Life Sciences Commons^™

The Impact Of Wmed Family Medicine Obesity Clinic On Weight Loss And Patient's Overall Health In The Family Health Center, Kalamazoo, Mi, Latifa Pacheco Do, Abigail Annan Md

Research Day

No abstract provided.

The Er Retention Protein Rer1 Promotes Alpha-Synuclein Degradation Via The Proteasome, Hyo-Jin Park, Daniel Ryu, Mayur Parmar, Benoit I. Giasson, Nikolaus R. Mcfarland

HPD Articles

Abnormal accumulation of α-synuclein (αSyn) has been linked to endoplasmic-reticulum (ER) stress, defective intracellular protein/vesicle trafficking, and cytotoxicity. Targeting factors involved in ER-related protein processing and trafficking may, therefore, be a key to modulating αSyn levels and associated toxicity. Recently retention in endoplasmic reticulum 1 (RER1) has been identified as an important ER retrieval/retention factor for Alzheimer's disease proteins and negatively regulates amyloid-β peptide levels. Here, we hypothesized that RER1 might also play an important role in retention/retrieval of αSyn and mediate levels. We expressed RER1 and a C-terminal mutant RER1Δ25, which lacks the ER retention/retrieval function, in HEK293 and …

Phenolics From The Fruits Of Maclura Pomifera, Zushang Su, Ping Wang, Wei Yuan, Greg Grant, Shiyou Li

NCPC Publications and Patents

Two new compounds, maclurin A (1) and maclurin B (2), and six known ones, ononin (3), pterofuran (4), osajin (5), pomiferin (6), 3,4-dihydroxybenzoic acid (7), and 2,3,4-trihydroxybenzoic acid (8) were isolated from the fruit of Maclura pomifera. Compounds 3 and 4 were isolated from the genus for the first time. Structure elucidation was achieved by spectroscopic measurements and by comparison with literature data. Compounds 2-4 exhibited activities against the cancer cell lines A549 and Panc-28 with GI₅₀ values from 18.1 to 32.2, and 20.6 to 43.5 μM, respectively. Compounds 2 and 4 also showed cytotoxicity against HCT 116 …

Seasonal Survival Of Adult Female Mottled Ducks, Jena A. Moon, David A. Haukos, Warren C. Conway

Faculty Publications

The mottled duck (Anas fulgivula) is a non‐migratory duck dependent on coastal habitats to meet all of its life cycle requirements in the Western Gulf Coast (WGC) of Texas and Louisiana, USA. This population of mottled ducks has experienced a moderate decline during the past 2 decades. Adult survival has been identified as an important factor influencing population demography. Previous work based on band‐recovery data has provided only annual estimates of survival. We assessed seasonal patterns of female mottled duck survival from 2009 to 2012 using individuals marked with satellite platform transmitter terminals (PTTs). We used temperature and …

Responses To Prescribed Fire At Big Thicket National Preserve, Texas, Usa, B. P. Oswald, D. M. Boensch, H. M. Williams, I-Kuai Hung

Faculty Publications

US Federal land managers have utilized hand ignited prescribed fire at Big Thicket National Preserve in efforts to restore the structure and diversity of the longleaf pine (Pinus palustris) forest. A fire ecology study was initiated by Rice University in the early 1990’s and the National Park Service has continued monitoring the plots. Ordination was applied to species abundance data to examine changes in vegetation communities from a variety of prescribed fire treatments and controls. The vegetation data was separated by size class to include overstory, small tree, large sapling and seedling data. Across the size classes and treatments, the …

Using Wireless Pedometers To Measure Children’S Physical Activity: How Reliable Is The Fitbit Zip?, Tingting Xu, Erik Jon Byker, Monica Rae Gonzales

Faculty Publications

The purpose of this study is to examine the reliability of wireless pedometers in measuring elementary school children’s physical activity. Activity measurement using a wireless pedometer Fitbit Zip^TM was compared to activity measurement using Yamax Digi-Walker^TM SW701 for a group of randomly selected 25 children in Grades 3, 4, and 5. Fitbit Zip^TM wireless pedometers were found to have an appropriate degree (Nunnally & Bernstein, 1994) of accuracy and reliability compared to the Yamax Digi-Walker^TM SW701 pedometer. The Fitbit Zip^TM wireless pedometer collected more step counts than the Yamax Digi-Walker^TM SW701 pedometer; however, the …

Corn Silage Variety Trial Archive, Jonathan Kleinjan, David Casper, Kevin K. Kirby, S. M. Hawks

SDSU Extension Publications Archive

This report features the available corn silage data from 2003-2017. Crop performance testing results are released annually through the activities of SDSU Extension and the South Dakota Agricultural Experiment Station at SDSU.

Scanning Labyrinthulomycete Genomes For Yeast Transcription Factor Binding Site Motifs, Jackie L. Collier, Joshua Rest

Interdisciplinary Research Data

To develop broadly useful methods for the genetic manipulation of Labyrinthulomycetes (a diverse group of ubiquitous osmoheterotrophic marine protists), it is essential to understand the similarities and differences in regulation of gene expression among them. Toward this end we have used FIMO from the MEME suite (http://meme-suite.org/doc/fimo.html) to identify potential transcription factor binding sites in each of the three available genome sequences: Aplanochytrium kerguelense PBS07, Schizochytrium aggregatum ATCC 28209, and Aurantiochytrium limacinum ATCC MYA-1381

A Comprehensive Image-Based Phenomic Analysis Reveals The Complex Genetic Architecture Of Shoot Growth Dynamics In Rice (Oryza Sativa), Malachy T. Campbell, Qian Du, Kan Liu, Chris J. Brien, Bettina Berger, Chi Zhang, Harkamal Walia

Agronomy & Horticulture -- Faculty Publications

Early vigor is an important trait for many rice (Oryza sativa L.)- growing environments. However, genetic characterization and improvement for early vigor is hindered by the temporal nature of the trait and strong genotype × environment effects. We explored the genetic architecture of shoot growth dynamics during the early and active tillering stages by applying a functional modeling and genomewide association (GWAS) mapping approach on a diversity panel of ~360 rice accessions. Multiple loci with small effects on shoot growth trajectory were identified, indicating a complex polygenic architecture. Natural variation for shoot growth dynamics was assessed in a subset …

The Effects Of Fetal Alcohol Exposure On Gene Expression And Associated Behavioral Markers In Sprague Dawley Rats, Sarah Willey

Biology Honors Papers

Alcohol is a dangerous recreational substance because of its availability and the economic, social, and biological problems that it can cause. Fetal alcohol exposure, although preventable, is particularly harmful to a developing embryo. This exposure often causes fetal alcohol spectrum disorder (FASD), the symptoms of which include learning disabilities and psychological hardships with comorbidities such as anxiety, depression, and attention deficit disorder. One of the main teratogenic effects of alcohol is the effect on epigenetic modifications and altered gene expression during development. These modifications involve changes in the methylation and condensation of DNA that then alters the expression of specific …

Evaluating Adaptions Of Soft Red Winter Wheat In Eastern Region Of Usa, Dilmini Alahakoon, Anne Fennell, Jixiang Wu

Agronomy, Horticulture and Plant Science Faculty Publications

Identification of winter wheat genotypes that are highly adapted to a wide range of environmental conditions is one of the most important wheat research objectives. Multienvironment trials (METs) under diverse environments is a commonly used practice to evaluate mean performance and yield stability. However, locations used and genotypes planted may vary from year to year which may cause yield stability analysis to be statistically challenging. In this study, we evaluated yield trial data containing 117 eastern soft red winter wheat genotypes that were grown in 35 locations in eastern production areas and four growing seasons (2012/2013 to 2015/2016). We used …

African Clawed Toads Response To The Distance Choice Of Lateral Line Stimuli, Casey Iyasere

Undergraduate Research Posters 2017

African Clawed Toads are a model organism for research on sensory integration due to their lateral line system that allows them to sense water movement. This study further investigates the choices made by toads when presented with two lateral line stimuli in the form of surface waves. When such stimuli are initiated simultaneously, toads tend to turn towards the more rostral stimulus or the nearer stimulus, waves from which arrive first. We introduced a delay between stimuli to allow the waves from the farther stimulus to arrive first. Toads were more likely to respond to a single stimulus than they …

Cryptochromes Regulate Igf-1 Production And Signaling Through Control Of Jak2-Dependent Stat5b Phosphorylation, Amol Santosh Charudhari

ETD Archive

Insulin-like growth factor (IGF) signaling plays an important role in cell growth and proliferation and is implicated in regulation of cancer, metabolism, and aging. Here we report that IGF-1 level in blood and IGF-1 signaling demonstrates circadian rhythms. Circadian control occurs through cryptochromes (CRYs)—transcriptional repressors and components of the circadian clock. IGF-1 rhythms are disrupted in Cry-deficient mice, and IGF-1 level is reduced by 80% in these mice, which leads to reduced IGF signaling. In agreement, Cry-deficient mice have reduced body (~30% reduction) and organ size. Down-regulation of IGF-1 upon Cry deficiency correlates with reduced Igf-1 mRNA expression in the …

Kruppel-Like Factor 2 In Cholangiocarcinoma, Cody J. Wehrkamp, Justin L. Mott

Hepatobiliary Cancers: Pathobiology and Translational Advances

No abstract provided.

Bacterial Protein Meta-Interactomes Predict Cross-Species Interactions And Protein Function, J. Harry Caufield, Christopher Wimble, Semarjit Shary, Stefan Wuchty, Peter Uetz

Study of Biological Complexity Publications

Background

Protein-protein interactions (PPIs) can offer compelling evidence for protein function, especially when viewed in the context of proteome-wide interactomes. Bacteria have been popular subjects of interactome studies: more than six different bacterial species have been the subjects of comprehensive interactome studies while several more have had substantial segments of their proteomes screened for interactions. The protein interactomes of several bacterial species have been completed, including several from prominent human pathogens. The availability of interactome data has brought challenges, as these large data sets are difficult to compare across species, limiting their usefulness for broad studies of microbial genetics and …

Acute Neuroinflammation Induces Ais Structural Plasticity In A Nox2-Dependent Manner, S. D. Benusa, N. M. George, B. A. Sword, G. H. Devries, J. L. Dupree

Anatomy and Neurobiology Publications

Background

Chronic microglia-mediated inflammation and oxidative stress are well-characterized underlying factors in neurodegenerative disease, whereby reactive inflammatory microglia enhance ROS production and impact neuronal integrity. Recently, it has been shown that during chronic inflammation, neuronal integrity is compromised through targeted disruption of the axon initial segment (AIS), the axonal domain critical for action potential initiation. AIS disruption was associated with contact by reactive inflammatory microglia which wrap around the AIS, increasing association with disease progression. While it is clear that chronic microglial inflammation and enhanced ROS production impact neuronal integrity, little is known about how acute microglial inflammation influences AIS …

Proteomic Approach For Extracting Cytoplasmic Proteins From Streptococcus Sanguinis Using Mass Spectrometry, Fadi Elrami, Kristina Nelson, Ping Xu

Philips Institute for Oral Health Research Publications

Streptococcus sanguinis is a commensal and early colonizer of oral cavity as well as an opportunistic pathogen of infectious endocarditis. Extracting the soluble proteome of this bacterium provides deep insights about the physiological dynamic changes under different growth and stress conditions, thus defining “proteomic signatures” as targets for therapeutic intervention. In this protocol, we describe an experimentally verified approach to extract maximal cytoplasmic proteins from Streptococcus sanguinis SK36 strain. A combination of procedures was adopted that broke the thick cell wall barrier and minimized denaturation of the intracellular proteome, using optimized buffers and a sonication step. Extracted proteome was quantitated …

Consequences Of Dam Removal On Mussel Assemblages (Unionidae) In The Cuyahoga River, Nicholas P. Hogya, Rachel E. Andrikanich, Ryan J. Trimbath, Robert A. Krebs

Biological, Geological, and Environmental Faculty Publications

The primary objective of a new survey of the Cuyahoga River was to assess species richness and population abundance of various mussel species in the family Unionidae throughout the Middle Cuyahoga River and upper parts of the Lower Cuyahoga River. Historically, few records existed for this river between Lake Rockwell and the Cuyahoga Valley National Park, a region in which four dams have been removed in the past 12 years. Timed visual surveys were conducted during low flow conditions and by using tactile techniques in deeper water. Throughout the survey, only 37 live animals were located across the 18 Middle …

Developmental Stages Identified In The Trophozoite Of The Free-Living Alveolate Flagellate Colpodella Sp. (Apicomplexa), Raghavendra Yadavalli, Tobili Y. Sam-Yellowe

Biological, Geological, and Environmental Faculty Publications

In this study we performed light, immunofluorescent and transmission electron microscopy of Colpodella trophozoites to characterize trophozoite morphology and protein distribution. The use of Giemsa staining and antibodies to distinguish Colpodella life cycle stages has not been performed previously. Rhoptry and β-tubulin antibodies were used in immunofluorescent assays (IFA) to identify protein localization and distribution in the trophozoite stage of Colpodella (ATCC 50594). We report novel data identifying “doughnut-shaped” vesicles in the cytoplasm and apical end of Colpodella trophozoites reactive with antibodies specific to Plasmodium merozoite rhoptry proteins. Giemsa staining and immunofluorescent microscopy identified different developmental stages of Colpodella trophozoites, …

Ralph M. Steinman: Research And Career, Carol L. Moberg, Judy Adams, Steinman Laboratory

Steinman and the Nobel Prize

General information about Dr. Ralph Steinman and his Nobel Prize winning research.

Tenofovir Induced Nephrotoxicity: A Mechanistic Study, Rachel A. Murphy

Theses, Dissertations and Capstones

Tenofovir (TFV) is a reverse transcriptase inhibitor that is approved by the United States Food and Drug Administration (FDA) to treat HIV and chronic Hepatitis B. It has a long half-life, allowing for once a day dosing and is effective in treatment of both naive and experienced patients. It is administered orally as tenofovir disoproxil fumarate (TDF) and is deesterified in plasma to the active drug TFV. However, renal impairment is associated with its use; TFV can induce decreased glomerular filtration rate (GFR) and free calcitriol, renal failure, and Fanconi Syndrome. The exact mechanism of toxicity currently remains unknown, largely …

Analysis Of Bioaccumulation Of Selenium Diets In Brook Trout (Salvelnius Fontinalis), Kyle Aaron Tasker

Theses, Dissertations and Capstones

The brook trout (Salvelinus fontinalis) is facing many challenges throughout the Appalachian region, which are thought to be brought on by effects of climate change and the loss of habitat because of the disturbance from the pursuit of energy sources, namely, the mining of coal in the region. Most of the mining occurs in the central plateau and southern mountain region of West Virginia. The brook trout have historically had an expansive range covering this region and has the potential to inhabit the headwater stream systems that occur very prevalently throughout the Appalachians. In the state of West Virginia, the …

The Effects Of Flexor Pronator Mass Fatigue On Medial Elbow Stability, Nathaniel Harvey Millard

Theses, Dissertations and Capstones

Introduction: The medial elbow is supported from valgus loading with the ulnar collateral ligament (UCL), the flexor pronator mass (FPM), and the radial head. Fatigue of muscle can lead to a decrease in force production. The decrease in force production can lead to a decrease in joint stability. This study tested the effect of fatigue of the FPM muscles on the width of the medial joint space.

Methods: Thirty-one participants volunteered for this study (18 female and 12 male, 1 excluded; mean height 170.2±10.1 cm, mean weight 71.2±15.6 kg, mean age 21.53±1.87 years old). Ultrasound images of the width of …

A Comparative Analysis Of Stress Responses In Diverse Acanthamoeba Isolates, Mallory Jean Douthitt

Theses, Dissertations and Capstones

Acanthamoeba are free-living amoebae which can differentiate from vegetative, trophozoite forms into dormant cysts upon encountering unfavorable conditions. Acanthamoeba isolates FLA9, BP, and FLA22 are known to have unusual tolerance to environmental conditions which would promote encystment in the type strain, Neff. To facilitate further research into the behavior of these isolates, the phenotypic variables of instantaneous growth rate (μ), mean exponential encystment rate (Ԑ), and overall encystment success are calculated for the study isolates a variety of environmental conditions. Results indicate that BP and FLA22 may prefer growth conditions that are intolerable to the Neff strain. Findings suggest genomic …

Establishing Environmental Variability In The Toxins Produced By A Single Strain Of Prymnesium Parvum, Amy Parsons-White

Theses, Dissertations and Capstones

Prymnesium parvum (P. parvum) is a toxin producing haptophyte that has spread globally over the past 100 years. The algae, initially a marine organism, has moved inland to less saline waters. In addition, there is variability in the efficacy of the toxins produced from bloom to bloom. Variation between strains has been suggested as the reason for bloom differences; however, environmental variability within a single strain must first be established. Here, a single strain of P. parvum was cultured at three environmentally relevant salinities, 6psu, 13psu, and 35psu. Three different environmental shocks, decreased temperature, raised pH, and addition of specific …

“Fence-Line” Contrast Soundscape Study Of Forested Lands In Allegany State Park And Allegheny National Forest: Is There An Impact Of Oil And Gas Development On An Eastern Forest Soundscape?, Kasey Lynne Osborne

Theses, Dissertations and Capstones

“Natural resources”—an inclusive term indiscriminate of splendor or conservation status – require proper management, be it for forest, oil, water, wildlife, or even soundscapes. The soundscape, or all sounds (biophony, anthrophony, geophony) characterizing an area, is both an ecological monitoring tool and a resource itself—a component of the landscape. As energy demands surge, the oil/gas region of the Appalachian Plateau adjusts to unconventional extraction concurrent with traditional drilling operations. Energy development leaves enduring spatial footprints on the landscape, such as fragmentation from well-pad matrices. Soundscape patterns may not be as readily observed as visual cues, but their analysis can reveal …

Exploring Inquiry-Based Stress Reduction (Ibsr) As A Counselling Intervention, Jacqueline Luff, Marieke Ledingham

Sciences Conference Papers

Utilising mindfulness-based approaches and techniques within counselling has become increasingly popular with mental health professionals. Research has shown that practicing mindfulness can have positive implications for both clients and therapists. Relatively new to the field of counselling is a meditational, mindfulness based approach known as Inquiry-Based Stress Reduction (IBSR). This qualitative study explored therapists’ experience of using IBSR both personally and in their clinical practice. Employing Interpretative Phenomenological Analysis (IPA), six participants who were mental health professionals and had attained certification in IBSR were selected for this study. Seven main themes emerged from the findings including: IBSR’s influence on the …

Mass Transfer Effects Of Particle Size On Brewing Espresso, Sichen Zhong, Lauren Elizabeth Stork

Rose-Hulman Undergraduate Research Publications

The extraction process for coffee is complicated due to the nature of the coffee. In this paper, we studied the particle size distribution for coffee grinds and further analyzed that with the help of an inverted microscope and a scanning electron microscope. We drew a conclusion that the coffee grinds can be divided into two parts: cell fragments with smaller particles size and intact coffee cells with larger particles. The intact coffee cell was found to be a porous media. Therefore, we tried to brew the espresso with both normal grind size coffee and sieved coffee to study the extraction …

Distribution Bias Analysis Of Germline And Somatic Single-Nucleotide Variations That Impact Protein Functional Site And Neighboring Amino Acids, Y Pan, C Yan, Y Hu, Y Fan, Qing Pan, Q Wan, J Torcivia-Rodriguez, Raja Mazumder

Biochemistry and Molecular Medicine Faculty Publications

Single nucleotide variations (SNVs) can result in loss or gain of protein functional sites. We analyzed the effects of SNVs on enzyme active sites, ligand binding sites, and various types of post translational modification (PTM) sites. We found that, for most types of protein functional sites, the SNV pattern differs between germline and somatic mutations as well as between synonymous and non-synonymous mutations. From a total of 51,138 protein functional site affecting SNVs (pfsSNVs), a pan-cancer analysis revealed 142 somatic pfsSNVs in five or more cancer types. By leveraging patient information for somatic pfsSNVs, we identified 17 loss of functional …

Metabolic Reprogramming Of Triple-Negative Breast Cancer: The Role Of Mirnas, Amal Qattan

Biochemistry and Molecular Medicine Faculty Publications

MicroRNAs (miRNAs) are well known to influence the expression of the genes that regulate critical cellular functions. Various reports have suggested that they play critical roles in breast cancer metabolism through the regulation of various metabolic pathways, including the metabolism of glucose, lipids, glycolysis and the mitochondrial tricarboxylic acid cycle (TCA). miRNAs regulate the metabolic process by targeting key molecules (enzymes, kinases transporters) or by modifying the expression of key transcription molecules. In addition, miRNAs can indirectly regulate mRNA translation by targeting chromatin-remodeling enzymes. Furthermore, miRNAs influence the expression of both oncogenes and tumor suppressors and have a major impact …