Chemistry Commons^™

Quantum Modeling & Experimental Studies Of Radical Chemistry, Justin Michael Barrett

Graduate Theses and Dissertations

This work describes two projects centered around radical chemical mechanisms. The first investigation generalized the utility of a C-N bond homolysis followed by a [1,3] – rearrangement synthetic strategy found possible in N-alkylated thiazole & benzothiazole species onto analogous systems. Computational investigation guided the inquiry on structurally analogous systems that would favor a radical, [1,3] – rearrangement. Herein, we describe the implementation of that mechanism to transform Breslow Intermediate-like substrates into tertiary alcohol and amide products under facile conditions. We confer on the proficiency of this strategy with 2-pyridinemethanol and the problematic implementation with 2-(aminomethyl)pyridine. The second investigation solved a …

Modeling Study Of Si3N4 Waveguides On A Sapphire Platform For Photonic Integration Applications, Diandian Zhang, Shui-Qing Yu, Gregory J. Salamo, Richard A. Soref, Wei Du

Electrical Engineering and Computer Science Faculty Publications and Presentations

Sapphire has various applications in photonics due to its broadband transparency, high-contrast index, and chemical and physical stability. Photonics integration on the sapphire platform has been proposed, along with potentially high-performance lasers made of group III–V materials. In parallel with developing active devices for photonics integration applications, in this work, silicon nitride optical waveguides on a sapphire substrate were analyzed using the commercial software Comsol Multiphysics in a spectral window of 800~2400 nm, covering the operating wavelengths of III–V lasers, which could be monolithically or hybridly integrated on the same substrate. A high confinement factor of ~90% near the single-mode …

Performance And Enhanced Efficiency Induced By Cold Plasma On Sapo-34 Membranes For Co2 And Ch4 Mixtures, Fnu Gorky, Vashanti Storr, Grace Jones, Apolo Nambo, Jacek B. Jasinski, Maria L. Carreon

Chemical Engineering Faculty Publications and Presentations

In this study, we investigate the influence of cold-plasma-induced enhanced performance and efficiency of SAPO-34 membranes in the separation of CO₂ and CH₄ mixtures. Placing the herein presented research in a broader context, we aim to address the question of whether cold plasma can significantly impact the membrane performance. We subjected SAPO-34 membranes to plasma mild disturbances and analyzed their performance in separating CO₂ and CH₄. Our findings reveal a notable enhancement in membrane efficiency and sustained performance when exposed to cold plasma. The pulsed plasma separation displayed improved structural integrity, and the experimental results …

Understanding And Tuning Magnetism In Van Der Waals-Type Metal Thiophosphates, Rabindra Basnet, Jin Hu

Physics Faculty Publications and Presentations

Over the past two decades, significant progress in two-dimensional (2D) materials has invigorated research in condensed matter and material physics in low dimensions. While traditionally studied in three-dimensional systems, magnetism has now been extended to the 2D realm. Recent breakthroughs in 2D magnetism have attracted substantial interest from the scientific community, owing to the stable magnetic order achievable in atomically thin layers of the van der Waals (vdW)-type layered magnetic materials. These advances offer an exciting platform for investigating related phenomena in low dimensions and hold promise for spintronic applications. Consequently, vdW magnetic materials with tunable magnetism have attracted significant …

Differential Behavior Of Conformational Dynamics In Active And Inactive States Of Cannabinoid Receptor 1, Ugochi H. Isu, Adithya Polasa, Mahmoud Moradi

Chemistry & Biochemistry Faculty Publications and Presentations

Cannabinoid receptor 1 (CB1) is a G protein-coupled receptor that regulates critical physiological processes including pain, appetite, and cognition. Understanding the conformational dynamics of CB1 associated with transitions between inactive and active signaling states is imperative for developing targeted modulators. Using microsecond-level all-atom molecular dynamics simulations, we identified marked differences in the conformational ensembles of inactive and active CB1 in apo. The inactive state exhibited substantially increased structural heterogeneity and plasticity compared to the more rigidified active state in the absence of stabilizing ligands. Transmembrane helices TM3 and TM7 were identified as distinguishing factors modulating the state-dependent dynamics. TM7 …

Developing Catalysts For The Hydrolysis Of Glycosidic Bonds In Oligosaccharides Using A Spectrophotometric Screening Assay, Susanna Striegler

Chemistry & Biochemistry Faculty Publications and Presentations

In a proof-of-concept study, a method for the empirical design of polyacrylate gel catalysts with the ability to cleave 1→4 α-glycosidic bonds in di- and trisaccharides was elaborated. The study included the synthesis of a 300-gel member library based on two different cross-linkers and 10 acrylate monomers, identification of monomodal gels by dynamic light scattering, and a 96-well plate spectrophotometric screening assay to monitor the hydrolysis of chromophore-free maltose into glucose units. The composition of the matrix of the most efficient catalysts in the library was found to enable CH−π, hydrophobic, and H-bond accepting interactions during the hydrolysis as typically …

Engineering Central Substitutions In Heptamethine Dyes For Improved Fluorophore Performance, Lei Guo, Meek Yang, Bin Dong, Seth Lewman, Alex Van Horn, Shang Jia

Chemistry & Biochemistry Faculty Publications and Presentations

As a major family of red-shifted fluorophores that operate beyond visible light, polymethine dyes are pivotal in light-based biological techniques. However, methods for tuning this kind of fluorophores by structural modification remain restricted to bottom-up synthesis and modification using coupling or nucleophilic substitutions. In this study, we introduce a two-step, late-stage functionalization process for heptamethine dyes. This process enables the substitution of the central chlorine atom in the commonly used 4′-chloro heptamethine scaffold with various aryl groups using aryllithium reagents. This method borrows the building block and designs from the xanthene dye community and offers a mild and convenient way …

Proton-Coupled Electron Transfer To Drive Biomass Conversion, Cody Canote

Graduate Theses and Dissertations

Meeting rising demands for commodity chemicals while simultaneously easing reliance on fossil fuels presents one of the most substantial challenges for chemistry to date. Biomass has emerged as a sustainable precursor to commodity chemicals but requires substantial deoxygenation to displace petrochemicals. Development of efficient catalysts to achieve these transformations remains one of the central goals of inorganic and organometallic chemistry. Electrochemical strategies to propel biomass conversion are attractive, providing the driving force for reactivity and insights into catalyst mechanism. This work focuses on proton-coupled electron transfer (PCET) to facilitate redox catalysis in biomass up conversion and homolytic bond cleavage in …

Computational Models That Exploit Spatial, Temporal, And Voltage-Current Relationships In The Electrochemical Generation-Collection Of Redox-Active Molecules, Miguel Angel Abrego Tello

Graduate Theses and Dissertations

The numerical studies in this dissertation explore the application of redox cycling, an advanced electrochemical technique, for analyzing bioelectrochemical systems with a particular focus on small-volume samples and involves electrodes that can be activated to oxidize and reduce, separated by varying distances and featuring different geometries. The redox cycling approach facilitates the spatio-temporal interrogation of kinetics, mass transport, and the quantification and identification of chemical systems. We optimize a previously fabricated neural probe design on an SU-8 substrate, featuring coplanar arrays of nine microband electrodes suited for in vivo applications. Through comprehensive in situ and in silico redox cycling studies …

Revealing Structural Evolution Of Nickel Phosphide-Iron Oxide Core–Shell Nanocatalysts In Alkaline Medium For The Oxygen Evolution Reaction, Ryan H. Manso, Jiyun Hong, Wei Wang, Prashant Acharya, Adam S. Hoffman, Xiao Tong, Feng Wang, Lauren F. Greenlee, Yimei Zhu, Simon R. Bare, Jingyi Chen

Chemistry & Biochemistry Faculty Publications and Presentations

Metal phosphide-containing materials have emerged as a potential candidate of nonprecious metal-based catalysts for alkaline oxygen evolution reaction (OER). While it is known that metal phosphide undergoes structural evolution, considerable debate persists regarding the effects of dynamics on the surface activation and morphological stability of the catalysts. In this study, we synthesize NiP_x-FeO_x core–shell nanocatalysts with an amorphous NiP_x core designed for enhanced OER activity. Using ex situ X-ray absorption spectroscopy, we elucidate the local structural changes as a function of the cyclic voltammetry cycles. Our studies suggest that the presence of corner-sharing octahedra in the …

Exploring The Effects Of An Alfalfa Leaf-Derived Adsorbent On Microbial Community, Ileal Morphology, Barrier Function, And Immunity In Turkey Poults During Chronic Aflatoxin B1 Exposure, Maria De Jesus Nava-Ramirez, Jing Liu, Juan Omar Hernandez-Ramirez, Xochitl Hernandez-Velasco, Juan D. Latorre, Alma Vazquez-Duran, Guolong Zhang, Roberto Señas-Cuesta, Sergio Gomez-Rosales, Andressa Stein, Billy M. Hargis, Guillermo Tellez-Isaias, Abraham Mendez-Albores, Jesus A. Maguey-Gonzalez

Poultry Science Faculty Publications and Presentations

This article follows-up on our recently published work, which evaluated the impact of the addition of an alfalfa leaf-derived adsorbent in the aflatoxin B₁ (AFB₁)-contaminated diet in regard to the production parameters, blood cell count, serum biochemistry, liver enzymes, and liver histology of turkey poults. This paper presents complementary results on microbial community, ileal morphology, barrier function, and immunity. For this purpose, 350 1-day-old female turkey poults were randomly distributed into five groups: (1) Control, AFB₁-free diet; (2) AF, AFB₁-contaminated diet at 250 ng/g; (3) alfalfa, AFB₁-free diet + 0.5% ( …

Carbon-Based Nanocomposite Membranes For Membrane Distillation: Progress, Problems And Future Prospects, Chhabilal Regmi, Yuwaraj K. Kshetri, S. Ranil Wickramasinghe

Chemical Engineering Faculty Publications and Presentations

The development of an ideal membrane for membrane distillation (MD) is of the utmost importance. Enhancing the efficiency of MD by adding nanoparticles to or onto a membrane’s surface has drawn considerable attention from the scientific community. It is crucial to thoroughly examine state-of-the-art nanomaterials-enabled MD membranes with desirable properties, as they greatly enhance the efficiency and reliability of the MD process. This, in turn, opens up opportunities for achieving a sustainable water–energy–environment nexus. By introducing carbon-based nanomaterials into the membrane’s structure, the membrane gains excellent separation abilities, resistance to various feed waters, and a longer lifespan. Additionally, the use …

A Cost-Effective Enzyme Kinetics And Inhibition Model For Biochemistry Education And Research, Lauren Vandee, Alyssa Teague, Taylor East, Kim Rhona Jacinto, Macie Carter, Jacey Totty, Paul D. Adams, Djamali Muhoza

Chemistry & Biochemistry Faculty Publications and Presentations

Enzyme kinetics and inhibition studies are crucial in biochemistry education and research. Conventional methods often require expensive equipment and reagents, potentially limiting their accessibility in limited resource settings. Our approach sought to develop a cost-effective experimental design for studying enzyme kinetics and inhibition. Lactase was chosen as a protein model and its activity was investigated by measuring glucose production from lactose hydrolysis. In the study, commercially available lactase pills were used as an enzyme source, while milk was used as a substrate. Instead of scientific equipment, glucometers were used to measure lactase activity. Enzyme kinetics were evaluated using Michaelis–Menten and …

Hatt-Flow: Hierarchical Attention-Flow Mechanism For Group-Activity Scene Graph Generation In Videos, Naga Venkata Sai Raviteja Chappa, Pha Nguyen, Thi Hoang Ngan Le, Page Daniel Dobbs, Khoa Luu

Electrical Engineering and Computer Science Faculty Publications and Presentations

Group-activity scene graph (GASG) generation is a challenging task in computer vision, aiming to anticipate and describe relationships between subjects and objects in video sequences. Traditional video scene graph generation (VidSGG) methods focus on retrospective analysis, limiting their predictive capabilities. To enrich the scene-understanding capabilities, we introduced a GASG dataset extending the JRDB dataset with nuanced annotations involving appearance, interaction, position, relationship, and situation attributes. This work also introduces an innovative approach, a Hierarchical Attention–Flow (HAtt-Flow) mechanism, rooted in flow network theory to enhance GASG performance. Flow–attention incorporates flow conservation principles, fostering competition …

In Situ And 2d And 3d In Silico Redox Cycling Studies For Design Optimization Of Coplanar Arrays Of Microband Electrodes In A 70 Μm × 100 Μm Electroactive Footprint, Miguel Angel Abrego Tello, Mahsa Lotfi Marchoubeh, Ingrid Fritsch

Chemistry & Biochemistry Faculty Publications and Presentations

Optimization of redox-cycling currents was performed by adjusting the height (sidewalls, h), width (w), and length (l) of band electrodes and their spacing (w_gap) in coplanar arrays restricted to a small-electroactive window of 70 × 100 μm. These arrays can function in μL-volumes for chemical analysis (e.g., in-vivo dopamine detection using probes). Experiments were conducted with an array of five electrodes (NE = 5), w = 4.3 μm, w_gap = 3.7 μm, h = 0.150 μm, and l = 99.2 μm. Reasons for …

Simulation Of Linear And Cyclic Alkanes With Second-Order Møller–Plesset Perturbation Theory Through Adaptive Force Matching, Alexei Nikitin, Feng Wang

Chemistry & Biochemistry Faculty Publications and Presentations

Predicting ensemble properties, such as density and heat of vaporization, of small hydrocarbons is challenging due to the dispersion-dominated weak interactions between these molecules. With the adaptive force matching (AFM) method, the bonded and short-range nonbonded interactions are fitted to second-order Møller–Plesset perturbation theory (MP2) references computed with the def2-TZVP basis set. The dispersion is modeled using symmetry adapted perturbation theory (SAPT) at MP4 accuracy using the def2-TZVPD basis set. A new charge matrix decomposition technique is described to obtain partial charges in AFM. Although the models developed do not have any empirical parameters, several properties of the resulting models …

Recombinant Bile Salt Hydrolase Enhances The Inhibition Efficiency Of Taurodeoxycholic Acid Against Clostridium Perfringens Virulence, Tahrir Alenezi, Bilal Alrubaye, Ying Fu, Janashrit Shrestha, Samar Algehani, Hong Wang, Rohana Liyanage, Xiaolun Sun

Chemistry & Biochemistry Faculty Publications and Presentations

Clostridium perfringens is the main pathogen of chicken necrotic enteritis (NE) causing huge economic losses in the poultry industry. Although dietary secondary bile acid deoxycholic acid (DCA) reduced chicken NE, the accumulation of conjugated tauro-DCA (TDCA) raised concerns regarding DCA efficacy. In this study, we aimed to deconjugate TDCA by bile salt hydrolase (BSH) to increase DCA efficacy against the NE pathogen C. perfringens. Assays were conducted to evaluate the inhibition of C. perfringens growth, hydrogen sulfide (H₂S) production, and virulence gene expression by TDCA and DCA. BSH activity and sequence alignment were conducted to select the …

Modeling Charging Current Dynamics At Microelectrodes And Their Interfaces With Electrolyte And Insulators With A Focus On Microfabricated Gold Microband Electrodes On An Su-8 Substrate, Miguel Angel Abrego Tello, Mahsa Lotfi Marchoubeh, Ingrid Fritsch

Chemistry & Biochemistry Faculty Publications and Presentations

The suitability of electrochemical methods for quantitative measurements at microdevices is influenced by the relatively large electrode-insulator interface-to-electrode area ratio, greatly impacting charging dynamics due to interactions among electrolyte, conductor material, and insulator layers. The resulting charging current can overwhelm the faradaic current from redox chemistry. The device studied here features a 70 μm × 100 μm electroactive window, hosts gold coplanar microband electrodes, and is insulated by SU-8, which serves as both overlayer and substrate. The overlayer defines the electroactive length and isolates the leads of the electrodes from the sample solution. Cyclic voltammetry in 0.10 M …

Photodegradation Of Microplastics Through Nanomaterials: Insights Into Photocatalysts Modification And Detailed Mechanisms, Yiting Xiao, Yang Tian, Wenbo Xu, Jun Zhu

Biological and Agricultural Engineering Faculty Publications and Presentations

Microplastics (MPs) pose a profound environmental challenge, impacting ecosystems and human health through mechanisms such as bioaccumulation and ecosystem contamination. While traditional water treatment methods can partially remove microplastics, their limitations highlight the need for innovative green approaches like photodegradation to ensure more effective and sustainable removal. This review explores the potential of nanomaterial-enhanced photocatalysts in addressing this issue. Utilizing their unique properties like large surface area and tunable bandgap, nanomaterials significantly improve degradation efficiency. Different strategies for photocatalyst modification to improve photocatalytic performance are thoroughly summarized, with a particular emphasis on element doping and heterojunction construction. Furthermore, this review …

Investigations Into The Expansion Of Breslow-Type Intermediate Reactivity Via Radical C-N Bond Homolysis, Jacklyn J. Kubik

Graduate Theses and Dissertations

The Breslow intermediate is a key intermediate in catalytic transformations like the benzoin condensation and Stetter reaction. These intermediates were first postulated by Ronald Breslow in 1958. Since then, a number of researchers have sought to prove their existence and expand upon the reactions possible using these intermediates. In the sixty plus years since this intermediate was first postulated the reaction scope has expanded significantly, Breslow and breslow-type intermediates have expanded to encompass benzothiazoles, imidazoles, benzoimidazoles, triazoles, thiadiazoles, diamino type structures, and most recently pyridine structures. The expansion of these reactions has opened up new avenues of exploration and previously …

Modeling Sex-Specific Changes In Myocardial Fibrosis, Grace Martin

Chemical Engineering Undergraduate Honors Theses

Heart disease the leading cause of death for both men and women in the United States. Cardiac fibrosis, or accumulation of extracellular matrix proteins in the heart, can occur after a heart attack and increase the risk for further complications. Current treatments for heart disease do not include extracellular matrix regulators, partly due to the complicated signaling network responsible for the production of these proteins. By using a computational model of the signaling network in cardia fibroblasts, the relationship between particular molecules and downstream extracellular matrix production can be examined.

Biological sex is an important factor for cardiac health and …

Revealing The Three-Dimensional Arrangement Of Polar Topology In Nanoparticles, Chaewa Jeong, Juhyeok Lee, Hyesung Jo, Jaewhan Oh, Hionsuck Baik, Kyoung-June Go, Junwoo Son, Si-Young Choi, Sergey Prosandeev, Laurent Bellaiche, Yongsoo Yang

Physics Faculty Publications and Presentations

In the early 2000s, low dimensional ferroelectric systems were predicted to have topologically nontrivial polar structures, such as vortices or skyrmions, depending on mechanical or electrical boundary conditions. A few variants of these structures have been experimentally observed in thin film model systems, where they are engineered by balancing electrostatic charge and elastic distortion energies. However, the measurement and classification of topological textures for general ferroelectric nanostructures have remained elusive, as it requires mapping the local polarization at the atomic scale in three dimensions. Here we unveil topological polar structures in ferroelectric BaTiO₃ nanoparticles via atomic electron tomography, which …

Affinity-Enhanced Microdialysis Using Covalent Organic Frameworks (Cofs) Applied To Various Non-Steroidal Anti-Inflammatory Drugs (Nsaids) And Their Metabolites, Kehinde Adedeji Olubanjo

Graduate Theses and Dissertations

Microdialysis is a valuable tool in neurosciences and pharmaceutical sciences, aiding research in drug-related areas. However, it faces a notable limitation in sampling hydrophobic analytes due to their adherence to the probe materials brought about by non-specific adsorption, thereby reducing relative recovery or overall extraction. In this work, two affinity agents, polydimethylsiloxane (PDMS) beads suspended in sodium dodecyl sulfate (SDS) surfactant and covalent organic frameworks I(COFs) were employed as affinity agents in microdialysis for the extraction of hydrophobic drugs. When PDMS beads were employed as affinity agents, at the flow rate of 1 µL/min the relative recovery of both the …

Characterizing The Role Of Chemo-Mechanical Couplings In The Activation Process Of Proteins That Undergo Conformational Changes, Ugochi Isu

Graduate Theses and Dissertations

Proteins are not static entities; rather, they are dynamic macromolecules that undergo conformational changes to perform their biological functions. These structural transitions are often coupled to chemical events such as lipid interactions, or changes in the cellular environment. Understanding the intricate interplay between chemical perturbations and the resulting mechanical response is crucial for elucidating the activation mechanisms of proteins. This dissertation aims to characterize the role of chemo-mechanical couplings in the activation process of two G protein-coupled receptors (GPCRs): Cannabinoid Receptor 1 (CB1) and Metabotropic Glutamate Receptor 1 (mGluR1). We employ molecular dynamics simulations to investigate the conformational landscapes of …

Two Studies: Aromatization-Driven Ring Opening Functionalization Of Unstrained Cycloalkanones Through Visible Light Catalysis, And Synthesis Of Amino Endoperoxides Using Self-Doped Titanium Dioxide (Ti3+@Tio2) As A Photocatalyst, Enoch Kudoahor

Graduate Theses and Dissertations

The pharmaceutical industry has been focused on discovering new innovative drugs over the last decade, but the syntheses are either inefficient or the approach to environmental sustainability raises significant concerns. Photochemistry and photocatalysis have found widespread applications in organic synthesis as a result of this pressing issue. Our role as organic chemists is to improve environmental quality by creating a "greener" world through the development of efficient synthetic methods and strategies. Solar energy is now one of the most abundant and renewable natural resources. The emergence of environmental sustainability concerns has led to the development of new techniques for harnessing …

Group Iv Topological Quantum Alloy And The Role Of Short-Range Order: The Case Of Ge-Rich Ge1–XPbX, Yunfan Liang, Shunda Chen, Xiaochen Jin, Damien West, Shui-Qing Yu, Tianshu Li, Shengbai Zhang

Electrical Engineering and Computer Science Faculty Publications and Presentations

Despite the explosion of interest in topological materials over the last decades, their applications remain limited due to challenges in growth and incorporation with today’s microelectronics. As a potential bridge to close this gap, we investigate the group-IV alloy Ge_1–xPb_x, in the Ge-rich condition using density functional theory and show that relatively low concentrations of Pb (~9.4%) can lead to a topological phase transition. Furthermore, the calculation of the Z₂ invariant for both the random alloy and the alloy with short-range order (SRO) indicate that the topological phase of the material can be directly modified …

Efficient Photocatalytic Core–Shell Synthesis Of Titanate Nanowire/Rgo, Xiaofang Ye, Yang Tian, Mengyao Gao, Fangjun Cheng, Jinshen Lan, Han Chen, Mark Lanoue, Shengli Huang, Z. Ryan Tian

Chemistry & Biochemistry Faculty Publications and Presentations

Wide bandgap semiconductor-based photocatalysts are usually limited by their low solar energy conversion efficiency due to their limited absorption solar wavelength, their rapid surface recombination of the photogenerated electron–hole pairs, and their low charge-carrier mobility. Here, we report a novel stepwise solution synthesis for achieving a new photocatalytic core–shell consisting of a titanate nanowire/reduced graphene oxide shell (or titanate/rGO) 1D-nanocomposite. The new core–shell nanocomposite maximized the specific surface area, largely reduced the charge transfer resistance and reaction energy barrier, and significantly improved the absorption of visible light. The core–shell nanocomposites’ large on/off current ratio and rapid photo-responses boosted the photocurrent …

Water Potential From Adaptive Force Matching For Ice And Liquid With Revised Dispersion Predicts Supercooled Liquid Anomalies In Good Agreement With Two Independent Experimental Fits, Raymond Weldon, Feng Wang

Chemistry & Biochemistry Faculty Publications and Presentations

A revised version of the Water potential from Adaptive force matching for Ice and Liquid (WAIL) was developed by using the previous data set for fitting the WAIL model but with a dispersion term calculated using symmetry adapted perturbation theory (SAPT). The model has no adjustable parameters and relies solely on fitting first-principles information. The new model, named revised WAIL (rWAIL), shows improved predictions of most properties of water when compared to the previously published WAIL model. The rWAIL model also compares favorably to other first-principles-derived water models, such as MB-Pol, at only a fraction of the computational cost. The …

Vaccine Immunogenicity Versus Gastrointestinal Microbiome Status: Implications For Poultry Production, Chrysta N. Beck, Jiangchao Zhao, Gisela F. Erf

Poultry Science Faculty Publications and Presentations

At the turn of the 21st century, the importance of maintaining a balanced microbiome was brought to the forefront of the microbiology, immunology, and physiology research fields. Exploring the complex interactions between vaccine administration, mucosal microbiome, oral tolerance, and enteric inflammation in health and disease is challenging since environmental factors (such as diet and sanitation) have major influences on gut microbiota composition. High enteric pathogen load has been shown to contribute to dampened cell-mediated and humoral immune responses to vaccines in human case studies, either through elevated enteric inflammation or increased tolerance to environmental microbes. Although antibiotic and probiotic interventions …

A Simple, Inexpensive Alkaline Method For Bacterial Dna Extraction From Environmental Samples For Pcr Surveillance And Microbiome Analyses, Abdulkarim Shwani, Bin Zuo, Adnan Alrubaye, Jiangchao Zhao, Douglas D. Rhoads

Poultry Science Faculty Publications and Presentations

DNA extraction for downstream molecular diagnostic applications can be an expensive, time-consuming process. We devised a method to quickly extract total bacterial DNA from environmental samples based on the sodium hydroxide lysis of cells with or without capture by magnetic beads for subsequent PCR or quantitative PCR. The final DNA extraction method using NaOH is extremely low-cost and can be completed in as little as 10 min at room temperature with dilution, or the DNA can be further purified using silica-coated paramagnetic beads. NaOH extraction was effective for Gram-negative and Gram-positive bacteria in samples from air, soil, sewage, food, laboratory …