Life Sciences Commons^™

Biosemiotics As An Argument For The Recontextualization Of Biological Discoveries: A Critical Analysis Of The Biosemiotic Model Of Marcello Barbieri., Augustus Morrissey Snyder

Senior Honors Projects, 2010-2019

The primary purpose of this project was to investigate and explain the philosophical approach of biosemiotics to understanding living systems in contrast to the current scientific paradigm. Secondary goals were to evaluate the potential merits and relevance of this approach to biology and to introduce such a topic for discussion to biologists in a formal academic setting. My method consisted of critical textual analysis supplemented by analogy and biological examples where appropriate. In general, contemporary biosemiotics argues for a teleologic recontextualization of biological discoveries in practice and education. This is accomplished in a sophisticated fashion through the application and modification …

Antimicrobial Activity Of Novel Cationic Amphiphiles, Melanie Kusakavitch

Senior Honors Projects, 2010-2019

This project focused on the development of amphiphiles in order to prevent hospital-acquired infections before they have a chance to enter the host, thereby reducing the need for antibiotics. The antibiotic resistance crisis of the 21st century is a dangerous epidemic with global consequences. Therefore, there is a desperate need for novel approaches in antimicrobial research. This would decrease the overall length of stay in hospitals and costs associated with such a stay. In this study, tetracationic amphiphiles with two 12-carbon chains and an aliphatic linker were studied. The MIC value of each amphiphile and strain pair was determined and …

Characterizing Tau In The Nucleus, Shaw Grindle Camphire, Madeline Louise Henwood

Senior Honors Projects, 2010-2019

A hallmark of Alzheimer’s Disease (AD) is the aggregation of hyperphosphorylated tau protein into neurofibrillary tangles. Tau localizes to both the cytoplasm and the nucleus of neuronal cells; however, its nuclear role has not been fully defined. Tau has recently been shown to bind to purine-pyrimidine (R/Y) repeats in DNA and stabilize them into Z-DNA. Evidence from our lab suggests that the binding of tau to R/Y repeats causes transcriptional changes of the NOS1 gene. Six major isoforms of tau exist in neurons. These isoforms fall into two groups, denoted as 3R tau and 4R tau, and are found at …

Evolution Of Bordetella Pertussis Genome May Play A Role In The Increased Rate Of Whooping Cough Cases In The United States, Kevin Loftus

Senior Honors Projects, 2010-2019

Bordetella pertussis is the bacterium responsible for pertussis, a disease commonly referred to as whooping cough. Recently, pertussis has made a resurgence in the U.S. despite high-vaccination coverage. Possible causes of the increased number of pertussis cases include genetic evolution of B. pertussis, increased awareness of the disease, better laboratory diagnostics, and the switch from a whole-cellular (wP) vaccine to an acellular vaccine (aP) in the 1990s. Fortunately, just as B. pertussis is evolving, so is the arsenal of technologies used to understand and combat this pathogenic bacterium. Whole genome sequencing is one technology that helps researchers better understand …

Geospatial Analysis Of Eastern Oyster Habitat And Disease In The Chesapeake Bay, Hannah Bradley

Senior Honors Projects, 2010-2019

Crassostrea virginica, common name eastern oyster, in the Chesapeake Bay is currently at 1% of its peak annual landings in 1884 (600,000 metric tons). This decline is in spite of being considered a resilient species. Causes of the decline include overharvesting, disease, and habitat loss. While efforts have been made to combat each cause, the key element to recovering the population is coordinated habitat restoration. This study aims to develop a GIS-based habitat model for the eastern oyster in the Chesapeake Bay. The first goal of this study was to determine the water quality parameters necessary for successful oyster …

Validity And Reliability Of The Ymca Submaximal Cycle Test Using An Electrically Braked Ergometer, Justin Kidd

Senior Honors Projects, 2010-2019

Purpose: To test the effect of using an electrically braked ergometer on the validity and reliability of the YMCA submaximal cycle test.

Methods: 22 male and 13 female subjects ages 19 to 31 completed one maximal treadmill test and four submaximal cycle tests to measure and estimate VO_2max, respectively. The maximal tests involved recording heart rate and VO₂ during graded exercise until volitional fatigue; an actual max was verified when two out of the following criteria: respiratory Exchange Ratio > 1.1, VO₂ plateau (< 150 ml/min increase in VO₂ during final stage), and achievement of 90% age-predicted HR max (or completed …

Escape Behavior Of The Grammostola Rosea Tarantula And Phidippus Regius Spider In Response To Heat Stimuli, Madison Thomas

Senior Honors Projects, 2010-2019

Insects respond to aversive stimuli such as wind, looming and heat by escaping in a direction opposite the stimuli. Spiders have 8 legs, which offers the spider more gait options for escape than insects, which have 6 legs. However, there are few published studies on the escape response of spiders, and there is no information that shows how location or direction of the stimulus will affect escape patterns. Therefore, the specific goal of my research was to determine the relationship between the stimulus location and direction of response in two species of spider – Regal Jumping spiders (Phidippus regius …

Contributions Of Aδ Nociceptors To The Nociceptive Withdrawal Response In Intact Unanesthetized Rats, Kristin Sammons

Senior Honors Projects, 2010-2019

The nociceptive withdrawal response (NWR), characterized by rapid withdrawal of stimulated body parts, can be evoked by stimulation of two classes of sensory nociceptors: Aδ and C-fibers. Previous studies revealed conflicting results concerning the factors that determine the direction and magnitude of the NWR. Some studies showed that the direction of the NWR depends upon stimulus location. In contrast, other studies, including those from our laboratory, showed that the direction of the NWR does not depend on stimulus location but rather is modulated by posture. However, it is likely that the heat stimuli delivered in our studies stimulated a mixture …

Identifying A B. Thuringiensis Var. Kurstaki Receptor Binding Protein For Bacteriophage Riley, Rachel Carson

Senior Honors Projects, 2010-2019

With the rapid emergence of antibiotic resistant bacteria affecting people around the world, research into new therapies using bacteriophages (phages) is increasing in the United States. Phages are viruses that can only infect bacteria and are able to co-evolve alongside the bacteria they infect. A researchers’ ability to pinpoint which phage to use in the therapy is important to combat an infection effectively. To do so, the genes that control the interaction between phages and the bacteria they infect, such as receptor binding proteins on the surface of a bacterial cell, need to be identified. Transposon mutagenesis was used in …

Enhancing The Sea-Phages App To Collect Weather-Related Metadata From Soil Sampling Locations, Kelly M. Degnon

Senior Honors Projects, 2010-2019

The bacteriophage population is extremely diverse and abundant, with a seemingly limitless number of phages that have yet to be isolated and sequenced. The SEA-PHAGES program discovers and completely sequences the genome of hundreds of phages every year, contributing to the ever-growing database of phage sequences. However, there is little data about the conditions in which these phages are collected and if weather conditions can have an effect on the likelihood of isolating a phage. The SEA-PHAGES app, when used by students in the SEA- PHAGES program, will collect data on the location and weather conditions in which a soil …

Antibacterial Properties Of Novel Amphiphiles: Exploring Structure-Activity Relationships, Reafa Hossain

Senior Honors Projects, 2010-2019

The increased cases of antibiotic resistance have large implication in hospital settings where infections by antibiotic resistant bacteria are harder to treat resulting in longer stays at the hospital, which drastically increases the costs to patients and hospitals. To address this matter, many research groups are searching for an alternative to antibiotics. One option is the development of amphiphiles, some of which have antibacterial properties. Amphiphiles contain a hydrophilic, polar head group, and a hydrophobic, nonpolar tail, which may intercalate into the cell membrane, resulting in cell lysis. Understanding the impact of amphiphile geometry on antibacterial activity allows for the …

Sustainable Agriculture: Integration Of Aquaponics At Punta Leona Hotel And Club In Costa Rica, Cailin Sierra Dyer, Paris Riley Smith

Senior Honors Projects, 2010-2019

Sustainable agriculture is becoming an increasingly important method of food production. As human populations continue to grow, attendant food demand has been increasingly met via agribusiness, including monoculture crop production and factory farming. As is well documented, the rise of agribusiness has led to resource degradation and declining stocks on which “sustainable agriculture” relies. This paper describes a local attempt to re-establish “sustainable agriculture” through the development of an aquaculture system that mimics a naturally occurring cycle that integrates fish and plants. The system was constructed over a three-week period in Punta Leona, Costa Rica. First, the ground was cleared …

Searching For Potential Binding Partners Of Arabidopsis Β-Amylase9 Using Yeast 2-Hybridization, Sheikh Hossain

Senior Honors Projects, 2010-2019

In plants, starch is a major carbon and energy storage compound. Starch is made as a product of photosynthesis while plants are in light and is degraded at night. Our lab is interested in the cellular mechanism of starch degradation in plants and for our studies we use Arabidopsis thaliana as a model. β-amylases are primarily responsible for the hydrolysis of starch in plants and a total of nine β-amylases genes are encoded in Arabidopsis thaliana. These nine genes are identified as BAM1-9. BAM9 is located in the chloroplast where starch is located, and is present …

Muscle Synergies And How They Contribute To The Movement Of The Tail During The Nociceptive Withdrawal Response In The Rat’S Tail, Hasti Izadpanah

Senior Honors Projects, 2010-2019

Noxious stimuli can evoke the nociceptive withdrawal response (NWR), which protects the affected part of the body from injury. The rat’s tail, because of the large number of joint (n=84) and muscle (n=300) degrees of freedom, may present a computational challenge to the central nervous system. Previous studies have revealed that synergies act to reduce the number of degrees of freedom across diverse movements in a variety of animals; however, there is little information in mammals on synergistic control of the tail. The long-term specific aim of this project is to test the hypothesis that during the NWR muscle synergies …

Reconstruction Of The Tail Nociceptive Withdrawal Response From Combinations Of Movement Primitives Associated With Individual Muscles In The Rat, Justin Nguyen

Senior Honors Projects, 2010-2019

Abstract

One type of involuntary movement is the nociceptive withdrawal response (NWR), in which mammals move a part of their body away from noxious, or tissue damaging, stimuli. Previous studies have evoked the limb NWR in diverse animals such as cats, frogs, and humans. However, there is minimal information on how complex movement arising from numerous muscles and joints, such as in the tail of the rat, is effectively coordinated.

The specific aim was to identify the contribution of movement from individual extrinsic muscles to the tail NWR utilizing a new technique. From previous studies, extrinsic muscles in the pelvis …

Targeting Of Central Nucleus Projections To Extramodular Zones Of The Lateral Cortex Of The Inferior Colliculus In Developing Mouse, Isabel D. Lamb-Echegaray

Senior Honors Projects, 2010-2019

The multimodal lateral cortex of the inferior colliculus (LCIC) exhibits a modular-extramodular micro-organization that is evident early in development. In addition to a set of neurochemical markers that reliably highlight its modular-extramodular organization, mature projection patterns in a variety of adult species suggest that major LCIC afferents also recognize and adhere to such a framework. This patch-matrix-like arrangement appears to segregate into distinct afferent streams, with somatosensory inputs targeting LCIC modules and auditory inputs targeting surrounding extramodular zones. Currently lacking is a detailed understanding of the development and shaping of multimodal LCIC afferents with respect to its modular-extramodular framework. The …

An N-Terminal Acidic Domain In Β-Amylase2 Is Required For K+ Regulation., Jillian Breault

Senior Honors Projects, 2010-2019

In the chloroplasts of leaf mesophyll cells, β-amylase proteins (BAMs) are responsible for breaking down starch into maltose when the plant cannot undergo photosynthesis. BAM2, which was previously considered inactive, was recently shown to be active under stromal-like levels of salt and has optimal activity at 80mM KCl. In addition, BAM2 is active as a tetramer in vivo and displays sigmoidal kinetics due to a secondary binding site that is responsible for activating BAM2 when bound to starch. A hypothesized tetramer model was created using a homology model of a BAM2 monomer and the configuration of a crystallized sweet potato …

A Cure For Salmonella: Engaging Students In Pathogen Microbiology And Bioinformatics, Sophie Jurgensen

Senior Honors Projects, 2010-2019

Advances in Next Generation Sequencing (NGS) technology have generated a vast amount of publicly available genomic data, creating a need for students with training in computational analysis. This laboratory lesson is a course-based undergraduate research experience (CURE) focusing on environmental Salmonella, a common foodborne pathogen that is of great interest to public health laboratories but is relatively less virulent than most other such pathogens. As discovery is a central tenet of CUREs, students isolate novel Salmonella enterica and related strains from stream sediment, poultry litter, or other sources in the first half of the lesson (Module 1). They also …

Investigating The Ecology Of A Rare Species On St. John, Usvi: Reintroducing Solanum Conocarpum In Light Of Climate Change, Cecilia Rogers

Senior Honors Projects, 2010-2019

Approximately two thirds of St. John is National Park territory. However, the land has been threatened with tourism and development, greatly impacting island biodiversity. One species that may become extinct due to this degradation is Solanum conocarpum. S. conocarpum is a rare shrub, endemic to the dry tropical forests of St. John, USVI. This plant is a species of conservation concern and is one of very few native and endemic plants on this island. Very little is known about the ecology and reproduction of S. conocarpum. Most plants are found on the southern half of the island. Recent observations …

Repeatability Of The Heart Rate Variability Threshold During Treadmill Exercise, Shane Chambers

Senior Honors Projects, 2010-2019

Purpose: Heart rate variability threshold (HRVT) is a clinical parameter used to gain insight into autonomic balance. Various studies have validated the use of cycle ergometers in determining HRVT, although the literature lacks evidence that treadmill use is a viable means of determining this threshold. We examined the repeatability of HRVT occurrence using standard deviation of normal R-R intervals (SDNN), root mean square of successive differences of continuous R-R intervals (RMSSD), and standard deviation of instantaneous beat intervals (SD1) in college aged males using treadmill exercise to see if this is a reliable method of threshold determination.

Methods: Ten healthy, …