Other Plant Sciences Commons^™

Molecular Mapping Of Soybean Rust Resistance In Soybean Accession Pi 561356 And Snp Haplotype Analysis Of The Rpp1 Region In Diverse Germplasm, Ki-Seung Kim, Jair R. Unfried, D. L. Hyten, Reid D. Frederick, Glen L. Hartman, Randall L. Nelson, Qijian Song, Brian W. Diers

Department of Agronomy and Horticulture: Faculty Publications

Soybean rust (SBR), caused by Phakopsora pachyrhizi Sydow, is one of the most economically important and destructive diseases of soybean [Glycine max (L.) Merr.] and the discovery of novel SBR resistance genes is needed because of virulence diversity in the pathogen. The objectives of this research were to map SBR resistance in plant introduction (PI) 561356 and to identify single nucleotide polymorphism (SNP) haplotypes within the region on soybean chromosome 18 where the SBR resistance gene Rpp1 maps. One-hundred F_2:3 lines derived from a cross between PI 561356 and the susceptible experimental line LD02-4485 were genotyped with genetic …

Advances In Genome Sequencing And Genotyping Technology For Soybean Diversity Analysis, David L. Hyten

Department of Agronomy and Horticulture: Faculty Publications

The completion of a soybean draft whole genome sequence along with advances in sequencing and genotyping technologies are creating a revolution in soybean genomics. The draft whole genome sequence of soybean is allowing researchers to fully take advantage of this new technology and is rapidly changing how soybean germ plasm is mined. Genetic markers such as SNPs can be quickly identified by using next generation sequencing and assayed on a large number of materials using advanced technologies that can genotype tens of thousands of markers on thousands of individuals very rapidly. This ability to qUickly identify and genotype genetic diversity …

High-Resolution Mapping Of Open Chromatin In The Rice Genome, Wenli Zhang, Yufeng Wu, James C. Schnable, Zixian Zeng, Michael Freeling, Gregory E. Crawford, Jiming Jiang

Department of Agronomy and Horticulture: Faculty Publications

Gene expression is controlled by the complex interaction of transcription factors binding to promoters and other regulatory DNA elements. One common characteristic of the genomic regions associated with regulatory proteins is a pronounced sensitivity to DNase I digestion. We generated genome-wide high-resolution maps of DNase I hypersensitive (DH) sites from both seedling and callus tissues of rice (Oryza sativa). Approximately 25% of the DH sites from both tissues were found in putative promoters, indicating that the vast majority of the gene regulatory elements in rice are not located in promoter regions. We found 58% more DH sites in …

Enantioselective Demethylation: The Key To The Nornicotine Enantiomeric Composition In Tobacco Leaf, Bin Cai

Theses and Dissertations--Plant and Soil Sciences

Nicotine and nornicotine are the two main alkaloids that accumulate in Nicotiana tabacum L. (tobacco), and nornicotine is the N-demethylation metabolite of nicotine. Nicotine is synthesized in the root, and probably primarily in the root tip. Both nicotine and nornicotine exist as two isomers that differ from each other by the orientation of H atom at the C-2' position on the pyrrolidine ring. (S)-nicotine is the dominant form in tobacco leaf and the enantiomer fraction of nicotine (EF_nic), the fraction of (R)-enantiomer over the total nicotine, is approximately 0.002. Despite considerable efforts to elucidate nicotine and nornicotine …

0795: Dr. Robert P. Alexander Collection, 1880-2000, Marshall University Special Collections

Guides to Manuscript Collections

Dr. Robert P. Alexander graduated from Marshall University in 1959. After graduating, Dr. Alexander was hired by Marshall University and traveled to the eastern panhandle of West Virginia to recruit prospective students. It was here he became interested in the town of Cass, WV. In 1969, Dr. Alexander completed his doctorate and became a professor of management and marketing. Dr. Alexander was also the Dean of Marshall University’s College of Business and also served sixteen years on Huntington, WV’s city council. In 1975 Dr. Alexander returned to Cass and created a living history of both the town and timbering industry …

Assessing Biodegradable Containers For Growing Long-Term Greenhouse Crops In Subirrigation System, Stephanie A. Beeks

Graduate Theses and Dissertations

The objective for this research was to assess the efficacy of biodegradable containers compared to plastic containers for the production of long-term crops using a subirrigation system. Plastic and various biocontainers were used to grow `Rainier Purple' cyclamen (Cyclamen persicum L.) in ebb-and-flood benches. After 15 weeks, the physical properties of the containers were tested. The used plastic containers had strengths of 23.3, 23.5 and 21.9 g for the bottom, middle and top zones respectively. The peat, dairy manure and wood fiber containers had strengths of less than 2 kg for each zone. The peat, dairy manure, wood fiber and …

Foliar Symptoms Of Acute Ozone Injury And Exposure Response Characteristics Of Select Native Perennials, Susan Denise Frey

Graduate Theses and Dissertations

Twenty seven perennial species native to the Eastern Temperate Forests Level I Ecoregion were exposed to an acute ozone (O3) treatment consisting of a target peak O3 concentration of 2.0 ppm for 30 minutes in a closed chamber environment, during the summer of 2010. Plants were evaluated for visible foliar injury symptoms and symptoms were described and photographically documented. Ten of the 27 species developed visible foliar injury in which interspecific and intraspecific response to O3 was observed. A severity index was used to compare response to acute ozone exposure for the ten species displaying visible foliar injury. Species showing …

Nebline, November/December 2011

NEBLINE Newsletter Archive from Nebraska Extension in Lancaster County

Feature: Avoid Guessing About Holiday Food Safety

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Heritable Epigenetic Variation Among Maize Inbreds, Steve R. Eichten, Ruth A. Swanson, James C. Schnable, Amanda J. Waters, Peter J. Hermanson, Sanzhen Liu, Cheng-Ting Yeh, Yi Jia, Karla Gendler, Michael Freeling, Patrick S. Schnable, Matthew W. Vaughn, Nathan M. Springer

Department of Agronomy and Horticulture: Faculty Publications

Epigenetic variation describes heritable differences that are not attributable to changes in DNA sequence. There is the potential for pure epigenetic variation that occurs in the absence of any genetic change or for more complex situations that involve both genetic and epigenetic differences. Methylation of cytosine residues provides one mechanism for the inheritance of epigenetic information. A genome-wide profiling of DNA methylation in two different genotypes of Zea mays (ssp. mays), an organism with a complex genome of interspersed genes and repetitive elements, allowed the identification and characterization of examples of natural epigenetic variation. The distribution of DNA methylation …

Effects Of Herbicides And Grazing On Floristic Quality Of Native Tallgrass Pastures In Eastern South Dakota And Southwestern Minnesota, Alexander J. Smart, Matthew J. Nelson, Peter J. Bauman, Gary E. Larson

Great Plains Research: A Journal of Natural and Social Sciences (through 2013)

Historic herbicide use and grazing have influenced natural diversity and quality of native pasturelands in the Great Plains. Floristic quality assessments are useful to assist agencies in prioritizing conservation practices to enhance native grasslands. The objective of this study was to determine the effects of past land-use practices on the floristic quality of remnant native pastures in eastern South Dakota and southwestern Minnesota. Floristic quality assessments were conducted on 30 native pastures and categorized by past management practices (herbicide application and grazing intensity). Mean coefficient of conservatism (C) and floristic quality index (FQI) were calculated for each site~Results showed that …

Review Of Grass: In Search Of Human Habitat. By Joe C. Truett. Foreword By Harry W. Greene., Mary Ann Vinton

Great Plains Research: A Journal of Natural and Social Sciences (through 2013)

Much of the book is devoted to discussing the heavy human dependence on grasslands and whether this relationship can be maintained in company with grassland conservation. Can humans continue to use grasslands for food, fiber, and newer uses like biofuels and carbon banking while still sustaining the ecosystem? Many of us in academic ecology struggle with resolving perceived conflicts between conservation and human grassland use. In many cases, a "win-win" scenario exists in which, for example, the proper use of livestock grazing is perfectly compatible with a healthy grassland ecosystem. In other cases, such as conserving prairie dog populations, tensions …

Nebline, October 2011

NEBLINE Newsletter Archive from Nebraska Extension in Lancaster County

Feature: What is Your Energy IQ?

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Miscanthus 3 Giganteus Productivity: The Effects Of Management In Different Environments, Matt Maughan, German Bollero, D.K. Lee, Robert Darmody, Stacy Bonos, Laura Cortese, James Murphy, Roch E. Gaussoin, Matthew Sousek, David Williams, Linda Williams, Fernando Miguez, Thomas Voigt

Department of Agronomy and Horticulture: Faculty Publications

Miscanthus 9 giganteus is a C4 perennial grass that shows great potential as a high-yielding biomass crop. Scant research has been published that reports M. 9 giganteus growth and biomass yields in different environments in the United States. This study investigated the establishment success, plant growth, and dry biomass yield of M. 9 giganteus during its first three seasons at four locations (Urbana, IL; Lexington, KY; Mead, NE; Adelphia, NJ) in the United States. Three nitrogen rates (0, 60, and 120 kg ha -1) were applied at each location each year. Good survival of M. 9 giganteus during its first …

Nebline, September 2011

NEBLINE Newsletter Archive from Nebraska Extension in Lancaster County

Feature: 4-H Helps Build Successful Scientists

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Peach Leaf Curl Disease, Claudia Nischwitz

All Current Publications

No abstract provided.

Nebline, August 2011

NEBLINE Newsletter Archive from Nebraska Extension in Lancaster County

Feature: For Many 4-H Families, County Fair is Quality Time Together

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Lancaster County Super Fair Schedule & Map Special Pullout Section

Nebline, July 2011

NEBLINE Newsletter Archive from Nebraska Extension in Lancaster County

Feature: Urban Agriculture is a Growing Trend

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Nebline, June 2011

NEBLINE Newsletter Archive from Nebraska Extension in Lancaster County

Feature: Lower Platte South Natural Resources District Trails in Lancaster County Offer Recreation & Education

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Creating An Environmental Placed Based Education At Norris Elementary, Ben Kittrell

Department of Environmental Studies: Undergraduate Student Theses

This study is focused on creating a place based education program. Place based education programs provide many benefits at the personal level with the students (PBEEC). The study was completed at Norris Elementary School where the students have access to the “Norris Forest” which is a planted forest with a walk way through the trees. Some of the trees are labeled for the students to identify and others are not. A graph of the unlabelled trees has been included for the students or the teachers to use.

This project incorporates activities that will engage the students in order to teach …

Nebline, May 2011

NEBLINE Newsletter Archive from Nebraska Extension in Lancaster County

Feature: Nature, Gardening & Science Come Together in the Butterfly Garden

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Screening Synteny Blocks In Pairwise Genome Comparisons Through Integer Programming, Haibao Tang, Eric Lyons, Brent S. Pedersen, James C. Schnable, Andrew H. Paterson, Michael Freeling

Department of Agronomy and Horticulture: Faculty Publications

Background:

It is difficult to accurately interpret chromosomal correspondences such as true orthology and paralogy due to significant divergence of genomes from a common ancestor. Analyses are particularly problematic among lineages that have repeatedly experienced whole genome duplication (WGD) events. To compare multiple “subgenomes” derived from genome duplications, we need to relax the traditional requirements of “one-to-one” syntenic matchings of genomic regions in order to reflect “one-to-many” or more generally “many-to-many” matchings. However this relaxation may result in the identification of synteny blocks that are derived from ancient shared WGDs that are not of interest. For many downstream analyses, we …

Nebline, April 2011

NEBLINE Newsletter Archive from Nebraska Extension in Lancaster County

Feature: Supplemental Kits Make Learning Nutrition Fun

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A First Insight Into Population Structure And Linkage Disequilibrium In The U.S. Peanut Minicore Collection, Vikas Belamkar, Michael Gomez Selvaraj, Jamie L. Ayers, Paxton R. Payton, Naveen Puppala, Mark D. Burow

Department of Agronomy and Horticulture: Faculty Publications

Knowledge of genetic diversity, population structure, and degree of linkage disequilibrium (LD) in target association mapping populations is of great importance and is a prerequisite for LD-based mapping. In the present study, 96 genotypes comprising 92 accessions of the US peanut minicore collection, a component line of the tetraploid variety Florunner, diploid progenitors A. duranensis (AA) and A. ipaënsis (BB), and synthetic amphidiploid accession TxAG-6 were investigated with 392 simple sequence repeat (SSR) marker bands amplified using 32 highly-polymorphic SSR primer pairs. Both distance- and model-based (Bayesian) cluster analysis revealed the presence of structured diversity. In general, the wild-species accessions …

Genes Identified By Visible Mutant Phenotypes Show Increased Bias Toward One Of Two Subgenomes Of Maize, James C. Schnable, Michael Freeling

Department of Agronomy and Horticulture: Faculty Publications

Not all genes are created equal. Despite being supported by sequence conservation and expression data, knockout homozygotes of many genes show no visible effects, at least under laboratory conditions. We have identified a set of maize (Zea mays L.) genes which have been the subject of a disproportionate share of publications recorded at MaizeGDB. We manually anchored these ‘‘classical’’ maize genes to gene models in the B73 reference genome, and identified syntenic orthologs in other grass genomes. In addition to proofing the most recent version 2 maize gene models, we show that a subset of these genes, those that …

Dose–Sensitivity, Conserved Non-Coding Sequences, And Duplicate Gene Retention Through Multiple Tetraploidies In The Grasses, James C. Schnable, Brent S. Pedersen, Sabarinath Subramaniam, Michael Freeling

Department of Agronomy and Horticulture: Faculty Publications

Whole genome duplications, or tetraploidies, are an important source of increased gene content. Following whole genome duplication, duplicate copies of many genes are lost from the genome. This loss of genes is biased both in the classes of genes deleted and the subgenome from which they are lost. Many or all classes are genes preferentially retained as duplicate copies are engaged in dose sensitive protein–protein interactions, such that deletion of any one duplicate upsets the status quo of subunit concentrations, and presumably lowers fitness as a result. Transcription factors are also preferentially retained following every whole genome duplications studied. This …

Nebline, March 2011

NEBLINE Newsletter Archive from Nebraska Extension in Lancaster County

Feature: Connect, Learn, and Share With Extension

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Weed Awareness Insert

Nebline, February 2011

NEBLINE Newsletter Archive from Nebraska Extension in Lancaster County

Feature: Got Bed Bugs? Don't Panic! There are Steps You Can Take

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The N-Terminal Region Of Wheat Streak Mosaic Virus Coat Protein Is A Host- And Strain-Specific Long-Distance Transport Factor, Satyanarayana Tatineni, David H. Van Winkle, Roy French

Department of Plant Pathology: Faculty Publications

Understanding the genetics underlying host range differences among plant virus strains can provide valuable insights into viral gene functions and virus-host interactions. In this study, we examined viral determinants and mechanisms of differential infection of Zea mays inbred line SDp2 by Wheat streak mosaic virus (WSMV) isolates. WSMV isolates Sidney 81 (WSMV-S81) and Type (WSMV-T) share 98.7% polyprotein sequence identity but differentially infect SDp2: WSMV-S81 induces a systemic infection, but WSMV-T does not. Coinoculation and sequential inoculation of SDp2 with WSMV-T and/or WSMV-S81 did not affect systemic infection by WSMV-S81, suggesting that WSMV-T does not induce a restrictive defense response …

A Rain Garden Grows In Bridgeport, Michael Dietz

Wrack Lines

Rain gardens can be used to help communities adapt to climate change. A warmer New England means more precipitation, which means more polluted runoff water--unless a rain garden, planted in a depression, can sequester the excess water and use it to grow attractive plants.

Co-Culture Of Yeast Antagonists Of Fusarium Head Blight And Their Effect On Disease Development In Wheat, D. A. Schisler, P. J. Slininger, Michael J. Boehm, P. A. Paul

Department of Plant Pathology: Faculty Publications

Multistrain mixtures of biocontrol agents which can reduce plant disease to a greater extent than the individual strains of the mixture, commonly, are prepared by blending separately produced fermentation products. Co-cultivation of strains to equivalent biomass yields would provide mixture advantages without incurring the cost disadvantages of multiple fermentation and processing protocols. Fusariwn Head Blight (FHB) antagonists Cryptococcus flavescens OR 182.9 (NRRL Y-302l6), C. aureus OH 181.1 (NRRL Y-302l5) and C. aureus OR 181.1 (NRRL Y -30215), were grown in two- and three-strain co-cultures to assess the quality and efficacy of the fermentation end products produced. Final cell counts of …