Life Sciences Commons^™

Qualitative Analysis Of Grocery Store And Farmers Market Manager Perceptions Regarding Use Of Fruit And Vegetable Educational Materials, Lacey Mccormack, Shelly Brandenburger, Karlys Wells, Suzanne Stluka

Health and Nutritional Sciences Faculty Publications

The Pick it! Try it! Like it! (PTL) educational resource set, developed to display in grocery stores and farmers markets, teaches individuals how to shop for and prepare healthy fruit and vegetable dishes. Because program buy-in must be obtained from location managers before implementation occurs, the purpose of this study was to qualitatively examine the perceptions that grocery store and farmers market managers have regarding PTL implementation. Locations that requested PTL materials during 2013-14 were contacted and asked to answer 13 questions. Responses were analyzed using the content analysis method with themes generated and frequencies reported. Analyses examined manager perceptions …

Using “Photovoice” To Identify Rural Community Food Issues, Lisa Franzen-Castle, Tara Shafrath, Lindsay Moore, Ann Schwader, Daniel T. Remley, Suzanne Stluka

Health and Nutritional Sciences Faculty Publications

Rural communities experience unique barriers to food security. Developing food policy councils (FPCs) is a systematic approach to address food security. FPCs bring together a diverse network of community stakeholders to address local food system strengths and concerns. A six-state team developed new or provided support to existing FPCs in rural communities. Photovoice is a project component used to engage youths, helped identify community food issues, such as food access and affordability in studied communities. Furthermore, it was meant to engage FPCs in meaningful dialogue to identify solutions, such as community gardens and work with local food pantries. Because of …

Comparison Of Three Assembly Strategies For A Heterozygous Grapevine Genome Assembly, Sagar Patel, Erliang Zeng, Zhixiu Lu, Xiaozhu Jin, Padmapriya Swaminathan, Anne Fennell

Comparison of Three Assembly Strategies for a Heterozygous Grapevine Genome Assembly

Each folder includes the following files.

1. Assembly.fa: Genome assembly in scaffolds.
2. Blast2GO_results.b2g: The full annotation of coding sequences.
3. Coding_sequences.fa: The predicted coding sequences from masked assembly.
4. Gene_models.gff: Gene predictions from masked assembly.
5. Masked_assembly.fa: The masked genome assembly.
6. Protein.fa: The predicted protein sequences.

PLAT*_GC contains chromosomal assembly and annotation as "pseudo_chromosomal_assembly" folder.

SnpEff folder contains results from SnpEff as SnpEff_summary, genes affected are described as vini_snp.txt.genes and vini_snpeff is output from SnpEff.

Jackrabbit Dairy And Food Review, Vikram V. Mistry

The Jackrabbit Dairy & Food Review

This is the Winter 2017- 2018 Jackrabbit Dairy and Food Review.
It contains the following articles and information: Message from the Department Head, 2017 Graduates, New Faculty and Visitors, information on the Dairy Club and Food Science Club, Judging Activities, Student Accomplishments, Professional Activities of Faculty and Staff, Distinguished Alumni, Dairy Facilities, a list of Scholarships and Dairy and Food Science Students, information on Departmental Outreach and Research Highlights.

Quantifying Undisturbed (Native) Lands In Northwestern South Dakota: 2013, Pete Bauman, Benjamin Carlson, Tanner Butler, Brad Richardson

Quantifying Undisturbed (Native) Lands in Northwestern South Dakota: 2013

We employed simple GIS methods primarily utilizing the South Dakota Farm Service Agency’s Common Land Unit (CLU) data layers from 2013 and the 2012 United States Department of Agriculture (USDA) National Agriculture Imagery Program (NAIP) county mosaic aerial imagery to evaluate 7,347,812 acres of land in northwestern South Dakota. The analysis area includes: Harding, Perkins, and Butte counties along with portions of Lawrence and Meade counties outside of the Black Hills Core Highlands and Plateau Ecoregions.

We utilized the FSA CLU data layer queried to show current and former cropland to identify and remove any areas with cropping history regardless …

Immunization By Radiotherapy: Enhancing An Immune-Mediated Abscopal Effect, Amy Steffen

Biology and Microbiology Graduate Students Plan B Research Projects

Radiotherapy aims to destroy tumors by inducing DNA damage in their cells at the local irradiation site. Its immune-mediated systemic effects, called abscopal effect, has shown to enhance anti-tumor immunity when combined with immune therapies and thus, have gained attention by researchers and clinicians to investigate. Below is a summary of the fundamentals of cancer and the immune system’s response to it, as well as the changes in the phenotype and microenvironment of tumor cells after exposure to radiation. Impacts of the abscopal effect and the induction of effective antitumor immunity with various immune therapy strategies will be outlined. The …

Increasing The Clinical Efficacy Of Radiotherapeutics For Solid Tumors By Inhibition Of Hypoxia Inducible Factor-1a, Austin Levi Walz

Biology and Microbiology Graduate Students Plan B Research Projects

Radiotherapy is commonly used in a variety of tumor types and is effective in control of long term progression and may be curative under certain circumstances. Radiotherapeutics have been shown to be the single most effective therapeutic for cancer and only account for 5% of the total cost. However, treatment of cells with radiation causes the tumor microenvironment to undergo changes and leads to cycles of hypoxia inside the tumor which allows for the cell to undergo angiogenesis, metastasize and may lead to repopulation of the tumor. Current systemic chemotherapeutics typically have an additive toxicity due to the unintended targeting …

A Biological Review Of Mental Illness: An Overview Of Genetics And Pathophysiology Of Schizophrenia, Major Depression, And Addiction, Christopher R. Angerhofer

Biology and Microbiology Graduate Students Plan B Research Projects

Novel approaches in understanding mental illness present solutions to current issues in treatment and diagnosis. With advancements in genetics and neurology, the etiology and pathophysiology of mental illness is slowly unwrapping. In discovering biomarkers for depression, addiction, and schizophrenia, the precision for preventing, diagnosing, and treating these disorders increases. The aim of this paper is to review current research for addiction, major depression, and schizophrenia in genetics and physiology, while also clarifying the need for reclassifying mental illness as diseases with a pathophysiological basis, not syndromal, idiopathic disorders. Mental illness is dynamic in that it encompasses both environmental and biological …

Transcranial Magnetic Stimulaton: In-Depth Review Of Methods, Efficacy And Future Applications, Matthew Carpenter

Biology and Microbiology Graduate Students Plan B Research Projects

Transcranial magnetic stimulation (TMS) has been regarded as a novel technique of neuromodulation with applications that span from the treatment of depression or depression related symptoms to the mapping of cerebral regions. This review takes an in depth look into the different forms of magnetic stimulation including repetitive TMS, theta-burst stimulation, and navigated TMS. The efficacy of these different forms of stimulation is addressed as well as comparisons made to current standards being used. Potential clinically relevant future applications of TMS are also discussed from the treatment of obsessive compulsive disorder to improving motor function after stroke. The purpose of …

A Review Of Multiple Sclerosis Treatments: Interferon Beta, Glatiramer Acetate, Fingolimod, And Natalizumab, Ryan Golden

Biology and Microbiology Graduate Students Plan B Research Projects

Multiple Sclerosis (MS) is an autoimmune disease in which the body’s own immune system works to demyelinate the myelin sheaths in the central nervous system. The beginning of the review will concentrate on the history of MS while also describing how MS, the disease, differs from that of normal immune responses. The review then shifts to the four different stages of MS and how to differentiate between the stages, since the treatment options are often dependent on the stage of MS that the patient is in. The main focus of this review is to take an in depth look on …

Development Of Vegetation Mapping With Deep Convolutional Neural Network, Sae-Han Suh

Electronic Theses and Dissertations

The Precision Agriculture plays a crucial part in the agricultural industry about improving the decision-making process. It aims to optimally allocate the resources to maintain the sustainable productivity of farmland and reduce the use of chemical compounds. [17] However, the on-site inspection of vegetations often falls to researchers’ trained eye and experience, when it deals with the identification of the non-crop vegetations. Deep Convolution Neural Network (CNN) can be deployed to mitigate the cost of manual classification. Although CNN outperforms the other traditional classifiers, such as Support Vector Machine, it is still in question whether CNN can be deployable in …

Identifying And Characterizing Salt-Tolerant Alfalfa (Medicago Sativa Subsp Falcata Germplasm, Katelin E. Frerichs, Lan Xu

Natural Resource Management Faculty Publications

Soil salinity limits plant growth and crop production. More than 20% of cultivated land worldwide is affected by salinity. The situation is becoming more severe due to shifts in precipitation and evaporation patterns and improper irrigation. There is an urgent need to develop salt-tolerant, economically valuable plants to minimize the loss of and to sustain agricultural production. Alfalfa is one of the most extensively cultivated forage crops. Some yellow-flowered alfalfa (Medicago sativa subsp. falcata) have exhibited morphological and physiological drought tolerance. Since soil salinity is associated with physiological drought, it is reasonable to expect that these drought tolerant falcata populations …

Propelled Abrasive Grit For Weed Control In Organic Silage Corn, Mauricio Erazo-Barradas, Fran Forcella, Dan Humburg

Agronomy, Horticulture and Plant Science Faculty Publications

Weed management in organic farming requires many strategies to accomplish acceptable control and maintain crop yields. This 2-yr field study used air propelled abrasive grit for in-row weed control in organically certified silage corn (Zea mays L.). Corncob grit was applied as a single application at corn vegetative growth stages V1 (one true leaf; numbers correspond to number of true leaves at the corn vegetative stage), V3, or V5 (in 2013) and V3, V5, and V7 (in 2014) and in double and triple combinations at these stages. Between-row weed control was accomplished by flaming or cultivation after the last grit …

Growing South Dakota (Winter 2018), College Of Agriculture &. Biological Sciences

Growing South Dakota (Publication of the College of Agriculture, Food and Environmental Sciences)

[Page] 2 Learn About Our Leaders
[Page] 4 Academic Programs at a Glace
[Page] 6 New Precision Ag Major Takes Off
[Page] 9 Raven Gives $5 Million Gift
[Page] 10 New Plant Science Research Facility
[Page] 13 Technical Training to Four-Year Degree
[Page] 15 Ag-Bio Career Fair Hits Record
[Page] 16 Breaking Ground : SD ADRDL
[Page] 19 Distinguished Professor Eric Nelson
[Page] 20 SDSU’s Veterinary Students
[Page] 24 Conservation Planning and Park Management
[Page] 25 Natural Resource Law Enforcement
[Page] 26 Medical Stethoscope Ceremony
[Page] 29 Master’s Degree in Human Biology
[Page] 30 Scott Pedersen Prepares Students
[Page] 32 …

Isolation Of Potential Photosynthetic N2-Fixing Microbes From Topsoil Of Native Grasslands In South Dakota, Nanfang Wang, Shengni Tian, Liping Gu, Lan Xu, Yeyan Qiu, Trevor Van Den Top, Jose L. Gonzalez-Hernandez, Michael B. Hildreth, Shaoshan Li, Runbao Zhou

Natural Resource Management Faculty Publications

Nitrogen fertilizer is one of the most limiting factors and costly inputs in agriculture production. Current fossil fuel-dependent ammonia production is both energy intensive and environmentally damaging. An economically practical and environmentally friendly solution for the production of ammonia is urgently needed. Solar-powered N2-fixing cyanobacteria provide a unique opportunity and promise for applications in agriculture compared to all other N2-fixing bacteria that cannot use solar energy. Isolation of nitrogen-fixing microbes from the topsoil of native grasslands may have the potential to use them in crop fields as living ammonia factories. This may be a mechanism to free farmers from heavy …

Impacts Of Strategic Grazing And Fire On Soil Seed Bank Heterogeneity In Mixed-Grass Prairie, Kassidy Weathers, Lan Xu, Patricia Johnson

Natural Resource Management Faculty Publications

Native plant communities in the Northern Great Plains evolved under periodic fire and substantial grazing pressure from native herbivores, two main drivers maintaining the heterogeneity of grassland ecosystems. However, contemporary management practices focus on maximizing livestock production through fire suppression and uniform grazing strategies, resulting in decreased vegetation heterogeneity, species richness, wildlife habitat, and biodiversity. Objectives of this study were to evaluate and compare the effectiveness of patch-burn grazing (PBG) and winter-patch grazing (WPG) managements on soil seed bank heterogeneity in terms of species 1) richness, 2) composition, 3) abundance, and 4) diversity. Two soil cores (10-cm dia × 10-cm …

Evaluation Of Tannins And Anthocyanins In Marquette, Frontenac, And St. Croix Cold-Hardy Grape Cultivars, Somchai Rice, Jacek A. Koziel, Murlidhar Dharmadhikari, Anne Fennell

Agronomy, Horticulture and Plant Science Faculty Publications

Cold-hardy grape cultivars have become popular in northern regions. Wines from these cultivars are low in tannins and lighter in color compared to Vitis vinifera. The northern regions are striving to enhance desired ″full body″ and red color qualities in the wine produced from cold-hardy grapes. The objective of this study was to compare tannin and pigment content in skins and seeds of three cold-hardy red grape cultivars, at two time points, from two locations, using the Adams-Harbertson (A-H) assay. The A-H assay is based on protein precipitation and spectrophotometry. Total tannin concentrations detected in Frontenac, Marquette, and St. Croix …

Comparison Of Three Assembly Strategies For A Heterozygous Seedless Grapevine Genome Assembly, Sagar Patal, Zhixiu Lu, Xiaozhu Jin, Padmapriya Swaminathan, Erliang Zeng, Anne Y. Fennell Dr

Agronomy, Horticulture and Plant Science Faculty Publications

Background
De novo heterozygous assembly is an ongoing challenge requiring improved assembly approaches. In this study, three strategies were used to develop de novo Vitis vinifera ‘Sultanina’ genome assemblies for comparison with the inbred V. vinifera (PN40024 12X.v2) reference genome and a published Sultanina ALLPATHS-LG assembly (AP). The strategies were: 1) a default PLATANUS assembly (PLAT_d) for direct comparison with AP assembly, 2) an iterative merging strategy using METASSEMBLER to combine PLAT_d and AP assemblies (MERGE) and 3) PLATANUS parameter modifications plus GapCloser (PLAT*_GC).
Results
The three new assemblies were greater in size than the AP assembly. PLAT*_GC had the …

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, Anne Fennell Dr

Agronomy, Horticulture and Plant Science Faculty Publications

Understanding the aroma profile of wines made from cold climate grapes is needed to help winemakers produce quality aromatic wines. The current study aimed to add to the very limited knowledge of aroma-imparting compounds in wines made from the lesser-known Frontenac and Marquette cultivars. Headspace solid-phase microextraction (SPME) and gas chromatography-mass spectrometry (GC-MS) with simultaneous olfactometry was used to identify and quantify selected, aroma-imparting volatile organic compounds (VOC) in wines made from grapes harvested at two sugar levels (22° Brix and 24° Brix). Aroma-imparting compounds were determined by aroma dilution analysis (ADA). Odor activity values (OAV) were also used to …

Mob Vs. Rotational Grazing: Impact On Forage Use And Artemisia Absinthium, Heidi Reed, Alexander Smart, David E. Clay, Michelle Ohrtman, Sharon A. Clay

Agronomy, Horticulture and Plant Science Faculty Publications

Short duration (≤24 h), high stocking density grazing systems (e.g., mob grazing) mimics historic prairie grazing patterns of American bison (Bison bison), and should minimize selective grazing. We compared mob [125 cow-calf pairs on either 0.65 ha for 12 h; or 1.3 ha for 24 h] vs. rotational [25 cow-calf pairs on 8.1 ha for 20 days starting in mid-May with or without 2,4-D application prior to grazing; and 15 days starting mid-April (no herbicide)] grazing systems based on forage utilization and impact to Artemisia absinthium (absinth wormwood) in a tall grass pasture of Eastern South Dakota. Grass …

Development Of Biclustering Techniques For Gene Expression Data Modeling And Mining, Juan Xie

Electronic Theses and Dissertations

The next-generation sequencing technologies can generate large-scale biological data with higher resolution, better accuracy, and lower technical variation than the arraybased counterparts. RNA sequencing (RNA-Seq) can generate genome-scale gene expression data in biological samples at a given moment, facilitating a better understanding of cell functions at genetic and cellular levels. The abundance of gene expression datasets provides an opportunity to identify genes with similar expression patterns across multiple conditions, i.e., co-expression gene modules (CEMs). Genomescale identification of CEMs can be modeled and solved by biclustering, a twodimensional data mining technique that allows clustering of rows and columns in a gene …

Nutritional Value Of Modified Novel Oilseed Meals In Teleost Diets, Tom Kasiga

Electronic Theses and Dissertations

Carinata Brassica carinata and camelina Camelina sativa are being genetically modified to improve their composition for biofuel production and other agricultural applications. After oil extraction, the residual de-oiled meals (40%) in protein. However, their inclusion in animal feeds is limited to 10% because of high levels of antinutritional factors (ANFs), mainly glucosinolates (GLS), sinapine, and crude fiber that limit diet intake, nutrient utilization, and lower thyroxine production, resulting in reduced growth. The nutritional value of carinata and camelina seed meals to fish were assessed by subjecting cold pressed (CP) carinata and camelina meals to extrusion (EX), solvent extraction (SE) and …

Evaluation Of Methods Used To Improve Grasslands As Ring-Necked Pheasant (Phasianus Colchicus) Brood Habitat, Mandy Orth

Electronic Theses and Dissertations

Management practices designed for upland game species often focus on nest survival and hen winter survival due to the importance of these life history stages on population vital rates. However, chick survival is an important component of gallinaceous bird population dynamics, but it is poorly understood and often tends to be overlooked. Ideal brood habitat not only provides open understory for easy movement and canopy cover for protection, but also provides an abundance of arthropod foods for chicks. It has been hypothesized that restricted movement of chicks through thick vegetation in unmanaged grasslands results in lower brood survival rates. Research …

Modeling Soil Organic Carbon In Select Soils Of Southeastern South Dakota, Shaina Westhoff

Electronic Theses and Dissertations

Soil organic matter (SOM) is composed of living biomass, dead plant and animal residues, and humus. Humus is a class of complex, organic molecules that are largely responsible for improving soil water holding capacity, nutrient mineralization, nutrient storage, and other critical soil functions. Soil organic carbon (SOC) accounts for approximately 60 percent of SOM and thus SOC is recognized as a strong indicator of soil health. Land use changes and intense cultivation of arable soils in the United States over the past century have led to large decreases in SOM. The objective of this research was to develop a multiple …

Distribution, Ecology, Disease Risk, And Genetic Diversity Of Swift Fox (Vulpes Velox) In The Dakotas, Emily Louise Mitchell

Electronic Theses and Dissertations

The swift fox (Vulpes velox), a native species once abundant throughout the Northern Great Plains (NGP), has declined due to changes in land use, historic predator eradication programs, and predation by larger canid species. Currently, the species is estimated to occupy 44% of its historic range. In the NGP, the status of the swift fox varies by state, ranging from furbearer to endangered species. However, knowledge of the current status of swift foxes in the NGP is lacking due to an absence of systematic population monitoring. Improving the current state of knowledge concerning swift fox populations in the …

Evaluating Bighorn Sheep Herd Response After Selective Removal Of Mycoplasma Ovipneumoniae Chronic Shedders, Tyler J. Garwood

Electronic Theses and Dissertations

Infected individuals vary in their contribution to disease persistence, and chronically infected individuals may sustain disease in a population. One disease that might persist in a population through chronically infected individuals is pneumonia in wild sheep. Mycoplasma ovipneumoniae (Mo), a pathogen of Caprinae commonly present in domestic sheep and goats, strongly correlates with pneumonia epizootics when it infects wild sheep populations. These epizootics can cause 40-100% herd mortality in an initial all-age dieoff, precipitate annual lamb mortality as high as 100% in following years, and sustain adult mortality long after initial all-age dieoffs. We conducted an experiment in the Black …

Aspects Of White-Tailed Deer Ecology And Management: Effects Of Imidacloprid And An Evaluation Of Management At Great Swamp National Wildlife Refuge, Elise Hughes Berheim

Electronic Theses and Dissertations

White-tail deer (Odocoileus virginianus) are an economically and recreationally important species throughout their range, and understanding their ecology to implement beneficial management techniques is invaluable. This thesis focused on two studies 1) the effect of Imidacloprid on adult female and fawn physiology and 2) an evaluation of techniques to monitor white-tailed deer at Great Swamp National Wildlife Refuge (GSNWR). Imidacloprid, a widely-used pesticide, has been linked to lethal and sub-lethal effects in insects and small vertebrates, however, no research has been conducted on white-tailed deer. Twenty captive pregnant adult female and subsequent fawns housed at the South Dakota …

Pilot Study: Knowledge And Attitudes Regarding Sport-Related Concussion In A Rural Interscholastic Sport Sample, Austin Westland

Electronic Theses and Dissertations

Context: Evidence supports education initiatives to improve knowledge of sport-related concussion (SRC) in active children and adolescents, as well as improve attitudes towards reporting concussion events to a supervising adult with the ultimate goal of early diagnosis and management. Most evidence focuses on urban and suburban children’s SRC knowledge and attitudes; however, little is known regarding knowledge and attitudes of children participating in sport in rural environments. Understanding current knowledge and attitudes of rural children can inform future education and health behavior strategies that encourage early reporting. Objective: Two objectives guided this study. First, obtain and analyze pilot data regarding …

Rapid And Simultaneous Determination Of Nutritional Constituents Of United States Grown Oats Using Near Infrared Reflectance Spectroscopy (Nirs), Devendra Paudel

Electronic Theses and Dissertations

Oats is a unique cereal owing to its nutritional and health benefits. Near Infrared Reflectance Spectroscopy (NIRS) is an efficient tool for monitoring the quality of cereal foods. NIRS holds potential for non-destructive multicomponent oat analyses with advantage of large sample throughput, speed, and reduced cost. The purpose of this study was to develop predictive calibration models for estimating beta-glucan, protein, and oil content of US oat cultivars using NIRS and validated AACCI reference methods. A rapid, non-destructive (whole oat groat), and secondary NIRS method was developed to estimate beta-glucan, protein, and oil content based on the standard reference analyses …

Impacts Of Diverse Crop Rotations And Integrated Crop-Livestock System On Soil Quality In South Dakota, Atilla Polat

Electronic Theses and Dissertations

Crop diversification can be beneficial in improving soil quality parameters. Diverse crop rotations and integrated crop-livestock systems (ICLS), are two examples of crop diversification used in this study to assess soil quality. The objectives of this study were to: (i) assess the impacts of diverse rotations on soil quality parameters, and (ii) assess the impacts of low and high stocking density on soil quality parameters. Both of the studies were conducted separately and are presented as two different chapters. To accomplish objective (i), a long-term experiment was selected which was established near Brookings, South Dakota, USA at USDA-ARS lab in …