Life Sciences Commons^™

Movin' & Groovin' Salamanders: Conservation Implications Of Large Scales And Quirky Sex, Noah D. Charney

Open Access Dissertations

Mole salamanders (Ambystoma) and woodfrogs (Lithobates sylvaticus) are abundant in New England and depend on ephemeral wetlands for breeding. Their aquatic habitats have been well studied and are protected by several local and regional regulations. State endangered species laws also protect mabled salamanders (A. opacum), Jefferson salamanders (A. jeffersonianum), and blue-spotted salamanders (A. laterale). However, these amphbibians spend most of their adult lives in terrestrial habitats that remain poorly protected and elusive to researchers.

In chapter 1, I developed a novel technique using passive integrated transponders for tracking small animals. I used this technique to track marbled salamanders walking up …

The Roles Of Notch1 And Pkc-Θ In Immune Mediated Bone Marrow Failure, Justine E. Roderick

Open Access Dissertations

We sought to evaluate the individual contributions of Notch1 and PKC-ζ to disease progression in a mouse model of immune-mediated bone marrow failure and to define a mechanism for their potential cellular cooperation. We transferred parental bulk splenocytes into F1-hybrid recipients to induce a robust immune-mediated bone marrow failure (BMF) that we could partially rescue by administering a pharmacological inhibitor of Notch activation. Transferring splenocytes from PKC--ζ-/- animals did not induce disease, and treating animals with a pharmacological inhibitor of PKC-ζ also provided full protection from disease. We found that inhibiting Notch1 resulted in PKC-ζ down-regulation, and blocking PKC-ζ reduced …

Consequence Of Functioning At The End Range Of Joint Motion: Implications On Anterior Knee Pain, Pedro A. Rodrigues

Open Access Dissertations

“Excessive” and/or “delayed” subtalar joint (STJ) pronation has been linked to overuse injuries because of its influence on tibial internal rotation (TIR). The transfer of STJ pronation to TIR occurs via the talocrual joint, believed to have limited transverse plane motion. However, studies have shown the talocrural joint to have more transverse plane motion than once believed, therefore it is feasible that the STJ will only influence the motion of the tibia once this motion has been exhausted.

Currently, studies evaluating this relationship have focused on peak joint angles and excursion without reference to the amount of motion available at …

Novel Systems For The Functional Characterization Of Genes Related To Paclitaxel Metabolism In Taxus Cell Cultures, Khamkeo Vongpaseuth

Open Access Dissertations

Human society has benefited greatly from plant secondary metabolites, often utilizing a variety of compounds as dyes, food additives, and drugs. In particular, pharmaceutical development has benefited greatly from plant secondary metabolites. One example of this utility is paclitaxel, a highly substituted diterpene approved in the treatment of breast cancer, ovarian cancer, non-small cell lung cancer, and the AIDSrelated Kaposi’s sarcoma. Demand of paclitaxel is likely to increase, due to the current examination of paclitaxel in numerous clinical trials against a variety of other cancers.

Taxus cell culture represents a production source of paclitaxel to meet future demand. However, paclitaxel …

Optimal Control Of Human Running, Ross Herbert Miller

Open Access Dissertations

Humans generally use two modes of locomotion as adults. At slow speeds we walk, and at fast speeds we run. To perform either gait, we use our muscles. The central questions in this dissertation were: (1) Why do humans run the way they do, and (2) How do the mechanical properties of muscle influence running performance? Optimal control simulations of running were generated using a bipedal forward dynamics model of the human musculoskeletal system. Simulations of running and sprinting were posed as two-point boundary value problems where the muscle excitation signals were optimized to maximize an optimality criterion. In the …

Adaptations To Running While Footwear Cushioning And Surface Are Manipulated, Trampas M. Tenbroek

Open Access Dissertations

Minimal footwear sales have encountered rapid growth over the last several years. Minimal footwear are often constructed with thin basic uppers and thin, flexible midsoles. It is likely that running in minimal footwear will require adaptation and adjustments as the amount of cushioning and the geometry of the foot/ground interface will be substantially different than what many are accustomed to. This research investigated the effect footwear cushioning amount and the running surface had on running patterns. Study 1 (Chapter IV) utilized two different running footwear conditions and two different cushioned treadmill conditions, as well as a barefoot condition, to investigate …

Novel Progestin Signaling Molecules In The Brain: Distribution, Regulation And Molecular Mechanism Of Action, Karlie A. Intlekofer

Open Access Dissertations

Progesterone regulates female reproduction in many ways, yet it is still unclear how signals are conveyed through nuclear and extranuclear receptors. The traditional notion was that progesterone binds classical progesterone receptors to alter gene transcription. This view has been challenged by the discovery of additional progesterone signaling molecules important for progesterone actions in non-neural cells. In granulosa cells, the progesterone receptor membrane component 1 (Pgrmc1) mediates progesterone effects by forming a receptor complex with binding partner, Serpine mRNA binding protein 1, but it is unknown whether these molecules function similarly in the brain. To begin to address these issues, I …

The Role Of Bacteriocins In Mediating Interactions Of Bacterial Isolates From Cystic Fibrosis Patients, Emine Suphan Bakkal

Open Access Dissertations

Cystic Fibrosis (CF) is a common autosomal genetic disorder in Caucasian populations. CF is caused by mutations in the cftr gene, which encodes the CF transmembrane conductance regulator (CFTR). CFTR regulates chloride and sodium ion transport across the epithelial cells lining the exocrine organs. Mutations in the cftr result in a failure to mediate chloride transport, which leads to dehydration of the mucus layer surrounding the epithelial cells. The mucus coating in the lung epithelia provides a favorable environment for invasion and growth of several opportunistic bacterial pathogens resulting in life threatening respiratory infections in CF patients. Pseudomonas aeruginosa(Pa) and …

Avian Ecology And Conservation In Tropical Agricultural Landscapes With Emphasis On Vermivora Chrysoptera, Richard Brooks Chandler

Open Access Dissertations

The world's biodiversity is concentrated in tropical ecosystems, yet tropical forests are being converted for agriculture at a rapid rate. I evaluated the potential of an alternative coffee production system known as Integrated Open Canopy (IOC) to contribute to avian conservation. This study was conducted from 2005-2010 in the Cordillera de Tilarán, Costa Rica. My results indicate that species richness of forest-dependent birds was higher in IOC farms than in shade coffee farms, and was comparable to secondary forest sites. There was no difference in species richness of Neotropical-Nearctic migrants between IOC and shade coffee farms. Overall similarity was higher …

New Genomic Approaches Reveal The Process Of Genome Reduction In Prochlorococcus, Zhiyi Sun

Open Access Dissertations

Small bacterial genomes are believed to be evolutionarily derived from larger genomes through massive loss of genes and are usually associated with symbiotic or pathogenic lifestyles. It is therefore intriguing that a similar phenomenon of genome reduction has been reported within a group of free-living phototrophic marine cyanobacteria Prochlorococcus. Here I have investigated the roles of natural selection and mutation rate in the process of Prochlorococcus genome size reduction. Using a data set of complete cyanobacterial genomes including 12 Prochlorococcus and a sister group of 5 marine Synechococcus, I first reconstructed the steps leading to Prochlorococcus genome reduction …

Xenopus Adam13 And Adam19 Are Important For Proper Convergence And Extension Of The Notochord, Russell David Neuner

Open Access Dissertations

Gastrulation is a fundamental process that reorganizes the primary germ layers to shape the internal and external features of an early embryo. Morphogenetic movements underlying this process can be classified into a variety of different types of cellular movements. I will focus on investigating in this thesis two types of cell movements in the dorsal mesoderm; mediolateral cell intercalation and convergence and extension. During gastrulation, mesoderm cells send protrusions to gain traction on neighboring cells and the surrounding extracellular matrix; a process called mediolateral cell intercalation. Mesoderm cells use this type of cell movement to converge and extend the dorsal …

Diversity Of Eukaryotes And Their Genomes, Laura Ellen Wegener Parfrey

Open Access Dissertations

My dissertation addresses two aspects of eukaryotic evolution, 1) the organization of eukaryotic diversity and 2) genomic variation in Foraminifera. The bulk of eukaryotic diversity is microbial with plants and animals representing just two of the estimated 75 lineages of eukaryotes. Among these microbial lineages, there are many examples of dynamic genome processes. Elucidating the origin and evolution of genome features requires a robust phylogenetic framework for eukaryotes. Taxon-rich molecular analyses provide a mechanism to test hypothesized evolutionary relationships and enable placement of diverse taxa on the tree of life. These analyses result in a well-resolved eukaryotic tree of life. …

Innate Immune Responses To B. Burgdorferi Mediated By Jnk1 And The Cochaperone, Methylation Controlled Dnaj (Mcj), Hooman Izadi

Open Access Dissertations

The infections agent of Lyme disease, Borrelia Burgdorferi is a complex microorganism with a highly diverse genome. One of the most remarkable aspects of the B. burgdorferi genome is the large number of sequences encoding predicted or known lipoproteins, including outer-surface proteins. The B. burgdorferi genome encodes no recognizable toxins. Instead, this extracellular pathogen causes pathology by migration through tissues, adhesion to host cells, and evasion of immune clearance. Inflammation elicited by infection with B. burgdorferi depends on the ability of the spirochete to survive in the mammalian host, as well as the immune response that arises upon the interaction …

The Role Of Dawn Song In Tree Swallows And Its Place In The Diversity Of Oscine Song Learning, Benjamin Nichols Taft

Open Access Dissertations

Aspects of the behavioral ecology of bird song learning are examined in three parts. First, an approach from image analysis is extended to allow rapid, quantitative description of animal sounds. In this approach, sounds are summarized as sets of time-frequency-amplitude landmarks. Second, the role of dawn song in tree swallow (Tachycineta bicolor) breeding biology is examined. Song syllable sharing among tree swallows was found to be high among birds nesting at the same site, but sharing was lower between birds nesting at different sites. When birds nested at different sites, the distance between those sites was not related …

Growth Kinetics And Constraints Related To Metabolic Diversity And Abundances Of Hyperthermophiles In Deep-Sea Hydrothermal Vents, Helene Chavanne Ver Eecke

Open Access Dissertations

This dissertation research aims to show that there are deterministic microbial distribution patterns based on quantifiable environmental thresholds by determining and rationalizing the relative abundances of hyperthermophilic methanogens, autotrophic iron(III) oxide reducers, and heterotrophic sulfur reducers within deep-sea hydrothermal vents. Organisms of these metabolisms are predicted to be relatively more abundant in different regions depending on environmental conditions such as reduction potential, organic carbon, and hydrogen availability. The relative abundances of these metabolic groups within samples from the Endeavour Segment and Axial Volcano in the northeastern Pacific Ocean were determined. Iron(III) oxide reducers were detected in nearly all samples while …

Muscle Weakness In Persons With Multiple Sclerosis, Linda Haiwon Chung

Open Access Dissertations

Skeletal muscle weakness is a problem for people living with Multiple Sclerosis (MS). Alterations in the central nervous system may be the primary source of muscle weakness because of the pathophysiology of MS. However, changes in peripheral mediators of force production may also contribute to muscle weakness in persons with MS. The main objective of the dissertation was to systematically identify key neural (motor unit discharge rates, spasticity) and muscular (muscle size, contractile function) mechanisms of force production that may explain lower isometric strength and dynamic power in persons with MS compared with age-matched controls. The knee extensor muscles of …

Reproduction In The Wild: The Effect Of Individual Life History Strategies On Population Dynamics And Persistence, Jason Asa Coombs

Open Access Dissertations

For a sexually reproducing species, the two major decisions facing all individuals are when and with whom to reproduce. When scaled to the population level, the outcome from all individual decisions determines reproductive variance, and age-class contribution to population growth rate. Both of these attributes determine a population‟s effective size (Ne), which is directly correlated with its fitness, persistence probability, and adaptability. The questions of when and with whom to reproduce, and their subsequent effects on Ne and age-at-maturity were assessed for wild brook trout (Salvelinus fontinalis) populations. Mating pairs were significantly size-assortative, with individual length accounting for 37% of …

Examining The Development Of Handedness In Rhesus Monkey And Human Infants Using Behavioral And Kinematic Measures, Eliza Lynn Nelson

Open Access Dissertations

Handedness is a widely studied behavioral asymmetry that is commonly measured as a preference for using one hand over the other. Right hand preference in humans occurs at a ratio of 9:1, whereas left hand preference in rhesus monkeys has been estimated at 2:1. Despite differences in the direction and degree of hand preference, this dissertation investigated whether primates share common underlying factors for the development of handedness. Previous work in human infants has identified a predictive relationship between rightward supine head orientation and later right hand preference. Experiment 1 examined the relationship between neonatal head orientation and later hand …

Growth Of Atlantic Salmon (Salmo Salar) In Freshwater, Douglas Bradlee Sigourney

Open Access Dissertations

Growth plays a key role in regulating ecological and population dynamics. Life history characteristics such as age at maturity, fecundity and age and size at migration are tightly linked to growth rate. In addition, size can often determine survival and individual breeding success. To fully understand the process of growth it is important to understand the mechanisms that drive growth rates. In Atlantic salmon, growth is critical in determining life history pathways. Models to estimate growth could be useful in the broader context of predicting population dynamics. In this dissertation I investigate the growth process in juvenile Atlantic salmon (Salmo …

Role Of Sulfate-Reducing Bacteria In The Attenuation Of Acid Mine Drainage Through Sulfate And Iron Reduction, Caryl Ann Becerra

Open Access Dissertations

Acid mine drainage (AMD) is an acidic, iron-rich leachate that causes the dissolution of metals. It constitutes a worldwide problem of environmental contamination detrimental to aquatic life and water quality. AMD, however, is naturally attenuated at Davis Mine in Rowe, Massachusetts. We hypothesize that sulfate-reducing bacteria (SRB) are attenuating AMD. To elucidate the mechanisms by which SRB attenuate AMD, three research projects were conducted using a suite of molecular and geochemical techniques. First we established biological influence on the attenuation of AMD by comparing the microbial community and geochemical trends of microcosms of two contrasting areas within the site: AMD …

Conservation While Under Invasion: Insights From A Rare Hemiparasitic Plant, Swamp Lousewort (Pedicularis Lanceolata Michx.), Sydne Record

Open Access Dissertations

with non-native invasive species is considered a major threat to many rare native species. As such, invasives removals are a common management strategy. Rare native species that interact uniquely with other organisms in their community (e.g., hemiparasitic plants) may be adversely affected by removing invasives. A management plan for a regionally rare hemiparasitic plant in Massachusetts, Pedicularis lanceolata Michx., identified invasives as a threat, but more quantitative evidence is needed to determine how P. lanceolata‟s persistence is influenced by its co-occurrence with native or invasive hosts. This research asks how P. lanceolata is affected by growth with native versus invasive …

Notch 1 Mediated Inhibition Of Nur77-Induced Apoptosis: Implications For T-Cell Leukemia, Jonathan George Rud

Open Access Dissertations

It is widely accepted that activating mutations of genes encoding the Notch family of transmembrane receptors, specifically Notch1, are associated with oncogenic transformation. Previous data from our lab has shown that an active form of Notch1 (NICD) provides protection against apoptosis in D011.10 T cells; and that this effect may be attributed to NICD binding the pro-apoptotic protein Nur77. Nur77 is an immediate early gene that is upregulated during both negative selection of thymocytes and activation-induced apoptosis in D011.10 T cells. Nur77 upregulation is tightly regulated and requires MEF2D, NFAT, and the transcriptional co-activator, p300, to effectively respond to apoptotic …

Identifying Critical Fish Habitat And Long-Term Trends In Fish Abundances In The Hudson River Estuary, Megan Patricia O'Connor

Open Access Dissertations

The Hudson River estuary (HRE) is a well monitored aquatic resource and much secondary data exist for this system. We developed two objectives based on accessible HRE aquatic data. The first objective was to determine if changes in HRE fish community over the time period (1974 to 2005) years are correlated to local and regional climate. We addressed this objective by employing a multivariate statistical approach. We confirmed that the HRE fish community structure has changed over the time period (1974 to 2005). These changes are correlated with local hydrology (freshwater flow and water temperature) and regional climate (Atlantic Multidecadal …

Fire Regime Dynamics Following The Mid-Holocene Hemlock Decline In Eastern North America, Kennedy Helm Clark

Open Access Dissertations

Approximately 5,000 years ago, eastern hemlock (Tsuga canadensis) experienced a sudden, rapid, range-wide decline most probably due to pest, disease, or climate change. An aphid-like defoliating insect, the hemlock woolly adelgid (Adelges tsugae), recently (1950’s) introduced to eastern North America has been spreading across the eastern United States. The adelgid attacks all size and age classes of hemlocks causing up to 95% mortality in affected stands. The potential for another range-wide hemlock decline has raised a number of concerns including the increased threat of wildfire. Altered fuel loadings in modern adelgid-affected stands and the effects of presumably similar changes in …

From Mouse Mammary Tumor Model To New Therapeutic Method ---Mammary Tumor Development In Balb/C-Trp53+/- Mice And Magnetic Nanoparticle Induced Heating For Cancer Treatment, Haoheng Yan

Open Access Dissertations

Mutation and loss of p53 function are common features among human breast cancers. We use BALB/c-Trp53+/- mice as a model to examine the sequence of events leading to mammary tumors. Mammary epithelium proliferation rates were similar in both BALB/c-Trp53+/- mice and wild type controls. Among the 28 mammary tumors collected from BALB/c-Trp53+/- mice, loss of heterozygosity for Trp53 was detected in more than 90% of invasive mammary tumors. Transplantation of Trp53+/- ductal hyperplasias indicated an association between loss of the wild type allele of Trp53 and progression to invasive carcinomas. Expression of biomarkers such as ERα, PR, Her2/Neu and activated …

Plantar Fasciitis: Biomechanics, Atrophy And Muscle Energetics, Ryan Chang

Open Access Dissertations

Purpose: The purpose of this dissertation was to determine the effects of chronic plantar fasciitis on intrinsic foot structures with respect to biomechanics, muscle atrophy and muscle energetics. This was accomplished in three parts. Methods: In Part I, a three-dimensional motion capture system with a synchronized force platform quantified multi-segment foot model kinematics and ground reaction forces associated with walking. Healthy individuals were compared to individuals with chronic plantar fasciitis feet. Typical kinematic variables, measures of coupling, phase and variability were examined in rearfoot, forefoot and hallux segments. In Part II, foot and leg magnetic resonance images were taken in …

Analyses Of Arabidopsis Yellow Stripe-Like (Ysl) Family Of Metal Transporters, Heng-Hsuan Chu

Open Access Dissertations

Iron is one of the most important micronutrients used by living organisms. Iron is frequently a limiting nutrient for plant growth, and plants are a major source of iron for human nutrition. The most prominent symptom of iron deficiency in plants is interveinal chlorosis, or yellowing between the veins, which appears first in the youngest leaves. Iron deficiency anemia (IDA) is the number one human nutritional deficiency worldwide. In order to solve the problem of iron deficiency, it is desirable to breed plants that have increased iron in those parts that are consumed by humans. To do this, we must …

Functional Consequences Of Acute Temperature Stress In The Western Fence Lizard, Sceloporus Occidentalis, David Michael Mcmillan

Open Access Dissertations

Understanding the effects of natural variation in environmental temperature on organisms and how those organisms evolve to live in different thermal environments is a central tenet of evolutionary physiology. Phenotypic differences among populations are the result of local adaptation, innate genetic differences between populations, and phenotypic plasticity, differential responses to the environment. Although not mutually exclusive, distinguishing between these paradigms can help illuminate species boundaries resulting from thermal limitations in physiology. For my dissertation, I examined geographic variation in measures of thermal physiology of the western fence lizard, Sceloporus occidentalis to understand the relative role of adaptation and acclimation in …

Vulnerability Of Logfin Inshore Squid (Loligo Pealeii) To Predation: The Influence Of Relative Prey Size And Behavior, Michelle Dana Staudinger

Open Access Dissertations

Cephalopods provide forage to a wide range of predators in marine food-webs. Despite their ecological importance, a basic understanding of the mechanisms controlling predation risk and demand is lacking. This is true of one of the most common species of squid found in the northwest Atlantic, the longfin inshore squid (Loligo pealeii). In this dissertation, I address this shortcoming by investigating the role that size and behavior play in influencing squid’s vulnerability to predation. I used long-term food habits, population survey, and commercial landings data, to quantify size-based patterns of predation respective to 25 species of predators. Additionally, I estimated …

"A"-Kids: Activity Kcal Intervention Daily Study. Effects Of 100-Kcal Daily Energy Expenditure On Total Moderate-To-Vigorous Physical Activity In 3rd Grade Children, Cheryl A. Howe

Open Access Dissertations

A selection of common children’s games were measured in a laboratory-based study to be enjoyable and to elicit sufficient physical activity energy expenditure (PAEE) in 3rd grade children to combat the purported chronic energy surplus of childhood obesity (~100 kcal.day-1). PAEE during the games was similar for boys and girls, yet overweight children expended greater PAEE relative to body weight than healthy weight children. During a subsequent simulated recess program, the enjoyment declined over the 10-session program with no significant decline in PAEE. Using the enjoyable games of known energy cost in a structured recess program for 9 weeks successfully …