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Articles 931 - 960 of 1579

Full-Text Articles in Plant Biology

Transcriptome Profiling Of Kentucky Bluegrass (Poa Pratensis L.) Accessions In Response To Salt Stress, Shaun B. Bushman, Keenan L. Amundsen, Scott E. Warnke, Joseph G. Robins, Paul G. Johnson Jan 2016

Transcriptome Profiling Of Kentucky Bluegrass (Poa Pratensis L.) Accessions In Response To Salt Stress, Shaun B. Bushman, Keenan L. Amundsen, Scott E. Warnke, Joseph G. Robins, Paul G. Johnson

Department of Agronomy and Horticulture: Faculty Publications

Background: Kentucky bluegrass (Poa pratensis L.) is a prominent turfgrass in the cool-season regions, but it is sensitive to salt stress. Previously, a relatively salt tolerant Kentucky bluegrass accession was identified that maintained green color under consistent salt applications. In this study, a transcriptome study between the tolerant (PI 372742) accession and a salt susceptible (PI 368233) accession was conducted, under control and salt treatments, and in shoot and root tissues.

Results: Sample replicates grouped tightly by tissue and treatment, and fewer differentially expressed transcripts were detected in the tolerant PI 372742 samples compared to the susceptible …


Nutrients In The Nexus, Eric A. Davidson, Rachel L. Nifong, Richard B. Ferguson, Cheryl Palm, Deanna L. Osmond, Jill S. Baron Jan 2016

Nutrients In The Nexus, Eric A. Davidson, Rachel L. Nifong, Richard B. Ferguson, Cheryl Palm, Deanna L. Osmond, Jill S. Baron

Department of Agronomy and Horticulture: Faculty Publications

Synthetic nitrogen (N) fertilizer has enabled modern agriculture to greatly improve human nutrition during the twentieth century, but it has also created unintended human health and environmental pollution challenges for the twentyfirst century. Averaged globally, about half of the fertilizer-N applied to farms is removed with the crops, while the other half remains in the soil or is lost from farmers’ fields, resulting in water and air pollution. As human population continues to grow and food security improves in the developing world, the dual development goals of producing more nutritious food with low pollution will require both technological and socioeconomic …


A Population Of Deletion Mutants And An Integrated Mapping And Exome-Seq Pipeline For Gene Discovery In Maize, Shangang Jia, Aixia Li, Kyla Morton, Penny Avoles-Kianian, Shahryar F. Kianian, Chi Zhang, David Holding Jan 2016

A Population Of Deletion Mutants And An Integrated Mapping And Exome-Seq Pipeline For Gene Discovery In Maize, Shangang Jia, Aixia Li, Kyla Morton, Penny Avoles-Kianian, Shahryar F. Kianian, Chi Zhang, David Holding

Department of Agronomy and Horticulture: Faculty Publications

To better understand maize endosperm filling and maturation, we used gamma irradiation of the B73 maize reference line to generate mutants with opaque endosperm and reduced kernel fill phenotypes, and created a population of 1788 lines including 47 Mo17 × F2s showing stable, segregating and viable kernel phenotypes. For molecular characterization of the mutants, we developed a novel functional genomics platform that combined Bulked Segregant RNA and Exome sequencing (BSREx-seq) to map causative mutations and identify candidate genes within mapping intervals. To exemplify the utility of the mutants and provide proof-ofconcept for the bioinformatics platform, we present detailed characterization of …


Alkaline Stress And Iron Deficiency Regulate Iron Uptake And Riboflavin Synthesis Gene Expression Differently In Root And Leaf Tissue: Implications For Iron Deficiency Chlorosis, En-Jung Hsieh, Brian M. Waters Jan 2016

Alkaline Stress And Iron Deficiency Regulate Iron Uptake And Riboflavin Synthesis Gene Expression Differently In Root And Leaf Tissue: Implications For Iron Deficiency Chlorosis, En-Jung Hsieh, Brian M. Waters

Department of Agronomy and Horticulture: Faculty Publications

Iron (Fe) is an essential mineral that has low solubility in alkaline soils, where its deficiency results in chlorosis. Whether low Fe supply and alkaline pH stress are equivalent is unclear, as they have not been treated as separate variables in molecular physiological studies. Additionally, molecular responses to these stresses have not been studied in leaf and root tissues simultaneously. We tested how plants with the Strategy I Fe uptake system respond to Fe deficiency at mildly acidic and alkaline pH by measuring root ferric chelate reductase (FCR) activity and expression of selected Fe uptake genes and riboflavin synthesis genes. …


Impact Of Derived Global Weather Data On Simulated Crop Yields, Justin Van Wart, Patricio Grassini, Kenneth Cassman Jan 2016

Impact Of Derived Global Weather Data On Simulated Crop Yields, Justin Van Wart, Patricio Grassini, Kenneth Cassman

Department of Agronomy and Horticulture: Faculty Publications

Crop simulation models can be used to estimate impact of current and future climates on crop yields and food security, but require long-term historical daily weather data to obtain robust simulations. In many regions where crops are grown, daily weather data are not available. Alternatively, gridded weather databases (GWD) with complete terrestrial coverage are available, typically derived from: (i) global circulation computer models; (ii) interpolated weather station data; or (iii) remotely sensed surface data from satellites. The present study’s objective is to evaluate capacity of GWDs to simulate crop yield potential (Yp) or water-limited yield potential (Yw), which can serve …


Global Nitrogen Budgets In Cereals: A 50-Year Assessment For Maize, Rice, And Wheat Production Systems, J. K. Ladha, A. Tirol-Padre, C. K. Reddy, Kenneth Cassman, Sudhir Verma, D. S. Powlson, C. Van Kessel, Daniel De B. Richter, Debashis Chakraborty, Himanshu Pathak Jan 2016

Global Nitrogen Budgets In Cereals: A 50-Year Assessment For Maize, Rice, And Wheat Production Systems, J. K. Ladha, A. Tirol-Padre, C. K. Reddy, Kenneth Cassman, Sudhir Verma, D. S. Powlson, C. Van Kessel, Daniel De B. Richter, Debashis Chakraborty, Himanshu Pathak

Department of Agronomy and Horticulture: Faculty Publications

Industrially produced N-fertilizer is essential to the production of cereals that supports current and projected human populations. We constructed a top-down global N budget for maize, rice, and wheat for a 50-year period (1961 to 2010). Cereals harvested a total of 1551 Tg of N, of which 48% was supplied through fertilizer-N and 4% came from net soil depletion. An estimated 48% (737 Tg) of crop N, equal to 29, 38, and 25 kg ha−1 yr−1 for maize, rice, and wheat, respectively, is contributed by sources other than fertilizer- or soil-N. Non-symbiotic N2 fixation appears to be …


Identification Of Markers Linked To Genes For Sprouting Tolerance (Independent Of Grain Color) In Hard White Winter Wheat (Hwww), Juthamas Fakthongphan, Guihua Bai, Paul St. Amand, Robert A. Graybosch, P. Stephen Baenziger Jan 2016

Identification Of Markers Linked To Genes For Sprouting Tolerance (Independent Of Grain Color) In Hard White Winter Wheat (Hwww), Juthamas Fakthongphan, Guihua Bai, Paul St. Amand, Robert A. Graybosch, P. Stephen Baenziger

Department of Agronomy and Horticulture: Faculty Publications

Key message Hard red wheats can donate genes to hard white wheats for tolerance to preharvest sprouting, the effects are quantitative in nature, and may be tracked with previously described DNA markers.

Abstract Pre-harvest sprouting (PHS) of wheat (Triticum aestivum L.) can negatively impact end-use quality and seed viability at planting. Due to preferences for white over red wheat in international markets, white wheat with PHS tolerance has become increasingly desired for worldwide wheat production. In general, however, red wheat is more tolerant of sprouting than white wheat. The main objective of this study was the identification of PHS …


Engaging Middle School Students Through Locally Focused Environmental Science Project-Based Learning, Andrea D. Basche, Vincent Genareo, Adah Leshem, Amy Kissell, Judith Pauley Jan 2016

Engaging Middle School Students Through Locally Focused Environmental Science Project-Based Learning, Andrea D. Basche, Vincent Genareo, Adah Leshem, Amy Kissell, Judith Pauley

Department of Agronomy and Horticulture: Faculty Publications

Increasing scientific literacy through education is one way to promote awareness of current environmental challenges, and can be enhanced through project-based learning (PBL), a pedagogical approach in which students explore authentic topics and demonstrate their learning publically. The National Science Foundation–funded GK–12 program at Iowa State University partnered doctoral-level graduate students (fellows) with middle and high school science teachers. This study analyzed results from one such middle school partnership in Iowa, where a PBL approach was implemented. Classroom practices focused on local environmental case studies of energy development, water pollution, soil science, climate change, plant biology, and ecology. Results from …


Predicting Long-Term Cover Crop Impacts On Soil Quality Using A Cropping Systems Model, Fernando E. Miguez, Sotirios Archontoulis, Andrea D. Basche Jan 2016

Predicting Long-Term Cover Crop Impacts On Soil Quality Using A Cropping Systems Model, Fernando E. Miguez, Sotirios Archontoulis, Andrea D. Basche

Department of Agronomy and Horticulture: Faculty Publications

Increased attention is being paid to cover crops as an option to reduce water pollution and decrease soil degradation in Iowa. More producers are experimenting with cover crops to increase soil productivity. However, when this project began there was little research to demonstrate the long-term impacts that cover crops have on crop yields. There were no estimates to quantify how much environmental benefit a cover crop could provide in terms of erosion and soil carbon changes. Such estimates are beneficial to demonstrate the long-term improvements that a cover crop affords in Iowa, particularly for corn-soybean rotations where the winter planting …


Identification Of Evening Complex Associated Proteins In Arabidopsis By Affinity Purification And Mass Spectrometry, He Huang, Sophie Alvarez, Rebecca Bindbeutel, Zhouxin Shen, Michael J. Naldrett, Bradley S. Evans, Steven P. Briggs, Leslie M. Hicks, Steve A. Kay, Dmitri A. Nusinow Jan 2016

Identification Of Evening Complex Associated Proteins In Arabidopsis By Affinity Purification And Mass Spectrometry, He Huang, Sophie Alvarez, Rebecca Bindbeutel, Zhouxin Shen, Michael J. Naldrett, Bradley S. Evans, Steven P. Briggs, Leslie M. Hicks, Steve A. Kay, Dmitri A. Nusinow

Department of Agronomy and Horticulture: Faculty Publications

Many species possess an endogenous circadian clock to synchronize internal physiology with an oscillating external environment. In plants, the circadian clock coordinates growth, metabolism and development over daily and seasonal time scales. Many proteins in the circadian network form oscillating complexes that temporally regulate myriad processes, including signal transduction, transcription, protein degradation and post-translational modification. In Arabidopsis thaliana, a tripartite complex composed of EARLY FLOWERING 4 (ELF4), EARLY FLOWERING 3 (ELF3), and LUX ARRHYTHMO (LUX), named the evening complex, modulates daily rhythms in gene expression and growth through transcriptional regulation. However, little is known about the physical interactions that …


Comprehensive Comparative Genomic And Transcriptomic Analyses Of The Legume Genes Controlling The Nodulation Process, Zhenzhen Qiao, Lise Pingault, Mehrnoush Nourbakhsh-Rey, Marc Libault Jan 2016

Comprehensive Comparative Genomic And Transcriptomic Analyses Of The Legume Genes Controlling The Nodulation Process, Zhenzhen Qiao, Lise Pingault, Mehrnoush Nourbakhsh-Rey, Marc Libault

Department of Agronomy and Horticulture: Faculty Publications

Nitrogen is one of the most essential plant nutrients and one of the major factors limiting crop productivity. Having the goal to perform a more sustainable agriculture, there is a need to maximize biological nitrogen fixation, a feature of legumes. To enhance our understanding of the molecular mechanisms controlling the interaction between legumes and rhizobia, the symbiotic partner fixing and assimilating the atmospheric nitrogen for the plant, researchers took advantage of genetic and genomic resources developed across different legume models (e.g., Medicago truncatula, Lotus japonicus, Glycine max, and Phaseolus vulgaris) to identify key regulatory protein coding genes of the nodulation …


Multidisciplinary Research And Extension Team Evolution: Processes, Outcomes, And Strategies, Daren Redfearn, Jay Parsons, Mary Drewnoski Jan 2016

Multidisciplinary Research And Extension Team Evolution: Processes, Outcomes, And Strategies, Daren Redfearn, Jay Parsons, Mary Drewnoski

Department of Agronomy and Horticulture: Faculty Publications

Team-based research is not an innovative concept; however, the current models of team research are based principally on self-formed teams with a defined duration. Current trends seem to point toward the development of administratively designed multidisciplinary teams. Although this seems logical, minimal guidelines exist to aid in team development or evaluate team outcomes. Critical processes in a team-based research atmosphere have not been identified, much less described, and strategies for successful implementation have not been proposed. The strength of this approach can be summarized as a unified focus during the course of problem definition and solution. Many trade-offs and obstacles …


Comparison Of An Ultra-Low Volume (Ulv) Sprayer Against A Conventional Sprayer, For Foliar Fertiliser And Fungicide Applications In Turfgrass, Jason Connor Ferguson, Roch E. Gaussoin, John A. Eastin, Matthew D. Sousek, Greg R. Kruger Jan 2016

Comparison Of An Ultra-Low Volume (Ulv) Sprayer Against A Conventional Sprayer, For Foliar Fertiliser And Fungicide Applications In Turfgrass, Jason Connor Ferguson, Roch E. Gaussoin, John A. Eastin, Matthew D. Sousek, Greg R. Kruger

Department of Agronomy and Horticulture: Faculty Publications

Two field studies (I and II) at the University of Nebraska-Lincoln: John Seaton Anderson Turfgrass Research Facility near Mead, NE, USA, were conducted to determine if a new ultra-low volume (ULV) sprayer can apply foliar nutrient, growth regulator, and fungicide treatments, in a manner similar to that of a conventional sprayer. Treatments were applied over creeping bentgrass ‘L-93’ (Agrostis stolonifera L.) managed as a fairway at 561 l · ha−1 and 47 l · ha−1 with the conventional and ULV sprayer, respectfully. Data were collected for chlorophyll content with a chlorophyll meter, and for the normalised difference …


Organic Struggle: The Movement For Sustainable Agriculture In The United States [Book Review], Charles A. Francis Jan 2016

Organic Struggle: The Movement For Sustainable Agriculture In The United States [Book Review], Charles A. Francis

Department of Agronomy and Horticulture: Faculty Publications

Organic Struggle chronicles the challenges encountered by innovators in a growing segment of the U.S. food production and marketing system. Practiced for millennia by farmers before the introduction of chemical fertilizers and pesticides, and first developed more formally in Europe, organic farming practices began to gain prominence in the United States only in the 1950s. Far more than a system for producing food, this strategy has become a focus for those supporting healthy and pesticide-free products, for some who embrace the organic system as a food movement, and by many who disagree with the current domination of the country’s food …


Identification And Verification Of Qtl Associated With Frost Tolerance Using Linkage Mapping And Gwas In Winter Faba Bean, Ahmed Sallam, Mustapha Arbaoui, Mohamed El-Esawi, Nathan Abshire Jan 2016

Identification And Verification Of Qtl Associated With Frost Tolerance Using Linkage Mapping And Gwas In Winter Faba Bean, Ahmed Sallam, Mustapha Arbaoui, Mohamed El-Esawi, Nathan Abshire

Department of Agronomy and Horticulture: Faculty Publications

Frost stress is one of the abiotic stresses that causes a significant reduction in winter faba bean yield in Europe. The main objective of this work is to genetically improve frost tolerance in winter faba bean by identifying and validating QTL associated with frost tolerance to be used in marker-assisted selection (MAS). Two different genetic backgrounds were used: a biparental population (BPP) consisting of 101 inbred lines, and 189 genotypes from single seed descent (SSD) from the Gottingen Winter bean Population (GWBP). All experiments were conducted in a frost growth chamber under controlled conditions. Both populations were genotyped using the …


Extension Agriculture And Natural Resources In The U.S. Midwest: A Review And Analysis Of Challenges And Future Opportunities, Mahdi M. Al-Kaisi, Roger Wesley Elmore, Gerald A. Miller, David Kwaw-Mensah Dec 2015

Extension Agriculture And Natural Resources In The U.S. Midwest: A Review And Analysis Of Challenges And Future Opportunities, Mahdi M. Al-Kaisi, Roger Wesley Elmore, Gerald A. Miller, David Kwaw-Mensah

Department of Agronomy and Horticulture: Faculty Publications

This review addresses key changes in U.S. agricultural extension and future opportunities. Agricultural extension has been a part of the land-grant university (LGU) system for more than 100 years. The Morrill Act of 1862 established the LGU system by authorizing states access to federally controlled land and funding for public institutions offering educational opportunities focusing on agriculture and mechanical arts for farmers and the working class. Current surveys in Iowa reveal changing trends in extension: more than 90% of farmers identified private-sector crop advisers as their primary source for recommendations, whereas more than 80% of those advisors identified Iowa State …


Soil Moisture Affects Growing-Season Wildfire Size In The Southern Great Plains, Erik S. Krueger, Tyson E. Ochsner, David M. Engle, J. D. Carlson, Dirac L. Twidwell, Samuel D. Fuhlendorf Dec 2015

Soil Moisture Affects Growing-Season Wildfire Size In The Southern Great Plains, Erik S. Krueger, Tyson E. Ochsner, David M. Engle, J. D. Carlson, Dirac L. Twidwell, Samuel D. Fuhlendorf

Department of Agronomy and Horticulture: Faculty Publications

The increasing availability of soil moisture data presents an opportunity for its use in wildfire danger assessments, but research regarding the influence of soil moisture on wildfires is scarce. Our objective was to identify relationships between soil moisture and wildfire size for Oklahoma wildfires during the growing (May-October) and dormant seasons (November-April). We hypothesized that soil moisture influences wildfire size when vegetation is growing but is less important when most vegetation is dead or dormant. Soil moisture, as fraction of available water capacity (FAW), and commonly measured weather variables were determined for 38,419 wildfires from 2000–2012. Wildfires were grouped by …


Soybean Yield And Nodulation Response To Crop History And Inoculation, Stephen Mason, Tomie Galusha, Zaher Kmail Dec 2015

Soybean Yield And Nodulation Response To Crop History And Inoculation, Stephen Mason, Tomie Galusha, Zaher Kmail

Department of Agronomy and Horticulture: Faculty Publications

Soybean [Glycine max (L.) Merr.] inoculation was imposed on a long-term continuous grain sorghum [Sorghum bicolor (L.) Moench] and soybean cropping systems study with and without manure application at Mead, NE. The objective was to determine the influence of 28-yr history of continuous grain sorghum and soybean production, inoculation, and manure on soybean yield and nodulation. Average 2-yr soybean grain yield was 0.5 Mg ha–1 greater on plots with continuous grain sorghum crop history rather than soybean history, even after this history was broken by 2-yr crop rotation with grain sorghum in the 2 yr previous to …


Demography And Disease Of The Rare Shrub Buckleya Distichophylla (Santalaceae) In Northeastern Tennessee, William Seth Ratliff Dec 2015

Demography And Disease Of The Rare Shrub Buckleya Distichophylla (Santalaceae) In Northeastern Tennessee, William Seth Ratliff

Undergraduate Honors Theses

Piratebush (Buckleya distichophylla (Nutt.) Torr.) is a rare, hemiparasitic shrub with the only extant populations in western North Carolina, northeastern Tennessee, and southwestern Virginia. The preferred natural hosts of piratebush, Carolina and eastern hemlocks, have seen sharp declines over the last decade due to the invasive hemlock woolly adelgid. Virginia pine, another important host of piratebush, is also susceptible to disease, specifically Cronartium appalachianum, a rust fungus for which piratebush is the secondary host. This study described and analyzed current demographic parameters of three Tennessee piratebush populations. Additionally, spatial patterns of disease and demographic characters were analyzed. These …


Plant Community Responses To Invasive Shrub And Vine Removal In An Urban Park Woodland., Eric Richard Moore Dec 2015

Plant Community Responses To Invasive Shrub And Vine Removal In An Urban Park Woodland., Eric Richard Moore

Electronic Theses and Dissertations

Counter to what some people think, urban areas can be biodiversity hotspots. Maintaining this biodiversity can be challenging, since exotic shrubs and vines block sunlight and threaten native plant regeneration. Since 2007, the Louisville Olmsted Parks Conservancy (LOPC) has spent $2 million on invasive plant management in Cherokee Park. Before the project began, long-term transects were established by the LOPC to collect baseline presence/absence data on 11 invasive plant species. In 2014, I revisited these transects and documented presence/absence data on the entire plant community. I found that four species (garlic mustard, winter creeper, Japanese honeysuckle, and English ivy) have …


Distribution Of Herbicide-Resistant Shattercane And Johnsongrass Populations In Sorghum Production Areas Of Nebraska And Northern Kansas, Rodrigo Werle, Amit J. Jhala, Melinda K. Yerka, J. Anita Dille, John L. Lindquist Nov 2015

Distribution Of Herbicide-Resistant Shattercane And Johnsongrass Populations In Sorghum Production Areas Of Nebraska And Northern Kansas, Rodrigo Werle, Amit J. Jhala, Melinda K. Yerka, J. Anita Dille, John L. Lindquist

Department of Agronomy and Horticulture: Faculty Publications

Overreliance on acetolactate synthase (ALS)-inhibiting herbicides for weed control during the 1990s resulted in selection of ALS-resistant shattercane [Sorghum bicolor (L.) Moench ssp. drummondii (Nees ex Steud.) de Wet ex Davidse] biotypes in Nebraska. The objective of this study was to assess the baseline presence of ALS-resistance in 190 shattercane and 59 johnsongrass [Sorghum halepense (L.) Pers.] populations collected across northern Kansas, northwestern Missouri, and southern Nebraska in 2013. In 2014, a preliminary field experiment was conducted to evaluate the presence of herbicide resistance in the aforementioned populations. Treatments consisted of four herbicides (clethodim {2-[1-[[(E)-3-chloroprop-2-enoxy]amino] propylidene]-5-(2-ethylsulfanylpropyl)cyclohexane-1,3-dione}, glyphosate [N-(phosphonomethyl) …


Genetic Control Of Morphometric Diversity In The Maize Shoot Apical Meristem, Samuel Leiboff, Xianran Li, Heng-Cheng Hu, Natalie Todt, Jinliang Yang, Xiao Li, Xiaoqing Yu, Gary J. Muehlbauer, Marja C.P. Timmermans, Jianming Yu, Patrick S. Schnable, Michael J. Scanlon Nov 2015

Genetic Control Of Morphometric Diversity In The Maize Shoot Apical Meristem, Samuel Leiboff, Xianran Li, Heng-Cheng Hu, Natalie Todt, Jinliang Yang, Xiao Li, Xiaoqing Yu, Gary J. Muehlbauer, Marja C.P. Timmermans, Jianming Yu, Patrick S. Schnable, Michael J. Scanlon

Department of Agronomy and Horticulture: Faculty Publications

The maize shoot apical meristem (SAM) comprises a small pool of stem cells that generate all above-ground organs. Although mutational studies have identified genetic networks regulating SAM function, little is known about SAM morphological variation in natural populations. Here we report the use of high-throughput image processing to capture rich SAM size variation within a diverse maize inbred panel. We demonstrate correlations between seedling SAM size and agronomically important adult traits such as flowering time, stem size and leaf node number. Combining SAM phenotypes with 1.2 million single nucleotide polymorphisms (SNPs) via genome-wide association study reveals unexpected SAM morphology candidate …


Residue Harvest Effects On Irrigated, No-Till Corn Yield And Nitrogen Response, Charles S. Wortmann, Charles A. Shapiro, Marty R. Schmer Nov 2015

Residue Harvest Effects On Irrigated, No-Till Corn Yield And Nitrogen Response, Charles S. Wortmann, Charles A. Shapiro, Marty R. Schmer

Department of Agronomy and Horticulture: Faculty Publications

Crop residue harvest occurs on about 40% of Nebraska’s 3,700,000 ha of corn (Zea mays L.) land, primarily for feeding of beef cattle. Immobilization of applied N is expected to be less with residue harvest due to reduced microbial activity for digestion of high C/N ratio organic material. Residue reduction may affect subsequent crop yield and response to applied N. Field research was conducted at three locations over 2 yr in eastern Nebraska for irrigated, no-till corn following corn to determine residue harvest effects on yield and the economically optimal nitrogen rate (EONR). Study sites had deep silt loam …


Herbicides Applied At Or Shortly After Seeding Are Effective For Weed Control In Seedling Buffalograss, Luqi Li, Matthew D. Sousek, Zachary Reicher Nov 2015

Herbicides Applied At Or Shortly After Seeding Are Effective For Weed Control In Seedling Buffalograss, Luqi Li, Matthew D. Sousek, Zachary Reicher

Department of Agronomy and Horticulture: Faculty Publications

Herbicides applied shortly after seeding of buffalograss [Buchloe dactyloides (Nutt.) Engelm.] can help reduce weed pressure and maximize establishment of buffalograss. This study evaluated 12 relatively recently developed herbicides for turf safety and weed control when applied at seeding or 0 or 2 weeks after emergence (WAE) of ‘Bowie’ or ‘Sundancer’ buffalograss. Primary weed species on the site were common purslane (Portulaca oleracea L.), redroot pigweed (Amaranthus retroflexus L.), and/or yellow foxtail [Setaria lutescens (Weigel ex Stuntz) F.T. Hubb.]. Regardless of cultivar, untreated checks had53% weed cover by 6 WAE, whereas most of the herbicide treatments resulted …


Synfind: Compiling Syntenic Regions Across Any Set Of Genomes On Demand, Haibao Tang, Matthew D. Bomhoff, Evan Briones, Liangsheng Zhang, James C. Schnable, Eric Lyons Nov 2015

Synfind: Compiling Syntenic Regions Across Any Set Of Genomes On Demand, Haibao Tang, Matthew D. Bomhoff, Evan Briones, Liangsheng Zhang, James C. Schnable, Eric Lyons

Department of Agronomy and Horticulture: Faculty Publications

The identification of conserved syntenic regions enables discovery of predicted locations for orthologous and homeologous genes, evenwhennosuchgeneispresent.Thiscapabilitymeansthatsynteny-basedmethodsarefarmoreeffectivethansequencesimilaritybased methods in identifying true-negatives, a necessity forstudying gene loss and gene transposition. However, the identification of syntenicregionsrequirescomplexanalyseswhichmustberepeatedforpairwisecomparisonsbetweenanytwospecies.Therefore,as the number of published genomes increases, there is a growing demand for scalable, simple-to-use applications to perform comparative genomic analyses that cater to both gene family studies and genome-scale studies. We implemented SynFind, a web-based tool that addresses this need. Given one query genome, SynFind is capable of identifying conserved syntenic regions in any set of targetgenomes.SynFindiscapableofreportingper-geneinformation,usefulforresearchersstudyingspecificgenefamilies,aswellas genome-wide data sets of syntenic gene and predicted gene …


A Population Structure And Genome-Wide Association Analysis On The Usda Soybean Germplasm Collection, Nonoy Bandillo, Diego Jarquin, Qijian Song, Randall L. Nelson, Perry Cregan, James Specht, Aaron Lorenz Nov 2015

A Population Structure And Genome-Wide Association Analysis On The Usda Soybean Germplasm Collection, Nonoy Bandillo, Diego Jarquin, Qijian Song, Randall L. Nelson, Perry Cregan, James Specht, Aaron Lorenz

Department of Agronomy and Horticulture: Faculty Publications

Population structure analyses and genome-wide association studies (GWAS) conducted on crop germplasm collections provide valuable information on the frequency and distribution of alleles governing economically important traits. The value of these analyses is substantially enhanced when the accession numbers can be increased from ~1,000 to ~10,000 or more. In this research, we conducted the first comprehensive analysis of population structure on the collection of 14,000 soybean accessions [Glycine max (L.) Merr. and G. soja Siebold & Zucc.] using a 50KSNP chip. Accessions originating from Japan were relatively homogenous and distinct from the Korean accessions. As a whole, both Japanese and …


Chromatin Immunoprecipitation (Chip) Assay For Detecting Direct And Indirect Protein -Dna Interactions In Magnaporthe Oryzae, Gang Li, Margarita Marroquin-Guzman, Richard A. Wilson Nov 2015

Chromatin Immunoprecipitation (Chip) Assay For Detecting Direct And Indirect Protein -Dna Interactions In Magnaporthe Oryzae, Gang Li, Margarita Marroquin-Guzman, Richard A. Wilson

Department of Plant Pathology: Faculty Publications

Chromatin immunoprecipitation (ChIP) is a powerful technology for analyzing protein-DNA interactions in cells. Robust ChIP procedures have been established for investigating direct interactions between protein and DNA. However, detecting indirect protein-DNA interactions in vivo is challenging. Recently, we used ChIP to analyze an indirect protein-DNA interaction between a putative histone demethylase, MoJmjC, and the promoter of the superoxide dismutase 1-encoding gene MoSOD1 in the rice blast fungus Magnaporthe oryzae (M. oryzae) (Fernandez et al., 2014). We tagged MoJmjC with the 3x FLAG epitope (Fernandez et al., 2014), instead of the larger and more commonly used GFP epitope, to mitigate …


Transgenic Soybean Plants Expressing Asoybean Homolog Of Glycine-Rich Protein 7 (Grp7) And Exhibiting Improved Innate Immunity, James R. Alfano, Anna Joe, Thomas E. Clemente, Zhengqing Fu, Ming Guo, Byeong-Ryool Jeong, Thomas Elthon Oct 2015

Transgenic Soybean Plants Expressing Asoybean Homolog Of Glycine-Rich Protein 7 (Grp7) And Exhibiting Improved Innate Immunity, James R. Alfano, Anna Joe, Thomas E. Clemente, Zhengqing Fu, Ming Guo, Byeong-Ryool Jeong, Thomas Elthon

Department of Plant Pathology: Faculty Publications

This disclosure provides for transgenic Soybean plants expressing a soybean homolog of glycine-rich protein 7 (GRP7) and exhibiting improved innate immunity and meth ods of making Such plants.


Adding Genetically Distant Individuals To Training Populations Reduces Genomic Prediction Accuracy In Barley, Aaron Lorenz, Kevin P. Smith Oct 2015

Adding Genetically Distant Individuals To Training Populations Reduces Genomic Prediction Accuracy In Barley, Aaron Lorenz, Kevin P. Smith

Department of Agronomy and Horticulture: Faculty Publications

One of the most important factors affecting genomic prediction accuracy appears to be training population (TP) composition. The objective of this study was to evaluate the effect of genomic relationship on genomic prediction accuracy and determine if adding increasingly unrelated individuals to a TP can reduce prediction accuracy. To accomplish this, a population of barley (Hordeum vulgare L.) lines from the University of Minnesota (lines denoted as MN) and North Dakota State University (lines denoted as ND) breeding programs were used for model training. Predictions were validated using two independent sets of progenies derived from MN  MN crosses …


Switchgrass Germplasm Resources, Michael D. Casler, Kenneth P. Vogel, Melanie Harrison Oct 2015

Switchgrass Germplasm Resources, Michael D. Casler, Kenneth P. Vogel, Melanie Harrison

Department of Agronomy and Horticulture: Faculty Publications

Switchgrass (Panicum virgatum L.) is an important native grass and dominant member of the tallgrass prairie ecosystem. It is used for conservation, restoration, livestock feed production, and bioenergy feedstock production. The purpose of this review is to describe the biological and geographical basis for switchgrass germplasm diversity and to provide a resource for scientists and outreach personnel to find switchgrass germplasm to meet their needs. Upland and lowland ecotypes represent the most important polymorphism in switchgrass, with distinct but overlapping geographic distributions. Variation in ploidy exists within both ecotypes, with 2n = 4x = 36 the dominant ploidy …