Digital Commons Network^™

Annotation Of Non-Model Species’ Genomes, Taiya Jarva

Master's Theses

The innovations in high throughput sequencing technologies in recent decades has allowed unprecedented examination and characterization of the genetic make-up of both model and non-model species, which has led to a surge in the use of genomics in fields which were previously considered unfeasible. These advances have greatly expanded the realm of possibilities in the fields of ecology and conservation. It is now possible to the identification of large cohorts of genetic markers, including single nucleotide polymorphisms (SNPs) and larger structural variants, as well as signatures of selection and local adaptation. Markers can be used to identify species, define population …

Benthic Habitat Mapping Of Mountain Top Bank Within The Northern Gulf Of Mexico Through Integrated Geophysical And Visual Data Analysis, Bethany Pertain

Master's Theses

Mesophotic coral ecosystems (MCEs) are among the seafloor ecosystems that have been poorly studied throughout the world’s oceans, but they are a vital and diverse ecosystem that should be prioritized for future mapping and ecological studies. Priority should be given to them because they possess natural, social, and economic values, and face a variety of threats, all of which, if not better understood will result in the loss of this unique ecosystem. Insights into these ecosystems, among other deep-sea environments, are lacking due to difficulty accessing them, inherent lag between data collection by an autonomous system and observation by a …

Effects Of Pier Shading On Salt Marsh Plants In Mississippi, Daniel Taylor

Master's Theses

Saltmarshes are important environments that are valuable to both humans and wildlife. As saltmarshes are under threat from erosion, sea level rise, and human development, efforts should be made to conserve them. The vegetation that occupies these environments are vital to the continued preservation of saltmarshes. This study focuses on one potential threat, the effect that pier shading has on prominent saltmarsh plants of Mississippi, Sporobolus alterniflorus and Juncus roemarianus. Sample piers were selected in the three coastal counties of Mississippi and visited at two time periods (2006 and 2021). I focused on the use of irradiance measurements at …

Upland Migration Of Coastal Marshes As A Response To Sea Level Rise And Fire Management: Past, Present, And Predicted, Devin Jen

Master's Theses

Coastal marshes are one of the most productive and intensively used ecosystems in the world. However, they are under threat due to natural and anthropogenic stressors, such as sea level rise (SLR). SLR can cause marshes to drown, converting them to open water. Marshes can respond to SLR through landward migration when suitable habitat is available. My research focuses on the landward migration pattern and mechanisms. I evaluated the historical land cover changes at the Grand Bay National Estuarine Research Reserve and the Pascagoula River delta over two-time intervals since 1955 and focused on the forest-marsh dynamics. I found that …

Tropical Cyclone Storm Surge Detection In Slash Pine Radial Growth Along The Northern Gulf Of Mexico Coastline, Alyssa C. Crowell

Master's Theses

My thesis examines the ecological impact of tropical cyclone (TCs) storm surge on coastal slash pine (Pinus elliottii var. elliottii Engelm) communities along the Gulf of Mexico in the southern United States (U.S.). Previous research has shown slash pine radial growth trends can be examined to identify long and short-term growth changes associated with TC passage, providing insight into overall stand health and resiliency through time. However, this previous research encompasses just one site in Mississippi. My thesis expands the spatial footprint of TC-surge impact on slash pine radial growth with the addition of three new sites.

I examined …

A Comparison Of Natural, Living, And Hardened Shorelines Ability To Prevent Coastal Erosion And Maintain A Healthy Ecosystem, Gabrielle Spellmann

Master's Theses

It is important to find a suitable method to protect the U.S. Gulf Coast shoreline, since its’ low elevation and the Loop current make it vulnerable to sea level rise. I focused on two manmade methods, hardened, and living shorelines, of coastal protection for when the natural marsh suffers excess erosion rates. Living shorelines are a suite of shoreline conservation and restoration techniques that usually involve some sort of hardened structure that dampens wave energy so that the native vegetation behind it can take root and stabilize the shoreline. This study looked at six different sites, all containing a natural, …

Polycyclic Aromatic Hydrocarbons And The Microbiomes Of Two Benthic Species, Samantha Ells

Master's Theses

The presence of oil has been shown to affect the microbiomes of the water column, sediments, and organisms, both by altering the diversity and the composition of those microbial communities. If the microbiome is altered it may no longer provide benefits to its host organism, impacting its ability to survive. Thus, it is important to understand the effects of large-scale contamination events including the Deepwater Horizon oil spill. This study set out to examine the effects of oil exposure on the microbiome of two benthic species, southern flounder (Paralichthys lethostigma) and eastern oysters (Crassostrea virginica) to further understand the effects …

Application Of Machine Learning Techniques To Forecast Harmful Algal Blooms In Gulf Of Mexico, Bala Tripura Sundari Yerrapothu

Master's Theses

The Harmful Algal Blooms (HABs) forecast is crucial for the mitigation of health hazards and to inform actions for the protection of ecosystems and fisheries in the Gulf of Mexico (GoM). For the sake of simplicity of our application we assume ocean color satellite imagery from the National Oceanic and Atmospheric Administration as a proxy for HABs.

In this study we use a deep neural network trained on the 2-Dimensional time series proxy data to provide a forecast of the HABs’ manifestations in the GoM.Our approach analyzes between both spatial and temporal features simultaneously. In addition, the network also helps …

Evaluating Marsh Restoration Success Using Structural And Trophic Metrics On Deer Island, Ms, Emelia Marshall

Master's Theses

Coastal marshes in the northern Gulf of Mexico provide essential habitat for various consumer species, however, land loss has severely degraded marsh habitat in this region. Few studies have examined restored black needlerush (Juncus roemerianus) marshes, such as those found in Mississippi (MS), and how they affect faunal inhabitants.

Restoration of Juncus-dominated marshes on Deer Island, MS sought to reestablish ecological functions with the intention of supporting natural consumer assemblages. To test this, quadrat and minnow trap sampling were used to compare invertebrate and nekton abundance, species richness, and diversity of two restored marshes (5+ yrs and …

Sustainable Wastewater Treatment In The American South, Caroline Miles

Master's Theses

Aging infrastructure and changing social and environmental conditions are two factors that are currently pushing wastewater treatment towards more sustainable methods. This thesis investigates what sustainable treatment technologies are being used in the American South through a focused sample of six cities across the region: Austin, Texas; Fayetteville, Arkansas; Hattiesburg, Mississippi; Memphis, Tennessee; Ocean Springs, Mississippi; and Tuscaloosa, Alabama. The study assesses the types of sustainable treatment technology utilized at each facility, the perspectives of wastewater professionals about the technology, and the economic and environmental sustainability of each facility. Data was collected through direct observations on tours of the facilities, …

Multi-Point Flux Approximations Via The O-Method, Christen Leggett

Master's Theses

When an oil refining company is drilling for oil, much of the oil gets left behind after the first drilling. Enhanced oil recovery techniques can be used to recover more of that oil, but these methods are quite expensive. When a company is deciding if it is worth their time and money to use enhanced oil recovery methods, simulations can be used to model oil flow, showing the behavior and location of the oil. While methods do exist to model this flow, these methods are often very slow and inaccurate due to a large domain and wide variance in coefficients. …

Influence Of Natural And Anthropogenic Environmental Variability On Larval Fish Diet, Growth, And Condition In The Northcentral Gulf Of Mexico, Angie Hoover

Master's Theses

The northern Gulf of Mexico experiences high levels of freshwater runoff annually from various sources including the Mississippi River and Mobile Bay, among other sources. Early life history stages of fishes are especially vulnerable to environmental variability created by freshwater discharge. The objectives of this study were to describe the available prey field, diet, growth and condition of larval fishes with respect to various effects of freshwater discharge in the northern Gulf. The first chapter compared these parameters in larval Gulf Menhaden (Brevoortia patronus) collected from three different water masses characterized by physical and biological parameters after the …

1300 Years Of Snowpack Change For The Sangre De Cristo Mountian Range, Michael Thornton

Master's Theses

New Mexico is heavily dependent on hydrologic inputs along high elevation sites where much of the cool-season precipitation accumulates as snowpack in the lower Southern Rocky Mountains. Snowpack runoff from the Sangre de Cristo (SDC) range provides critical headwater resources for the two major rivers that run through New Mexico and by extension the greater population. Yet, over the past four decades snowpack data from high and mid-elevation sites exhibit a linear trend of declining snowpack in conjunction with earlier seasonal melting. Due to the importance of these cool-season inputs for the region, a decline in montane runoff availability is …

Combined Effects Of Dissolved Oxygen And Temperature On Aerobic Respiration And Respiratory Recovery Responses Of The Spioniform Polychaete, Streblospio Gynobranchiata, In Relation To Body Size, Alyssa Bennett

Master's Theses

Elevated surface temperatures exacerbate the threat of hypoxia within coastal ecosystems. These two primary stressors likely interact as they elicit opposing physiological responses from marine organisms. Metabolic depression is typically associated with hypoxia, while metabolic rates increase with temperature. Moreover, physiological effects of combined stressors may not be additive. In light of increasing pressures from hypoxia, elevated ocean temperatures, and other stressors within coastal regions, studies need to examine effects of multiple stressors on physiology of coastal organisms.

Mass-specific aerobic respiration (V_O2) was characterized as a proxy for metabolic cost of Streblospio gynobranchiata, at combined levels of …

Effects Of Temperature On Growth And Molting In Blue Crabs (Callinectes Sapidus) And Lesser Blue Crabs (Callinectes Similis), Abigail Ann Kuhn

Master's Theses

Temperature can exert impacts on many processes in ectotherms. With global temperatures rising due to climate change, many ectothermic species may exhibit changes in growth rates and size at maturity, and these changes can have population-level effects. Predicting responses of species to climate change will require not only knowledge of thermal tolerance limits, but also effects of temperature change on growth rates and other life history parameters. For arthropods that exhibit discontinuous growth (i.e., molting), this includes both intermolt period and growth per molt. Previous laboratory and field experiments suggest that temperature affects both intermolt period (IMP) and growth per …

Environmentally-Driven Variation In The Population Dynamics Of Gulf Menhaden (Brevoortia Patronus), Grant D. Adams

Master's Theses

Gulf Menhaden (Brevoortia patronus) is an abundant forage fish distributed throughout the Northern Gulf of Mexico (NGOM). Gulf Menhaden support the second largest fishery, by weight, in the United States and represent a key linkage between upper and lower trophic levels. Variation in the population dynamics can, therefore, pose consequences for the ecology and economy in the NGOM. Here we aim to understand variation in the individual and population dynamics of Gulf Menhaden throughout ontogeny and how such variation relates to environmental processes. We utilized a suite of fishery-dependent and –independent, remote sensing, modeled, and in situ data …

Textural Analysis Of Historical Aerial Photography To Determine Change In Coastal Marsh Extent: Site Of The Present-Day Grand Bay National Estuarine Research Reserve (Gbnerr), Mississippi, 1955-2014, Heather Michelle Nicholson

Master's Theses

Coastal marshlands are among the world’s most highly productive ecosystems but they have diminished greatly in the past several decades owing to sea-level rise and direct anthropogenic influences. An effective means of quantifying loss or gain in marsh area is through the use of aerial image data, which offers synoptic views of the landscape at decadal-scale sampling frequencies. However, a potential problem with older panchromatic, or black-and-white, imagery is the absence of multispectral information that might be used otherwise in remote identification of vegetation types. Nevertheless, the analysis of horizontal variability in image brightness values, or image texture, can be …

A Multi-Millennial Drought Reconstruction For West-Central New Mexico Using Rocky Mountain Juniper (Juniperus Scopulorum, Sarg.), Joshua S. Oliver

Master's Theses

A new multi-millennial tree-ring record from living and remnant Rocky Mountain juniper (Juniperus scopulorum, Sarg.) wood from Candelaria in west-central New Mexico is used to determine the temporal and spatial variability of scPDSI over the past two millennia (B.C. 492 to A.D. 2014). Our record indicates extreme drought events found within other hydroclimatic proxy records in the Colorado Plateau region spanning the time period (16^th century and 2^nd century megadroughts). By ranking the extreme drought events by magnitude, duration, intensity, and overall score, the most extreme drought events of this record are compared to drought events …

Modern Fair-Weather And Storm Sediment Transport Around Ship Island, Mississippi: Implications For Coastal Habitats And Restoration Efforts, Eve Rettew Eisemann

Master's Theses

The Mississippi – Alabama barrier island chain is experiencing accelerated sea level rise, decreased sediment supply, and frequent hurricane impacts. These three factors drive unprecedented rates of morphology change and ecosystem reduction. All islands in the chain have experienced land loss on the order of hectares per year since records began in the 1840s. In 1969, Hurricane Camille impacted as a Category 5, breaching Ship Island, and significantly reduced viable seagrass habitat. Hurricane Katrina impacted as a Category 3 in 2005, further widening Camille Cut. To better understand the sustainability of these important islands and the ecosystems they support, sediment …

Alluvial Sedimentation Associated With Logging In Low Gradient Watersheds In Desoto National Forest, Mississippi, Andrew W. Simmons

Master's Theses

Forestry and related businesses are an important factor of Mississippi’s economy, contributing between $11 and $14 billion annually (Mississippi Forestry Commission, 2006). The timber industry is not only important in Mississippi but is an important sector of the economy throughout the Gulf Coast region. While providing positive economic benefits to the region, the forestry industry can also negatively affect soil properties, hillslope stability, and increase sedimentation rates in local streams and rivers. The aim of this research is to determine if forestry removal causes an increase of soil erosion and how it affects floodplain sedimentation in the low gradient watershed …

Fire And Fuels: Vegetation Change Over Time In The Zuni Mountains, New Mexico, Luke Wylie

Master's Theses

The Zuni Mountains are a region that has been dramatically changed by human interference. Anthropogenically, fire suppression practices have allowed a buildup of fuels and caused a change in the fire-adapted ponderosa pine ecosystem such that the new ecosystem now incorporates many fire-intolerant species. As a result, the low-severity fires that the ecosystem once depended on to regenerate the forest are much reduced, and these low-severity fires are now replaced by crown-level infernos that threaten the forest and nearby towns. In order to combat these effects, land managers are implementing fuel reduction practices and are striving to better understand the …

The Vascular Flora Of Wayne County, Mississippi, Daniel M. Mcnair

Master's Theses

The vascular flora of Wayne County, Mississippi, was surveyed from 2013–2015, and the species of native and naturalized plants are listed. In total, 1,135 species were identified from field collections, previously collected herbarium specimens, and field observations. These belong to 556 genera and 165 families. Four of these species represent first recorded occurrences in the state of Mississippi: Blyxa aubertii Rich., Gomphrena serrata Pav. ex Moq., Isoetes valida (Engelm.) Clute, and Polypogon interruptus Kunth. GPS coordinates are given for important collection sites representing the diversity of plant communities in the county. All voucher specimens from the survey are deposited in …

Recreation Ecology Of Colorado Fourteeners: An Assessment Of Trail Usage And Impacts, James C. Ewing

Master's Theses

The popularity of climbing Colorado’s 14,000 ft. peaks, or “Fourteeners”, has risen dramatically in recent years, raising important sustainability and management questions. Moreover, groups managing the peaks operate with major capital constraints so their efforts need to be informed, prioritized, and efficient. This paper gauges the dynamics of trail usage, explanatory variables, and recreational impacts across all 58 Fourteeners, and details evaluation adjustments that minimize error and produce results in-step with the resource management framework. Relative to a baseline study completed in 2005, substantial changes occurred in trail usage and impact dynamics. The greatest changes were concentrated on peaks previously …

Habitat Selection Of Gulf-Strain Striped Bass, Morone Saxatilis: Relationships To Dynamic Abiotic Environmental Characteristics Within The Biloxi River, Mississippi, Jennifer Lynne Green

Master's Theses

The purpose of this project was to provide insights about the short- and long-term patterns of habitat selection of Gulf-strain Striped Bass, Morone saxatilis, based on spatially and seasonally variable abiotic environmental characteristics (water temperature, dissolved oxygen (DO), salinity, specific conductivity, and pH) in the Biloxi River, MS system. Juvenile hatchery-reared and feral adult Gulf-strain Striped Bass were acoustically-tagged and continuously monitored via active and passive telemetry from November 2012 – June 2014. Each month the available abiotic environmental characteristics of 40 random locations within the Biloxi River, along with sub-habitat conditions occupied by acoustically-tagged Gulf-strain Striped Bass, were …

Naturalists’ Perspectives On The Use Of Mobile Technology During A Nature Hike, Aubin Marishka Radzewicz St. Clair

Master's Theses

Naturalists act as our link between scientific knowledge and the public’s understanding of natural history and conservation efforts. In order for them to succeed, they need access to reference materials as well as up-to-date information (Mankin, Warner, & Anderson, 1999). Incorporating mobile technology (i.e. tablets) into naturalists’ endeavors in natural history and environmental education can be used as supportive and educational tools. My project investigated how newly trained naturalists used tablet technology while leading groups of children on nature hikes. I investigated naturalists’ views on the use of mobile technology as a tool during the hikes. My research was guided …

Application Of A New Tree-Ring Based Drought Reconstruction Method At Multiple Forest Sites Across Indiana, U.S.A., Kayla Mechelle Pendergrass

Master's Theses

This thesis research used techniques of dendrochronology to investigate the efficacy of using multiple co-occurring species (MCOS) in a climate reconstruction model compared to a single species (SS) in four old-growth forests in Indiana: Pioneer Mothers Memorial Forest (PM), Donaldson Woods (DW), Hoot Woods (HW), and Lilly Dickey Woods (LD). The objectives of this study were to [1] evaluate the climate response of all chronologies (n = 19; 7 species) to determine the most appropriate climate variable for reconstruction and [2] determine if the MCOS model outperforms the SS model at each individual study site. Model comparison was conducted …