Agronomy and Crop Sciences Commons^™

Impacts Of Genetic Bottlenecks On Soybean Genome Diversity, D. L. Hyten, Qijian Song, Youlin Zhu, Ik-Young Choi, Randall L. Nelson, Jose M. Costa, James E. Specht, Randy C. Shoemaker, Perry B. Cregan

Department of Agronomy and Horticulture: Faculty Publications

Soybean has undergone several genetic bottlenecks. These include domestication in Asia to produce numerous Asian landraces, introduction of relatively few landraces to North America, and then selective breeding over the past 75 years. It is presumed that these three human-mediated events have reduced genetic diversity. We sequenced 111 fragments from 102 genes in four soybean populations representing the populations before and after genetic bottlenecks. We show that soybean has lost many rare sequence variants and has undergone numerous allele frequency changes throughout its history. Although soybean genetic diversity has been eroded by human selection after domestication, it is notable that …

Ethylene Could Influence Ferric Reductase, Iron Transporter, And H+-Atpase Gene Expression By Affecting Fer (Or Fer-Like) Gene Activity, Carlos Lucera, Brian M. Waters, Francisco Javier Romera, María José García, María Morales, Esteban Alcántara, Rafael Pérez-Vicente

Department of Agronomy and Horticulture: Faculty Publications

In previous works, it has been shown, by using ethylene inhibitors and precursors, that ethylene could participate in the regulation of the enhanced ferric reductase activity of Fe-deficient Strategy I plants. However, it was not known whether ethylene regulates the ferric reductase gene expression or other aspects related to this activity. This paper is a study of the effects of ethylene inhibitors and precursors on the expression of the genes encoding the ferric reductases and iron transporters of Arabidopsis thaliana (FRO2 and IRT1) and Lycopersicon esculentum (= Solanum lycopersicum) (FRO1 and IRT1) plants. The effects …

Application Of Machine Learning In Snp Discovery, Lakshmi K. Matukumalli, John J. Grefenstette, David L. Hyten, Ik-Young Choi, Perry B. Cregan, Curtis P. Van Tassell

Department of Agronomy and Horticulture: Faculty Publications

Background: Single nucleotide polymorphisms (SNP) constitute more than 90% of the genetic variation, and hence can account for most trait differences among individuals in a given species. Polymorphism detection software PolyBayes and PolyPhred give high false positive SNP predictions even with stringent parameter values. We developed a machine learning (ML) method to augment PolyBayes to improve its prediction accuracy. ML methods have also been successfully applied to other bioinformatics problems in predicting genes, promoters, transcription factor binding sites and protein structures. Results: The ML program C4.5 was applied to a set of features in order to build a SNP classifier …

Snp-Phage – High Throughput Snp Discovery Pipeline, Lakshmi K. Matukumalli, John J. Grefenstette, David L. Hyten, Ik-Young Choi, Perry B. Cregan, Curt P. Van Tassell

Department of Agronomy and Horticulture: Faculty Publications

Background: Single nucleotide polymorphisms (SNPs) as defined here are single base sequence changes or short insertion/deletions between or within individuals of a given species. As a result of their abundance and the availability of high throughput analysis technologies SNP markers have begun to replace other traditional markers such as restriction fragment length polymorphisms (RFLPs), amplified fragment length polymorphisms (AFLPs) and simple sequence repeats (SSRs or microsatellite) markers for fine mapping and association studies in several species. For SNP discovery from chromatogram data, several bioinformatics programs have to be combined to generate an analysis pipeline. Results have to be stored in …

Chemical Composition And Response To Dilute-Acid Pretreatment And Enzymatic Saccharification Of Alfalfa, Reed Canarygrass, And Switchgrass, Bruce S. Dien, Hans-Joachim G. Jung, Kenneth P. Vogel, Michael D. Casler, Joann F. S. Lamb, Loren Iten, Robert C. Mitchell, Gautum Sarath

Department of Agronomy and Horticulture: Faculty Publications

Alfalfa stems, reed canarygrass, and switchgrass; perennial herbaceous species that have potential as biomass energy crops in temperate regions; were evaluated for their bioconversion potential as energy crops. Each forage species was harvested at two or three maturity stages and analyzed for carbohydrates, lignin, protein, lipid, organic acids, and mineral composition. The biomass samples were also evaluated for sugar yields following pretreatment with dilute sulfuric followed by enzymatic saccharification using a commercial cellulase preparation. Total carbohydrate content of the plants varied from 518 to 655 g kg^-1 dry matter (DM) and cellulose concentration from 209 to 322 g kg …

Mutations In Arabidopsis Yellow Stripe-Like1 And Yellow Stripe-Like3 Reveal Their Roles In Metal Ion Homeostasis And Loading Of Metal Ions In Seeds, Brian M. Waters, Heng-Hsuan Chu, Raymond J. Didonato, Louis A. Roberts, Robynn B. Eisley, Brett Lahner, David E. Salt, Elsbeth L. Walker

Department of Agronomy and Horticulture: Faculty Publications

Here, we describe two members of the Arabidopsis (Arabidopsis thaliana) Yellow Stripe-Like (YSL) family, AtYSL1 and AtYSL3. The YSL1 and YSL3 proteins are members of the oligopeptide transporter family and are predicted to be integral membrane proteins. YSL1 and YSL3 are similar to the maize (Zea mays) YS1 phytosiderophore transporter (ZmYS1) and the AtYSL2 iron (Fe)-nicotianamine transporter, and are predicted to transport metal-nicotianamine complexes into cells. YSL1 and YSL3 mRNAs are expressed in both root and shoot tissues, and both are regulated in response to the Fe status of the plant. β-Glucuronidase reporter expression, driven by …

Disease Resistance Conferred By The Expression Of A Gene Encoding A Synthetic Peptide In Transgenic Cotton (Gossypium Hirsutum L.) Plants, Kanniah Rajasekaran, Jeffrey W. Cary, Jesse M. Jaynes, Thomas E. Cleveland

Faculty Articles

Fertile, transgenic cotton plants expressing the synthetic antimicrobial peptide, D4E1, were produced through Agrobacterium-mediated transformation. PCR products and Southern blots confirmed integration of the D4E1 gene, while RT-PCR of cotton RNA confirmed the presence of D4E1 transcripts. In vitro assays with crude leaf protein extracts from T0 and T1 plants confirmed that D4E1 was expressed at sufficient levels to inhibit the growth of Fusarium verticillioides and Verticillium dahliae compared to extracts from negative control plants transformed with pBI-d35SΩ-uidA-nos (CGUS). Although in vitro assays did not show control of pre-germinated spores of Aspergillus flavus, bioassays with cotton …

Summaries Of Arkansas Cotton Research 2004, Derrick M. Oosterhuis

Arkansas Agricultural Experiment Station Research Series

No abstract provided.

Managing Glyphosate-Resistant Horseweed In Arkansas Cotton 2004, Ronald E. Talbert, Marilyn R. Mcclelland, James L. Barrentine, Kenneth L. Smith, Monica B. Kelley

Arkansas Agricultural Experiment Station Research Series

No abstract provided.

B.R. Wells Rice Research Studies 2004, R. J. Norman, J. F. Meullenet, K. A.K. Moldenhauer

Arkansas Agricultural Experiment Station Research Series

No abstract provided.

Arkansas Small-Grain Cultivar Performance Tests 2004-2005, J. T. Kelly, C. E. Parsons, R. K. Bacon

Arkansas Agricultural Experiment Station Research Series

Small-grain cultivar performance tests are conducted each year in Arkansas by the Arkansas Agricultural Experiment Station, Department of Crop, Soil and Environmental Sciences. The tests provide information to companies developing cultivars and/or marketing seed within the state and aid the Arkansas Cooperative Extension Service in formulating cultivar recommendations for smallgrain producers.

Field Evaluation Of Herbicides On Vegetables And Small Fruits 2004, Ronald E. Talbert, Colleen M. Thomas, Brian V. Ottis, Andrew T. Ellis

Arkansas Agricultural Experiment Station Research Series

Herbicide evaluation studies on vegetables and small fruits were conducted in 2004 at the Arkansas Agricultural Experiment Station at Fayetteville, AR, in an effort to evaluate new herbicides, herbicide mixtures, and their application timings for weed control efficacy and crop tolerance. Results of these studies, in part, provide useful information to producers, fellow researchers, the Crop Protection Industry, and the IR-4 Minor Crop Pest Management Program in the development of potential new herbicide uses in vegetable, and fruit.

Field Evaluation Of Herbicides On Rice 2004, Brian V. Ottis, Ronald E. Talbert, Andrew T. Ellis

Arkansas Agricultural Experiment Station Research Series

Herbicide evaluation studies on rice were conducted in 2004 at the Rice Research and Extension Center near Stuttgart, AR, in an effort to evaluate new herbicides, herbicide mixtures, and their application timings for weed control and crop tolerance. Results of these studies, in part, provide useful information to producers, fellow researchers, and the Crop Protection Industry for the potential use of new herbicide programs for successful rice production in Arkansas.

Why Is Maize A Sacred Plant? Social History And Agrarian Change On Sumba, Cynthia Twyford Fowler

Faculty Scholarship

Why has maize, a plant with origins in the New World, become ritually important in an indigenous Southeast Asian religion? While environmental conditions and agricultural economics are key determinants of everyday resource management practices in insular Southeast Asia, it is necessary to consider ethnic identity, political economy, and social structure in order to understand the religious significance of natural resources in contemporary society. Linguistic, cosmological, and horticultural data are combined with an analysis of local perceptions of culture and environment. This information is used to explain the transformation of an introduced plant into an indigenous sacrament. Ethnographic data, including a …

Arkansas Cotton Variety Test 2004, Fred M. Bourland, B. S. Brown, J. M. Hornbeck, R. C. Doherty, W. C. Robertson

Arkansas Agricultural Experiment Station Research Series

The primary aim 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 dealers establish marketing strategies and assists producers in choosing varieties to plant.

Intsormil 2005 Annual Report, John M. Yohe, Kimberly Christiansen, Joan Frederick

INTSORMIL Impacts and Bulletins

The 2005 INTSORMIL Annual Report presents the progress and notable achievements by the SorghumiMillet CRSP during the period of July 1, 2004 - June 30, 2005. These results are an outcome of partnerships between scientists at six U.S. Land Grant Universities (Kansas State University, Mississippi State University, University of Nebraska, Purdue University, Texas A&M University and West Texas A&M University) and scientists of the Agricultural Research Service of the U.S. Department of Agriculture at Tifton, Georgia and National Agricultural Research Systems (NARS) and National Universities in nineteen countries in Central America, West Africa, East Africa and Southern Afflca.

Agricultural research …

Science-Based Organic Farming 2005: Toward Local And Secure Food Systems, Charles A. Francis, Twyla Hansen, Peter Skelton

Publications from the Center for Applied Rural Innovation (CARI)

Organic farming includes growing food and fiber — animals, agronomic crops, horticultural fruits and vegetables, related products — as one dynamic and rapidly evolving component of our complex U.S. food system. Even as more farmers are moving toward organic certification and participation in an environmentally sound and economically lucrative market, questions arise about the long-term social impacts and sustainability of a set of practices that has gone from a movement to an industry. Consolidations in the organic trade have brought multinational corporations to the table, as they have observed a grassroots activity that has grown by 20% per year for …

Ec05-185 Grazing Winter Wheat In Nebraska, Tom Holman, Drew J. Lyon, David D. Baltensperger, Ivan G. Rush, Ray E. Weed

University of Nebraska-Lincoln Extension: Historical Materials

Grazing cattle on winter wheat, often prior to grain harvest, is common throughout the southern Great Plains. Grazing generates about $50 million in income for Texas wheat producers and reduces the risk of growing wheat by providing a substantial income source other than grain. Benefits can be realized by grazing prior to the primary environmental risk period for drought, heat stress, and hail, all of which frequently reduce grain yield while having limited impact on forage production. Cattle also are grazed on winter wheat fields in western Nebraska and the surrounding region. Typically in Nebraska, fall forage would be used …

Key Grazing Levels (Foo Targets) For Pasture And Sheep Management, Department Of Agriculture, Western Australia

Animal production and livestock published reports

Food On Offer (FOO) is the amount of pasture in front of an animal, and is measured in kilograms Dry Matter per hectare. Managing pastures to key grazing levels - or FOO targets - can result in improved production of grazing systems in Mediterranean environments which are characterized by slow winter growth, peak spring growth and dry summers. These targets vary according to what production response is required.

This information sheet illustrates key target FOO for sheep grazing annual pastures during autumn and spring.

Effect Of Control Plot Density, Control Plot Arrangement, And Assumption Of Random Or Fixed Effects On Nonreplicated Experiments For Germplasm Screening Using Spatial Models, Boi Sebolai, Jeffrey F. Pedersen, D. B. Marx, D. L. Boykin

Department of Agronomy and Horticulture: Faculty Publications

Early generation selection experiments typically involve several hundred to thousands of lines. Various systematic and statistical techniques have been developed to increase effectiveness and efficiencies in such experiments, including the development and application of spatial statistical models. In this study, mixed model equations were used to provide least squares means (LSMEANs) and best linear unbiased predictors (BLUPs) and compare selection effectiveness and efficiencies to observed (Y) and true values in simulated experiments varying in size (10 X 10, 20 X 20 and 30 X 30 grids), control plots densities (0, 5, 10, 20, and 50%), control plot arrangements (high, medium, …

Arkansas Soybean Performance Tests 2004, D. G. Dombek, D. K. Ahrent, R. D. Bond, I. L. Eldridge

Arkansas Agricultural Experiment Station Research Series

No abstract provided.

Arkansas Corn And Grain Sorghum Performance Tests 2004, D. G. Dombek, D. K. Ahrent, R. D. Bond, I. L. Eldridge

Arkansas Agricultural Experiment Station Research Series

No abstract provided.

Summaries Of Arkansas Cotton Research 2003, Derrick M. Oosterhuis

Arkansas Agricultural Experiment Station Research Series

No abstract provided.

Horticultural Studies 2003, James A. Robbins, Brad Murphy, Mike Richardson

Arkansas Agricultural Experiment Station Research Series

We are pleased to bring you the sixth edition of Horticultural Studies. This publication, beginning with Horticultural Studies 1998, has continued to bring to the citizens of Arkansas the latest reports about horticultural crop research being conducted throughout the University of Arkansas Division of Agriculture. Our goal with this publication was to bring annual up-to-date findings to the horticultural community in Arkansas so that you could utilize these new findings and/or contact the researchers for further information. We hope that this goal is being met. As editors, we strive to make this publication reader-friendly, timely, and hopefully of value to …

Field Evaluations Of Herbicides On Vegetable, Small Fruit, And Ornamental Crops, 2000, 2001, & 2002, Ron E. Talbert, Mike L. Lovelace, Eric F. Scherder, Mayank S. Malik

Arkansas Agricultural Experiment Station Research Series

Field evaluations of herbicides provide the chemical industry, governmental agencies, such as IR-4, and the Arkansas Agricultural Experiment Station with an evaluation of herbicide performance on small fruit, vegetable, and ornamental crops grown under Arkansas conditions. This report provides a means for disseminating information to interested private and public service weed scientists.

B. R. Wells Rice Research Studies 2003, R. J. Norman, J.-F. Meullenet, K. A.K. Moldenhauer

Arkansas Agricultural Experiment Station Research Series

Arkansas is the leading rice-producing state in the U.S., representing just over 48% of the total U.S. production and 48.5% of the total acres planted to rice. Rice cultural practices vary across the state and across the U.S. However, due to changing political, environmental, and economic times, the practices are dynamic. This survey was initiated in 2002 to monitor how the changing times reflect the 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 where rice is produced. Questions included topics such as …

Arkansas Small-Grain Cultivar Performance Tests 2003-2004, J. T. Kelly, C. E. Parsons, R. K. Bacon

Arkansas Agricultural Experiment Station Research Series

Small-grain cultivar performance tests are conducted each year in Arkansas by the Arkansas Agricultural Experiment Station , Department of Crop, Soil and Environmental Sciences. The tests provide information to companies developing cultivars and/or marketing seed within the state and aid the Arkansas Cooperative Extension Service in formulating cultivar recommendations for small-grain producers.

Groundwater Trends In The North Stirling Pallinup Sub-Region, Ruhi Ferdowsian, Lisa Crossing

Natural resources published reports

The South Coast Regional Initiative Planning Team (SCRIPT) has divided the South Coast region of Western Australia into six sub-regions. This publication describes the groundwater trends, risk of shallow watertables, and technical feasibility of salinity management in the agricultural district of the North Stirling Pallinup sub-region.

This sub-region encompasses the Stirling Range National Park, the North Stirling Basin to the north-east of the Park, and the middle and upper catchments of the Pallinup River. Almost 90% (500,000 ha) of the sub-region's alienated land has been cleared for agriculture, and salinity has been identified as an important issue.

Soil-landscape zones are …

Moisture Potential Affects Rate Of Leaf Appearance In Cool Season Grasses, Nina Cherone Terrell

McCabe Thesis Collection

The rate of leaf appearance and onset of growth in cool season grasses may be influenced by soil moisture potential and exposure to below freezing temperatures. Levels of moisture potential and days exposed to freezing temperatures, which will restrict leaf appearance, are not well defined. The first part of this study was to determine the effects of different moisture potentials on the leaf appearance rates in two cool season grasses. Italian ryegrass (IRG) and tall wheat grass (TWG) were grown hydroponically at 4 moisture potentials in seed pouches in an incubator under a photoperiod of 13 hours light and 11 …

Cattle As Grazing Management And Seed Dispersal Tools For Increasing Native Species Diversity On Great Basin Rangelands, Marina K. Whitacre

All Graduate Theses and Dissertations, Spring 1920 to Summer 2023

A series of experiments evaluated: 1) the influence of seed intake and gut retention time on seed passage, recovery, and germinability; 2) fecal seeding and broadcast /trampling as techniques to incorporate seeds into a well-established Agropyron desertorum (Fisch.) Schult. stand in Skull Valley , Utah; 3) intensive grazing as a means to reduce Agropyron biomass and increase establishment and survival of seeded species; and 4) the recovery and germinability of seed extracted from dung collected from the field. Two shrubs (Artemisia tridentata Nutt. ssp. wyomingensis Beetle & Young and Atriplex confertifolia Torr. & Frem.), a grass (Elymus elymoides (Raf.) …