Life Sciences Commons^™

Influences Of High-Fat Diet And Antrodia Camphorata In Early Life On Intestinal Tumorigensis Later In Life, Ting-Chun Lin

Doctoral Dissertations

Young-onset colorectal cancer (CRC) is a growing public health concern globally due to the increasing prevalence of westernized lifestyles during childhood and adolescence. Meanwhile, there have been reports of health-promoting effects, such as anti-inflammatory and anti-cancer properties, associated with Antrodia camphorata (AC), a unique fungus native to Taiwan. This study aimed to investigate the impact of early-life high-fat diet (HF) and AC supplementation on intestinal tumorigenesis in young adulthood, using APC^1638N mice. Additionally, the study aimed to determine the role of Turicibacter, a probiotic negatively associated with diet-induced obesity, in colorectal tumorigenesis, and to explore the anti-cancer mechanism …

Detection And Control Of Environmentally Transmissible Viruses, Anand R. Soorneedi

Doctoral Dissertations

Viruses, owing to their ubiquitous nature and ability to infect almost every other species, have long been a subject of interest for scientists. Some of the virus species can be very deadly to humans and animals alike and can impose a huge economic and health burden across the world. The recent CoVID-19 pandemic underscores the importance of timely detection for developing effective intervention strategies. Unfortunately, some of the virus species that cause significant health and economic impacts do not have robust and reliable detection methods due to several reasons. In some cases, despite having gold standard methods for detection of …

Reactive Chemistries For Protein Labeling, Degradation, And Stimuli Responsive Delivery, Myrat Kurbanov

Doctoral Dissertations

Reactive chemistries for protein chemical modification play an instrumental role in chemical biology, proteomics, and therapeutics. Depending on the application, the selectivity of these modifications can range from precise modification of an amino acid sequence by genetic manipulation of protein expression machinery to a stochastic modification of lysine residues on the protein surface. Ligand-Directed (LD) chemistry is one of the few methods for targeted modification of endogenous proteins without genetic engineering. However, current LD strategies are limited by stringent amino acid selectivity. To bridge this gap, this thesis focuses on the development of highly reactive LD Triggerable Michael Acceptors (LD-TMAcs) …

Understanding And Developing Safer Sanitation Agents And Strategies In Food Production Environments, Pragathi Kamarasu

Doctoral Dissertations

Food is a primary resource for survival of human beings, and it is also one of the primary resources for spread of infectious diseases. When both these factors come together it does not only cause ill effects on our health but also causes a burden on the food and agricultural industry. Through the help of science, us researchers and scientists have always tried to reduce this burden. And I hope like a drop of water in the ocean in some way my research contributes towards this. According to WHO currently in 2023 there are about 1 in 10 people falling …

Chemical Modification And Evaluation Of Cells Towards Use As Delivery Tools, Bishnu Prasad Joshi

Doctoral Dissertations

CHEMICAL MODIFICATION AND EVALUATION OF CELLS TOWARDS USE AS DELIVERY TOOLS SEPTEMBER 2023 BISHNU PRASAD JOSHI M.S., SRI SATHYA SAI INSTITUTE OF HIGHER LEARNING Ph.D., UNIVERSITY OF MASSACHUSETTS AMHERST Directed by: Professor Michelle E. Farkas Endogenous cells are being studied for use in various applications, such as next generation therapeutics and drug delivery vehicles. This is on account of their biocompatibility, amenable distribution profiles, and in many instances, recruitment to and localization of diseased tissues. Multiple cell types have been employed, including macrophages, stem cells, red blood cells, and T cells. Most examples of cell-based delivery utilize phagocytosed entities as …

Investigating Brainstem Mechanisms Underlying Prepulse Inhibition Of Startle Impaired In Schizophrenia, Wanyun Huang

Doctoral Dissertations

Sensorimotor gating is a fundamental pre-attentive process, which can be operationally measured through prepulse inhibition (PPI) of the startle response. PPI describes the suppression of the startle response when a non-startling stimulus (“prepulse”) precedes the startling stimulus (“pulse”). As a hallmark of schizophrenia, PPI deficits are also found in other neuropsychiatric disorders and are associated with cognitive overload and attention impairments (Braff et al., 2001). However, currently-used dopaminergic antipsychotics exhibit inconsistent effects on PPI in affected individuals (Geyer et al., 2001; Frau et al., 2014; Lally et al., 2016). Therefore, it’s critical to investigate the precise cellular and synaptic mechanisms …

An Investigation Of The Role Of Amygdalar Circuits In The Production Of Social Behavior, Joseph Fd Dwyer

Doctoral Dissertations

Adaptive social behaviors allow animals to survive, thrive, and successfully reproduce. These behaviors, including mating, parenting, affiliation, and aggression, can be stereotyped in response to specific stimuli but often display sex-specific, and interoceptive-dependent variations in their execution. A conserved set of brain regions collectively known as the social behavior network (SBN) interprets sensory information about social cues and generates an appropriate behavioral response. In this dissertation I present 5 chapters. Chapter 1 introduces historical research focusing on the neural circuits that drive social behavior and the potential impact of environmental factors on the activity of these circuits. Chapter 2 describes …

A Biochemical Approach To Characterize A Divergent Trypanosoma Brucei Mitochondrial Dna Polymerase, Polib, Stephanie B. Delzell

Doctoral Dissertations

Trypanosoma brucei is a single-celled parasitic protist that causes African sleeping sickness in people and nagana in cattle in sub-Saharan Africa. T. brucei and related trypanosomatid parasites contain an unusual catenated mitochondrial genome known as kinetoplast DNA (kDNA) composed of dozens of 23 kb maxicircles and thousands of 1 kb minicircles. The kDNA structure and replication mechanism are divergent from other eukaryotes and essential for parasite survival. POLIB is one of three Family A DNA polymerases that are independently essential to maintain the kDNA network, and has been implicated in minicircle replication. However, the division of labor among the paralogs, …

Protein Trafficking In The Endoplasmic Reticulum Mediated By A Tpr-Containing Adapter Protein, Nathan P. Canniff

Doctoral Dissertations

The endoplasmic reticulum (ER) is a large, multifunctional organelle that acts as the entrance into the secretory pathway, which accounts for the folding and maturation of approximately one third of the human proteome. It is the largest organelle in most cell types and is comprised of a single lumen and a contiguous membrane. The ER is responsible for a multitude of roles including protein translocation, folding, maturation, quality control, and glycosylation to name a few. These processes are buoyed by a large collection of chaperones and cochaperones, the largest subfamily of which is characterized by the presence of tetratricopeptide repeat …

Analysis Of Antioxidant Synergism And Its Mechanisms In Different Food Systems, Ipek Bayram

Doctoral Dissertations

Lipid oxidation results in off-flavors, toxic aldehydes, and co-oxidation of proteins and color compounds. Combining antioxidants to achieve synergistic interactions has been practiced for decades to improve oxidative stability. Nevertheless, synergism mechanisms have been poorly understood and rarely studied. This dissertation examines the mechanisms of antioxidant synergism in a model system with α-tocopherol (α-TOC) and myricetin (MYR). The interactions between α-tocopherol and taxifolin (TAX) were also tested because it has structural similarities to myricetin but has a higher redox potential. The first part of this research focused on the antioxidant interactions between α-tocopherol and myricetin in stripped soybean oil-in-water emulsions …

Osmoregulation And Appetite Regulation In A Basal Vertebrate, The Sea Lamprey (Petromyzon Marinus), Jessica Norstog

Doctoral Dissertations

Lamprey (Petromyontiformes) are the oldest extant family in the vertebrate lineage, providing a unique phylogenetic position for studies on vertebrate evolution. As a basal vertebrate, sea lamprey (Petromyzon marinus) is an important species to understand evolution and comparative physiological mechanisms, including osmoregulation and appetite regulation. Sea lamprey has anadromous (native to the Atlantic Ocean) and landlocked (invasive in the Laurentian Great Lakes in North America) populations. In both populations of sea lamprey, the blind filter-feeding freshwater (FW) larvae burrow in stream sediments for until undergoing a hormonal-driven metamorphosis. During this phase, sea lamprey do not feed as major …

Production And Characterization Of Monoclonal Antibodies To Xenopus Proteins, Brett A. Horr

Masters Theses

Monoclonal antibodies are powerful and versatile tools that enable the study of proteins in diverse contexts. They are often utilized to assist with identification of subcellular localization and characterization of the function of target proteins of interest. However, because there can be considerable sequence diversity between orthologous proteins in Xenopus and mammals, antibodies produced against mouse or human proteins often do not recognize Xenopus counterparts. To address this issue, we refined existing mouse monoclonal antibody production protocols to generate antibodies against Xenopus proteins of interest. Here, we describe several approaches for the generation of useful mouse anti-Xenopus antibodies to multiple …

Evaluating The Potential Of Ozone Microbubbles For Inactivation Of Tulane Virus, A Human Norovirus Surrogate, Bozhong Guan

Masters Theses

Microbubbles are small gas-filled bubbles with diameters ranging from 50 to 1 μm, and less than 200 nm are called nanobubbles. Their small sizes and large specific surface area result in a high gas dissolution rate and long lifetime in liquid. Ozone is a strong oxidant that destroys microorganisms and only produces oxygen as the final by-product in fresh water. However, due to the poor stability of aqueous ozone, critical gas waste happens during treatments which leads to a high economic loss. Microbubbles have shown promising enhancement of ozone treatment. In previous studies, ozone microbubbles exhibited excellent efficacy in the …

Head Stabilization And Cortical Activation In Contact Sport Athletes During Walking Under Different Visual Task Constraints, Sam Zeff

Doctoral Dissertations

Contact sport participation exposes athletes to repetitive sub-concussive head impacts, which have been shown to elicit cortical neurophysiologic, cognitive, and motor performance alterations that have the potential to disrupt visual perception. Despite the growing concern regarding sub-concussive impacts, our understanding of their implications on motor performance and risk for further injury is limited. A stable head provides a consistent perceptual platform for the visual and vestibular sensory systems, but the effects of contact sport participation on head stability and visual perception remain poorly understood. The goal of this dissertation was to understand whether contact sport participation modifies athletes’ ability to …

Impact Of Fermented And Non-Fermented Plant-Based Foods Supplementation On Gut Microbiota And Metabolites In C57bl/6j Mice, Priya Darshan Gandhi

Masters Theses

Plant-based proteins have gained popularity because of their high nutritional value and more sustainable alternative to animal-based proteins. Soybean and chickpea are two widely consumed plant-based proteins, whereas tempeh is a popular plant-based fermented whole food product that is rich in protein. With the increase in the development of plant-based food products, there is little research into how plant proteins affect gut microbiota characteristics and metabolites. Therefore, there is a need to understand the underlying mechanisms surrounding the consumption of these foods. The purpose of this study was to investigate the health benefits of soybean, chickpea, and their tempeh counterparts’ …

Incorporating Biodiversity-Ecosystem Function Relationships Into Models And Conservation Planning, Sarah R. Weiskopf

Doctoral Dissertations

Unsustainable use of nature and climate change are leading to unprecedented biodiversity declines. These declines have cascading impacts on ecosystem function and ecosystem services, and ultimately on human well-being. International agreements have been adopted that aim to address both crises. The Paris Agreement, adopted in 2015, set global emission reductions targets. In 2022, most countries agreed to the Kunming-Montreal Global Biodiversity Framework (GBF). The GBF sets 23 ambitious targets for 2030 ranging from reducing threats to biodiversity, meeting people’s needs through sustainable use and benefit sharing, and solutions for implementation. Although adopting global goals and targets is an important first …

The Discovery Of A Novel Bacteria From A Large Co-Assembly Of Metagenomes, Matthew Finkelberg

Masters Theses

In the summer of 2022, a co-assembly of metagenome was created using the microbes found at Barres Woods in Harvard Forest. 14 samples were taken, and sample was split into the organic and mineral layer, which totals 28 Bulk MAGs. Within this Co-assembly, 4 different genomes were found which were designated with the phylum of FCPU426. Three of which were considered medium quality and one being assigned high quality. The novel phyla first appeared in NCBI and GTDB databases in June 2018. The name FCPU426 dates to 2010 and was named based on the 16s amplicon sequencing.

The novel phylum …

Effect Of Metabolic Rate On Mitochondrial Efficiency During Exercise In Human Skeletal Muscle In Vivo, Muhammet Enes Erol

Masters Theses

Introduction: Recent evidence in isolated mitochondria and permeabilized muscle fibers in ex vivo using simultaneous measurements of O₂ consumption and ATP production suggest that mitochondrial efficiency provides an additional mechanism to fine-tune oxidative phosphorylation rate to ATP demand in skeletal muscle. However, in the absence of a direct measurement of both VO₂ and ATP synthesis from the same region of the contracting muscle, whether this mechanism plays a role in the skeletal muscle in vivo is still unknown. Purpose: Using a noninvasive approach combining phosphorus and proton magnetic resonance spectroscopy (³¹P/¹H-MRS), the present study …

Sucrose Concentration And Fermentation Temperature Impact The Sensory Characteristics And Liking Of Kombucha, Gil Cohen

Masters Theses

Kombucha is a fermented tea beverage consumed for its probiotics and functional properties and has a unique sensory profile driven by the properties of tea polyphenols and fermentation products, including organic acids. Fermentation temperature and sucrose content affect the fermentation process and the production of organic acids, yet less is known about the impact on the sensory profile and consumer acceptance. Thus, we aim to examine the impact of sucrose concentration and fermentation temperature on sensory attributes and liking. For this study, kombucha tea was fermented at three different concentrations of sucrose and fermented at two temperatures for 11 days. …

Elucidating The Priming Mechanism Of Clpxp Protease By Single-Domain Response Regulator Cpdr In Caulobacter Crescentus, Kimberly E. Barker

Masters Theses

In Caulobacter crescentus, progression through the cell cycle is regulated by the AAA+ protease ClpXP, and there are several classes of cell-cycle substrates that require adaptors in order to be degraded. CpdR, a single domain-response regulator, binds the N-terminal domain of ClpXP and primes the protease for degradation of downstream factors (Lau et al., 2015). The ability of CpdR to bind ClpX is regulated by its phosphorylation state. In the unphosphorylated state, CpdR binds ClpXP and guides its localization to the cell pole during the swarmer to stalked transition, where CpdR is mediates degradation of substrates such as PdeA. …

Climate Change, Giant Viruses And Their Putative Hosts, Sarah K. Tucker

Masters Theses

Viruses hold our attention for the horrific impact they have on human health and welfare. However, viruses are a critical part of our ecosystem and facilitate the cycling of carbon and other important nutrients. The cycle of virus infection, followed by host resistance and the subsequent evolution of new strains enables adaptation to changing hosts and the environment. Giant viruses, some with particle sizes large enough to be visible in light microscopes and their bewildering array of accessory genes, have captivated scientists and the general public since their discovery two decades ago. Giant viruses are part of the Nucleocytoviricota (NCV) …

Caulobacter Clpxp Adaptor Popa’S Domain Interactions In The Adaptor Hierarchy Of Ctra Degradation, Thomas P. Scudder

Masters Theses

The degradation and recycling of protein is a process essential for the maintenance and regulation of cellular function. More specifically, in Caulobacter crescentus, the ClpXP protease is responsible for driving progression through the cell cycle and protein quality control. This protease utilizes three known adaptors to selectively degrade proteins that initiate different stages of development. This thesis will elaborate on the specific binding interface on one of these adaptors, PopA, with another, RcdA, and focus in on specific residues on PopA and investigate their roles in adaptor binding and delivery of CtrA, the master regulator of Caulobacter. Finally, I …

Combining Simulation And The Mspa Nanopore To Study P53 Dynamics And Interactions, Samantha A. Schultz

Masters Theses

p53 is a transcription factor and an important tumor suppressor protein that becomes activated due to DNA damage. Because of its role as a tumor suppressor, mutations in the gene that encodes it are found in over 50% of human cancers. The N-terminal transactivation domain (NTAD) of p53 is intrinsically disordered and modulates the function and interactions of p53 in the cell. Its disordered structure allows it to be controlled closely by post-translation modifications that regulate p53’s ability to bind DNA and interact with regulatory binding partners. p53 is an attractive target for developing cancer therapeutics, but its intrinsically disordered …

Microplastics In Local Communities’ Tap Water, Zachary T. Rattell

Masters Theses

Microplastics are an emerging environmental contaminant. One of the ways microplastics can get into the environment is by the breakdown of larger plastics. These plastics can come from industrial practices, discarded fabrics, agriculture, and general plastic waste. As these plastics are broken down microplastics leach into the environment. The widespread use of plastics has resulted in the spread of microplastic contaminants all over the world. Microplastics have been reported to be in drinking water, so this paper is looking at the presence of microplastics in local communities of different demographics and socioeconomic statuses. In other studies of different drinking water …

Climate Change Attitudes Of United States Family Forest Owners And Their Influence On Forest Management Practices, Logan Miller

Masters Theses

Understanding family forest owners’ (FFOs’) attitudes and behaviors towards climate change will allow for more sustainable forest management practices to be implemented, helping to combat climate change and its impacts. The goals for this research are (1) to begin measuring U.S. FFO attitudes toward climate change, (2) to determine what factors impact these attitudes, and (3) to determine how they influence the FFO’s management practices using the Responsible Environmental Behavior (REB) framework (Hines et al. 1987). Chapter 1 explores the different facets of my thesis project focusing on forests and forests’ ecosystem services, forest ownership in the United States, and …

Atomistic Simulations Of Intrinsically Disordered Protein Folding And Dynamics, Xiping Gong

Doctoral Dissertations

Intrinsically disordered proteins (IDPs) are crucial in biology and human diseases, necessitating a comprehensive understanding of their structure, dynamics, and interactions. Atomistic simulations have emerged as a key tool for unraveling the molecular intricacies and establishing mechanistic insights into how these proteins facilitate diverse biological functions. However, achieving accurate simulations requires both an appropriate protein force field capable of describing the energy landscape of functionally relevant IDP conformations and sufficient conformational sampling to capture the free energy landscape of IDP dynamics. These factors are fundamental in comprehending potential IDP structures, dynamics, and interactions. I first conducted explicit solvent simulations to …

The Impact Of Cannabidiol On Intestinal Tumorigenesis: A Pilot Study On Caco-2 Cell, Yingxue Guan

Masters Theses

Colorectal cancer (CRC) is the third most prevalent cause of cancer-related deaths worldwide. Despite the availability of early diagnosis and treatment options, which could potentially increase the 5-year survival rate, the accessibility of such CRC management measures remains limited due to cost barriers and uneven healthcare infrastructure globally. This underscores an urgent need for effective preventive methods and affordable treatments. Cannabidiol (CBD), a compound derived from cannabis, has garnered attention as a potential natural therapeutic agent. This study investigates the influence of CBD on the serotonin pathway and intestinal tumorigenesis. Serotonin, primarily produced in the intestine, is not only a …

Enhanced Killing Of Mycobacterium Abscessus By Nanosponge Delivery Of Antimycobacterials, Casey Albano

Masters Theses

The increasing prevalence of bacterial infections has made it necessary to find novel methods of combatting the resistance of bacteria to conventional antibiotics. Mycobacterium abscessus is an increasingly prevalent pathogen that is intrinsically drug resistant, therefore difficult to treat. The use of phytochemicals as a source of alternate antibiotics has been explored, however, the poor solubility of phytochemicals in water makes it difficult to effectively deliver them to bacterial biofilms. In this study, I investigated the efficacy of nanosponge-emulsified phytochemicals in killing M. abscessus biofilms. The nanosponge technology was used to improve the solubility and stability of the phytochemicals, allowing …

Factors Affecting The Distribution Of Malayan Sun Bear In Htamanthi Wildlife Sanctuary, Northern Myanmar, Min Hein Htike

Masters Theses

To understand the modeling challenges and to examine the important factors considered in Malayan sun bear (Helarctos malayanus) distribution studies, we reviewed 33 peer-reviewed articles published from 2003-2023. These studies used 54 environmental or anthropogenic variable types to investigate the distribution, habitat preference, and home range composition of sun bears. Most variable types are human disturbance (n=4), climate (n=3), topography (n=1), vegetation (n=11), or other ecological factors (n=3). Nevertheless, a number of rarely used variables might also be useful to include in future evaluations (i.e., food abundance), and observational evidence suggests that predator occurrence could also be informative. …

Impact Of Animal Protein And Plant Protein On The Gut Microbiota And Metabolites Of C57bl/6j Mice, Levina Soetyono

Masters Theses

Plant-derived protein has gained popularity in recent years due to its health and environmental impact. Studies comparing the health benefits of animal and plant protein have mostly focused on soy as a plant protein representative due to its popularity. Demand for other protein sources such as peas and fava beans has been increasing; thus, the health impact of plant protein sources other than soy must be assessed. Evidence has shown that diet influences the gut microbiota and the metabolites in the body. Metabolites associated with amino acids are strong contributors to the metabolite distinction between dietary animal and plant foods. …