This collection houses articles and publications generated by the faculty of the Department of Agronomy, Horticulture and Plant Science

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Submissions from 2020

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Water Deficit Transcriptomic Responses Differ in the Invasive Tamarix chinensis and T. ramosissima Established in the Southern and Northern United States, Padmapriya Swaminathan, Michelle K. Ohrtman, Abigail Carinder, Anup Deuja, Cankun Wang, John Gaskin, Anne Fennell, and Sharon Clay

Submissions from 2019

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Nitrogen Requirements of Ethiopian Mustard for Biofuel Feedstock in South Dakota, Phillip Alberti, Shannon Osborne, Febina Mathew, Shakaut Ali, Heidi Sieverding, Sandeep Kumar, and Thandiwe Nieya

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Chemical Amendments of Dryland Saline–Sodic Soils Did Not Enhance Productivity and Soil Health in Fields without Effective Drainage, Girma A. Birru, David E. Clay, Thomas M. DeSutter, Cheryl L. Reese, Ann C. Kennedy, Sharon A. Clay, Stephanie A. Bruggeman, Rachel K. Owen, and Douglas D. Malo

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Biomass Production of Monocultures and Mixtures of Cup Plant and Native Grasses on Prime and Marginal Cropland, Arvid Boe, Kenneth A. Albrecht, P. J. Johnson, and Jixiang Wu

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Abrasive Grit Application in Organic Red Pepper: An Opportunity for Integrating Nitrogen and Weed Management, Emily E. Braun, Sarah Taylor Lovell, Mohammad Babadoost, Frank Forcella, Sharon Clay, and Daniel Humburg

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Soil Quality and Region Influence Performance and Ranking of Switchgrass Genotypes, M. D. Casler, S. Sosa, A. R. Boe, and S. A. Bonos

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Ethanol Sprays to Release Grapevine Bud Dormancy: A Potential Alternative to Cyanamides, Christian Chervin and Anne Fennell

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Predicting Economic Optimal Nitrogen Rate with the Anaerobic Potentially Mineralizable Nitrogen Test, Jason D. Clark, Fabian G. Fernandez, Kristen S. Veum, James J. Camberato, Paul R. Carter, Richard B. Ferguson, David W. Franzen, Daniel E. Kaiser, Newell R. Kitchen, Carrie A.M. Laboski, Emerson D. Nafziger, Carl J. Rosen, John E. Sawyer, and John F. Shanahan

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United States Midwest Soil and Weather Conditions Influence Anaerobic Potentially Mineralizable Nitrogen, Jason D. Clark, Kristen S. Veum, Fabian G. Fernandez, James J. Camberato, Paul R. Carter, Richard B. Ferguson, David W. Franzen, Daniel E. Kaiser, Newell R. Kitchen, Carrie A.M. Laboski, Emerson D. Nafziger, John E. Sawyer, and John F. Shanahan

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Crop Residue Management Challenges: A Special Issue Overview, David Clay, Ronald Alverson, Jane M.F. Johnson, Douglas L. Karlen, Sharon Clay, Michael Q. Wang, Stephanie A. Bruggeman, and Shaina Westhoff

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Diaporthe gulyae: The New Pathogen on Common Buckwheat (Fagopyrum esculentum), K. M. Duellman, F. M. Mathew, S. G. Markell, and L. A. Castlebury

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Seeding, Herbicide, and Fungicide Impact on Perennial Grass Establishment in Cheatgrass Infested Habitats, Krista A. Ehlert, Jane M. Mangold, Fabian Menalled, Zachariah Miller, and Alan Dyer

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Mapping the Genetic Architecture of Grapevine Bud Growth-cycling Quantitative Traits, Anne Fennell, D. Alahakoon, J. Luby, and M. Clark

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Inoculation Method Impacts Symptom Development Associated with Diaporthe aspalathi, D. caulivora, and D. longicolla on Soybean (Glycine max), Krishna Ghimire, Kristina Petrovic, Brian J. Kontz, Carl A. Bradley, Martin I. Chilvers, Daren S. Mueller, Damon L/ Smith, Kiersten A. Wise, and Febina M. Mathew

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Varying Weed Densities Alter the Corn Transcriptome, Highlighting a Core Set of Weed-Induced Genes and Processes with Potential for Manipulating Weed Tolerance, David P. Horvath, Sharon A. Clay, Stephanie A. Bruggeman, James V. Anderson, Wun S. Chao, and Kathleen Yeater

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Phomopsis Stem Canker of Sunflower in North America: Correlation with Climate and Solutions Through Breeding and Management, Brent S. Hulke, Samuel G. Markell, Nolan C. Kane, and Febina M. Mathew

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Soil and Land- Use Change Sustainability in the Northern Great Plains of the USA, Deepak Raj Joshi, David E. Clay, Alexander Smart, Sharon A. Clay, Tulsi P. Kharel, and Umakanta Mishra

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Effect of Seed Treatment and Foliar Crop Protection Products on Sudden Death Syndrome and Yield of Soybean, Yuba Kendel, Carl A. Bradley, Martin I. Chilvers, Febina M. Mathew, Albert U. Tenuta, Damon L. Smith, Kiersten A. Wise, and Daren S. Mueller

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Transcriptomic Response is More Sensitive to Water Deficit in Shoots than Roots of Vitis riparia (Michx.), Vedbar Singh Khada, Kimberly Vaughn, Juan Xie, Padmapriya Swaminathan, Qin Ma, Grant Cramer, and Anne Y. Fennell Dr

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QTL × Environment Interactions Underlie Adaptive Divergence in Switchgrass Across a Large Latitudinal Gradient, David B. Lowry, John T. Lovell, Li Zhang, Jason Bonnette, Philip A. Fay, Robert B. Mitchell, John Lloyd-Reilley, Arvid R. Boe, and Et. al

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First Report of Diaporthe gulyae Causing Phomopsis Stem Canker of Sunflower (Helianthus annuus) in Argentina, M. F. Mancebo, M. E. Bazzalo, R. J. Reid, B. Kontz, and F. M. Mathew

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Resistance to Quinone Outside Inhibitor Fungicides Conferred by the G143A Mutation in Cercospora sojina (Causal Agent of Frogeye Leaf Spot) Isolates from South Dakota Soybean Fields, F. M. Mathew, E. Byamukama, D. L. Neves, and C. A. Bradley

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Rootstock Effects on Scion Phenotypes in a ‘Chambourcin’ Experimental Vineyard, Zoë Migicovsky, Zachary N. Harris, Laura L. Klein, Mao Li, Adam McDermaid, Daniel H. Chitwood, Anne Fennell, Laszlo G. Kovacs, Misha Kwasniewski, Jason P. Londo, Qin Ma, and Allison J. Miller

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IRIS-EDA: An Integrated RNA-Seq Interpretation System for Gene Expression Data Analysis, Brandon Monier, Adam McDermaid, Cankun Wang, Jing Zhao, Allison Miller, Anne Fennell, and Qin Ma

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Transcriptome Profiling of Interaction Effects of Soybean Cyst Nematodes and Soybean Aphids on Soybean, Surendra Neupane, Febina M. Mathew, Adam J. Varenhorst, and Madhav P. Nepal

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Identification and Characterization of Mitogen-Activated Protein Kinase (MAPK) Genes in Sunflower (Helianthus annuus L.), Surendra Neupane, Sarah E. Schweitzer, Achal Neupane, Ethan J. Anderson, Anne Fennell, Ruanbao Zhou, and Madhav P. Nepal

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Cross Pathogenicity Studies Show South Dakota Isolates of Fusarium acuminatum, F. equiseti, F. graminearum, F. oxysporum, F. proliferatum, F. solani, and F. subglutinans from Either Soybean or Corn are Pathogenic to Both Crops, P. N. Okello and F. M. Mathew

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Eight Species of Fusarium Cause Root Rot of Corn (Zea mays) in South Dakota, P. N. Okello, K. Petrovic, B. Kontz, and F. M. Mathew

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Mob Grazing Results in High Forage Utilization and Reduced Western Snowberry Size, Heidi Reed, Sharon Clay, Alexander Smart, David Clay, and Michelle Ohrtman

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Biogenic Volatiles Emitted from Four Cold-Hardy Grape Cultivars During Ripening, Somchai Rice, Devin L. Mauer, Anne Fennell, Murlidhar Dharmadhikari, and Jacek A. Koziel

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Evaluation of Volatile Metabolites Emitted In-Vivo from Cold-Hardy Grapes during Ripening Using SPME and GC-MS: A Proof-of-Concept, Somchai Rice, Devin L. Maurer, Anne Fennell, Murlidhar Dharmadhikari, and Jacek A. Koziel

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Effects of Harvest Time on the Aroma of White Wines Made from Cold-Hardy Brianna and Frontenac Gris Grapes Using Headspace Solid-Phase Microextraction and Gas Chromatography-Mass Spectrometry-Olfactometry, Somchai Rice, Madina Tursumbayeva, Matthew Clark, David Greenlee, Murlidhar Dharmadhikari, Anne Fennell Dr, and Jacek A. Koziel

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Genetic Analysis of Stilbenoid Profiles in Grapevine Stems Reveals a Major mQTL Hotspot on Chromosome 18 Associated with Disease-resistance Motifs, Soon L. Teh, Bety Rostandy, Mani Awale, James J. Luby, Anne Fennell, and Adrian D. Hegeman

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Management Considerations for Palmer Amaranth in a Northern Great Plains Soybean Production System, Brian Vab De Stroet and Sharon Clay

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It is Time to Apply Biclustering: a Comprehensive Review of Biclustering Applications in Biological and Biomedical Data, Juan Xie, Anjun Ma, Anne Fennell, Qin Ma, and Jing Zhao

Submissions from 2018

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Bacterial blight of lentil (Lens culinaris) caused by Pseudomonas syringae pv. syringae, A. D. Adhikari, K. A. Nielsen, R. M. Harveson, C. Graham, R. Beck, and F. Mathew

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Seed Set and Seed-Insect Interactions in Natural and Cultivated Populations of Purple Prairie Clover, Arvid Boe, Paul J. Johnson, and Abigail P. Martens

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Using Abrasive Grit for Weed Management in Field Crops, Michael Carlson, Frank Forcella, Sam Wortman, and Sharon A. Clay

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30 Years of Progress toward Increased Biomass Yield of Switchgrass and Big Bluestem, M. D. Casler, K. P. Vogel, D. K. Lee, R. B. Mitchell, P. R. Adler, R. M. Suic, K. D. Johnson, R. L. Kallenbach, A. R. Boe, R. D. Mathison, K. A. Cassida, D. H. Min, J. Crawford, and K. J. Moore

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Effectiveness of Split Nitrogen Applications in the Midwestern U.S., Jason Clark and Fabian Fernandez

Pest measurement and management, Sharon A. Clay, B.W. French, and F.M. Mathew

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VitisGen Discoveries in Local and Centralized Trait Evaluation, E. M. Demmings, L. Cadle-Davidson, G. Sacks, Anne Fennell Dr, and Et al.

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Propelled Abrasive Grit for Weed Control in Organic Silage Corn, Mauricio Erazo-Barradas, Fran Forcella, and Dan Humburg

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Knowledge, Skills, and Abilities in the Precision Agriculture Workforce: An Industry Survey, Bruce Erickson, Scott W. Fausti, David Clay, and Sharon Clay

Educator Survey: Do Institutions Provide the Precision Agriculture Education Needed by Agribusiness?, Scott Fausti, Bruce Erickson, Sharon Clay, Leon Schumacher, David Clay, and Danille Skouby

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Air-propelled Abrasive Grit can Damage the Perennial Weed Quackgrass, Frank Forcella, Daniel Humburg, Samuel E. Wortman, and Sharon A. Clay

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Shotgun Proteomic Analysis of Photoperiod Regulated Dormancy Induction in Grapevine, Iniga S. George, Anne Y. Fennell, and Paul A. Haynes

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Sunflower Stalk Diseases Initiated Through Leaf Infections, R. Harveson, F. Mathew, T. Gulya, S. Markell, C. Block, and S. Thompson

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Above- and Belowground Prairie Cordgrass Response to Applied Nitrogen on Marginal Land, Karla A. Hernandez, Vance Owens, Arvid Boe, Jose L. Gonzalez-Hernandez, Dokyoung Lee, and Ezra Aberle

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Weed Presence Altered Biotic Stress and Light Signaling in Maize Even When Weeds were Removed Early in the Critical Weed‐free Period, David P. Horvath, Stephanie Bruggeman, Janet Moriles-Miller, James V. Anderson, Munevver Dogramaci, Brian E. Scheffler, Alvaro G. Hernandez, Michael E. Foley, and Sharon Clay

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Benefits and Profitability of Fluopyram-Amended Seed Treatments for Suppressing Sudden Death Syndrome and Protecting Soybean Yield: A Meta-Analysis, Yuba R. Kendel, Michael T. McCarville, Eric A. Adee, Jason P. Bond, Martin I. Chilvers, Shawn P. Conley, Loren J. Giesler, Heather M. Kelly, Dean K. Malvick, Febina M. Mathew, John C. Rupe, Laura E. Sweets, Albert U. Tenuta, Kiersten A. Wise, and Daren S. Mueller

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Do Precision Chemical Amendment Applications Impact Sodium Movement in Dryland Semiarid Saline Sodic Soils?, Tulsi P. Kharel, David E. Clay, Cheryl Reese, Thomas DeSutter, Doug D. Malo, and Sharon Clay

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Phomopsis Stem Canker of Sunflower, Febina Mathew, Robert Harveson, Thomas Gulya, Susan Thompson, Charles Block, and Samuel Markell

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First Report of Stem Disease of Soybean (Glycine max) Caused by Diaporthe gulyae in North Dakota, F. M. Mathew, T. J. Gulya, J. G. Jordahl, and S. G. Markell

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Comparison of Greenhouse-Based Inoculation Methods to Study Aggressiveness of Diaporthe helianthi Isolates Causing Phomopsis Stem Canker of Sunflower (Helianthus annuus), F. M. Mathew, J. G. Jordahl, T. J. Gulya, and S. G. Markell

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Identification of Sunflower (Helianthus annuus) Accessions Resistant to Diaporthe helianthi and Diaporthe gulyae, F. M. Mathew, T. R. Olson, L. F. Marek, T. J. Gulya, and S. G. Markell

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Evolutionary Divergence of TNL Disease-Resistant Proteins in Soybean (Glycine max) and Common Bean (Phaseolus vulgaris), Surendra Neupane, Qin Ma, Febina M. Mathew, Adam J. Varenhorst, Ethan J. Andersen, and Madhav P. Nepal

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Root Rot Caused by Species of Fusarium on Brassica carinata in South Dakota, P. N. Okello, K. Petrovic, B. Kontz, A. Ali, L. F. Marek, and F. M. Mathew

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Comparison of Three Assembly Strategies for a Heterozygous Seedless Grapevine Genome Assembly, Sagar Patal, Zhixiu Lu, Xiaozhu Jin, Padmapriya Swaminathan, Erliang Zeng, and Anne Y. Fennell Dr

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Mob vs. Rotational Grazing: Impact on Forage Use and Artemisia absinthium, Heidi Reed, Alexander Smart, David E. Clay, Michelle Ohrtman, and Sharon A. Clay

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Evaluation of Tannins and Anthocyanins in Marquette, Frontenac, and St. Croix Cold-Hardy Grape Cultivars, Somchai Rice, Jacek A. Koziel, Murlidhar Dharmadhikari, and Anne Fennell

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Determination of Selected Aromas in Marquette and Frontenac Wine Using Headspace-SPME Coupled with GC-MS and Simultaneous Olfactometry, Somchai Rice, Nanticha Lutt, Jacek A. Koziel, Murlidhar Dharmadhikari, and Anne Fennell Dr

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Transcriptome Analysis of the Heritable Salt Tolerance of Prairie Cordgrass (Spartina pectinata Link), Michael Robben, Ethan Thibault, Michaellong Tran, Yajun Wu, Arvid Boe, and Jose L. Gonzalez-Hernandez

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Profitability of Abrasive Weeding in Organic Grain and Vegetable Crops, Sam E. Wortman, Frank Forcella, David Lambe, Sharon A. Clay, and Daniel Humberg

Submissions from 2017

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Evaluating Adaptions of Soft Red Winter Wheat in Eastern Region of USA, Dilmini Alahakoon, Anne Fennell, and Jixiang Wu

Evaluation of Weed Species as Alternative Hosts of Soybean Cyst Nematode in South Dakota, Pawan Basnet, Emmanuel Byamukama, and Sharon Clay

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Genetics and Partitioning for Biomass of Prairie Cordgrass Compared to Switchgrass on Marginal Cropland, Arvid Boe, P. J. Johnson, Vance Owens, Jia Guo, and Jose L. Gonzalez-hernandez

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Mathematics Associated with Seed Emergence, Plant Population, Stand Uniformity, and Harvest Losses, Stephanie A. Bruggeman, Sharon A. Clay, Cheryl L. Reese, and C. Gregg Carlson

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Introduction to Conceptual Models, Calculating and Using Rate Constants, Economics, and Problem Solving, Gregg Carlson, David E. Clay, and Sharon A. Clay

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Biomass Yield of Switchgrass Cultivars under High- versus Low-Input Conditions, Michael D. Casler, Sergio Sosa, Lindsey Hoffman, Hilary Mayton, Calvin Ernst, Paul R. Adler, Arvid R. Boe, and Stacy A. Bonos

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A Rapid Method for Measuring Feces Ammonia-Nitrogen and Carbon Dioxide-Carbon Emissions and Decomposition Rate Constants, Jiyul Chang, David E. Clay, Sharon A. Clay, and Michelle K. Ohrtman

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Calculating Soil Organic Turnover at Different Landscape Position in Precision Conservation, David E. Clay, Jiyul Chang, Graig Reicks, Sharon A. Clay, and Cheryl L. Reese

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From Plows, Horses, and Harnesses to Precision Technologies in the North American Great Plains, David E. Clay, Sharon A. Clay, Thomas DeSutter, and Cheryl Reese

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An Introduction to Experimental Design and Models, David Clay, Gary Hatfield, and Sharon A. Clay

Site-specific Weed Management, Sharon A. Clay and Stephanie A. Bruggeman

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Estimating Weed and Insect Development, In-Season Yield Losses, and Economic Thresholds, Sharon A. Clay and Adam Varenhorst

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First Report of Alternaria Black Spot caused by Alternaria alternata on Brassica carinata in South Dakota, M. Dunbar, A. Adhikari, B. Kontz, A. Varenhorst, T. Nlleya, E. Byamukama, and F. Mathew

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Propelled Abrasive Grit Applications for Weed Management in Transitional Corn Grain Production, Mauricio Enzo-Barradas, Claire N. Friedrichsen, Frank Forcella, Dan Humberg, and Sharon A. Clay

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Growth and Development of Two Perennial Grasses in Ambient Light Conditions during their Natural Dormant Period, Jia Guo, Arvid Boe, Do-Soon Kim, and D. K. Lee

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Biomass Yield and Feedstock Quality of Prairie Cordgrass in Response to Seeding Rate, Row Spacing, and Nitrogen Fertilization, Jia Guo, Santanu Thapa, Thomas Voigt, Vance Owens, Arvid Boe, and D. K. Lee

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A Public–Industry Partnership for Enhancing Corn Nitrogen Research and Datasets: Project Description, Methodology, and Outcomes, Newell R. Kitchen, John F. Shanahan, Curtis J. Ransom, Christopher J. Bandura, Gregory M. Bean, James J. Camberato, Paul R. Carter, Jason D. Clark, Richard B. Ferguson, Fabian G. Fernandez, David W. Franzen, Carrie A.M. Laboski, Emerson D. Nafziger, Zhisheng Qing, John E. Sawyer, and Matt Shafer

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Enhanced Atrazine Degradation is Widespread Across the United States, Thomas C. Mueller, Ethan T. Parker, Larry Steckel, Sharon A. Clay, Michael DK Owen, William S. Curran, Randall Currie, Robert Scott, Christy Sprague, Daniel O. Stephenson, Donnie K. Miller, Eric P. Prostko, W. James Grichar, James Martin, L. Jason Kruz, Kevin Bradley, Mark L. Bernards, Peter Dotray, Stevan Knezevic, Vince Davis, and Robert Klein

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First Report of Diaporthe stewartii Causing Phomopsis Stem Canker of Sunflower (Helianthus annuus) in Minnesota, T. R. Olson, B. Krontz, S. G. Markell, T. J. Gulya, and F. M. Mathew

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QUBIC: A Bioconductor Package for Qualitative Biclustering Analysis of Gene co-Expression Data, Yu Zhang, Juan Xie, JInyu Yang, Anne Fennell Dr, Chi Zhang, and Qin Ma

Submissions from 2016

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Towards an Open Grapevine Information System, A-F Adam-Blondon, M. Alaux, C. Pommier, D. Cantu, Z-M Cheng, GR Cramer, C. Davies, S. Delrot, L. Deluc, G. Di Gaspero, J. Grimplet, A. Fennell Dr, and Et. al

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Corn Yield Loss Due to Volunteer Soybean, Jill Alms, Sharon A. Clay, David Vos, and Michael Moechnig

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Yield Loss and Management of Volunteer Corn in Soybean, Jill Alms, Michael Moechnig, David Vos, and Sharon Clay

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Physiological and Molecular Characterisation of Lucerne (Medicago sativa L.) Germplasm with Improved Seedling Freezing Tolerance, M. Rokebul Anowar, Anne Fennell, Arvid Boe, Ivan W. Mott, Michael D. Peel, and Yajun Wu

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First Detection of Aster Yellows Associated With Phytoplasma on Camelina sativa in South Dakota, E. Byamukama, C. Tande, J. Olson, L. Hesler, K. Grady, T. Nleya, and Febina Mathew

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Biochar Reduced Nitrous Oxide and Carbon Dioxide Emissions from Soil with Different Water and Temperature Cycles, Jiyul Chang, David E. Clay, Sharon A. Clay, Rajesh Chintala, Janet M. Miller, and Thomas Schumacher

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Estimating Annual Root Decomposition in Grassland Systems, Jiyul Chang, David E. Clay, Alexander Smart, and Sharon A. Clay

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Maize, Switchgrass, and Ponderosa Pine Biochar Added to Soil Increased Herbicide Sorption and Decreased Herbicide Efficacy, Sharon A. Clay, Kaitlynn K. Krack, Stephanie A. Bruggeman, Sharon Papiernik, and Thomas E. Schumacher

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Toward the Elucidation of Cytoplasmic Diversity in North American Grape Breeding Programs, Jonathan Fresnedo-Ramirez, Qi Sun, Chin-Feng Hwang, Craig A. Ledbetter, David W. Ramming, Anne Fennell, M. Andrew Walker, James J. Luby, Matthew D. Clark, Jason P. Londo, lance Cadle-Davidson, and Gan-Yuan Zhong

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Understanding and Identifying Variability, Newell R. Kitchen and Sharon A. Clay

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Optimization and Application of a Quantitative Polymerase Chain Reaction Assay to Detect Diaporthe Species in Soybean Plant Tissue, Brian Kontz, Sajag Adhikari, Senthil Subramanian, and Febina M. Mathew

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An Integrative and Applicable Phylogenetic Footprinting Framework for cis-regulatory Motifs Identification in Prokaryotic Genomes, Bingqiang Liu, Hanyuan Zhang, Chaun Zhou, Guojaun Li, Anne Fennell, Guanghui Wang, Yu Kang, and Qi Liu

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Next Generation Mapping of Enological Traits in an F2 Interspecific Grapevine Hybrid Family, Shanshan Yang, Jonathan Fresnedo-Ramírez, Qi Sun, David C. Manns, Gavin L. Sacks, Anna Katherine Mansfield, James L. Luby, Jason Londo, Bruce I. Reisch, lance Cadle-Davidson, and Anne Y. Fennell

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A Next-generation Marker Genotyping Platform (AmpSeq) in Heterozygous Crops: A Case Study for Marker-assisted Selection in Grapevine, SHanshan Yang, Jonathan Fresnedo-Ramírez, Minghui Wang, Linda Cote, Peter Schweitzer, Paola Barba, Elizabeth M. Takacs, Matthew Clark, James Luby, David C. Manns, Gavin Sacks, Anna Katharine Mansfield, Jason Londo, Anne Fennell Dr, David Gadoury, Bruce Reisch, Lance Cadle-Davidson, and Qi Sun

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Strategic Use of Native Species on Environmental Gradients Increases Diversity and Biomass Relative to Switchgrass Monocultures, Cody J. Zilverberg, Kwan Teoh, Arvid Boe, W. Carter Johnson, and Vance Owens

Submissions from 2015

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Differential Response of Teosinte and Flint, Sweet, Dent Corn Varieties to Weed Competition, S. A. Bruggeman, S. A. Clay, D. A. Horvath, and S. Flint-Garcia