Adapting Cell-Free Protein Synthesis As A Platform Technology For Education, 2018 California State University, Los Angeles
Adapting Cell-Free Protein Synthesis As A Platform Technology For Education, Grace W. Chu, Max Z. Levine, Nicole E. Gregorio, Javin P. Oza
STAR (STEM Teacher and Researcher) Presentations
Cell-free protein synthesis (CFPS) has emerged as an enabling biotechnology for research and biomanufacturing as it allows for the production of protein without the need for a living cell. Applications of CFPS include the construction of libraries for functional genomics and structural biology, the production of personalized medicine, and the expression of virus-like particles. The absence of a cell wall provides an open platform for direct manipulation of the reaction conditions and biological machinery. This project focuses on adapting the CFPS biotechnology to the classroom, making a hands-on bioengineering approach to learning protein synthesis accessible to students grades K-16 through ...
Use Of Structural Equation Models To Predict Dengue Illness Phenotype, 2018 Brown University
Use Of Structural Equation Models To Predict Dengue Illness Phenotype, Sangshin Park, Anon Srikiatkhachorn, Siripen Kalayanarooj, Louis Macareo, Sharone Green, Jennifer F. Friedman, Alan L. Rothman
Open Access Articles
BACKGROUND: Early recognition of dengue, particularly patients at risk for plasma leakage, is important to clinical management. The objective of this study was to build predictive models for dengue, dengue hemorrhagic fever (DHF), and dengue shock syndrome (DSS) using structural equation modelling (SEM), a statistical method that evaluates mechanistic pathways.
METHODS/FINDINGS: We performed SEM using data from 257 Thai children enrolled within 72 h of febrile illness onset, 156 with dengue and 101 with non-dengue febrile illnesses. Models for dengue, DHF, and DSS were developed based on data obtained three and one day(s) prior to fever resolution (fever ...
Iac Gene Expression In The Indole-3-Acetic Acid-Degrading Soil Bacterium Enterobacter Soli Lf7, 2018 University of Kentucky
Iac Gene Expression In The Indole-3-Acetic Acid-Degrading Soil Bacterium Enterobacter Soli Lf7, Isaac V. Greenhut, Beryl L. Slezak, Johan H. J. Leveau
Plant and Soil Sciences Faculty Publications
We show for soil bacterium Enterobacter soli LF7 that the possession of an indole-3-acetic acid catabolic (iac) gene cluster is causatively linked to the ability to utilize the plant hormone indole-3-acetic acid (IAA) as a carbon and energy source. Genome-wide transcriptional profiling by mRNA sequencing revealed that these iac genes, chromosomally arranged as iacHABICDEFG and coding for the transformation of IAA to catechol, were the most highly induced (>29-fold) among the relatively few (iac cluster were genes for a major facilitator superfamily protein (mfs) and enzymes of the β-ketoadipate pathway (pcaIJD-catBCA), which channels catechol into central metabolism. This entire iacHABICDEFG-mfs-pcaIJD-catBCA ...
Identification Of Microbiota Associated With The Ectosymbiotic Community Structure Of The Appalachian Brook Crayfish (Cambarus Bartonii), Matthew M. Cooke 6268927, Luke T. Fischer, Taylor Griffin, Sherrie Jeffers
Montview Liberty University Journal of Undergraduate Research
Microbes play a significant role in ecosystems, effecting the vital functions of other organisms, interspecies relationships, and population sizes. Based upon previous research (Skelton et al., 2016), it has been hypothesized that crayfish symbionts (branchiobdellidans) play a significant role in regulating the amount of microbiota associated with the host. A growing body of knowledge is known regarding both the condition of gill fouling and the annelid worm’s symbiotic relationship with the crayfish (Skelton et al., 2016; Skelton et al., 2016). However, there is little to no evidence available concerning the bacteria’s role in the process (Skelton et al ...
Sensitivity Of Marine Cynobacteria And Green Microlage To Nano And Bulk Zinc Oxides, 2018 Florida International University
Sensitivity Of Marine Cynobacteria And Green Microlage To Nano And Bulk Zinc Oxides, Jennifer Gil-Acevedo 3664585
FIU Electronic Theses and Dissertations
Nanoparticles are particles with sizes between 1 and 100 nanometers (nm). Owing to their unique chemical, electrical, mechanical, optical, and piezoelectric properties, zinc oxide nanoparticles (ZnO-NPs) are finding widespread use in numerous applications with yearly production over 550 tons per year. Increasing use of ZnO NPs, and NPs in wastewater discharges from domestic and industrial sources will have significant potential for adverse impacts on aquatic phototrophic organisms. Comparative studies on microalgae species response to ZnO NPs and variation in tolerance among species is still mostly unexplored. The proposed research aims to evaluate interspecies’ variation in tolerance to ZnO NPs among ...
Susceptibility Genes To Plant Viruses, 2018 University of Nebraska-Lincoln
Susceptibility Genes To Plant Viruses, Hernan Garcia-Ruiz
Plant viruses use cellular factors and resources to replicate and move. Plants respond to viral infection by several mechanisms, including innate immunity, autophagy, and gene silencing, that viruses must evade or suppress. Thus, the establishment of infection is genetically determined by the availability of host factors necessary for virus replication and movement and by the balance between plant defense and viral suppression of defense responses. Host factors may have antiviral or proviral activities. Proviral factors condition susceptibility to viruses by participating in processes essential to the virus. Here, we review current advances in the identification and characterization of host factors ...
Characterization Of The Protective Role Of Th17 Cells In An Fc Receptor-Targeted Vaccine Strategy Against Fracisella Tularensis Infection, Kyle Devenney
Seton Hall University Dissertations and Theses (ETDs)
Using a murine model, we have previously showed that targeting an inactivated form of F.tularensis (iFt) bacteria to Fcg receptors by utilizing an IgG2a, anti-LPS monoclonal antibody (mAb) provides 100% protection against a lethal dose with the live vaccine strain (LVS). The binding of anti-LPS monoclonal antibodies and iFt create an immune complex (mAb-iFt) allowing the Fc-region of the antibody to target Fc receptors expressed on antigen presenting cells, leading to a more robust and effective processing and presentation of the bacterial antigens. Although the resulting protective response generated relies on both humoral and cell-mediated immunity, in our study ...
Identification And Characterization Of Nitrogen Fixing Bacteria Associated With Kudzu Root Nodules, 2018 Georgia Gwinnett College
Identification And Characterization Of Nitrogen Fixing Bacteria Associated With Kudzu Root Nodules, Chasity Lawless, Michelle Zedonek, Debbie Curtis, Jonda Scharringhausen, Jared Bryant, Wendy A. Dustman, Alexandra M. Kurtz, Bekah Ward Dr.
Georgia Journal of Science
Pueraria montana, better known as kudzu, is an invasive species rapidly spreading throughout the southeastern United States. This plant can form root nodules which house nitrogen-fixing bacteria, allowing atmospheric nitrogen to be converted into biologically available forms of nitrogen for use by the plant host. Given the centrality of these bacteria to the spread of kudzu, isolates from nodules were characterized after collection from seven different locations across the metropolitan Atlanta area. Twenty-five isolates were grown on two different variants of nitrogen free media. Four different carbon sources were evaluated as well. Finally, growth under both aerobic and anaerobic conditions ...
Microbiological And Clinical Profile Of Infective Endocarditis Patients: An Observational Study Experience From Tertiary Care Center Karachi Pakistan, Uzma Shahid, Hasanat Sharif, Joveria Farooqi, Bushra Jamil, E. Khan
Department of Pathology and Laboratory Medicine
The study analyzed microbiological and antimicrobial susceptibility profile of organisms isolated from patients with infective endocarditis (2015–17) and compared disease outcomes in cohorts of endocarditis patient with history of prior invasive vascular intervention (high risk group) vs those without (native valve group). We hypothesized that high risk group would be more likely to have severe disease outcomes.
This was a prospective cohort study (2015–17). All blood and cardiac tissue samples of enrolled patients suspected of endocarditis according to modified Duke’s criteria were followed for microbiological and antimicrobial susceptibility profile. The high risk group was compared ...
Host And Viral Molecular Patterns Relevant To Pathogenicity And Immunity, 2018 University of Colorado at Boulder
Host And Viral Molecular Patterns Relevant To Pathogenicity And Immunity, Alexander Christian Stabell
Molecular, Cellular, and Developmental Biology Graduate Theses & Dissertations
Patterns in nature, many going unnoticed, are a defining characteristic of life. In this thesis, I will describe four studies that I have completed during my doctoral work. These will highlight how both host immune system and viral pathogens harness non-random biological patterns to aid in immunity or increase pathogenicity, respectively. Chapter 2 will describe the evolutionary history of a component of the primate innate immune system, Schlafen11, and its involvement in the defense against viruses. I attempt to show that Schlafen11 takes advantage of the pattern of non-optimal codon usage of HIV-1 transcripts in order to inhibit viral replication ...
Select Gp120 V2 Domain Specific Antibodies Derived From Hiv And Siv Infection And Vaccination Inhibit Gp120 Binding To Alpha4beta7, Sakaorat Lertjuthaporn, Shan Lu, Yang Lou, Shixia Wang, James Arthos
Open Access Articles
The GI tract is preferentially targeted during acute/early HIV-1 infection. Consequent damage to the gut plays a central role in HIV pathogenesis. The basis for preferential targeting of gut tissues is not well defined. Recombinant proteins and synthetic peptides derived from HIV and SIV gp120 bind directly to integrin alpha4beta7, a gut-homing receptor. Using both cell-surface expressed alpha4beta7 and a soluble alpha4beta7 heterodimer we demonstrate that its specific affinity for gp120 is similar to its affinity for MAdCAM (its natural ligand). The gp120 V2 domain preferentially engages extended forms of alpha4beta7 in a cation -sensitive manner and is inhibited ...
Transcriptomic, Functional, And Network Analyses Reveal Novel Genes Involved In The Interaction Between Caenorhabditis Elegans And Stenotrophomonas Maltophilia, Corin V. White, Michael A. Herman
Faculty Publications in the Biological Sciences
The bacterivorous nematode Caenorhabditis elegans is an excellent model for the study of innate immune responses to a variety of bacterial pathogens, including the emerging nosocomial bacterial pathogen Stenotrophomonas maltophilia. The study of this interaction has ecological and medical relevance as S. maltophilia is found in association with C. elegans and other nematodes in the wild and is an emerging opportunistic bacterial pathogen. We identified 393 genes that were differentially expressed when exposed to virulent and avirulent strains of S.maltophilia and an avirulent strain of E. coli. We then used a probabilistic functional gene network model (WormNet) to determine ...
Transcriptional Regulation Of Icaadbc By Icar And Tcar In Staphylococcus Epidermidis, 2018 University of Nebraska Medical Center
Transcriptional Regulation Of Icaadbc By Icar And Tcar In Staphylococcus Epidermidis, Tramy Hoang
Theses & Dissertations
Biofilm formation is the primary virulence factor in Staphylococcus epidermidis. Polysaccharide intercellular adhesin (PIA) is an adhesive molecule and a significant component of the biofilm matrix. It is synthesized by the products of the icaADBC operon whose regulation has been shown to involve environmental factors as well as many transcriptional regulators. Of these regulators, we explored the function of the repressors IcaR and TcaR and their roles in directly influencing icaADBC transcription and PIA synthesis. Based on previous observations that icaADBC positive clinical isolates of S. epidermidis are highly variable in PIA synthesis and biofilm formation, our goal was to ...
Identification Of Bhlhe40 And Irg1 As Essential Regulators Of The Inflammatory Response To Mycobacterium Tuberculosis, 2018 Washington University in St. Louis
Identification Of Bhlhe40 And Irg1 As Essential Regulators Of The Inflammatory Response To Mycobacterium Tuberculosis, Jeremy Peter Huynh
Arts & Sciences Electronic Theses and Dissertations
Protective immune responses to Mycobacterium tuberculosis (Mtb) must induce bactericidal functions while minimizing damage to the lung. Such responses require precise control of pro- and anti-inflammatory factors to regulate the recruitment and function of protective immune cells but the mechanisms by which this control is exerted remain incompletely defined. Basic helix-loop-helix family, member e40 (Bhlhe40) is a transcription factor known to regulate production of pro- and anti-inflammatory cytokines that affect protective immunity to Mtb. Immune-responsive Gene 1 (Irg1) is an enzyme that generates itaconate, a metabolite with potential anti-inflammatory and antibacterial roles during Mtb infection. The impact of Bhlhe40 and ...
Lack Of Evidence For Erm(B) Infiltration Into Erythromycin-Resistant Campylobacter Coli And Campylobacter Jejuni From Commercial Turkey Production In Eastern North Carolina: A Major Turkey-Growing Region In The United States, 2018 North Carolina State University at Raleigh
Lack Of Evidence For Erm(B) Infiltration Into Erythromycin-Resistant Campylobacter Coli And Campylobacter Jejuni From Commercial Turkey Production In Eastern North Carolina: A Major Turkey-Growing Region In The United States, Hannah K. Bolinger, Qijing Zhang, William G. Miller, Sophia Kathariou
Veterinary Microbiology and Preventive Medicine Publications
In Campylobacter spp., resistance to erythromycin and other macrolides has typically implicated ribosomal mutations, especially substitutions in the 23S rRNA genes. However, in 2014, the macrolide resistance gene erm(B) was reported for the first time in Campylobacter and shown to be harbored by a multidrug resistance island in the chromosome of the swine-derived strain Campylobacter coli ZC113. erm(B)-positive C. coli and Campylobacter jejuni strains from the food supply have been mostly reported from China. However, erm(B)-positive C. coli isolates were also detected recently in fecal samples from turkeys in Spain. To determine whether erm(B ...
Congenital Zika Virus Infection In Immunocompetent Mice Causes Postnatal Growth Impediment And Neurobehavioral Deficits, 2018 University of Southern Mississippi
Congenital Zika Virus Infection In Immunocompetent Mice Causes Postnatal Growth Impediment And Neurobehavioral Deficits, Fengwei Bai, Amber Paul, Dhiraj Acharya, Biswas Neupane, E.A. Thompson, Gabriel Gonzalez-Fernandez, Katherine Copeland, Melanae Garrett, Haibei Liu, Mariper Lopez, Matthew De Cruz, Alex S. Flynt, Jun Liao, Yan-Lin Guo, Federico Gonzalez-Fernandez, Parminder Vig
A small percentage of babies born to Zika virus (ZIKV)-infected mothers manifest severe defects at birth, including microcephaly. Among those who appeared healthy at birth, there are increasing reports of postnatal growth or developmental defects. However, the impact of congenital ZIKV infection in postnatal development is poorly understood. Here, we report that a mild congenital ZIKV-infection in pups born to immunocompetent pregnant mice did not display apparent defects at birth, but manifested postnatal growth impediments and neurobehavioral deficits, which include reduced locomotor and cognitive deficits that persisted into adulthood. We found that the brains of these pups were smaller ...
Next Generation Sequencing Methods For Coastal Zone Water Quality Monitoring, 2018 Nova Southeastern University
Next Generation Sequencing Methods For Coastal Zone Water Quality Monitoring, Catherine Iskrenko
HCNSO Student Capstones
When analyzing the water quality of the coastal zone, culture-based techniques have been utilized most often to identify Fecal Indicator Bacteria in samples. Since the advent of the Sanger Method for DNA sequencing, other techniques have arisen that provide significantly more information on the microorganisms in sample, but they are still not the mainstream for water quality analysis. This capstone reviews and compares culture-based techniques, DNA sequencing, RNA sequencing, qPCR for biomarker, and 16S rDNA sequencing to highlight their merits and shortcomings for analyzing environmental water samples. The technique presented that provides the broadest range of information (including the identification ...
Microbial Ecology Of South Florida Surface Waters: Examining The Potential For Anthropogenic Influences, 2018 Nova Southeastern University
Microbial Ecology Of South Florida Surface Waters: Examining The Potential For Anthropogenic Influences, Chase P. Donnelly
HCNSO Student Theses and Dissertations
South Florida contains one of the largest subtropical wetlands in the world, and yet not much is known about the microbes that live in these surface waters. These microbes play an important role in chemical cycling and maintaining good water quality for both human and ecosystem health. The hydrology of Florida’s surface waters is tightly regulated with the use of canal and levee systems run by the US Army Corps of Engineers and The South Florida Water Management District. These canals run through the Everglades, agriculture, and urban environments to control water levels in Lake Okeechobee, the Water Conservation ...
Improving Biomanufacturing Production With Novel Elp-Based Transcriptional Regulators, 2018 Department of Agricultural and Biological Engineering, Purdue University
Improving Biomanufacturing Production With Novel Elp-Based Transcriptional Regulators, Juya Jeon, Logan R. Readnour, Kevin V. Solomon
The Summer Undergraduate Research Fellowship (SURF) Symposium
Microbes can be used to produce valuable drugs, chemicals, and biofuels, but their potential has not been fully realized due to low production yields. To improve biomanufacturing processes and yield, we are developing novel, transcriptional regulators using biosynthesis technology in order to improve cellular health and overall production. Our regulator contains elastin-like polypeptides (ELPs), which make ideal sensors since they exhibit a sharp, inverse phase transition to indicators of cell health such as intracellular pH and ionic strength, and external stimuli such as temperature. We hypothesize that ELP can be fused to transcription factors to control expression of target genes ...
Effect Of Carbohydrates On The Gut Microbiome, 2018 Purdue University
Effect Of Carbohydrates On The Gut Microbiome, Maciej Filar, Mohit S. Verma
The Summer Undergraduate Research Fellowship (SURF) Symposium
The microbiome within the gut is directly linked to biological processes within a person, influencing factors such as metabolism, signaling pathways, and available nutrients. Long term dieting is known to alter ecological conditions within the gut, allowing certain types of microbes to flourish. Therefore, the overall health of an individual is ultimately influenced by shifts in the microbial community state caused by persistent dieting. This study investigates the connection between diet and the microbiome and draws an understanding of how common carbohydrates in food can affect bacterial composition. Using KBase software, anaerobic bacterial growth was investigated for bacteria subject to ...