D. Rey

The Philippine Agricultural Scientist

Rice is one of the most valuable staple food crops in the world. However, several challenges greatly affect production, one of which is the threat imposed by heat stress. To address this, researchers are developing varieties that are heat stress tolerant with genetic markers aid. In this study, eight rice genotypes, namely Dular, Nagina 22, NSIC Rc 222, Milyang 23, EL15, EL92, EL85, and IR52 were observed for agromorphic data, which included plant height, panicle length, filled and unfilled grains, and grain yield. Flower samples were collected to determine the effect of heat stress on pollen fertility. Molecular markers were …

Proceedings Of The 50th Annual Meeting, Southern Soybean Disease Workers (March 1-2, 2023, Pensacola Beach, Florida), Kiersten A. Wise, Ian Small, Tessie Wilkerson, Danise Beadle, Trey Price, Tom W. Allen

Southern Soybean Disease Workers: Conference Proceedings

Southern United States Soybean Disease Loss Estimates for 2022. TW Allen, K Bissonnette, CA, Bradley, TR Faske, Z Grabau, T Isakeit, RC Kemerait, A Koehler, D Langston, J Lofton, JD Mueller, GB Padgett, PP Price, EJ Sikora, IM Small, R Vann, and H Young

Reflecting and Looking Forward: Perspectives from “Legends” and “Fresh Faces” of the SSDW (Moderators: Kiersten Wise and Ian Small)

The Implementation of a National Response to a New Soybean Pathogen, Phakopsora pachyrhizi, in North America. J Marois

Fungicide Resistance in Cercospora sojina: How Did We Get Here and What’s Next? CA Bradley

Exploring Mechanisms …

Systematic Review: Effect Of Cover Crop On Working Farm, Noella A. Bahatsi

Honors Program: Senior Projects (Public)

On-farm research is when research techniques such as randomized, replicated treatments strips and large-scale techniques are used on actual farms or ranches. Due to a great deal of interest and curiosity among farmers and researchers who wish to make their farming methods more profitable, efficient, and/or sustainable, this type of research has been conducted more frequently each year. On-farm research has contributed to economic growth and the transfer of knowledge to farmers because of fresh discoveries and upgraded technology (Lacoste et al., 2022). This is also where farmers collaborate with researchers to test new management practices and technologies providing unbiased …

M. ‘Teresita Lantin-Rosario’ And M. ‘Dolores A. Ramirez’ – New Varieties Of Mussaenda [Research Note], Gerlie P. Antesco, Jennelyn C. Bengoa, Maria Luisa D. Guevarra

The Philippine Agricultural Scientist

An outstanding selections of Mussaenda developed in the Institute of Plant Breeding (IPB), College of Agriculture and Food Science (CAFS), University of the Philippines Los Baños (UPLB) were registered to the National Seed Industry Council as new varieties. These are Mussaenda ‘Teresita Lantin-Rosario’ and Mussaenda ‘Dolores A. Ramirez’, named after an ornamental plant breeder and a National Scientist, respectively, in recognition to their significant contributions in the fields of genetics and plant breeding. Mussaenda ‘Teresita Lantin-Rosario’ is a hybrid and a progeny from a cross between M. ‘Maria Makiling’ and M. ‘Diwata’. The calyx lobes are all petaloid, numerous, and …

Abnormal Ear Development In Corn: Does Hybrid, Environment, And Seeding Rate Matter?, Osler A. Ortez, Anthony J. Mcmechan, Emily Robinson, Thomas C. Hoegemeyer, Reka Howard, Roger W. Elmore

Department of Agronomy and Horticulture: Faculty Publications

Corn (Zea mays L.) yields have increased in the United States since the 1930s and in other parts of the world since the 1950s and 1960s because of improvements in agricultural management and genotypes. Despite these increases, production concerns still exist. In July 2016, abnormal ear development (multi-ears per node, barbell-ears, and short-husks) was reported in cornfields that extended from the Texas Panhandle to eastern Colorado and east through Kansas, Nebraska, Iowa, and Illinois. Surveys in Nebraska farmer fields revealed significant productivity losses due to the issues, but little was known about the underlying causes. A research study was …

Intensifying A Crop–Fallow System: Impacts On Soil Properties, Crop Yields, And Economics, S. J. Ruis, S. Stepanovic, Humberto Blanco-Canqui

Department of Agronomy and Horticulture: Faculty Publications

Intensifying crop–fallow systems could address increased weed control costs, increased land or rental costs, reduced crop diversity, and degraded soil properties in water-limited environments. One strategy to intensify such systems could be the insertion of a short-season crop during fallow. But, how this strategy affects soils, crop production, and farm economics needs further research. Thus, we studied the impacts of replacing fallow in a winter wheat (Triticum aestivum L)–corn (Zea mays L.)–fallow system with a short-season spring crop [field pea (Pisum sativum L.)] on crop yields and economics from 2015 to 2019 and 5-yr cumulative effects on …

Evaluating Metabolic And Genomic Data For Predicting Grain Traits Under High Night Temperature Stress In Rice, Ye Bi, Rafael Massahiro Yassue, Puneet Paul, Balpreet Kaur Dhatt, Jaspreet Sandhu, Phuc Thi Do, Harkamal Walia, Toshihiro Obata, Gota Morota

Department of Agronomy and Horticulture: Faculty Publications

The asymmetric increase in average nighttime temperatures relative to increase in average daytime temperatures due to climate change is decreasing grain yield and quality in rice. Therefore, a better genome-level understanding of the impact of higher night temperature stress on the weight of individual grains is essential for future development of more resilient rice. We investigated the utility of metabolites obtained from grains to classify high night temperature (HNT) conditions of genotypes, and metabolites and single-nucleotide polymorphisms (SNPs) to predict grain length, width, and perimeter phenotypes using a rice diversity panel. We found that the metabolic profiles of rice genotypes …

Alfalfa In Rotation With Annual Crops Reduced Nitrate Leaching Potential, Arshdeep Singh, Tahseen Afzal, Bryan Woodbury, Charles Wortmann, Javed Iqbal

Department of Agronomy and Horticulture: Faculty Publications

Rotation of perennial alfalfa (Medicago sativa L.) with annual crops has the potential to reduce nitrate-nitrogen (NO₃-N) in the vadose zone and increase soil organic carbon (SOC) sequestration. The objective of this study was to determine the long-term effects on SOC, NO₃-N, ammonium-N (NH₄-N), and soil water in the 7.2 m depth with an alfalfa rotation compared with continuous corn (Zea mays L.). Soils from six pairs of alfalfa rotation versus continuous corn observation points were sampled to 7.2 m depth in 0.3 m increments. The uppermost 0.3 m was divided into …

Soybean Seed Protein Concentration Is Limited By Nitrogen Supply In Tropical And Subtropical Environments In Brazil, E. H. Figueiredo Moura Da Silva, N. Cafaro La Menza, G. G. Munareto, A. J. Zanon, Santos Carvalho, F. R. Marin

Department of Agronomy and Horticulture: Faculty Publications

Soybean production contributes to ca. 60% of global plant-based protein used for food and feed. Brazil is the largest soybean producer and exporter, with 60% from tropical and 40% from subtropical environments. Nitrogen (N) can play an essential role in the storage of proteins in seeds; thus, it could be a key factor in increasing the quantity and quality of seeds in high-yielding soybean crops. Unlike in temperate environments, there is a gap of knowledge on whether soybean grown under tropical and subtropical climates are limited by N-fertilization to sustain the seed yield increase without detriments in seed protein concentration. …

Combining Corn N Recommendation Tools For An Improved Economical Optimal Nitrogen Rate Estimation, Curtis J. Ransom, Newell R. Kitchen, James J. Camberato, Paul R. Carter, Richard B. Ferguson, Fabián G. Fernández, David W. Franzen, Carrie A. M. Laboski, David Brenton Myers, Emerson D. Nafziger, John E. Sawyer, John F. Shanahan

Department of Agronomy and Horticulture: Faculty Publications

Improving corn (Zea mays L.) nitrogen (N) rate fertilizer recommendation tools can improve farmers’ profits and mitigate N pollution. Numerous approaches have been tested to improve these tools, but to date improvements for predicting economically optimum N rate (EONR) have been modest. This work’s objective was to use ensemble learning to improve our estimation of EONR (for a single at-planting and split N application timing) by combining multiple corn N recommendation tools. The evaluation was conducted using 49 corn N response trials from eight states in the US Corn Belt and three growing seasons (2014–2016). Elastic net and decision …

De Novo Assembly And Comparative Analyses Of Mitochondrial Genomes In Piperales, Runxian Yu, Xudong Chen, Lingjie Long, Matthias Jost, Ran Zhao, Lumei Liu, Jeffrey P. Mower, Claude W. Depamphilis, Stefan Wanke, Yuannian Jiao

Department of Agronomy and Horticulture: Faculty Publications

The mitochondrial genome of Liriodendron tulipifera exhibits many ancestral angiosperm features and a remarkably slow evolutionary rate, while mitochondrial genomes of other magnoliids remain yet to be characterized. We assembled nine new mitochondrial genomes, representing all genera of perianth-bearing Piperales, as well as for a member of the sister clade: three complete or nearly complete mitochondrial genomes from Aristolochiaceae and six additional draft assemblies including Thottea, Asaraceae, Lactoridaceae, and Hydnoraceae. For comparative purpose, a complete mitochondrial genome was assembled for Saururus, a member of the perianth-less Piperales. The average number of short repeats (50–99 bp) was much larger …

An Innovative Approach To Improve Oil Production And Quality Of Mustard (Brassica Juncea L.) With Multi-Nutrient-Rich Polyhalite, Biswajit Pramanick, B.S. Mahapatra, Debarati Datta, Prithwiraj Dey, S.P. Singh, Ajay Kumar, Bappa Paramanik, Neeraj Awasthi

Department of Agronomy and Horticulture: Faculty Publications

Polyhalite popularly known as POLY4 is a multi-nutrient fertiliser containing K, S, Mg, Ca, and micronutrients. POLY4 has a low carbon footprint, is certified for organic agriculture, and has the potential to improve crop productivity and quality attributes Indian mustard which often faces challenges due to imbalanced nutrition supplied in the current fertilisation schedule. The hypothesis of the study was that the multi-nutrient fartiliser POLY4 can ensure balanced nutrition for Indian mustard. Considering this, a field experiment was conducted during the winter seasons of 2017–18 and 2018–19 to evaluate the effect of POLY4 on Indian mustard (Brassica juncea L.) …

Comparisons Of Small Unmanned Aircraft Systems And Agro-Terrestrial Surveys: Techniques To Determine Field Elevation Surfaces For Improved Crop And Water Management., Richard A. Pickett Jr

Student Theses and Dissertations

Row crop agriculture in Arkansas relies predominantly on groundwater resources for irrigation. This places great demand on the Mississippi River Valley Alluvial Aquifer (MRVAA), which is in a current state of decline. The Eastern Arkansas region produces commodity crops including soybeans, rice, corn, cotton, and peanuts, all of which utilize irrigation for optimal productivity. Conservation practices that reduce groundwater use include precision land leveling, multiple inlet rice irrigation, and computerized hole size selection for furrow irrigation. To collect elevation data to irrigate efficiently, these practices require precision agriculture technology, more specifically Real-Time Kinematic–Global Navigation Satellite Systems (RTK-GNSS). As RTK-GNSS technologies …

Automation Of Irrigation To Improve Outcomes Of Agronomic Crops: On-Farm And Modeling Demonstrations, Thais Murias Jardim

Student Theses and Dissertations

Automated irrigation systems and new management practices may help address aquifer depletion, labor shortages, and irrigation management challenges. This study evaluated the impact of various automated irrigation systems on commercial farms that produce maize, rice, and soybean. It also modeled how Early Cascade Rice Irrigation Shutoff (ECIS) performs under a range of field conditions. Growers observed various benefits of using automated systems other than irrigation savings or yield increase. Timers and remote shutoff are the most practical and beneficial options for growers willing to adopt some level of automation. ECIS modeling estimates showed that applied irrigation and runoff decreased as …

Pearl Millet Response To Drought: A Review, Nikee Shrestha, Hao Hu, Kumar Shrestha, Andrew N. Doust

Department of Agronomy and Horticulture: Faculty Publications

The C4 grass pearl millet is one of the most drought tolerant cereals and is primarily grown in marginal areas where annual rainfall is low and intermittent. It was domesticated in sub-Saharan Africa, and several studies have found that it uses a combination of morphological and physiological traits to successfully resist drought. This review explores the short term and long-term responses of pearl millet that enables it to either tolerate, avoid, escape, or recover from drought stress. The response to short term drought reveals fine tuning of osmotic adjustment, stomatal conductance, and ROS scavenging ability, along with ABA and ethylene …

Evaluation Of Polyacrylamide (Pam) Effects On Irrigation Efficiency, Soil Conservation, And Water Quality In Midsouth Cotton Production, Brittany D. Barnes

Student Theses and Dissertations

The polymer, polyacrylamide (PAM), is a high molecular weight, chemical anionic polymer that is prescribed and used for irrigation improvement in row crops primarily in the United States. A field research study was conducted in 2014, 2015 and 2016 in Northeast Arkansas to evaluate how addition of PAM in furrow irrigation affected soil erosion, water infiltration, movement of nutrients and sediments, and crop yields in cotton (Gossypium hirsutum). Overall results from the study were mixed. Sediment loss was similar among treatments. Irrigation advancement rates were not significantly different. No differences in crop yield were observed associated with PAM. Differences in …

Expression Of Malic Enzyme Reveals Subcellular Carbon Partitioning For Storage Reserve Production In Soybeans, Usda Agricultural Research Service, Donald Danforth Plant Science Center, Donald Danforth Plant Science Center, Thomas E. Clemente, Hanh T. Nguyen

Department of Agronomy and Horticulture: Faculty Publications

• Central metabolism produces amino and fatty acids for protein and lipids that establish seed value. Biosynthesis of storage reserves occurs in multiple organelles that exchange central intermediates including two essential metabolites, malate, and pyruvate that are linked by malic enzyme. Malic enzyme can be active in multiple subcellular compartments, partitioning carbon and reducing equivalents for anabolic and catabolic requirements. Prior studies based on isotopic labeling and steady-state metabolic flux analyses indicated malic enzyme provides carbon for fatty acid biosynthesis in plants, though genetic evidence confirming this role is lacking. We hypothesized that increasing malic enzyme flux would alter carbon partitioning …

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Protecting Wa Crops Issue 27 - February 2023, Department Of Primary Industries And Regional Development, Western Australia

Protecting WA Crops

Protecting WA Crops Issue 27 - February 2023 contents:

• Glyphosate alternatives for summer and pre-seeding knockdown weed control
• Meet Crop Protection team member – Cindy Webster

Screening Spring Wheat Genotypes For Tadreb-B1 And Fehw3 Genes Under Severe Drought Stress At The Germination Stage Using Kasp Technology, Elsayed A. Mohamed, Asmaa A. M. Ahmed, Matías Schierenbeck, Mohamed Y. Hussein, P. Stephen Baenziger, Andreas Börner, Ahmed Sallam

Department of Agronomy and Horticulture: Faculty Publications

Drought stress is a major yield-limiting factor throughout the world in wheat (Triticum aestivum L.), causing losses of up to 80% of the total yield. The identification of factors affecting drought stress tolerance in the seedling stage is especially important to increase adaptation and accelerate the grain yield potential. In the current study, 41 spring wheat genotypes were tested for their tolerance to drought at the germination stage under two different polyethylene glycol concentrations (PEG) of 25% and 30%. For this purpose, twenty seedlings from each genotype were evaluated in triplicate with a randomized complete block design (RCBD) in …

Forecasting Table Beet Root Yield Using Spectral And Textural Features From Hyperspectral Uas Imagery, Mohammad Saif, Robert Chancia, Sarah Pethybridge, Sean Murphy, Amir Hassanzadeh, Jan Van Aardt

Articles

New York state is among the largest producers of table beets in the United States, which, by extension, has placed a new focus on precision crop management. For example, an operational unmanned aerial system (UAS)-based yield forecasting tool could prove helpful for the efficient management and harvest scheduling of crops for factory feedstock. The objective of this study was to evaluate the feasibility of predicting the weight of table beet roots from spectral and textural features, obtained from hyperspectral images collected via UAS. We identified specific wavelengths with significant predictive ability, e.g., we down-select >200 wavelengths to those spectral indices …

Evaluation Of Pollination Traits Important For Hybrid Wheat Development In Great Plains Germplasm, Nicholas Garst, Vikas Belamkar, Amanda Easterly, Mary J. Guttieri, Hannah Stoll, Amir M. H. Ibrahim, P. Stephen Baenziger

Department of Agronomy and Horticulture: Faculty Publications

Hybrid wheat (Triticum aestivumL.) offers potential yield advantages over conventional inbred cultivars. For hybrid wheat to be a commercial success, the cost to produce the hybrid seed needs to be minimized. Although wheat is naturally selfpollinated, hybrid wheat seed production can be improved by increasing the amount and availability of pollen for cross-pollination. This research examined 19 pollination traits using the Hard Winter Wheat Association Mapping Panel for 3 years. Anther extrusion, pollen 50 date (date at which a genotype has 50% of spikes pollinating), plant height, and pollination duration (last spike pollen 50 date minus first spike …

Effect Od Different Sources And Application Rates Of Sulfur On Corn And Soybean Production Systems In Louisiana, Diego Mayorga Valladares

LSU Master's Theses

Sulfur (S) is a structural component of amino acids such as cysteine and methionine and is involved in important functions within the plant like photosynthesis, carbon and nitrogen metabolism, protein synthesis of oils, and detoxification mechanisms. Sulfur deficiency in crops has intensified around the world. Some of the reasons are improvement in controlling SO₂ emissions from industries, growing usage of high analysis S-free fertilizers and augmented cropping intensity. Sulfur fertilization has become an important factor in crop production systems and fertilization guidelines for S need to be up-to-date to improve use efficiency and compensate for rising prices of fertilizers. …

Refined Teaching Methods, Systems Thinking, And Experiential Approaches Enhanced Students Learning Through Covid-19, Osler Ortez, Alyssa Kuhn, Meghan Sindelar

Department of Agronomy and Horticulture: Faculty Publications

The Soil Nutrient Relationships course serves juniors and seniors with a major or minor in agronomy at the University of Nebraska-Lincoln. Pre-pandemic enrollment averaged 65 students. In 2021 and 2022, course enrollment was 42 and 55, respectively. The course was adjusted to a flipped design in 2017. Moving into 2021, the Soil Nutrient Relationships course underwent a major overhaul by changing the content source materials and organization of lab activities while maintaining the flipped delivery format. While responding to the COVID-19 pandemic limitations, the redesign was intended to focus limited face-to-face meetings (in person or webconference) on problem-solving activities. This …

Jumble Judging: Cognitive And Affective Outcomes Of Intercollegiate Collaboration At A Soil Judging Competition, Rebecca A. Young, Judith Turk, Nicolas A. Jelinski, Amber D. Anderson, Kerry M. Clark, Ashlee L.D. Dere, Colby J. Moorberg, Kristopher Osterloh, Deann Presley

Department of Agronomy and Horticulture: Faculty Publications

Student–student interactions are influential parts of field experiences. While competitive judging events are a fun way to engage students in field-based learning, the focus on competition leads to an atmosphere that discourages collaboration between students. The objective of this study was to evaluate the cognitive and affective learning outcomes resulting from intercollegiate collaboration at a soil judging competition. Teams with students from two to three different universities were assigned and referred to as jumble judging teams. Jumble judging was held for the first time in the 2021 Region 5 Collegiate Soil Judging Contest. Learning outcomeswere assessed using a pre- and …