Systems Biology Commons^™

Taxonomy Of Endophytic Fungi Associated With Vallisneria Neotropicalis, Md. Arafat Rashid

Graduate Theses and Dissertations (2019 - present)

This study presents the first comprehensive taxonomic and ecological investigation of endophytic fungi (EF) associated with the submerged aquatic macrophyte Vallisneria neotropicalis in the southern United States. Over a 12 month period, from April 2023 to March 2024, leaf samples were collected from two distinct sites in Mobile Bay, Alabama a disturbed, brackish Causeway location and a cleaner, less impacted site at Meaher State Park. Using culture dependent methods, a total of 257 fungal endophytes were isolated from 1,200 leaf segments. All isolates belonged to the phylum Ascomycota, distributed across 3 classes, 6 orders, 10 families, and 19 taxa. The …

Patterns Of Fire History And Vegetation Changes In The Last 5000 Years: A Paleoecological Study Of Iquitos, Annabel Zwarts

Theses and Dissertations

The vegetation of the Amazonian rainforest is hypothesized to have been shaped by pre-Columbian activities, such as burning and palm management to various extents. Management of palms is hypothesized to have caused some of the most useful species to become hyperdominant in Amazonia. This study investigated the extent to which human activities over the past 5000 years affected palm abundances in mature lowland rainforests near Iquitos, Peru. I used phytoliths and charcoal from soil cores to determine the history of local floras, and modern palm surveys to compare modern phytolith occurrence with modern vegetation. Because pre-Columbian activity clustered along the …

Pasturelands As Natural Climate Solutions: A Socioecological Study Of Tree Carbon And Beef Production Trade-Offs, Bela Starinchak

Masters Theses, 2020-current

Forest restoration is the most effective natural climate solution, with the potential to sequester 37% of the carbon dioxide (CO₂) needed to reach the Paris climate mitigation goal. Cattle pastures offer an underutilized opportunity to increase global forest restoration efforts, improve biodiversity, and maximize carbon storage through the adoption of management strategies that prioritize the incorporation of trees into pasturelands. However, remote estimations of tree carbon storage in pastoral systems have never been field-verified and their accuracy is unclear. Furthermore, the effect of increased trees on cattle production is understudied across biomes. Lastly, the restoration potential of these …

The Bellarmine Bee Bed: Organizing A Native Plant Garden Using Feedback From The Local Community, Kate Moran

Undergraduate Theses

Animal pollinators are the cornerstone of healthy ecosystems. Their survival is essential for the persistence of entire food chains: from the flowers they cross-pollinate directly, to the animals who depend on those plants for nutrition. The establishment of pollinator gardens—particularly ones that consist of native plants—is an effective way to enhance their biodiversity, abundance, and well-being.

The main goal of this thesis is to construct a pollinator garden that maximizes the benefits for animal pollinators using feedback from local gardeners. A survey was used to gather information about the popularity and preferences of 40 flowering plants, and after analyzing the …

Rapid Assesment Of Aquatic Insect Diversity And Abundance Used To Evaluate The Quality Of Stream Restoration, Kaleb Stephen Kindoll

2023 Midwest Ecology & Evolution Conference

Stream and wetland restoration activities seek to improve the function of aquatic ecosystems. Measurement of the diversity and abundance of aquatic insects are commonly used to evaluate the success of restoration efforts, but these measurements are often very time consuming. In this study, we attempt to construct an efficient method that can be used to rapidly assess the diversity and abundance of aquatic insects as a measure of the quality of stream restoration. We suspended uniform sized pieces of cardboard paper coated with adhesive to trap insects in three different environments: one restored and two unrestored streams with similar characteristics. …

Fine Characterization Of Leafing Phenology In The Brazilian Atlantic Forest By Optical And Microwave Remote Sensing, James B. Bell

Dissertations and Theses

Tropical forests provide important ecosystem functions in the global biosphere, but they remain among the most poorly understood elements of land surface models, especially with regard to their seasonal dynamics. For instance, in seasonally dry forests, the pattern of the annual green-up in their canopies closely follows annual patterns of rainfall. The same, however, does not occur in wet forest canopies which are dominated by evergreen trees. In the latter, water is not scarce enough to limit leaf photosynthetic function. Canopy leafing phenology in these forests is therefore poorly characterized by optical remote sensing methods which are not sensitive to …

Habitat Use And Morphology Of Birds In "Intact" Amazonia Under Changing Climate, Vitek Jirinec

LSU Doctoral Dissertations

Neotropical forests contain the core of global avian diversity. Of these, the Amazon rainforest is the largest, but ~20% has already been lost to deforestation, inspiring research into the effects of clearing and fragmentation on forest birds. These studies have consistently shown that insectivorous birds that forage on or near the ground are the most sensitive species to forest disturbance. As a preamble to our study, we synthesized bird capture data collected over 40 years within continuous forest far from human disturbance. Remarkably, we found that terrestrial and near-ground insectivores have shown substantial abundance declines even within primary forest. The …

Of Biodiversity, Boundaries, And Distribution: The Myxomycetes Of The Philippines And Beyond, Sittie Aisha Bustamante Macabago

Graduate Theses and Dissertations

This dissertation contains a compilation of independently performed studies primarily focusing on the myxomycetes (plasmodial slime molds) from the Philippines and integrating local and worldwide data to demonstrate regional and global trends. The major themes include the following: (I) a review of the diverse group of spore-producing amoeboid protists, including the myxomycetes; (II-IV) diversity assessments in three different groups of islands in the Philippine archipelago; (V) mapping the myxomycetes found in the Philippines for databasing and analyzing the geocoded data; (VI) a study on regional boundaries, including the Philippines, using myxomycete species composition; and, (VII) creating a global species distribution …

Nitrogen Dynamics And Transport Along Flowpaths In A Rural Wetland-Stream Complex, Colton Kyro

Graduate Student Theses, Dissertations, & Professional Papers

Human activities have doubled the rate of nitrogen inputs onto the landscape resulting in elevated nitrogen concentrations in our streams. Anthropogenically applied nitrogen is largely transported to stream networks via groundwater movement. Groundwater discharge occurs in distinct points along a stream but whose influences can often persist far beyond that area due to insufficient biogeochemical removal of imported nitrogen potentially causing alterations in community structure and precipitating large algae blooms. To understand the factors governing nitrogen abundance in a historical polluted stream, I used a mass-balance approach to quantify groundwater-surface water interaction and the magnitude of groundwater nitrogen input and …

Resilience: Insights From The U.S. Longterm Ecological Research Network, Jane Cowles, Laura Templeton, John J. Battles, Peter J. Edmunds, Robert C. Carpenter, Stephen R. Carpenter, Michael Paul Nelson, Natalie L. Cleavitt, Timothy J. Fahey, Peter M. Groffman, Joe H. Sullivan, Maile C. Neel, Gretchen J. A. Hansen, Sarah Hobbie, Sally J. Holbrook, Clare E. Kazanski, Eric W. Seabloom, Russell J. Schmitt, Emily H. Stanley, Alan J. Tepley, Natalie S. Van Doorn, Jake M. Vander Zanden

Advanced Science Research Center

Ecosystems are changing in complex and unpredictable ways, and analysis of these changes is facilitated by coordinated, long-term research. Meeting diverse societal needs requires an understanding of what populations and communities will be dominant in 20, 50, and 100 yr. This paper is a product of a synthesis effort of the U.S. National Science Foundation funded Long-Term Ecological Research (LTER) network addressing the LTER core research area of populations and communities. This analysis revealed that each LTER site had at least one compelling story about what their site would look like in 50 or 100 yr. As the stories were …

Food Web Effects Of Lake Trout (Salvelinus Namaycush) Invasion In Northwestern Montana, Charles Wainright

Graduate Student Theses, Dissertations, & Professional Papers

Around the turn of the 20th century, lake trout (Salvelinus namaycush) were widely introduced in several lakes and reservoirs outside their native range in western North America. Since then, lake trout have become problematic in many lakes where they were introduced, causing significant declines in popular sport fishes and native species, most notably federally protected bull trout (Salvelinus confluentus). Despite evidence that invasive fish can cause cascading trophic effects in aquatic communities, the impacts of lake trout introduction / invasion on aquatic food webs remain poorly understood. Moreover, native fish restoration programs tend to focus on suppression …

Functional Feeding Groups Of Aquatic Macroinvertebrates On Natural And Artificial Leaves In Forested Stream Habitats In The Sebago Lake Land Reserve, Sam H. Matey, Kala Freytag Wistar

Thinking Matters Symposium Archive

We investigated preferential insect colonization of natural versus artificial leaves in forested streams to determine the impact of invertebrate-substrate associations on macroinvertebrate community composition and ecosystem nutrient cycling. We created 10 onion bags filled with natural maple leaves and 10 filled with artificial maple leaves, and placed 5 of each in two forested streams, one larger and one smaller, in the Sebago Lake Land Reserve in Standish, Maine. We identified the aquatic macroinvertebrates found on these samples after approximately one month to order-level and used Maine DEP biomonitoring data and functional feeding group taxonomies to classify macroinvertebrates by functional feeding …

Life History Of The Coastal Tailed Frog (Ascaphus Truei) Across An Elevational Gradient, Adrian Daniel Macedo

Cal Poly Humboldt theses and projects

The life history of a species is described in terms of its growth, longevity, and reproduction. Unsurprisingly, life history traits are known to vary in many taxa across environmental gradients. In the case of amphibians, species at high elevations and latitudes tend to have shorter breeding seasons, shorter activity periods, longer larval periods, reach sexual maturity at older ages, and produce fewer and larger clutches per year.

The Coastal Tailed Frog (Ascaphus truei) is an ideal species for the study of geographic variation in life history because it ranges across most of the Pacific Northwest from northern California …

Radical Social Ecology As Deep Pragmatism: A Call To The Abolition Of Systemic Dissonance And The Minimization Of Entropic Chaos, Arielle Brender

Student Theses 2015-Present

This paper aims to shed light on the dissonance caused by the superimposition of Dominant Human Systems on Natural Systems. I highlight the synthetic nature of Dominant Human Systems as egoic and linguistic phenomenon manufactured by a mere portion of the human population, which renders them inherently oppressive unto peoples and landscapes whose wisdom were barred from the design process. In pursuing a radical pragmatic approach to mending the simultaneous oppression and destruction of the human being and the earth, I highlight the necessity of minimizing entropic chaos caused by excess energy expenditure, an essential feature of systems that aim …

A Comparison Of Community Structure In Regulated And Unregulated Reaches In The Upper Eel River, California, Lara Stephanie Jansen

Cal Poly Humboldt theses and projects

Flow regulation of rivers by impoundments and diversions can reduce hydrological variability. As a result, densities of algae and benthic macroinvertebrates often increase, but many sensitive taxa are lost, causing shifts across the food web. In Northern California, dams that reduce winter peak floods can result in the primary consumer community becoming dominated by grazers that are relatively invulnerable to predation, which can reduce the amount of energy transferred up the trophic levels. The steeper slope of the spring hydrograph recession limb downstream of a dam can also greatly impact instream diversity of periphyton, invertebrates and fish. The dam and …

The Three Creeks Allotment Consolidation: Changing Western Federal Grazing Paradigms, Taylor Payne

Human–Wildlife Interactions

The federal government owns approximately 47% of all land in the western United States. In the state of Utah, about 64% of the land base is managed by the federal Bureau of Land Management (BLM) and the U.S. Forest Service (USFS). The government has historically issued permits to owners of private lands to allow the owners to graze their livestock on public lands. The permits (allotments) are generally of 10-year duration and allow for an annual season of use. In some cases, continued and repeated historical annual grazing practices may not be ideal for permit holders and their communities nor …

Nutrient Cycling In The Amazon: A Comparison Of Soil Characteristics, Insects, Root Types And Decomposition Rates Between Varzea And Terra Firme Habitats In The Ecuadorian Amazon, Mira Ensley-Field

Independent Study Project (ISP) Collection

Decomposition and nutrient cycling form the basis of every ecosystem. Nutrient availability in the soil affects plant species composition, richness, and productivity. The Amazon rainforest is known for its unusually fast nutrient cycle, but many aspects lack detailed study and analysis. This comparative study carried out in the Ecuadorian Amazon had four primary objectives related to understanding the nutrient cycle in the Amazon; 1.) analyze soil characteristics, 2.) assess insect diversity in the leaf litter layer, 3.) examine root characteristics, and 4.) measure the decomposition rate between Varzea and Terra Firme habitats alongside the Rio Napo. Forty 0.25 x 0.25m …

Synthesis Of Satellite Microwave Observations For Monitoring Global Land-Atmosphere Co2 Exchange, Lucas Alan Jones

Graduate Student Theses, Dissertations, & Professional Papers

This dissertation describes the estimation, error quantification, and incorporation of land surface information from microwave satellite remote sensing for modeling global ecosystem land-atmosphere net CO₂ exchange. Retrieval algorithms were developed for estimating soil moisture, surface water, surface temperature, and vegetation phenology from microwave imagery timeseries. Soil moisture retrievals were merged with model-based soil moisture estimates and incorporated into a light-use efficiency model for vegetation productivity coupled to a soil decomposition model. Results, including state and uncertainty estimates, were evaluated with a global eddy covariance flux tower network and other independent global model- and remote-sensing based products.

The Cedar Point Experience, 40 Years Of Field Based, Experiential Learning, Jon Garbisch

Discipline-Based Education Research Group Speaker Series

The Cedar Point Experience was born in the summer of 1975. At the urging of several biology faculty UNL leased the Goodall Cedar Point Girlscout Camp and offered a broad range of field based courses exploiting the local environment as their classroom. These instructors also had a strong interest in the area as a base for their own research. Today the UNL Cedar Point Biological Station with a few additional buildings can support around 100 people with full service dining, housing, classroom and lab space.

The instructional model has remained unchanged for the past 40 years. Field based or place …

Patch Burn‐Grazing: An Annotated Bibliography, Rajeeva Voleti, Stephen L. Winter, Sherry Leis

School of Natural Resources: Faculty Publications

Patch burn‐grazing is a rangeland management strategy that exploits the attraction of grazing animals to recently burned areas in order to achieve management objectives. When fire is applied to a landscape in a patchy manner, leaving some patches unburned, the resulting grazing animal activity, forage utilization, and animal impact are patchily distributed within that landscape as well. Areas that have been recently burned tend to be characterized by the highest levels of grazing animal activity while areas that have gone the longest without burning tend to be characterized by the lowest levels of grazing animal activity. This can be advantageous …

A Northward Range Extension Of The Hispid Cotton Rat (Sigmodon Hispidus) In Missouri, Cody W. Thompson, Elmer J. Finck

The Prairie Naturalist

The hispid cotton rat (Sigmodon hispidus) is a widely distributed rodent with a geographic range extending from north-central Mexico to southern Nebraska and central Virginia and from southeastern Arizona east to Florida (Carleton et al. 1999, Peppers and Bradley 2000, Wilson and Reeder 2005) with isolated populations in Arizona (Bradley et al. 2012) and California (Clark 1972). Range expansions for the species have been well documented (Clark 1972, Farney 1975, Benedict et al. 2000, Wright et al. 2010, Wills et al. 2011). The majority of these range expansions have occurred across the Central Plains during the 20th century …

Of Gardens, Microorganisms, And Long Island Sound, Judy Preston

Wrack Lines

How healthy soil can make an environmental difference.

"I happened to turn over a large rounded stone in my garden to find a mesmerizing world of organisms that had, just moments earlier, been going about their business before being exposed to the sunlit world, and me."

Is Orthoptera Abundance And Distribution Across A Small Grassland Area Affected By Plant Biomass, Plant Species Richness, And Plant Quality?, Caitlin Falcone

Department of Environmental Studies: Undergraduate Student Theses

The choice of a specific microhabitat represents a compromise among a number of different factors organisms use to monitor habitat suitability. Grassland vegetation structure can vary widely along environmental gradients over a relatively small area. This vegetation structure can have a large influence on habitat selection by grasshoppers (Orthoptera). However, it is not clear which vegetation characteristics are most important in determining grasshopper abundance. We found that plant biomass, plant species richness, and plant quality all have an effect on grasshopper abundance and distribution. We observe that these affects vary both within and among the two years of data collection. …

The Coal River Basin: A 2009 Water Budget Study, R. Dale Biller

Theses, Dissertations and Capstones

The Coal River Watershed covers an area of some 890 square miles in southern West Virginia of which 863 square miles was investigated in this study. Both online and field data were collected over period from January 13, 2009 to January 13, 2010. The basin was studied as a closed system having an input, which was precipitation, and outputs, rainfall interception, evapotranspiration, and stream discharge that was separated into base flow and overland flow.

The effective rainfall of the watershed was calculated using the Thiessen polygon method to be 42 inches for the year, 48% of that water discharged by …

An Inventory And Condition Survey Of The Western Australian Part Of The Nullarbor Region, Peter-Jon A. Waddell, A K. Gardner, P Hennig

Technical Bulletins

The inventory and condition survey of the Western Australian part of the Nullarbor region, undertaken by the Department of Agriculture and Food, Western Australia (DAFWA) between 2005 and 2007, describes and maps the natural resources of the region. This survey report provides a baseline record of the existence and condition of the area's natural resources, to assist with the planning and implementation of land management practices. The report identified and described the condition of soils, landforms, vegetation, habitat, ecosystems, and declared plants and animals. It also assessed the impact of pastoralism and made land management recommendations. The Nullarbor region has …

Joint Fire Science Program – Lake Mead National Recreation Area: Revegetating Burned Arid Lands: Identifying Successful Native Species Using Trait And Competition Analysis, Quarterly Progress Report, April 1 — June 30, 2009, Margaret N. Rees

Fire Science

• Initiated a competitive hierarchy study.
• Monitored and maintained outplanting at Goodsprings.
• Completed more seed granivory trials at Goodsprings.
• Mentored student to completion of undergraduate research project.
• Monitored and maintained nursery plots.
• Revising article submitted to Journal of Arid Environments.

Joint Fire Science Program – Lake Mead National Recreation Area: Revegetating Burned Arid Lands: Identifying Successful Native Species Using Trait And Competition Analysis, Quarterly Progress Report, January 1— March 31, 2009, Margaret N. Rees

Fire Science

• Monitored and watered native plants in nursery plots.

• Exotic grasses seeded into nursery plots.

• Nitrogen treatment applied to nursery plots.

• Granivory study trials performed each month and corresponding abstract submitted to ESA.

• Competitive hierarchy study germination trials are underway.

• Monitored seeding and outplanting experiments at Goodsprings.

• Submitted article to Mojave Applied Ecology Notes newsletter updating on JFS work.

• Mentoring UNLV undergraduate student in research project for ENV 492.

• Prepared presentation materials for two scientific meetings.

Athel (Tamarix Aphylla) And Athel Hybrid (Tamarix Aphyllax Tamarix Ramosissima)Establishment And Control At Lake Mead National Recreation Area, Carrie Norman, Curt Deuser, Joshua Hoines

Lake Mead Science Symposium

Athel is a large evergreen ornamental tree that has been planted throughout the Southwest since the 1950’s. Athel was considered benign because it was thought to produce non-viable seed unlike its invasive relative, tamarisk. However, athel began establishing in the wild from seed on Lake Mead in 1983. Lake Mead NRA has been actively controlling athel since November 2004 along the high water mark of Lake Mead shoreline (439 miles) to prevent it from spreading throughout the Colorado River Drainage. The NPS contracts Nevada Conservation Corp crews and the Lake Mead Exotic Plant Management Team to implement the control efforts …

An Inventory And Condition Survey Of The Lower Murchison River Area, Western Australia, P Hennig

Technical Bulletins

The inventory and condition survey of the lower Murchison River area, undertaken by the Department of Agriculture and Food, Western Australia (DAFWA) between 2002 and 2003, describes and maps the natural resources of the region’s pastoral leasehold land. This survey report provides a baseline record of the existence and condition of the natural area’s resources, to assist with the planning and implementation of land management practices. The report identified and described the condition of soils, landforms, vegetation, habitat, ecosystems, and declared plants and animals. It also assessed the impact of pastoralism and made land management recommendations. This survey report presents …

Consequences Of More Extreme Precipitation Regimes For Terrestrial Ecosystems, S. D. Smith, C. Beier, Aimee T. Classen, Melinda D. Smith, Jana L. Heisler, S. W. Leavitt, Alan K. Knapp, D. Briske, Y. Luo, M. Reichstein, J. E. Bell, Philip A. Fay, R. Sherry, Benjamin Smith

Life Sciences Faculty Research

Amplification of the hydrological cycle as a consequence of global warming is forecast to lead to more extreme intra-annual precipitation regimes characterized by larger rainfall events and longer intervals between events. We present a conceptual framework, based on past investigations and ecological theory, for predicting the consequences of this underappreciated aspect of climate change. We consider a broad range of terrestrial ecosystems that vary in their overall water balance. More extreme rainfall regimes are expected to increase the duration and severity of soil water stress in mesic ecosystems as intervals between rainfall events increase. In contrast, xeric ecosystems may exhibit …