Simulating Long-Term Impacts Of Cover Crops And Climate Change On
Crop Production And Environmental Outcomes In The Midwestern
United States,
2016
Iowa State University
Simulating Long-Term Impacts Of Cover Crops And Climate Change On Crop Production And Environmental Outcomes In The Midwestern United States, Andrea D. Basche, Sotririos V. Archontoulis, Thomas C. Kaspar, Dan B. Jaynes, Timothy B. Parkin, Fernando E. Miguez
Department of Agronomy and Horticulture: Faculty Publications
It is critical to evaluate conservation practices that protect soil and water resources from climate change in the Midwestern United States, a region that produces one-quarter of the world’s soybeans and one-third of the world’s maize. An over-winter cover crop in a maize–soybean rotation offers multiple potential benefits that can reduce the impacts of higher temperatures and more variable rainfall; some of the anticipated changes for the Midwest. In this experiment we used the Agricultural Production Systems sIMulator (APSIM) to understand how winter rye cover crops impact crop production and environmental outcomes, given future climate change. We first tested APSIM …
Decipher The Molecular Response Of Plant Single Cell
Types To Environmental Stresses,
2016
University of Oklahoma
Decipher The Molecular Response Of Plant Single Cell Types To Environmental Stresses, Mehrnoush Nourbakhsh-Rey, Marc Libault
Department of Agronomy and Horticulture: Faculty Publications
The analysis of the molecular response of entire plants or organs to environmental stresses suffers from the cellular complexity of the samples used. Specifically, this cellular complexity masks cell-specific responses to environmental stresses and logically leads to the dilution of the molecular changes occurring in each cell type composing the tissue/organ/plant in response to the stress.Therefore, to generate a more accurate picture of these responses, scientists are focusing on plant single cell type approaches. Several cell types are now considered as models such as the pollen, the trichomes, the cotton fiber, various root cell types including the root hair cell, …
Organic Struggle: The Movement For Sustainable Agriculture In The United States [Book Review],
2016
University of Nebraska-Lincoln
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 …
Draft Genome Sequence Of Erwinia Tracheiphila, An Economically
Important Bacterial Pathogen Of Cucurbits,
2016
Harvard University
Draft Genome Sequence Of Erwinia Tracheiphila, An Economically Important Bacterial Pathogen Of Cucurbits, Lori R. Shapiro, Erin D. Scully, Dana Roberts, Timothy J. Straub, Scott M. Geib, Jihye Park, Andrew G. Stephenson, Erika Salaau Rojas, Quin Liu, Gwyn Beattie, Mark Gleason, Consuelo M. De Moraes, Mark C. Mescher, Shelby G. Fleischer, Roberto Kolter, Naomi Pierce, Olga Zhaxybayeva
Department of Agronomy and Horticulture: Faculty Publications
Erwinia tracheiphila is one of the most economically important pathogens of cucumbers, melons, squashes, pumpkins, and gourds in the northeastern and midwestern United States, yet its molecular pathology remains uninvestigated. Here, we report the first draft genome sequence of an E. tracheiphila strain isolated from an infected wild gourd (Cucurbita pepo subsp. texana) plant. The genome assembly consists of 7 contigs and includes a putative plasmid and at least 20 phage and prophage elements.
Muts Homolog1 Silencing Mediates Orf220
Substoichiometric Shifting And Causes Male Sterility In
Brassica Juncea,
2016
Zhejiang University
Muts Homolog1 Silencing Mediates Orf220 Substoichiometric Shifting And Causes Male Sterility In Brassica Juncea, Na Zhao, Xinyue Xu, Yashitola Wamboldt, Sally Ann Mackenzie, Xiaodong Yang, Zhongyuan Hu, Jinghua Yang, Mingfang Zhang
Department of Agronomy and Horticulture: Faculty Publications
Cytoplasmic male sterility (CMS) has consistently been associated with the expression of mitochondrial open reading frames (ORFs) that arise from genomic rearrangements. Spontaneous fertility reversion in CMS has been observed in several cases, but a clear understanding of fertility reversion controlled by nuclear genetic influences has been lacking. Here, we identified spontaneous fertile revertant lines for Brassica juncea CMS cytoplasm in which the mitochondrial genome has undergone substoichiometric shifting (SSS) to suppress ORF220 copy number. We placed ORF220, with or without a mitochondrial targeting presequence, under the control of the CaMV35S and AP3 promoters in Arabidopsis to confirm that ORF220 …
Long-Term Impacts Of Fuel Treatments On Tree Growth And Aboveground Biomass Accumulation In Ponderosa Pine Forests Of The Northern Rocky Mountains,
2016
University of Montana
Long-Term Impacts Of Fuel Treatments On Tree Growth And Aboveground Biomass Accumulation In Ponderosa Pine Forests Of The Northern Rocky Mountains, Kate A. Clyatt
Graduate Student Theses, Dissertations, & Professional Papers
In western North America, many low-elevation, dry forest types historically experienced frequent, low-severity fires. However, European settlement and fire suppression policies have contributed to over a century of fire exclusion, substantially altering forest structure and composition. There is considerable interest in restoring fire resilient characteristics to these forests through fuel reduction treatments. One limitation of current research on the impacts of fuel treatments is treatment longevity, as few studies have been able to quantify long-term responses to commonly applied treatments. This research evaluated tree growth and aboveground biomass responses 23 years after treatment in two silvicultural installations with different underburning …
Prospects Of Genomic Prediction In The Usda Soybean Germplasm Collection: Historical Data Creates Robust Models For Enhancing Selection Of Accessions,
2016
University of Nebraska-Lincoln
Prospects Of Genomic Prediction In The Usda Soybean Germplasm Collection: Historical Data Creates Robust Models For Enhancing Selection Of Accessions, Diego Jarquin, James Specht, Aaron Lorenz
Department of Agronomy and Horticulture: Faculty Publications
The identification and mobilization of useful genetic variation from germplasm banks for use in breeding programs is critical for future genetic gain and protection against crop pests. Plummeting costs of next-generation sequencing and genotyping is revolutionizing the way in which researchers and breeders interface with plant germplasm collections. An example of this is the high density genotyping of the entire USDA Soybean Germplasm Collection. We assessed the usefulness of 50K SNP data collected on 18,480 domesticated soybean (G. max) accessions and vast historical phenotypic data for developing genomic prediction models for protein, oil, and yield. Resulting genomic prediction models explained …
Corn (Zea Mays L.) Seeding Rate Optimization In Iowa,
Usa,
2016
Iowa State University
Corn (Zea Mays L.) Seeding Rate Optimization In Iowa, Usa, Mark A. Licht, Andrew W. Lenssen, Roger W. Elmore
Department of Agronomy and Horticulture: Faculty Publications
Collecting soil, topography, and yield information has become more feasible and reliable with advancements in precision technologies. Combined with the accessibility of precision technologies and services to farmers, there has been increased interest and ability to make site-specific crop management decisions. The objective of this research was to develop procedures to optimize corn seeding rates and maximize yield using soil and topographic parameters. Experimental treatments included five seeding rates (61 750; 74 100; 86 450; 98 800; and 111 150 seeds ha-1) in a randomized complete block design in three central Iowa fields from 2012 to 2014 (nine …
Effects Of Corn (Zea Mays L.) Stover Removal And Leaching On Soil Test And Whole Plant K Levels In Corn And K Fertilization/High-Input Treatments On Soybean Using Site-Specific Management To Increase Soybean (Glycine Max) Production In South Dakota,
2016
South Dakota State University
Effects Of Corn (Zea Mays L.) Stover Removal And Leaching On Soil Test And Whole Plant K Levels In Corn And K Fertilization/High-Input Treatments On Soybean Using Site-Specific Management To Increase Soybean (Glycine Max) Production In South Dakota, Nick J. Schiltz
Electronic Theses and Dissertations
Potassium is important for crop production. Corn stover removal has the potential to reduce exchangeable and soluble soil potassium (K+) needed for optimal plant growth in addition to grain yield. An experiment was conducted in Aurora, SD, USA, to observe the effects of corn stover removal on water soluble and exchangeable soil test K+ (STK) levels and corn grain yields across a five-year period. Abundant K+ reserves were recorded between the initial and final sampling periods. While corn grain yields were affected by removing corn biomass, exchangeable and solution K+ levels were relatively unaffected by stover removal. Potassium fertilizer has …
Senescence Of Native Perennial Warm Season Grasses Senescence Associated Switchgrass Transcriptome,
2016
South Dakota State University
Senescence Of Native Perennial Warm Season Grasses Senescence Associated Switchgrass Transcriptome, Michaellong Tran
Electronic Theses and Dissertations
Senescence of perennial crops enable continuous harvests after one sowing event. Perennials senesce at adapted rates of their native environments; however, early senescencing crops do not maximize the growing season as nutrient reallocation takes precedence. Chlorophyll degradation and nitrogen reallocation was observed to occur rapidly between mid to late September. Transcriptome analysis on early and late senescencing switchgrass cultivars reveals upregulation of starch metabolism, light reactions, Calvin-Benson Cycle, and anthocyanin synthesis in late senescencing switchgrass. Morphological variations between the two germplasms prolong the growing season of late senescencing switchgrass, maximizing yield. Expression of mRNA as senescence progresses and between the …
Restoration Of Eroded Lands With Biochar As Soil Amendment In South Dakota,
2016
South Dakota State University
Restoration Of Eroded Lands With Biochar As Soil Amendment In South Dakota, Saroop S. Sandhu
Electronic Theses and Dissertations
Biochar is produced from incomplete pyrolysis of plant biomass. Due to the unique properties of biochar such as a higher number of micropores, surface area and carbon content, and recalcitrant nature of carbon, biochar is hypothesized to improve physical and hydrological properties of soil. This study assesses the impact of biochar on soil organic carbon, physical and hydrological properties of two landscape positions under a corn (Zea mays L.)-soybean (Glycine max L.) rotation. Three types of biochar including corn stover, ponderosa pine (Pinus ponderosa Lawson and C. Lawson) wood residue, and switchgrass (Panicum virgatum L.) were applied in the field …
Construction Of High Resolution Genetic
Linkage Maps To Improve The Soybean
Genome Sequence Assembly Glyma1.01,
2016
USDA-ARS
Construction Of High Resolution Genetic Linkage Maps To Improve The Soybean Genome Sequence Assembly Glyma1.01, Qijian Song, Jerry Jenkins, Gaofeng Jia, David L. Hyten, Vince Pantalone, Scott A. Jackson, Jeremy Schmutz, Perry B. Cregan
Department of Agronomy and Horticulture: Faculty Publications
Background: A landmark in soybean research, Glyma1.01, the first whole genome sequence of variety Williams 82 (Glycine max L. Merr.) was completed in 2010 and is widely used. However, because the assembly was primarily built based on the linkage maps constructed with a limited number of markers and recombinant inbred lines (RILs), the assembled sequence, especially in some genomic regions with sparse numbers of anchoring markers, needs to be improved. Molecular markers are being used by researchers in the soybean community, however, with the updating of the Glyma1.01 build based on the high-resolution linkage maps resulting from this research, …
Genome-Wide Discriminatory Information Patterns Of Cytosine Dna Methylation,
2016
University of Nebraska-Lincoln
Genome-Wide Discriminatory Information Patterns Of Cytosine Dna Methylation, Robersy Sanchez, Sally A. Mackenzie
Department of Agronomy and Horticulture: Faculty Publications
Cytosine DNA methylation (CDM) is a highly abundant, heritable but reversible chemical modification to the genome. Herein, a machine learning approach was applied to analyze the accumulation of epigenetic marks in methylomes of 152 ecotypes and 85 silencing mutants of Arabidopsis thaliana. In an information-thermodynamics framework, two measurements were used: (1) the amount of information gained/lost with the CDM changes IR and (2) the uncertainty of not observing a SNP LCR. We hypothesize that epigenetic marks are chromosomal footprints accounting for different ontogenetic and phylogenetic histories of individual populations. A machine learning approach is proposed to …
Expression Of Apoplast-Targeted Plant Defensin Mtdef4.2
Confers Resistance To Leaf Rust Pathogen Puccinia Triticina But Does Not Affect Mycorrhizal Symbiosis In Transgenic Wheat,
2016
Donald Danforth Plant Science Center
Expression Of Apoplast-Targeted Plant Defensin Mtdef4.2 Confers Resistance To Leaf Rust Pathogen Puccinia Triticina But Does Not Affect Mycorrhizal Symbiosis In Transgenic Wheat, Jagdeep Kaur, John Fellers, Alok Adholeya, Siva L.S. Velivelli, Kaoutar El-Mounadi, Natalya Nersesian, Thomas Clemente, Dilip Shah
Department of Agronomy and Horticulture: Faculty Publications
Rust fungi of the order Pucciniales are destructive pathogens of wheat worldwide. Leaf rust caused by the obligate, biotrophic basidiomycete fungus Puccinia triticina (Pt) is an economically important disease capable of causing up to 50 % yield losses. Historically, resistant wheat cultivars have been used to control leaf rust, but genetic resistance is ephemeral and breaks down with the emergence of new virulent Pt races. There is a need to develop alternative measures for control of leaf rust in wheat. Development of transgenic wheat expressing an antifungal defensin offers a promising approach to complement the endogenous resistance genes …
Evaluation Of Tillage, Crop Rotation, And Cover Crop Impacts On Corn Nitrogen Requirements In Southeastern South Dakota,
2016
South Dakota State University
Evaluation Of Tillage, Crop Rotation, And Cover Crop Impacts On Corn Nitrogen Requirements In Southeastern South Dakota, Sara Louise Berg
Electronic Theses and Dissertations
Nitrogen (N) is a vital factor of corn (Zea mays) production. Previous work in South Dakota has shown that there is uncertainty as to whether nitrogen requirements are the same for corn raised under no-till (NT) versus conventional till (CT) production systems. The objective of this study was to evaluate whether N requirements continue to be greater under long-term NT versus CT production systems in southeastern South Dakota, while also considering effects from cover crops and crop rotation. This was a two year study conducted at the SDSU Southeast Research Farm near Beresford, SD; it was superimposed on a long-term …
Molecular Characterization Of Resistance To
Soybean Rust (Phakopsora Pachyrhizi Syd. &
Syd.) In Soybean Cultivar Dt 2000 (Pi 635999),
2016
University of Missouri - Columbia
Molecular Characterization Of Resistance To Soybean Rust (Phakopsora Pachyrhizi Syd. & Syd.) In Soybean Cultivar Dt 2000 (Pi 635999), Tri D. Vuong, David R. Walker, Binh T. Nguyen, Tuyet T. Nguyen, Hoan X. Dinh, David L. Hyten, Perry B. Cregan, David A. Sleper, Jeong D. Lee, James G. Shannon, Henry T. Nguyen
Department of Agronomy and Horticulture: Faculty Publications
Resistance to soybean rust (SBR), caused by Phakopsora pachyrhizi Syd. & Syd., has been identified in many soybean germplasm accessions and is conferred by either dominant or recessive genes that have been mapped to six independent loci (Rpp1 -Rpp6), but No U. S. cultivars are resistant to SBR. The cultivar DT 2000 (PI 635999) has resistance to P. pachyrhizi isolates and field populations from the United States as well as Vietnam. A F6:7 recombinant inbred line (RIL) population derived from Williams 82 × DT 2000 was used to identify genomic regions associated with resistance to SBR in …
Grain Sorghum Leaf Reflectance And Nitrogen Status,
2016
University of Nebraska-Lincoln
Grain Sorghum Leaf Reflectance And Nitrogen Status, Akwasi A. Abunyewa, Richard B. Ferguson, Charles S. Wortmann, Stephen C. Mason
Department of Agronomy and Horticulture: Faculty Publications
Nitrogen deficiency is a common but readily managed constraint to grain yield. A quick and nondestructive detection of crop N status using remote sensing could be a means to increased N use efficiency. Research was conducted in a greenhouse in 2006 at the University of Nebraska-Lincoln to establish the relationship of spectral reflectance with N status in leaves of grain sorghum, to develop indices for interpretation of the results and to predict chlorophyll content. Nitrogen stress decreased chlorophyll meter reading and leaf N content, but increased leaf and canopy reflectance. The SPAD values were significantly increased by both water and …
Genome-Wide Association Mapping Of Qualitatively
Inherited Traits In A Germplasm Collection,
2016
University of Nebraska-Lincoln
Genome-Wide Association Mapping Of Qualitatively Inherited Traits In A Germplasm Collection, Nonoy B. Bandillo, Aaron J. Lorenz, George L. Graef, Diego Jarquin, David L. Hyten, Randall L. Nelson, James E. Specht
Department of Agronomy and Horticulture: Faculty Publications
Genome-wide association (GWA) has been used as a tool for dissecting the genetic architecture of quantitatively inherited traits. We demonstrate here that GWA can also be highly useful for detecting many major genes governing categorically defined phenotype variants that exist for qualitatively inherited traits in a germplasm collection. Genome-wide association mapping was applied to categorical phenotypic data available for 10 descriptive traits in a collection of ~13,000 soybean [Glycine max (L.) Merr.] accessions that had been genotyped with a 50,000 single nucleotide polymorphism (SNP) chip. A GWA on a panel of accessions of this magnitude can offer substantial statistical …
Dioxygenase-Encoding Atdao1 Gene Controls Iaa
Oxidation And Homeostasis In Arabidopsis,
2016
University of Nottingham
Dioxygenase-Encoding Atdao1 Gene Controls Iaa Oxidation And Homeostasis In Arabidopsis, Silvana Porco, Aleš Pěnčík, Afaf Rashed, Ute Voβ, Rubén Casanova-Sáez, Anthony Bishop, Agata Golebiowska, Rahul Bhosale, Ranjan Swarup, Kamal Swarup, Pavlína Penáková, Ondrej Novák, Paul E. Staswick, Peter Hedden, Andrew L. Phillips, Kris Vissenberg, Malcolm J. Bennett, Karin Ljung
Department of Agronomy and Horticulture: Faculty Publications
Auxin represents a key signal in plants, regulating almost every aspect of their growth and development. Major breakthroughs have been made dissecting the molecular basis of auxin transport, perception, and response. In contrast, how plants control the metabolism and homeostasis of the major form of auxin in plants, indole-3- acetic acid (IAA), remains unclear. In this paper, we initially describe the function of the Arabidopsis thaliana gene DIOXYGENASE FOR AUXIN OXIDATION 1 (AtDAO1). Transcriptional and translational reporter lines revealed that AtDAO1 encodes a highly root-expressed, cytoplasmically localized IAA oxidase. Stable isotope-labeled IAA feeding studies of loss and …
A Population Of Deletion Mutants And An Integrated Mapping And Exome-Seq Pipeline For Gene Discovery In Maize,
2016
University of Nebraska-Lincoln
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 …
