Digital Commons Network^™

Hydrogen-Bonding-Directed Ordered Assembly Of Carboxylated Poly(3-Alkylthiophene)S, David W. Bilger, Jose A. Figueroa, Neil D. Redeker, Amrita Sarkar, Morgan Stefik, Shanjuu Zhang

Faculty Publications

Hydrogen-bonding-induced ordered assembly of poly(3-alkylthiophene)s derivatives bearing carboxylic acid groups has been investigated from diluted and concentrated solutions to solid films using ultraviolet–visible absorption spectroscopy, polarized optical microscopy, and four-point probe conductivity measurements. In dilute solutions, the polymer undergoes a spontaneous structural transition from disordered coil-like to ordered rodlike conformations, which is evidenced by time-dependent chromism. Many factors such as alkyl-chain length, types of solvents, and temperature are studied to understand the assembly behavior. Transition kinetics of the assembly process reveals a universal second-order rate law, indicating an intermolecular origin due to hydrogen bonding. When more concentrated, hydrogen bonding drives …

Blockade Of Cb1 Cannabinoid Receptor Alters Gut Microbiota And Attenuates Inflammation And Diet-Induced Obesity, Pegah Mehrpouya-Bahrami, Kumaraswamy Naidu Chitrala, Mitra S. Ganewatta, Chuanbing Tang, E Angela Murphy, Reilly Enos, Kandy T. Velazquez, Jamie Mccellan, Mitzi Nagarkatti, Prakash Nagarkatti

Faculty Publications

Obesity is characterized by chronic low-grade, systemic inflammation, altered gut microbiota, and gut barrier disruption. Additionally, obesity is associated with increased activity of endocannabinoid system (eCB). However, the clear connection between gut microbiota and the eCB system in the regulation of energy homeostasis and adipose tissue inflammation and metabolism, remains to be established. We investigated the effect of treatment of mice with a cannabinoid receptor 1 (CB1) antagonist on Diet-Induced Obesity (DIO), specifically whether such a treatment that blocks endocannabinoid activity can induce changes in gut microbiota and anti-inflammatory state in adipose tissue. Blockade of CB1 attenuated DIO, inflammatory cytokines …

The Effects Of Joule Heating On Electric-Driven Microfluidic Flow, Alexander P. Spitzer

Journal of the South Carolina Academy of Science

This study sought out to more clearly understand the relationship between Joule heating and fluid flow in microfluidic environments, and more specifically, under what circumstances would the fluid flow in the device possibly hinder an experiment being run on it. It had been previous theorised that an electric field may produce turbulence and even vortices within the fluid, which this study attempted to reproduce. Several variables were tested, namely insulating and conducting fluids, higher and lower AC voltages, Newtonian vs. non-Newtonian fluids, and higher and lower DC voltages. A correlation between these variables and turbulent flow was found, with more …

Reconstructing Yeasts Phylogenies And Ancestors From Whole Genome Data, Bing Feng, Yu Lin, Lingxi Zhou, Yan Guo, Robert Friedman, Roufan Xia, Chao Liu, Jijun Tang

Faculty Publications

Phylogenetic studies aim to discover evolutionary relationships and histories. These studies are based on similarities of morphological characters and molecular sequences. Currently, widely accepted phylogenetic approaches are based on multiple sequence alignments, which analyze shared gene datasets and concatenate/coalesce these results to a final phylogeny with maximum support. However, these approaches still have limitations, and often have conflicting results with each other. Reconstructing ancestral genomes helps us understand mechanisms and corresponding consequences of evolution. Most existing genome level phylogeny and ancestor reconstruction methods can only process simplified real genome datasets or simulated datasets with identical genome content, unique genome markers, …

Reconstructing Yeasts Phylogenies And Ancestors From Whole Genome Data, Bing Feng, Yu Ling, Lingxi Zhou, Roufan Xia, Fei Hu, Chao Liu

Faculty Publications

Phylogenetic studies aim to discover evolutionary relationships and histories. These studies are based on similarities of morphological characters and molecular sequences. Currently, widely accepted phylogenetic approaches are based on multiple sequence alignments, which analyze shared gene datasets and concatenate/coalesce these results to a final phylogeny with maximum support. However, these approaches still have limitations, and often have conflicting results with each other. Reconstructing ancestral genomes helps us understand mechanisms and corresponding consequences of evolution. Most existing genome level phylogeny and ancestor reconstruction methods can only process simplified real genome datasets or simulated datasets with identical genome content, unique genome markers, …

The Effect Of Different Heavy Metal Acetate Solutions On The Inhibition Of Catalase Enzyme, Athreya Murali, Sonali Patel

Journal of the South Carolina Academy of Science

The purpose of this experiment was to determine the effect of different aqueous solutions of ionic compounds on the rate of reaction of the enzyme catalase. The hypothesis states that zinc and cadmium acetate solutions will significantly inhibit catalase and its ability to produce oxygen. In the experiment, there were five trials performed with the lead acetate, zinc acetate, acetic acid, cadmium acetate, and distilled water (the last being the control group). In order to calculate the results, the ANOVA single factor test was used, comparing each solution to water. From results of the ANOVA test, it was found that …

The Effect Of Temperature On Zinc Leaching From Rubber Tire Mulch, Elizabeth Dillon

Journal of the South Carolina Academy of Science

Scrap tires are being recycled into many products in order to bypass slow degradation in landfills. Recycled rubber tire mulch contains zinc oxide used in tire formation that can be released through the creation of leachates. This study examines the relationship between temperature environment and leachate zinc concentration. After observing rubber mulch surface temperatures in conjunction with other factors, it was hypothesized that higher temperatures would lead to increased zinc release by rubber mulch and higher leachate zinc concentrations. Leachates were created by mixing 10 grams of mulch and 200 mL distilled water and placing in 5ºC, 29ºC, and 71ºC …

The Effects Of Tension, Curvature, And Lipid Diffusion On The Enrichment Of Ras Proteins In Model Membranes, Nina Daneshvar

Journal of the South Carolina Academy of Science

An intriguing aspect of the cell membrane that provokes study is lipid-anchor enrichment of lipidated proteins on the cell membrane. Specifically, recent in vitro studies involving the enrichment of Ras proteins were done to see how enrichment was affected by changes in membrane curvature. These studies demonstrated the Ras protein’s inclination to the expanded, or outer, leaflet of highly curved membranes. Other research done in vivo, however, provoked further inquiry into Ras protein behavior, since when highly curved protrusions were created in living cells, Ras proteins showed affinity for the inner leaflet. This inspired research to determine the exact mechanism …

Investigation Of Iron Oxide Nanocolloidal Suspension Diffusion Using A Direct Imaging Method, Ashley E. Rice, Ana Oprisan

Journal of the South Carolina Academy of Science

We performed a set of experiments using a direct imaging method to investigate the diffusion process of iron oxide, Fe₂O₃, nanoparticles. We studied concentration fluctuations that move against the concentration gradient and induce disturbances in the interface between the iron oxide suspension and water in the sample cell. Using this imaging method in combination with the differential dynamic algorithm for image processing, we are able to extract information about the power, size, and lifetime of the fluctuations. We performed this experiment both in the presence and in the absence of a 4.2 mT magnetic field. We …

Table Of Contents

Journal of the South Carolina Academy of Science

No abstract provided.

The Effects Of Sports Related Head Impact On Balance And Neurocognitive Functions, Shaquanda D. Ross-Simmons, Michelle L. Vieyra, Abhishek Jain, Keri Weed

Journal of the South Carolina Academy of Science

The goal of this study was to investigate the effects of sports-related head injury on balance, attention, and memory. Reliable differences have been found using measures that directly tap into brain functioning, such as the auditory oddball task combined with EEG recording. We hypothesized that athletes reporting a diagnosed concussion or participation in high-risk sports would have compromised balance and neurocognitive functioning compared to athletes in low risk sports. Forty-five undergraduate participants were identified as either concussed, non-concussed in high-risk sports, or non-concussed in low-risk sports using a survey of athletic history, head trauma and demographics. The Biopac MP36 system, …

Progress Toward Phidianidine Analogues Containing A 1,2,3-Triazole Ring, David Laws Iii, Dillon King, Bryan H. Wakefield

Journal of the South Carolina Academy of Science

Phidianidines are a class of compound that has been extracted from the sea mollusk Phidianis militaris. These compounds have been shown to exhibit a variety of useful properties such as antihistamine effects, anti-cancer activity, agonism of the µ-opioid receptor and neuroprotection. The biological activities are thought to be caused by the 1,2,4- oxadiazole ring found within the molecule. The goal of this project is to synthesize analogues of phidianidine that contain a 1,2,3-triazole instead of the 1,2,4 oxadiazole ring using a method that will allow for other regions of the molecule to be changed. This will help to elucidate …

Investigating The Toxicity And Accumulation Of 2,4-Dichlorophenoxyacetic Acid (2,4-D) And Glyphosate In Eisenia Fetida, Caitlin Lazurick, Nicole Lidzbarski, Rachel Owings, Jeff Brotherton, Edna Steele

Journal of the South Carolina Academy of Science

Glyphosate, the main ingredient in Roundup^®, is the most widely used herbicide in the world. It is also used in combination with another effective herbicide, 2,4-D, in the formulation called Enlist Duo^®. The EPA approved the use of Enlist Duo^® on certain crops including those genetically modified to be resistant to both herbicides. The predicted significant increase in the use of these herbicides raised concerns from the general public because both compounds have been classified as possibly or probably carcinogenic. Since herbicides are applied directly to vegetation, the safety of organisms that come in contact …

The Synthesis And Characterization Of Corannulene-Based Metal-Organic Frameworks, Marygrace H. Rainsford

Journal of the South Carolina Academy of Science

Due to the great demands within the energy community, the need to develop materials that can significantly alter the vitality of different substances is one of the top priorities of researchers. In recent years, metal-organic frameworks (MOFs) have been synthesized to potentially be used as these advances. The objective of this project is to specifically alter the synthetic route of corannulene-based MOFs to create a new anode for a Li-ion battery used in hybrid cars. Due to the crystalline materials porosity and high surface area, the rate performance of this battery can effectively be improved. To do this, a three …

Why Cerenkov Radiation May Not Occur, Even When It Is Allowed By Lorentz-Violating Kinematics, Brett Altschul

Faculty Publications

In a Lorentz-violating quantum field theory, the energy-momentum relations for the field quanta are typically modified. This affects the kinematics, and processes that are normally forbidden may become allowed. One reaction that clearly becomes kinematically possible when photons’ phase speeds are less than 1 is vacuum Cerenkov radiation. However, in spite of expectations, and in defiance of phase space estimates, a electromagnetic Chern–Simons theory with a timelike Lorentz violation coefficient does not feature any energy losses through Cerenkov emission. There is an unexpected cancelation, made possible by the existence of unstable long-wavelength modes of the field. The fact that the …

Phylogeny Analysis From Gene-Order Data With Massive Duplications, Lingxi Zhou, Yu Ling, Bing Feng, Jieyi Zhao, Jijun Tang

Faculty Publications

Background: Gene order changes, under rearrangements, insertions, deletions and duplications, have been used as a new type of data source for phylogenetic reconstruction. Because these changes are rare compared to sequence mutations, they allow the inference of phylogeny further back in evolutionary time. There exist many computational methods for the reconstruction of gene-order phylogenies, including widely used maximum parsimonious methods and maximum likelihood methods. However, both methods face challenges in handling large genomes with many duplicated genes, especially in the presence of whole genome duplication.

Methods: In this paper, we present three simple yet powerful methods based on maximum-likelihood (ML) …

Improvement Of Phylogenetic Method To Analyze Compositional Heterogeneity, Zehua Zhang, Kecheng Guo, Gaofeng Pan, Jijun Tang, Fei Guo

Faculty Publications

Background: Phylogenetic analysis is a key way to understand current research in the biological processes and detect theory in evolution of natural selection. The evolutionary relationship between species is generally reflected in the form of phylogenetic trees. Many methods for constructing phylogenetic trees, are based on the optimization criteria. We extract the biological data via modeling features, and then compare these characteristics to study the biological evolution between species.

Results: Here, we use maximum likelihood and Bayesian inference method to establish phylogenetic trees; multi-chain Markov chain Monte Carlo sampling method can be used to select optimal phylogenetic tree, resolving local …

Dietary Inflammatory Index And Colorectal Cancer Risk – A Meta-Analysis, Nitin Shivappa, Justyna Godos, James R. Hébert, Michael David Wirth, Gabriele Piuri, Attilio Speciani, Giuseppe Grosso

Faculty Publications

Diet and chronic inflammation of the colon have been suggested to be risk factors in the development of colorectal cancer (CRC). The possible link between inflammatory potential of diet, measured through the Dietary Inflammatory Index (DII®), and CRC has been investigated in several populations across the world. The aim of this study was to conduct a meta-analysis on studies exploring this association. Data from nine studies were eligible, of which five were case-control and four were cohort studies. Results from meta-analysis showed a positive association between increasing DII scores, indicating a pro-inflammatory diet, and CRC. Individuals in the highest versus …

A Recent Project Shows That The Microbial Carbon Pump Is A Primary Mechanism Driving Ocean Carbon Uptake, Jing M. Chen, Louis Legendre, Ronald Benner

Faculty Publications

No abstract provided.

The Relationship Of Plasma Trans Fatty Acids With Dietary Inflammatory Index Among Us Adults, Mohsen Mazidi, Hong-Kai Gao, Nitin Shivappa, Michael David Wirth, James R. Hébert, Andre Pascal Kengne

Faculty Publications

Background: It has been suggested that trans fatty acids (TFAs) play an important role in cardiovascular diseases. We investigated the association between plasma TFAs and the dietary inflammatory index (DII) ™ in US adults.

Methods: National Health and Nutrition Examination Survey (NHANES) participants with data on plasma TFAs measured from 1999 to 2010 were included. Energy-adjusted-DII ™ (E-DII ™) expressed per 1000 kcal was calculated from 24-h dietary recalls. All statistical analyses accounted for the survey design and sample weights.

Results: Of the 5446 eligible participants, 46.8% (n = 2550) were men. The mean age of the population was 47.1 …

An Ameliorated Prediction Of Drug–Target Interactions Based On Multi-Scale Discrete Wavelet Transform And Network Features, Cong Shen, Yijie Ding, Jijun Tang, Xinying Xu, Fei Guo

Faculty Publications

The prediction of drug–target interactions (DTIs) via computational technology plays a crucial role in reducing the experimental cost. A variety of state-of-the-art methods have been proposed to improve the accuracy of DTI predictions. In this paper, we propose a kind of drug–target interactions predictor adopting multi-scale discrete wavelet transform and network features (named as DAWN) in order to solve the DTIs prediction problem. We encode the drug molecule by a substructure fingerprint with a dictionary of substructure patterns. Simultaneously, we apply the discrete wavelet transform (DWT) to extract features from target sequences. Then, we concatenate and normalize the target, drug, …

An Ensemble Deep Convolutional Neural Network Model With Improved D-S Evidence Fusion For Bearing Fault Diagnosis, Shaobo Li, Guoka Liu, Xianghong Tang, Jianguang Lu, Jianjun Hu

Faculty Publications

Intelligent machine health monitoring and fault diagnosis are becoming increasingly important for modern manufacturing industries. Current fault diagnosis approaches mostly depend on expert-designed features for building prediction models. In this paper, we proposed IDSCNN, a novel bearing fault diagnosis algorithm based on ensemble deep convolutional neural networks and an improved Dempster–Shafer theory based evidence fusion. The convolutional neural networks take the root mean square (RMS) maps from the FFT (Fast Fourier Transformation) features of the vibration signals from two sensors as inputs. The improved D-S evidence theory is implemented via distance matrix from evidences and modified Gini Index. Extensive evaluations …

Searching For Signals Of Dark Matter Decay, Gardner R. Marshall, William Hester

Journal of the South Carolina Academy of Science

Dark matter is believed to make up approximately eighty-three percent of the matter in the universe. Despite its apparent abundance, it has not yet been directly detected, and it is not known what types of particles it is composed of. Efforts to understand what dark matter is made of and how it fits into the Standard Model of particle physics is currently an important and active area of research. In this paper we investigate a method of studying dark matter indirectly by using terrestrial neutrino telescopes to search for signs of dark matter decay. In particular, we study leptonically decaying …

Rapid Reversible Borane To Boryl Hydride Exchange By Metal Shuttling On The Carborane Cluster Surface, Bennett J. Eleazer, Mark D. Smith, Alexey A. Popov, Dmitry V. Peryshkov

Faculty Publications

In this work, we introduce a novel concept of a borane group vicinal to a metal boryl bond acting as a supporting hemilabile ligand in exohedrally metalated three-dimensional carborane clusters. The (POBOP)Ru(Cl)(PPh3) pincer complex (POBOP ¼ 1,7-OP(i-Pr)2-m-2-carboranyl) features extreme distortion of the two-center-two-electron Ru–B bond due to the presence of a strong three-centertwo-electron B–H/Ru vicinal interaction. Replacement of the chloride ligand with a hydride afforded the (POBOP)Ru(H)(PPh3) pincer complex, which possesses B–Ru, B–H/Ru, and Ru–H bonds. This complex was found to exhibit a rapid exchange between hydrogen atoms of the borane and the terminal hydride through metal center shuttling between …

Strong Linkages Between Surface And Deep-Water Dissolved Organic Matter In The East/Japan Sea, Tae-Hoon Kim, Guebuem Kim, Yuan Shen, Ronald Benner

Faculty Publications

Vertical and horizontal distributions of total dissolved amino acids (TDAAs), dissolved organic carbon (DOC), and dissolved organic nitrogen (DON) were measured in the East/Japan Sea (EJS). The euphotic zone of this sea is N-limited, and the N : P ratio is ∼ 13 below 200 m depth. Elevated TDAA concentrations (137 ± 34 nM) and DOC-normalized yields (0.8 ± 0.2 % of DOC) were observed in deep waters ( ≥  1000 m) of the EJS and compared with those in the deep North Pacific Ocean. Significantly high TDAA concentrations and yields were observed in a region of deep-water formation, indicating …

Modeled Co2 Emissions From Coastal Wetland Transitions To Other Land Uses: Tidal Marshes, Mangrove Forests, And Seagrass Beds, Catherine E. Lovelock, James W. Fourqurean, James T. Morris

Faculty Publications

The sediments of coastal wetlands contain large stores of carbon which are vulnerable to oxidation once disturbed, resulting in high levels of CO2 emissions that may be avoided if coastal ecosystems are conserved or restored. We used a simple model to estimate CO2 emissions from mangrove forests, seagrass beds, and tidal marshes based on known decomposition rates for organic matter in these ecosystems under either oxic or anoxic conditions combined with assumptions of the proportion of sediment carbon being deposited in either oxic or anoxic environments following a disturbance of the habitat. Our model found that over 40 years after …

A Perspective On How To Improve Undergraduate Research Education In The Physical Sciences At Usc, Michael Caleb Bagley

Senior Theses

My years at the University of South Carolina have been some of the most challenging and edifying periods of my life. I have been blessed by having a great professional and chemistry mentor in Dr. John L. Ferry who has helped me engage in scientific research in a meaningful way. As I watched other chemistry students, in particular, struggle with understanding what research really was and even how to understand the results and methodologies of it I felt that this was a huge issue that could be rather simply fixed. I have been privileged to apply for and receive a …

A Study Of Anti-Muon-Neutrino Induced Resonance Production In Nomad Three-Track Topology, Edward Dunton

Senior Theses

In this study we are attempting to measure the sensitivity of our methods to anti-muon neutrino induced resonance interactions in the 3-track topology of the NOMAD experiment. We will use a set of Monte Carlo data meant to resemble the NOMAD outputs but with true event type known and then proceed by using a system of single-variable cuts and multivariable analysis through a multilayer perception neural network to distinguish events from these interactions and events from other neutrino or non-neutrino interactions. We will then produce a measurement of the sensitivity to these interactions and determine whether or not proceeding with …

Google Street View As A Medium For Social Gaming, Steven Dao, Tien Ho, Austin Pahl

Senior Theses

safehouse is a head-to-head Street View game drawing inspiration from GeoGuessr and Pursued. It will be available to play in a web browser on our website, http://thesafe.house. The game aims to let players discover new places in the world in a uniquely competitive way. At the start of each match, players will find themselves in a random Street View location in an unknown area, pitted against each other with one of two tasks: the pursued must locate a safe house somewhere in the city, and the pursuer must catch the pursued. Each player will have to rely on quick …

Addressing The Issue Of Climate Change Denial, Katherine M. Kacsur

Senior Theses

Climate change is real. It is not a debate, and it is not a theory. It is not a part of the “liberal agenda”, and is not a ploy to raise taxes or expand government. Climate change is real, and it is happening right now. Every time someone starts their car, turns on a light, or cranks up the air conditioning, carbon dioxide is added to the atmosphere. Because of its power to capture heat in the atmosphere, carbon dioxide has allowed for more and more warming around the globe. As energy consumption only continues to increase, the effects of …