Systems Biology Commons^™

Aquaponics And Basil Plant Density, Danika L. Macmaster, Brook Murphy, Dudley Burton

STAR Program Research Presentations

Aquaponics is the use of water from a fish tank to provide nutrients to plants in a soil-less environment. The rocks cultivate the bacteria that turns the ammonia into nitrates that the plants need, and the plant bed functions as a filter for the fish tank. In this study, with the guidance of Doctor Dudley Burton, Doctor Brook Murphy, we researched the optimal plant density for basil in an Aquaponics system. We attempted to control or measure all the other variables to consider, as to isolate the variable of distance between plants. The water flow was spread through the plant …

Eccentric Muscle Challenge Shows Osteopontin Polymorphism Modulation Of Muscle Damage., Whitney L. Barfield, Kitipong Uaesoontrachoon, Chung-Sheih Wu, Stephen Lin, Yue Chen, Paul C. Wang, Yasmine Kanaan, Vernon Bond, Eric P. Hoffman

Genomics and Precision Medicine Faculty Publications

A promoter polymorphism of the osteopontin (OPN) gene (rs28357094) has been associated with multiple inflammatory states, severity of Duchenne muscular dystrophy (DMD) and muscle size in healthy young adults. We sought to define the mechanism of action of the polymorphism, using allele-specific in vitroreporter assays in muscle cells, and a genotype-stratified intervention in healthy controls. In vitro reporter constructs showed the G allele to respond to estrogen treatment, whereas the T allele showed no transcriptional response. Young adult volunteers (n = 187) were enrolled into a baseline study, and subjects with specific rs28357094 genotypes enrolled into an eccentric …

Response Of Grassland Songbirds To Grazing System Type And Range Condition, Stephen K. Davis, Brenda C. Dale, Tom Harrison, David C. Duncan

The Prairie Naturalist

Much of the remaining prairie in Canada is grazed by cattle and most grassland birds of conservation concern occupy such habitat. Identifying vegetation features related to grassland bird habitat selection that can be easily understood and measured by professional range managers and livestock producers on private lands is an important step towards conserving and restoring remaining grasslands. We conducted grassland bird surveys on 28 native mixed-grass prairie pastures in southern Saskatchewan to determine whether grazing system type (season-long vs. rotational) influenced avian abundance. Grazing system had no influence on abundance of grassland passerines. Conservation agencies that promote particular grazing systems …

Legacy Effects In Prairie Restoration: A 73-Year Spatial History, Thomas D. Brock

The Prairie Naturalist

Black Earth Rettenmund Prairie State Natural Area, one of the highest quality prairie remnants in southern Wisconsin’s Driftless Area, has been the target of extensive restoration efforts since it was acquired by the Nature Conservancy (TNC) in 1986. In the present work, I analyzed the spatial history of this prairie using a Geographical Information System (GIS) and an extended series of air photos, on-the-ground surveys, early maps, and land-use records. In 1937, when the first air photo was taken, the site was nearly devoid of trees and shrubs. In subsequent years, the site became progressively woody until at the time …

The Significance Of Micro-Prairie Reconstruction In Urban Environments, Bruno Borsari, Neal Mundahl, Malcom F. Vidrine, Marc Pastorek

The Prairie Naturalist

An aggressive urban sprawl during the last half century has not only contributed to habitat disturbance and extirpation, as well as a loss of knowledge and appreciation for biodiversity. Across the United States, prairie reconstruction has been a very effective approach for developing sustainable landscape designs in city parks and other open spaces. The purpose of this work is to focus on restoration and reconstruction of selected micro-prairies as a vehicle for enhanced place-based education and to partially remediate the consequences of global climate change and loss of pollinators. From the coastal prairies of southwestern Louisiana, to the eastern edge …

Introduction—23rd North American Prairie Conference, Dr. Douglas J. Cattani, Dr. Nicola Koper, Dr. Pamela Rutherford, Dr. Richard K. Baydack

The Prairie Naturalist

Building upon the tradition started in Illinois by Peter Schramm in 1970, with the first conference on prairies and prairie restoration, the North American Prairie Conference (NAPC) has developed a tradition of excellence in native prairie research, conservation, education and restoration of one of the worlds’ most productive, yet most endangered, ecosystems. It has spawned great interest, enthusiasm and efforts to better understand, appreciate, manage and conserve this vital part of North America’s natural and cultural history.

In early August 2012, the University of Manitoba in Winnipeg hosted the 23rd NAPC. The theme of the 2012 conference was “Celebrating Our …

Historic Distribution And Ecology Of Tall-Grass Prairie In Western Canada, Darcy C. Henderson, Nicola Koper

The Prairie Naturalist

Rapid settlement and agricultural development of western Canada in the late 1800s and early 1900s nearly eliminated the tall-grass prairie, and pre-empted a detailed description by ecologists. A combination of literature review and historical ecological analysis of soils, climate, and composition data are applied to estimate the historic distribution, and area occupied by tall-grass prairie in southern Manitoba and southeastern Saskatchewan, Canada. The resulting area estimate of 20,830 km² is more than three times any previously reported value. Some confusion of terms from the first half of the 1900s, and the impact of invasive species on vegetation patterns observed …

Prairie Restoration: Bridging The Past And The Future, Daryl D. Smith

The Prairie Naturalist

Tallgrass prairie once dominated most of mid-continent North America. Conversion of this prairie to cropland was rapid and extensive. Today, it is the most decimated ecosystem in North America with less than two percent remaining. Prairie reconstruction began at the University of Wisconsin Arboretum in the 1930s. Thirty years later, exemplary initiatives by a group of highly motivated restorationists in Illinois and Iowa became a part of the legacy of restoration ecology. Their work generated widespread public interest in prairie restoration and initiated the ongoing biennial North American Prairie Conference. Since then, practitioners have made significant advances in reconstruction and …

Effects Of Compost On Prairie Seedling Establishment And Seed Production, Thomas R. Rosburg, Emiy Sibigtroth, Adam Palmer

The Prairie Naturalist

Compost is a commonly used soil amendment in horticultural and agricultural practices that is generally known to improve soil conditions and plant growth. We conducted a field experiment to investigate the application of compost to prairie production plots as a method to improve seedling establishment and growth and the seed production of established plants. We evaluated the effect of compost depth and tillage on the survivorship, growth, reproduction and ecophysiology of several prairie plant species commonly used in restoration. Results were mixed; for some species, transplants in compost–amended plots incurred lower survivorship and reduced growth compared to control plots. When …

Reproductive Failure In Largeleaf Wild Indigo In A Restored Prairie In Southeastern Minnesota, Neal D. Mundahl

The Prairie Naturalist

Native prairie restorations in many regions of the United States have been hindered by various herbivores consuming plant reproductive parts or products. I conducted field studies of a population of largeleaf wild indigo (Baptisia lactea) on a restored prairie in southeastern Minnesota during the growing seasons of 2010–2012 to determine the cause(s) of repeated reproductive failure. I assessed plants for browsing damage caused by white-tailed deer (Odocoileus virginianus) during the period of flowering and with a deer exclosure experiment involving caged and non-caged plants. I compared reproductive output (numbers of seed pods, viable seeds) of caged …

Association Of Soil Conditions And Grass Species With Variable Cover Of Leafy Spurge, Terence P. Mcgonigle, Jeremy L. Timmer

The Prairie Naturalist

Variation in soil conditions and grass cover was assessed across a range of leafy spurge (Euphorbia esula L.) cover values on a sandy rangeland in Manitoba, Canada. Soil conditions varied by site but not in relation to cover of leafy spurge. We observed a significant negative relationship between total grass cover and increasing cover of leafy spurge. Only porcupine grass (Hesperostipa spartea [Trin.] Barkworth) had a negative relationship with leafy spurge, falling from high cover at low weed occurrence to only trace levels at the highest leafy spurge abundance. Neither prairie Junegrass (Koeleria macrantha [Ledeb.] Schult.), rough …

Soil Chemical Responses To Fire Seasonality And Frequency In A Texas Grassland, Domingo M. Jariel Jr., R. James Ansley, Betty A. Kramp, David L. Jones

The Prairie Naturalist

On a clay-loam mixed grassland dominated by honey mesquite (Prosopis glandulosa Torr.) in northern Texas, we quantified soil pH, soil organic carbon (OC), electrical conductivity (EC), phosphorus (P), potassium (K), calcium (Ca), magnesium (Mg), sodium (Na), zinc (Zn), iron (Fe), manganese (Mn) and copper (Cu) in response to various effects of summer and winter fire treatments from 1991–1996. We conducted summer fire between August and September, and winter fire between January and March. Treatments that included summer fires increased soil pH, EC, Na, and Cu and temporarily decreased soil OC and Mn (P ≤ 0.05). The winter fire treatment …

Application Of A Bioenergetics Framework For Assessing Sub-Lethal Effects Of Pollutants In The Freshwater Mussel Elliptio Complanata, Christopher G. Goodchild

All Theses And Dissertations

Although biomarkers are frequently used to assess sublethal effects of contaminants, a lack of mechanistic linkages to higher-level effects limits the predictive power of biomarkers. Bioenergetics has been proposed as a framework for linking cellular effects to whole-animal effects. We investigated sublethal effects of exposure to wastewater treatment facility effluent in freshwater mussels in situ, thereby capturing ecologically relevant exposure conditions. Our study focused on the energetic biomarker AMP-activated protein kinase (AMPK), while also considering more traditional biomarkers like heat shock proteins (HSP70), and antioxidant enzymes (i.e., superoxide dismutase (SOD), glutathione-S-transferase (GST)). We examined biomarkers at mRNA and protein levels. …

Genetic Predictors Of Metabolic Side Effects Of Diuretic Therapy, Jorge L. Del Aguila

Dissertations and Theses (Open Access)

Thiazide diuretics are a recommended first-line monotherapy for hypertension (i.e.SBP>140 mmHg or DBP>90 mmHg). Even so, diuretics are associated with adverse metabolic side effects, such as hyperlipidemia, hyperglycemia and hypokalemia which increase the risk of developing type II diabetes. This thesis used three analytical strategies to identify and quantify genetic factors that contribute to the development of adverse metabolic effects due to thiazide diuretic treatment. I performed a genome-wide association study (GWAS) and meta-analysis of the change in fasting plasma glucose and triglycerides in response to HCTZ from two different clinical trials: the Pharmacogenomic Evaluation of Antihypertensive Responses …

Venturing Through The Tall Grass: Experiencing The Manitoba Tall Grass Prairie Preserve, Christie L. Borkowsky, Erin Zahradka

The Prairie Naturalist

The Manitoba Tall Grass Prairie Preserve (hereafter the Preserve) was established in 1989 with a goal of protecting a vanishing habitat and to educate the general public of the importance of native grasslands (M. Latta, Nature Manitoba, personal communication). Starting in the early 1990s, an annual Prairie Day event was organized in early August to provide a means of interaction between prairie enthusiasts, the general public and local residents. Self-guiding interpretive trails with rustic amenities were established in 1996 and 2004. School programs, tours, and a simple two-page newsletter have been used to promote the Preserve and bring out visitors …

Notes: Oriental Bittersweet In Grasslands Near Eastern Bluebird Nest Boxes, Neal D. Mundahl

The Prairie Naturalist

Oriental bittersweet (Celastrus orbiculatus Thunb.; hereafter OB) is an invasive, woody vine that has been expanding its range westward in North America since its introduction from East Asia in the mid-1700s for horticultural purposes (Albright et al. 2009, United States Department of Agriculture [USDA] 2012). Although typically a woodland problem in the United States (McNab and Meeker 1987), OB can invade grassland habitats (Fike and Niering 1999), likely sprouting from seeds dropped by birds and mammals (McNab and Meeker 1987, Greenberg et al. 2001, Sarver et al. 2008) and often developing into large, shrub-like tangles of intertwining stems (Fike …

Potential Impacts Of Bison Wallows On A Restored Tallgrass Prairie Community, Kimran Miller, Johanna Foster, Kristen Nielsen, Mary O'Loughlin

The Prairie Naturalist

When bison (Bos bison) repeatedly roll on the ground, they denude vegetation and create wallows (semi-permanent bare areas) that alter the native prairie plant community. Responses to these wallow-related disturbances are not as well documented in restored prairies. From 1 June to 1 September 2010 and from 3 June to 6 August 2011, we examined potential responses at Neal Smith National Wildlife Refuge, a restored prairie with resident bison. We hypothesized that plants and beetles would vary along a disturbance gradient. Our predictions were: (1) near wallows, plants with weedy lifestyles would have highest cover and biomass compared …

Manitoba Tall Grass Prairie Preserve: Providing Habitat For Protected And Provincially Rare Species, Christie L. Borkowsky

The Prairie Naturalist

The establishment of the Manitoba Tall Grass Prairie Preserve in 1989 secured some of the largest and highest quality parcels of tall grass prairie remaining in the province. Shortly after securement by either Nature Manitoba (formerly Manitoba Naturalists Society) or Manitoba Habitat Heritage Corporation, seasonal staff from the Critical Wildlife Habitat Program (CWHP) began inventory efforts to document the various floral and faunal species occurring on these acquisitions. With the addition of the Nature Conservancy of Canada to the Preserve partnership, the Preserve has grown in size to nearly 5,000 ha. The list of species identified on the Preserve has …

A Floristic Survey Of Selected Sites In The Loup River Valley, Nance County, Nebraska, Diane M. Flynn, Steven J. Rothenberger

The Prairie Naturalist

The Loup River Valley of Nebraska contains natural, undisturbed wet meadows with significant plant diversity. Even though these sites are infrequent and are often intermixed with heavily grazed pastures or cultivated fields, they support numerous plant and animal species that do not occur elsewhere. We surveyed three study sites (an ungrazed wet meadow; a grazed wet meadow; and a riparian area) that totaled approximately 68.8 ha during the 2010 and 2011 growing seasons. We compiled an annotated vascular plants checklist for the study area that included 244 plant species of which about 49% (119) were new county records. The mean …

Project Prairie And Tallgrass Education On The Rice Lake Plains: A Journey From 1870 To Today And Beyond, Todd Farrell, Mark Rupke, Mark Stabb

The Prairie Naturalist

Project Prairie began in 2011 as a curriculum-linked integrated environmental studies program to showcase the Rice Lake Plains (RLP), a tallgrass prairie landscape of sandy rolling hills located at the eastern extent of the Oak Ridges Moraine in southern Ontario. Project Prairie provides educators both indoor and outdoor activities that support their curriculum and share the story of the RLP. Project Prairie provides teacher and student resources that focus on the RLP from the mid-nineteenth century to present day. Learning objectives of Project Prairie are developed from the subjects of science, social science, language arts, geography, history, and Aboriginal culture. …

The Mayfly Newsletter, Peter M. Grant

The Mayfly Newsletter

The Mayfly Newsletter is the official newsletter of the Permanent Committee of the International Conferences on Ephemeroptera.

A Quantitative Analysis Of Kalandars And Captive Bears In Pakistan, Thomas P. Rooney, Kendra C. Millam

Biological Sciences Faculty Publications

In 2013, the Bioresource Research Centre (Islamabad, Pakistan) conducted a comprehensive census of the remaining dancing and bear-baiting bears in Pakistan. This involved locating and counting the actual involved bears and bear keepers (kalandars), collecting detailed socio-economic data from the bear-keepers, and identifying attitudes and key drivers behind this livelihood. This report summarizes the findings from the census, reveals relationships in the data that are not immediately apparent, and identifies potential leverage points for ongoing campaign efforts.

White-Tailed Deer Are A Biotic Filter During Community Assembly, Reducing Species And Phylogenetic Diversity, Danielle R. Begley-Miller, Andrew L. Hipp, Bethany H. Brown, Marlene Hahn, Thomas P. Rooney

Biological Sciences Faculty Publications

Community assembly entails a filtering process, where species found in a local community are those that can pass through environmental (abiotic) and biotic filters and successfully compete. Previous research has demonstrated the ability of white-tailed deer (Odocoileus virginianus) to reduce species diversity and favour browse-tolerant plant communities. In this study, we expand on our previous work by investigating deer as a possible biotic filter altering local plant community assembly. We used replicated 23-year-old deer exclosures to experimentally assess the effects of deer on species diversity (H′), richness (SR), phylogenetic community structure and phylogenetic diversity in paired …

Nitrogen Deposition Contributes To Soil Acidification In Tropical Ecosystems, Xiankai Lu, Qinggong Mao, Frank S. Gilliam, Yiqi Luo, Jiangming Mo

Biological Sciences Faculty Research

Elevated anthropogenic nitrogen (N) deposition has greatly altered terrestrial ecosystem functioning, threatening ecosystem health via acidification and eutrophication in temperate and boreal forests across the northern hemisphere. However, response of forest soil acidification to N deposition has been less studied in humid tropics compared to other forest types. This study was designed to explore impacts of long-term N deposition on soil acidification processes in tropical forests. We have established a long-term N deposition experiment in an N-rich lowland tropical forest of Southern China since 2002 with N addition as NH₄NO₃ of 0, 50, 100 and 150 kg …

Increased 5-Hydroxymethylcytosine And Decreased 5-Methylcytosine Are Indicators Of Global Epigenetic Dysregulation In Diffuse Intrinsic Pontine Glioma, Sama Ahsan, Eric H. Raabe, Michael C. Haffner, Ajay Vaghasia, Katherine E. Warren, Martha Quezado, Leomar Y. Ballester, Javad Nazarian, Charles G. Eberhart, Fausto J. Rodriguez

Genomics and Precision Medicine Faculty Publications

Introduction

Diffuse intrinsic pontine glioma (DIPG) is a malignant pediatric brain tumor associated with dismal outcome. Recent high-throughput molecular studies have shown a high frequency of mutations in histone-encoding genes (H3F3A and HIST1B) and distinctive epigenetic alterations in these tumors. Epigenetic alterations described in DIPG include global DNA hypomethylation. In addition to the generally repressive methylcytosine DNA alteration, 5-hydroxymethylation of cytosine (5hmC) is recognized as an epigenetic mark associated with active chromatin. We hypothesized that in addition to alterations in DNA methylation, that there would be changes in 5hmC. To test this hypothesis, we performed immunohistochemical studies to …

Comparative Phylogeography, Phylogenetics, And Population Genomics Of East African Montane Small Mammals, Terrence Constant Demos

Dissertations, Theses, and Capstone Projects

The Eastern Afromontane region of Africa is characterized by striking levels of endemism and species richness which rank it as a global biodiversity hotspot for diverse plants and animals including mammals, but has been poorly sampled and little studied to date. Using mtDNA and multi-locus nDNA sequence data, genome-wide RAD-Seq SNP data, and morphological data, I identify major cryptic biogeographic patterns within and between 11 co-distributed small mammal species/species groups across the Eastern Afromontane region. I focus on two endemic montane small mammal species complexes, Hylomyscus mice and Sylvisorex shrews, co-distributed across the Albertine Rift (AR) and Kenya Highlands (KH) …

A Systematic Revision Of North American Tolypella A. Braun (Charophyceae, Charophyta), William Perez

Dissertations, Theses, and Capstone Projects

Charophyta comprises the algal classes Mesostigmatophyceae, Chlorokybophyceae, Klebsormidiophyceae, Coleochaetophyceae and Zygnematophyceae and the land plants. However, the precise phylogenetic position of these algal classes with respect to land plants is unresolved as are the phylogenetic relationships among genera in Charophyceae (Characeae). Characeae contains two tribes with six genera: tribe Chareae (Chara, Lamprothamnium, Lychnothamnus and Nitellopsis) and tribe Nitelleae (Nitella and Tolypella). Tolypella was considered the third most species-rich genus but, in the most comprehensive taxonomic treatment of Characeae, 16 Tolypella species were consolidated into two species, T. nidifica and T. intricata in sections Rothia …

Sauger Life History In The Lower Portion Of The Upper Mississippi River, Kasey L. Yallaly, Justin R. Seibert, Sara J. Tripp, David P. Herzog, Quinton E. Phelps

The Prairie Naturalist

Widespread declines have been observed in numerous riverine fish species due to a host of anthropogenic related perturbations such as channelization, dam creation, and exploitation (Graham 1997, Gerken and Paukert 2009). Understanding life history and population demographics of riverine fishes is critical to their conservation. Specific to our study, the Mississippi River has undergone extensive habitat modifications that have changed the Upper Mississippi River (UMR) from a typical lotic large, free flowing river to multiple reservoir-like pools with reduced flow (LePage 1980, Hurley et al. 1987). These habitat transformations may impact sauger (Sander canadensis) populations within the Mississippi River. Several …

Den Characteristics Of Upland And Low- Land Striped Skunks Along The Missouri River Floodplain, Dave Sempek, James A. Wilson

The Prairie Naturalist

Striped skunks (Mephitis mephitis) are opportunistic with respect to habitat use (Bixler and Gittleman 2000), inhabiting an array of landscapes in the proximity of a permanent water supply, such as forest borders, old-fields, fencerows, and open grassy fields broken by wooded ravines (Schwartz and Schwartz 1981, Larivière and Messier 2000). Food quantity and accessibility are major factors determining the quality of striped skunk habitat (Larivière et al. 1999) and are important in the den site selection.

Dens play an important role in skunk survival and reproduction due to the warmth, predator protection, and safe location for parturition they provide (Hwang …

Precipitation And Fire Impacts On Small Mammals In Shortgrass Prairie, Whitney J. Priesmeyer, Raymond S. Matlack, Richard T. Kazmair

The Prairie Naturalist

The southern Great Plains and the northern part of the Texas Panhandle have received less attention from a biological perspective than other parts of the state. Although there is substantial information on the effects of fire on small mammals in the tallgrass and mixed-grass prairies, there is a lack of understanding of fire influences in the shortgrass prairie, specifically on small mammals. We conducted our study on the Cross Bar Cooperative Management Area (CMA), a 4,856 ha shortgrass prairie within the Texas panhandle. Our objective was to determine the effect of three different fire return frequencies and precipitation on diversity …