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Articles 1 - 29 of 29
Full-Text Articles in Life Sciences
Characterizing The Rogfp2-Orp1 Fluorescent Biosensor For Detecting Oxidative Stress In Mammalian Cells, Sara A. Doan, Stevie Norcross, Mathew Tantama
Characterizing The Rogfp2-Orp1 Fluorescent Biosensor For Detecting Oxidative Stress In Mammalian Cells, Sara A. Doan, Stevie Norcross, Mathew Tantama
The Summer Undergraduate Research Fellowship (SURF) Symposium
Parkinson’s disease is a neurodegenerative disease involving the death of neurons in the substantia nigra and loss of the neurotransmitter, dopamine. The disease leads to progressive loss of motor control. Exact causes and mechanisms by which Parkinson’s disease proceeds are unknown, however, previous experiments determine oxidative stress in mitochondria as a factor that results in cell death. Strategies have been implemented to generate fluorescent biosensors to monitor reactive oxygen species (ROS) concentrations while simultaneously measuring the spatiotemporal distribution and correlation between the ROS, cellular function and organelle. Orp1, an enzyme found in yeast, is a sensitive oxidizing species and when …
Meta-Analysis Of Dna Methylation And Expression In Liver Cancer Patients, Daniele Todorov, Barbara Stefanska, Katarzyna Lubecka-Pietruszewska
Meta-Analysis Of Dna Methylation And Expression In Liver Cancer Patients, Daniele Todorov, Barbara Stefanska, Katarzyna Lubecka-Pietruszewska
The Summer Undergraduate Research Fellowship (SURF) Symposium
Hepatocellular carcinoma (HCC), the most common liver cancer, is the second leading cause of cancer-related death worldwide. HCC is often diagnosed at late stages, for which there are no effective chemotherapies. Biomarkers unique to HCC patients could be used to detect HCC early and improve treatment. In the present project, we have performed a meta-analysis to compare the gene-specific DNA methylation and gene expression patterns of HCC patients as reported by four independent studies. Our goal was to discover the strongest changes that distinguish HCC from normal tissue. The relationship between methylation and expression in HCC was examined and genes …
Visualization And Analysis Of Sensory Data, Luke Neumann, Sung Yeon Choi, Brian Olsen, Sungahn Ko, David Ebert Dr.
Visualization And Analysis Of Sensory Data, Luke Neumann, Sung Yeon Choi, Brian Olsen, Sungahn Ko, David Ebert Dr.
The Summer Undergraduate Research Fellowship (SURF) Symposium
Recently, California has suffered a severe drought, making water a scarce resource to its population. Many viticulturists are based in this area who rely on heavy irrigation to produce a better grape and a better wine. Not just in California, but throughout the nation, irrigation must be applied intelligently for efficient use of water and funding. By taking measurements of physical characteristics of a vineyard over time, one may be able to visualize trends in the data which lend itself to describing preferred growing methods. Wireless sensors can be used to take measurements including moisture, temperature, sunlight, and more. Sensors …
Analysis Of Mitochondrial Turnover In Neuromuscular Junctions Of Parkin Mutants, Kenny Nguyen, Hyun Sung, Peter J. Hollenbeck
Analysis Of Mitochondrial Turnover In Neuromuscular Junctions Of Parkin Mutants, Kenny Nguyen, Hyun Sung, Peter J. Hollenbeck
The Summer Undergraduate Research Fellowship (SURF) Symposium
The accumulation of dysfunctional or damaged mitochondria in neurons has been linked to the pathogenesis of many neurodegenerative diseases, such as Parkinson’s disease. It has been proposed that proteins PINK1 and Parkin regulate mitochondrial quality control by selectively targeting depolarized mitochondria for autophagic degradation, a process known as mitophagy. Though previously analyzed in the cell bodies and axons of neurons, the role of the PINK1/Parkin pathway in the synapse is unclear, and it is not known whether mitochondrial turnover occurs in the neuromuscular junctions (NMJs). To study this, intact Drosophila nervous systems were analyzed in vivo by performing gentle dissections …
Evaluation Of Two Non-Destructive Methods For Estimating Biomass In A Prairie, Arnoldas Pivorius, Laura Ploughe, Jeff Dukes
Evaluation Of Two Non-Destructive Methods For Estimating Biomass In A Prairie, Arnoldas Pivorius, Laura Ploughe, Jeff Dukes
The Summer Undergraduate Research Fellowship (SURF) Symposium
The estimation of above ground biomass is important in managing natural resources, like assessing habitat conditions. Direct, destructive measurements by clipping, drying, and weighing plant matter is time consuming and labor intensive. It is of interest to develop non-invasive methods to complement or replace direct vegetation harvest. Two non-invasive methods were evaluated, light penetration and visual obstruction, in the Purdue Wildlife Area prairie. Light penetration in the grassland plots were measured using a Decagon light stick (LP-80), 5 cm from the ground and above the plants. Estimation of visual obstruction was done using a Robel pole, which focuses on the …
Effect Of Aging Time And Retail Displaying Period With A Short-Term Temperature Abuse On Color Stability Of Two Beef Muscles, Derico Setyabrata, Hyun-Wook Kim, Yuan H. Brad Kim
Effect Of Aging Time And Retail Displaying Period With A Short-Term Temperature Abuse On Color Stability Of Two Beef Muscles, Derico Setyabrata, Hyun-Wook Kim, Yuan H. Brad Kim
The Summer Undergraduate Research Fellowship (SURF) Symposium
Meat color and tenderness are two most important quality factors affecting consumers’ decision on meat purchasing. Post-mortem meat aging has been widely practiced to improve palatability attributes, but could be adversely related to meat color. In particular, temperature abuse during aging or retail display can negatively affect the color stability of aged meat. The objective of this study was to determine the effect of aging time and short-term temperature abuse during display on color stability of two beef muscles (M. longissimus dorsi, LD and semitendinosus, ST). LD and ST muscles were separated from three beef carcasses, vacuum-packaged …
Characterizing The Role Of Aif4 In Saccharomyces Cerevisiae, Antonia L. Hur Ms., Nina Serratore Ms., Scott D. Briggs
Characterizing The Role Of Aif4 In Saccharomyces Cerevisiae, Antonia L. Hur Ms., Nina Serratore Ms., Scott D. Briggs
The Summer Undergraduate Research Fellowship (SURF) Symposium
Chromatin remodelers are important regulatory mechanisms that eukaryotic cells use to modify the structure of chromatin, which is made up of DNA and proteins. DNA wraps around histone proteins to make up chromatin. When these proteins are modified, the shape of the chromatin is altered. “Loosening” the chromatin structure by chromatin modifications allows for active gene expression whereas “tightening” or compaction of chromatin results in gene repression. Therefore the modifications on chromatin modulate gene expression in all eukaryotes. It has been shown that mis-regulation of chromatin remodelers contribute to various cancers. Understanding the biochemistry behind how chromatin associating proteins modify …
Detection Of Ubiquitination On Syk And Documenting Syk Stability, Izabela Mazur, Wen Horng Wang, Robert J. Geahlen
Detection Of Ubiquitination On Syk And Documenting Syk Stability, Izabela Mazur, Wen Horng Wang, Robert J. Geahlen
The Summer Undergraduate Research Fellowship (SURF) Symposium
Post-translational modifications regulate the activities of proteins important to numerous diseases. Spleen Tyrosine Kinase (Syk) is particularly interesting to researchers because it modifies many targets and plays multiple roles in regulating cells in our bodies and its abnormal modifications may contribute to cancer, Alzheimer’s disease and allergies. In an attempt to study these modifications of Syk, we first looked at detecting ubiquitination on Syk protein. Ubiquitin, a small 8 kDa molecule, attaches to lysine residues on protein. The attachment of ubiquitin to Syk may cause Syk to either propagate signals onwards to activate other proteins or signal it to undergo …
Thermodynamic Analysis Of Phenylpropanoid Pathway In Arabidopsis Thanliana, Patrick J. Ioerger, Rohit Jaini, John A. Morgan
Thermodynamic Analysis Of Phenylpropanoid Pathway In Arabidopsis Thanliana, Patrick J. Ioerger, Rohit Jaini, John A. Morgan
The Summer Undergraduate Research Fellowship (SURF) Symposium
Biofuels represent a renewable alternative to traditional fossil fuels. As dependence on fossil fuels rise so does the importance of improving the production of alternative fuels. Lignin poses one obstacle in the development of such alternative fuels. Its presence strengthens cell walls and hinders degradation of polysaccharides into monosaccharides, increasing cost and time while decreasing efficiency of the process. Lignin is composed of three monolignols, each of which is produced through the Phenylpropanoid pathway; a series of chemical reactions. This work aims to determine which reactions in the pathway are least thermodynamically favorable and thus most limiting. From metabolic mapping …
You Don’T Have To Go Home But You Carrot Stay Here: Root-Knot Nematode Biological Control In Carrots, Casey R. Martin, Sahar Abdelrazek, Lori A. Hoagland
You Don’T Have To Go Home But You Carrot Stay Here: Root-Knot Nematode Biological Control In Carrots, Casey R. Martin, Sahar Abdelrazek, Lori A. Hoagland
The Summer Undergraduate Research Fellowship (SURF) Symposium
Root-knot nematodes cause tens of billions of dollars in damages annually in agricultural production. The enormous economic losses brought about by nematodes, combined with the downsides to current methods for handling them, have led to an increased focus in understanding natural plant defense mechanisms and finding alternative methods to lessen the damage done by root-knot nematodes. Endophyte biocontrol agents such as Trichoderma harzianum have shown promise in reducing nematode damage. Recent studies have demonstrated that soil management practices and plant genotype can influence endophyte community structure, but it is unclear whether such differences influence susceptibility to nematode damage. This study …
Visualization Of The Growth And Production Of Grapes Through Analysis Of Sensory Data, Sung Yeon Choi, Luke Neumann, Brian Olsen, Sungahn Ko, David Ebert Ph.D
Visualization Of The Growth And Production Of Grapes Through Analysis Of Sensory Data, Sung Yeon Choi, Luke Neumann, Brian Olsen, Sungahn Ko, David Ebert Ph.D
The Summer Undergraduate Research Fellowship (SURF) Symposium
Grapes used in the wine industry have been one of the highest value crops in the United States. However, with unpredictable weather changes and recent drought in the Western United States, vineyard owners and grape growers have faced difficulties on producing good quality grapes suited for wine making. Therefore, a technology that would keep record of environmental data and incorporate the data to support agricultural decisions will help the growers to produce quality grapes even in extreme conditions. As such, this research focuses on developing an interactive system that uses sensory data and visual analytics to facilitate vineyard management and …
Seasonality Of Forensically Relevant Diptera In Northwestern Indiana, Sarah M. Stanley, Trevor Stamper
Seasonality Of Forensically Relevant Diptera In Northwestern Indiana, Sarah M. Stanley, Trevor Stamper
The Summer Undergraduate Research Fellowship (SURF) Symposium
Minimum postmortem interval (mPMI) estimations are critical to solving cases of equivocal death and the accuracy of these predictions can depend on the understanding of necrophagous fly successional patterns. In order to better understand the successional patterns of necrophagous flies, it is important to know the seasonality of forensically relevant fly species—that is, the baseline pattern of their presence and absence in relation to annually cyclic environmental factors. Since many environmental factors play a role in insect seasonality, it is possible that some of these factors can be summed to create an index that represents seasonality in a simpler form. …
The Photosynthetic Response Of Northern Red Oak (Quercus Rubra L.) And American Chestnut (Castanea Dentata (Marsh.) Borkh) Under Varying Light Intensity And Weed Competition, Pedro Vitor P. Pereira, Jennifer M. Lesko, Douglass F. Jacobs Dr.
The Photosynthetic Response Of Northern Red Oak (Quercus Rubra L.) And American Chestnut (Castanea Dentata (Marsh.) Borkh) Under Varying Light Intensity And Weed Competition, Pedro Vitor P. Pereira, Jennifer M. Lesko, Douglass F. Jacobs Dr.
The Summer Undergraduate Research Fellowship (SURF) Symposium
Although widely distributed across Indiana and the United States Midwest, conifer plantations consist largely of non-native species that are of no value to the state’s forest products industry. This project’s goal is to develop science-based protocols and specific silvicultural prescriptions for successfully converting conifer plantations to higher value native hardwoods. Quantifying photosynthesis rate in a plant is an important tool to help us discern the best methods for implementing conifer conversion. Seedlings from two different native species, northern red oak (Quercus rubra L.) and American chestnut (Castanea dentata (Marsh.) Borkh), were distributed among three different silvicultural …
Competitive Tuning Of Calmodulin Target Protein Activation Drives E-Ltp Induction In Ca1 Hippocampal Neurons, Daniel R. Romano, Tamara L. Kinzer-Ursem
Competitive Tuning Of Calmodulin Target Protein Activation Drives E-Ltp Induction In Ca1 Hippocampal Neurons, Daniel R. Romano, Tamara L. Kinzer-Ursem
The Summer Undergraduate Research Fellowship (SURF) Symposium
A number of neurological disorders are caused by disruptions in dynamic neuronal connections called synapses. Normally, electrical activity between neurons activates protein cascades that cause long-lasting, localized changes in the structure and molecular composition of synapses. These changes either increase or decrease the strength of synaptic connections, leading to long-term-potentiation (LTP) or long-term-depression (LTD), respectively. The protein cascades responsible for this synaptic plasticity are initiated in a stimulus-dependent manner by the Ca2+ sensor calmodulin (CaM). Ultimately, it is disruptions within these signaling pathways that cause disease. Traditionally, these protein networks are studied in the laboratory, but limitations in existing …
Optical Emission Spectroscopy Diagnostics Of Cold Plasmas For Food Sterilization, Abhijit Jassem, Michael Lauria, Russell Brayfield Ii, Kevin M. Keener, Allen L. Garner
Optical Emission Spectroscopy Diagnostics Of Cold Plasmas For Food Sterilization, Abhijit Jassem, Michael Lauria, Russell Brayfield Ii, Kevin M. Keener, Allen L. Garner
The Summer Undergraduate Research Fellowship (SURF) Symposium
There is a growing need for economical, effective, and safe methods of sterilizing fresh produce. The most common method is a chlorine wash, which is expensive and may introduce carcinogens. High voltage cold atmospheric pressure plasmas are a promising solution that has demonstrated a germicidal effect; however, the responsible chemical mechanisms and reaction pathways are not fully understood. To elucidate this chemistry, we used optical emission spectroscopy to measure the species produced in the plasma generated by a 60 Hz pulsed dielectric barrier discharge in a plastic box containing various fill gases (He, N2, CO2, dry …
Long-Term Tillage System Impacts On Soil Erodibility, Julianne R. Chechanover, Dennis C. Flanagan
Long-Term Tillage System Impacts On Soil Erodibility, Julianne R. Chechanover, Dennis C. Flanagan
The Summer Undergraduate Research Fellowship (SURF) Symposium
Conservation tillage practices, such as no-till agriculture, have the potential of reducing the erodibility of a soil compared to conventional agricultural practices. This research sought to determine whether long-term agricultural practices affect the baseline erodibility properties of a soil. Two soils from Throckmorton-Purdue Agricultural Center in Tippecanoe County, Indiana were used during this experiment. One soil was treated with a long-term conventional tillage (fall chisel, spring disk) system and the other soil was treated with a long-term no-till system. The soils’ interrill erodibility, and rill erodibility and critical hydraulic shear stress were measured under a rainfall simulator using soil boxes …
Development Of A Novel Enzymatic Pre-Treatment For Lignocellulosic Biomass, Melissa Robins, Jenna Rickus
Development Of A Novel Enzymatic Pre-Treatment For Lignocellulosic Biomass, Melissa Robins, Jenna Rickus
The Summer Undergraduate Research Fellowship (SURF) Symposium
Biofuels, fuels derived directly from living matter, present a renewable and environmentally friendly alternative to petroleum based fuels. Bioethanol produced from low input energy crops or agricultural waste is a promising fuel source because it does not interfere with the human food supply chain and the ethanol produced can be blended with gasoline. These potential sources of bioethanol are not yet commercially viable due to a polymer called lignin present in the plant’s cell wall which impedes the conversion of cellulose to glucose and the eventual fermentation of glucose to ethanol. Developing new methods for the pretreatment of lignocellulosic biomass …
Behavioral Outputs Of Fragile-X Autistic Mice Exposed To Open-Field, Randomized, Short-Term Visual Stimuli, Nicholas M. Dicola, Alexander A. Chubykin
Behavioral Outputs Of Fragile-X Autistic Mice Exposed To Open-Field, Randomized, Short-Term Visual Stimuli, Nicholas M. Dicola, Alexander A. Chubykin
The Summer Undergraduate Research Fellowship (SURF) Symposium
Animal models of different neurological disorders are required for studying the pathophysiology of these diseases, and for potential development of pharmacological and behavioral treatments. The scientific community often uses mouse models for behavior studies due to their powerful genetic tools and low cost. However, subjective measurement techniques are often used when analyzing mice for behavioral traits which often results in discrepancies in results. An automated tracking software would aim to eliminate these discrepancies and subjective analysis. This lab has developed a software program which offered an ability to automatically collect open-field behavioral data with simultaneous on-line analysis. Python, an open …
Processing Methods And Storage Conditions On Chocolate And Coffee Powder Flow Properties, Sunland L. Gong, Andrea Della Bella, Teresa M. Carvajal
Processing Methods And Storage Conditions On Chocolate And Coffee Powder Flow Properties, Sunland L. Gong, Andrea Della Bella, Teresa M. Carvajal
The Summer Undergraduate Research Fellowship (SURF) Symposium
Powders are widely used in a countless number of industries, and are crucial to the quality control of products in areas such as pharmaceuticals and food. Particle physicochemical properties (morphology, solid state – crystalline, amorphous or both) are important factors for powder flow, which in turn can have significant impact on the stability, performance, and presentation of powders. Different processing methods as well as storage conditions such as relative humidity (RH) can drastically affect powder flow. Due to the widespread use of chocolate and coffee powder around the world, and their importance to the food industry, this work investigates two …
Viewing The Extracellular Matrix: An Imaging Method For Tissue Engineering, Michael Drakopoulos, Sarah Calve
Viewing The Extracellular Matrix: An Imaging Method For Tissue Engineering, Michael Drakopoulos, Sarah Calve
The Summer Undergraduate Research Fellowship (SURF) Symposium
The field of regenerative medicine seeks to create replacement tissues and organs, both to repair deficiencies in biological function and to treat structural damage caused by injury. Scaffoldings mimicking extracellular matrix (ECM), the structure to which cells attach to form tissues, have been developed from synthetic polymers and also been prepared by decellularizing adult tissue. However, the structure of ECM undergoes significant remodeling during natural tissue repair, suggesting that ECM-replacement constructs that mirror developing tissues may promote better regeneration than those modeled on adult tissues. This work investigated the effectiveness of a method of viewing the extracellular matrix of developing …
Using The Intact Method To Study Pickle In Individual Cell Types, Jacqueline L. Phipps, Daniela N. Martir, Ben Carter, Joe Ogas
Using The Intact Method To Study Pickle In Individual Cell Types, Jacqueline L. Phipps, Daniela N. Martir, Ben Carter, Joe Ogas
The Summer Undergraduate Research Fellowship (SURF) Symposium
Cell differentiation is an essential part of development in multicellular organisms. Cells with identical genomic DNA are able to differentiate into a variety of tissues due to selective expression and repression of genes. This tissue-specific gene expression is enabled in part by proteins called chromatin remodelers, which can move, remove, or restructure histone proteins to restrict or allow physical access to genomic DNA. PICKLE (PKL) is a member of the CHD family of ATP-dependent chromatin remodelers that promotes cellular identity in the plant model organism Arabidopsis thaliana. PKL promotes cell identity by silencing embryonic genes during seed germination by promoting …
Captive Breeding Protocols And Their Impact On Genetic Diversity In White-Footed Mice (Peromyscus Leucopus): Implications For Threatened And Endangered Species, Maureen C. Lamb, Janna R. Willoughby, J. Andrew Dewoody
Captive Breeding Protocols And Their Impact On Genetic Diversity In White-Footed Mice (Peromyscus Leucopus): Implications For Threatened And Endangered Species, Maureen C. Lamb, Janna R. Willoughby, J. Andrew Dewoody
The Summer Undergraduate Research Fellowship (SURF) Symposium
Captive breeding protocols used in zoos often are aimed at increasing population sizes and retaining genetic diversity of endangered species. However, captive breeding causes genetic adaptation to captivity that can lead to an overall decrease in genetic diversity and reduce chances of a successful reintroduction to the wild. In this study, we assess how 3 different breeding protocols—random mating, preferential breeding of individuals with the lowest mean kinship scores, and selection for docility—affect the variability of mitochondrial DNA in white-footed mice (Peromyscus leucopus). We used mice that were captured from the wild but were mated for up to …
Bio-Inspired Composite Hydrogels For Osteochondral Regenerative Engineering, Grant N. Gellert, Liangju Kuang, Chunhui Jiang, Nur P. Damayanti, Joseph Irudayaraj, Meng Deng
Bio-Inspired Composite Hydrogels For Osteochondral Regenerative Engineering, Grant N. Gellert, Liangju Kuang, Chunhui Jiang, Nur P. Damayanti, Joseph Irudayaraj, Meng Deng
The Summer Undergraduate Research Fellowship (SURF) Symposium
Treatment of osteochondral defects encompassing injury or degeneration to both the articular cartilage as well as the underlying subchondral bone presents a significant medical challenge. Current treatment options including autografts and allografts suffer from limited availability and risk of immunogenicity, respectively. The long term goal of this work is to develop an integrated scaffold system for treatment of osteochondral defects via in situ regeneration of bone, cartilage and the bone-cartilage interface. Hydrogels composed of polymer networks swollen in water provide an attractive biomaterial platform for regeneration of cartilage. In the present study, we have developed a novel composite hydrogel consisting …
Macrophage Uptake And Cytotoxicity Of Paclitaxel Nanocrystals, Deborah Lee, Emeri Zhang, Wei Gao, Tonglei Li
Macrophage Uptake And Cytotoxicity Of Paclitaxel Nanocrystals, Deborah Lee, Emeri Zhang, Wei Gao, Tonglei Li
The Summer Undergraduate Research Fellowship (SURF) Symposium
Effective drug delivery remains one of the most challenging tasks in combatting cancer cells. Anti-cancer drugs such as Paclitaxel (PTX) often struggle in having a high drug effect because they are often phagocytized by macrophages in Reticuloendothelial System (RES) before reaching the cancer cells. To combat this problem, PTX was inserted in a nanocrystal, coated with non-ionic surfactant F68; it is speculated that this formulation will minimize the particle aggregation and decrease the cellular uptake in the RES, which will increase the overall efficacy of the drug in the target areas. The aim of this project was to compare the …
A Screen To Identify Saga-Activated Genes That Are Required For Proper Photoreceptor Axon Targeting In Drosophila Melanogaster, Kaelan J. Brennan, Vikki M. Weake, Jingqun Q. Ma
A Screen To Identify Saga-Activated Genes That Are Required For Proper Photoreceptor Axon Targeting In Drosophila Melanogaster, Kaelan J. Brennan, Vikki M. Weake, Jingqun Q. Ma
The Summer Undergraduate Research Fellowship (SURF) Symposium
The inherited human genetic disease spinocerebellar ataxia type 7 (SCA7) is characterized by progressive neurodegeneration and visual impairment that ultimately leads to blindness. SCA7 results from a mutation in the human ATXN7 gene that causes an expansion of polyglutamine tracts in this gene’s corresponding protein. Human ATXN7 protein serves as a component of the deubiquitylase (DUB) module of the large, multi-subunit complex Spt-Ada-Gcn acetyltransferase, or SAGA. SAGA is a transcriptional coactivator and histone modifier that functions to deubiquitylate histone H2B and allow for transcription of SAGA-mediated genes to occur. In Drosophila, mutations in SAGA DUB’s Nonstop and sgf11 components …
Elucidating The Role Of Hausp Ubiquitin Like Domains In The Catalytic Function Of Usp7, Anuj Patel, Nicole Davis, Andrew Mesecar
Elucidating The Role Of Hausp Ubiquitin Like Domains In The Catalytic Function Of Usp7, Anuj Patel, Nicole Davis, Andrew Mesecar
The Summer Undergraduate Research Fellowship (SURF) Symposium
Ubiquitin specific proteases (USPs) are a class of enzymes involved in myriad cellular processes. One USP of great interest due to its oncogenic properties is USP7. In normal conditions USP7 is closely regulated due to its responsibility for destabilizing the tumor suppressor, p53, through the deubiquitination of MDM2. In multiple myeloma cases, it appears the regulation of USP7 subsides, as it is largely overexpressed, leading to the inappropriate degradation of p53. Inhibition of USP7 could, therefore, prove a viable target for cancer therapy. A greater understanding of USP7’s function and structure can lead to more insight into how this enzyme …
Deconstructing Cation-Pi Interactions: Understanding The Binding Energies Involved With Metal And Aromatic Amino Acid Residues, Jen E. Werner, Lyudmila V. Slipchenko, Yen Bui
Deconstructing Cation-Pi Interactions: Understanding The Binding Energies Involved With Metal And Aromatic Amino Acid Residues, Jen E. Werner, Lyudmila V. Slipchenko, Yen Bui
The Summer Undergraduate Research Fellowship (SURF) Symposium
The Effective Fragment Potential (EFP) method is a computationally efficient technique for describing non-covalent interactions, such as hydrogen bonding and van der Waals forces. Cation-pi interactions are a type of non-covalent interactions and are thought to be important in biological processes, such as permittivity of ion channels. The goal of our work is to establish that the EFP method reliably describes the strength, directionality, and composition of cation-pi interactions. Optimal geometries were found for a series of biologically relevant cations (K+, Li+, Na+, Ca2+, and Mg2+) and aryl moieties appearing …
A Novel Synthetic Yeast For Enzymatic Biodigester Pretreatment, Tianyu Tan, Mark S. Aronson, Arren Liu, Jill H. Osterhus, Melissa Robins, Suraj Mohan, Erich Leazer, Bowman Clark, Alexa Petrucciani, Katherine Lowery, James Welch, Casey Martin, Helena Lysandrou, Michael E. Scharf, Jenna Rickus
A Novel Synthetic Yeast For Enzymatic Biodigester Pretreatment, Tianyu Tan, Mark S. Aronson, Arren Liu, Jill H. Osterhus, Melissa Robins, Suraj Mohan, Erich Leazer, Bowman Clark, Alexa Petrucciani, Katherine Lowery, James Welch, Casey Martin, Helena Lysandrou, Michael E. Scharf, Jenna Rickus
The Summer Undergraduate Research Fellowship (SURF) Symposium
Lignin, a complex organic polymer, is a major roadblock to the efficiency of biofuel conversion as it both physically blocks carbohydrate substrates and poisons biomass degrading enzymes, even if broken down to monomer units. A pretreatment process is often applied to separate the lignin from biomass prior to biofuel conversion. However, contemporary methods of pretreatment require large amounts of energy, which may be economically uncompelling or unfeasible. Taking inspiration from several genes that have been isolated from termites and fungi which translate to enzymes that degrade lignin, we want to establish a novel “enzymatic pretreatment” system where microbes secrete these …
Detecting Genomic Regions Responsible For Resistance In Arabidopsis, Valeria Cancino, Anjali Iyer-Pascuzzi, Rucha Karve
Detecting Genomic Regions Responsible For Resistance In Arabidopsis, Valeria Cancino, Anjali Iyer-Pascuzzi, Rucha Karve
The Summer Undergraduate Research Fellowship (SURF) Symposium
Ralstonia solanacearum is a soil-borne plant root colonizing pathogen and the casual agent of bacterial wilt (BW) disease. BW leads to severe yield loss in a wide variety of agricultural commodity crops, such as tomato, banana, and pepper. In this study, we look at the plant-pathogen interaction between Ralstonia solanacearum and various ecotypes of Arabidopsis thaliana with the goal of finding resistant ecotypes. To identify resistant ecotypes, seeds are first sterilized and left to soak in the dark. Then the seeds are plated on agar media, transferred to a growth chamber, and allowed to grow for 5 days. On day …