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Articles 181 - 210 of 13689

Full-Text Articles in Biochemistry, Biophysics, and Structural Biology

Recombinant Hagfish Intermediate Filament Proteins Enable Neural Culture Substrates That Promote Neurite Extension And Reduce Oxidative Stress, Justin Jones, Kristin Durrant Mar 2026

Recombinant Hagfish Intermediate Filament Proteins Enable Neural Culture Substrates That Promote Neurite Extension And Reduce Oxidative Stress, Justin Jones, Kristin Durrant

Browse all Datasets

This dataset supports the production, characterization, and biological validation of a novel recombinant hagfish intermediate filament (rHIF) protein functionalized with spider silk motifs (rHIF-alpha-GRGGL). The data demonstrates a scalable bioprocess resulting in a 7.76 g/L yield, high structural alpha-helicity (77.2%), and significant support for N2a cells.

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Bacillus Subtilis Parb C-Terminal Lysine Residues Are Essential For Dimerization And In Vivo Function, Indicating Their Roles In Dna Sliding, Aleksey Aleshintsev, Lindsey E. Way, Ngoc Khanh Lai, Bianca Guerra, Paloma Dorantes, Lois Akosua Serwaa, Sealtiel Anulao, Miranda Molina, Xindan Wang, Hyeongjun Kim Mar 2026

Bacillus Subtilis Parb C-Terminal Lysine Residues Are Essential For Dimerization And In Vivo Function, Indicating Their Roles In Dna Sliding, Aleksey Aleshintsev, Lindsey E. Way, Ngoc Khanh Lai, Bianca Guerra, Paloma Dorantes, Lois Akosua Serwaa, Sealtiel Anulao, Miranda Molina, Xindan Wang, Hyeongjun Kim

Physics & Astronomy Faculty Publications

The broadly conserved ParB protein performs crucial functions in bacterial chromosome segregation and replication regulation. The cellular function of ParB requires it to dimerize, recognize parS DNA sequences, clamp on DNA, then slide to adjacent sequences through nonspecific DNA binding. How ParB coordinates nonspecific DNA binding and sliding remains elusive. Here, we combine multiple in vitro biophysical and computational tools and in vivo approaches to address this question. We found that five conserved lysine residues in the C-terminal domain (CTD) of ParB play distinct roles. While the two central rigid lysine residues provide the structural platform for the CTD, the …

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Role Of Na⁺/K⁺-Atpase And Sodium–Calcium Exchanger In Digitoxin-Induced Cytotoxicity In Triple Negative Breast Cancer Cells, Alyson Sotomayor Quispe, Marilyn Odom Phd Mar 2026

Role Of Na⁺/K⁺-Atpase And Sodium–Calcium Exchanger In Digitoxin-Induced Cytotoxicity In Triple Negative Breast Cancer Cells, Alyson Sotomayor Quispe, Marilyn Odom Phd

SPARK Symposium Presentations

Triple Negative Breast Cancer (TNBC) is characterized by the absence of estrogen, progesterone, and HER2 receptors, limiting targeted treatment options. Digitoxin, a drug used to treat heart failure and atrial fibrillation through Na⁺/K⁺-ATPase inhibition, has demonstrated anticancer effects in TNBC cells, including apoptosis via the NF-κB pathway. This study investigates whether the Na⁺/K⁺-ATPase and sodium–calcium exchanger contribute to the mechanism of action of digitoxin in TNBC cells. We hypothesize that these transporters mediate digitoxin-induced cytotoxic effects. To test this, MDA-MB-468 cells were treated with digitoxin, and protein localization and expression were analyzed using immunofluorescence and Western blot. Digitoxin treatment resulted …

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Tlr3 Mediated Type I Interferon Response In Mammalian Cell Defense Against Cryptosporidium Parvum Infection., Anjelica Matias Mar 2026

Tlr3 Mediated Type I Interferon Response In Mammalian Cell Defense Against Cryptosporidium Parvum Infection., Anjelica Matias

Biochemistry and Molecular Biology

Cryptosporidium parvum is a major cause of a diarrheal disease which affects many children in the USA as well as the rest of the world, yet the contribution of its double stranded RNA (dsRNA) viral symbiont, Cryspovirus (CSpV1) to host innate immunity remains unclear. This study investigated whether CSpV1 activates Toll Like Receptor 3 (TLR3) signaling pathways and downstream Interferon type I (IFN I) responses in mammalian intestinal epithelial cells. Confluent Human Ileocecal Colorectal Adenocarcinoma cells (HCT8) were exposed to CSpV1, and the expression levels of Tumor Necrosis Factor Receptor-Associated Factor 3 (TRAF3), Nuclear Factor-𝜅-light chain enhancer of activated B-cells …

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Contribution Of G4 Structure To Alzheimer’S Disease And Tau Pathology, Lena Michaela Kallweit Mar 2026

Contribution Of G4 Structure To Alzheimer’S Disease And Tau Pathology, Lena Michaela Kallweit

Electronic Theses and Dissertations

The occurrence of Alzheimer’s Disease (AD) is rapidly increasing as our global population ages. With the majority of therapeutic drugs in the last couple of decades failing clinical trials, new molecular targets are needed to combat the expected influx of new AD cases. AD pathogenesis is associated with abnormal protein aggregation, characterized in part by intracellular accumulation of hyperphosphorylated tau (p-tau) in neurofibrillary tangles (NFTs). RNA has been identified as a major non-proteinaceous component of NFTs and has been implicated as an active cofactor in tau aggregation and spread. Recent work has shown that aggregates from AD brains contain almost …

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Polθ Activity Modulates Sensitivity To Standard Therapies In Dnmt3a-Deficient Leukemia, Bac Viet Le, Umeshkumar Vekariya, Monika M. Toma, Margaret Nieborowska-Skorska, Marie-Christine Caron, Malgorzata Gozdecka, Zayd Haydar, Martin Walsh, Jayashri Ghosh, Elaine Vaughan-Williams, Paulina Podszywalow-Bartnicka, Anna-Mariya Kukuyan, Sylwia Ziolkowska, Jessica Atkins, Emir Hadzijusufovic, Gurushankar Chandramouly, Reza Nejati, Katarzyna Piwocka, Richard T. Pomerantz, George S. Vassiliou, Brian J.P. Huntly, Peter Valent, Mariusz Wasik, Alfonso Bellacosa, Jean-Yves Masson, Gaorav P. Gupta, Grant A. Challen, Tomasz Skorski Mar 2026

Polθ Activity Modulates Sensitivity To Standard Therapies In Dnmt3a-Deficient Leukemia, Bac Viet Le, Umeshkumar Vekariya, Monika M. Toma, Margaret Nieborowska-Skorska, Marie-Christine Caron, Malgorzata Gozdecka, Zayd Haydar, Martin Walsh, Jayashri Ghosh, Elaine Vaughan-Williams, Paulina Podszywalow-Bartnicka, Anna-Mariya Kukuyan, Sylwia Ziolkowska, Jessica Atkins, Emir Hadzijusufovic, Gurushankar Chandramouly, Reza Nejati, Katarzyna Piwocka, Richard T. Pomerantz, George S. Vassiliou, Brian J.P. Huntly, Peter Valent, Mariusz Wasik, Alfonso Bellacosa, Jean-Yves Masson, Gaorav P. Gupta, Grant A. Challen, Tomasz Skorski

Department of Biochemistry and Molecular Biology Faculty Papers

Myeloid malignancies carrying somatic DNMT3A mutations (DNMT3Amut) are refractory to standard therapy. DNMT3Amut leukemia cells accumulate toxic DNA double-strand breaks (DSBs) and stalled replication forks, rendering them dependent on DNA damage response (DDR). We report here that DNA polymerase theta (Polθ), a key element in DSB repair by end-joining (Polθ-mediated end-joining [TMEJ]) and in fork restarting, promotes survival and proliferation of DNMT3Amut leukemia cells. Polθ is overexpressed in DNMT3Amut leukemia cells due to abrogation of PARP1 PARylation-dependent UBE2O E3 ligase-mediated ubiquitination and proteasomal degradation of Polθ. In addition, PARP1-mediated recruitment of the SMARCAD1-MSH2/MSH3 repressive complex to DSBs is diminished in …

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Disrupted Nuclear Function And Nucleocytoplasmic Transport In Parkinson’S Disease, Ichiro M. Matoba Mar 2026

Disrupted Nuclear Function And Nucleocytoplasmic Transport In Parkinson’S Disease, Ichiro M. Matoba

The Cardinal Edge

No abstract provided.

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Ionic Liquid Pilocarpine Serves As Therapeutic Cosolvent And Permeation Enhancer For Glaucoma Medication, Ashish Trital, Lei Xu, Burhan Ates, Tzu Chen Wang, Vimalin Mani, Hu Yang Mar 2026

Ionic Liquid Pilocarpine Serves As Therapeutic Cosolvent And Permeation Enhancer For Glaucoma Medication, Ashish Trital, Lei Xu, Burhan Ates, Tzu Chen Wang, Vimalin Mani, Hu Yang

Chemical and Biochemical Engineering Faculty Research & Creative Works

The efficacy of hydrophobic ocular drugs is significantly hindered by their low bioavailability, for which poor water solubility is a major contributing factor. In this work, we synthesized pilocarpine-derived ionic liquid [Pilo-OEG] Cl (PO) and evaluated its cosolvent properties for the codelivery of the hydrophobic antiglaucoma drug brimonidine (BM) for glaucoma therapy. Pilocarpine was quaternized with 2-[2-(2-chloroethoxy) ethoxy] ethanol in a one-pot reaction to yield PO, and its structure was confirmed using 1H NMR and FT-IR spectroscopy methods and further characterized for its rheological property and thermal stability. The HET-CAM assay and cell viability study showed that PO was …

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Main-Chain Ion-Pair Polybenzimidazole Membranes Enabling Reduced-Temperature Ht-Pemfc Operation (Down To 120°C), Huina Lin, Brian C. Benicewicz Mar 2026

Main-Chain Ion-Pair Polybenzimidazole Membranes Enabling Reduced-Temperature Ht-Pemfc Operation (Down To 120°C), Huina Lin, Brian C. Benicewicz

Faculty Publications

Proton exchange membrane (PEM) fuel cells are promising for clean and efficient energy conversion across diverse applications. High-temperature PEM fuel cells (HT-PEMFCs) using phosphoric acid (PA)-doped polybenzimidazole (PBI) can operate up to 200°C, but at lower temperatures, water-induced PA loss often leads to performance degradation and reduced durability. In this work, we present a new class of main-chain ion-pair PBI membranes by integrating the imidazolium-biphosphate ion-pair units directly into the PBI backbone. This design results in membranes with high acid content, stronger acid-polymer interactions and stabilized acid retention. In single-cell tests, the Im+-PBI15-3 wt.% exhibits peak power densities …

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College Of Natural Sciences 2025 Year-End Publication, College Of Natural Sciences Mar 2026

College Of Natural Sciences 2025 Year-End Publication, College Of Natural Sciences

College of Natural Sciences Newsletters and Reports

Page 2 Dean's Message 
Page 3 Department Highlights 
Page 4 One Day for State 
Page 5 Ice cores reveal volcanic eruptions in 13th century 
Page 5 How do our cells interpret stress 
Page 6-7 Faculty Excellence
Page 8 New chemical biology consortium will accelerate cancer research
Page 9 SDSU to combat crop disease, biofilms in new NSF-back project 
Page 9 Science as Art Competition 
Page 10-11 Student Excellence  
Page 12 SDSU researcher developing natural alternative to synthetic dyes
Page 12 Browning Retired
Page 13 Quantum technologies through NSF-backed project
Page 13 NASA Funds CNS Development of Model
Page 14 GGS …

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Evaluation Of The Posterior Segment Of The Dromedary Camel’S Eye Using Spectral-Domain Optical Coherence Tomography (Sd-Oct), Amine Berghiche, Djallal Eddine Rahmoun, Nassiba Reghaissia, Allaoua Chaouki Bentazir, Mohamed Kamal Merai Abdel Maksoud Feb 2026

Evaluation Of The Posterior Segment Of The Dromedary Camel’S Eye Using Spectral-Domain Optical Coherence Tomography (Sd-Oct), Amine Berghiche, Djallal Eddine Rahmoun, Nassiba Reghaissia, Allaoua Chaouki Bentazir, Mohamed Kamal Merai Abdel Maksoud

The Thai Journal of Veterinary Medicine

The dromedary camel possesses unique ocular adaptations enabling survival in harsh desert environments. This study aimed to characterize the posterior segment of the dromedary camel’s eye using spectral-domain optical coherence tomography (SD-OCT) and fundus photography. Fourteen healthy adult camels were sedated and imaged. High-resolution OCT images enabled clear visualization and measurement of the retina, choroid, and sclera. The retina exhibited well-defined layers, including the retinal pigment epithelium, photoreceptor layer, plexiform layers, and nerve fiber layer. Mean thicknesses of the retina, choroid, and sclera were 267 ± 2.54 μm, 299 ± 3.15 μm, and 155 ± 2.74 μm in the right …

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Exosome Engineering For Blocking Gut Dysbiosis And Inducing Cell Death Mechanisms In Glioblastoma Multiforme, Ahalya Muraleedharan, Karthik Rangavajhula, Swapan K. Ray Feb 2026

Exosome Engineering For Blocking Gut Dysbiosis And Inducing Cell Death Mechanisms In Glioblastoma Multiforme, Ahalya Muraleedharan, Karthik Rangavajhula, Swapan K. Ray

Faculty Publications

Glioblastoma multiforme (GBM) is the most lethal primary brain tumor in adults. Emerging evidence endorses that gut dysbiosis contributes to GBM progression through the gut–brain axis (GBA), promoting inflammation and therapeutic resistance via abnormal short-chain fatty acid production and cytokine dysregulation. Exosomes, naturally occurring nanovesicles (30–150 nm), offer promising therapeutic potential due to their blood–brain barrier permeability, biocompatibility, and versatile cargo capacity. This review examines exosome engineering strategies for dual targeting: inhibiting alterations in gut microbiome and inducing regulated cell death mechanisms such as apoptosis and ferroptosis in GBM. We describe exosome engineering with detailed focus on cargo loading approaches …

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Rapid Single-Cell Measurement Of Transient Transmembrane Water Flow Under Osmotic Gradient, Hong Jiang, Jinnawat Jongkhumkrong, Y. J. Chao, Qian Wang, Guiren Wang Feb 2026

Rapid Single-Cell Measurement Of Transient Transmembrane Water Flow Under Osmotic Gradient, Hong Jiang, Jinnawat Jongkhumkrong, Y. J. Chao, Qian Wang, Guiren Wang

Faculty Publications

Aquaporins (AQPs) are critical for transmembrane water transport in response to osmotic gradients, but their gating and regulatory mechanisms remain poorly understood. A central challenge is the lack of methods to measure water flow across AQPs from individual cells with the spatiotemporal resolution and sensitivity equivalent to patch-clamp recordings of ion fluxes—a limitation stemming from the electrically silent nature of water flow. Here, we present a novel optical technique—Flow-Induced Fluorescence Increase Velocimetry (FIFIV) based on Laser-Induced Fluorescence Photobleaching Anemometry (LIFPA)—that enables direct, real-time monitoring of cytoplasmic flow induced by transmembrane water transport under osmotic pressure gradients. Using small molecular fluorescent …

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Plants Have A Chemical Defense To Protect Themselves From Herbivory, Isis Cordova Feb 2026

Plants Have A Chemical Defense To Protect Themselves From Herbivory, Isis Cordova

Research on Capitol Hill

All plants produce compounds for survival. My work focuses on how plants remember past attacks and whether that memory leads to stronger/faster responses.

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Effectiveness Of A Network Open House Model To Recruit Trainees To Post-Baccalaureate Stem Programs, Sarah Mordan-Mccombs, Scott Takeo Aoki, Lindsay Lewellyn, Sarah Justice, Neetu Tewari, Jorge Cantu, Robert Seiser, Ahmed Lakhani, Jennifer R. Kowalski Feb 2026

Effectiveness Of A Network Open House Model To Recruit Trainees To Post-Baccalaureate Stem Programs, Sarah Mordan-Mccombs, Scott Takeo Aoki, Lindsay Lewellyn, Sarah Justice, Neetu Tewari, Jorge Cantu, Robert Seiser, Ahmed Lakhani, Jennifer R. Kowalski

Biology Faculty publications

Post-baccalaureate (post-bac) programs can be instrumental in strengthening science training and expanding STEM career opportunities for junior trainees. Many of these sponsored programs are designed to increase research exposure for underrepresented minorities, including African American, Hispanic, Native American, and first-generation college students, among others. Recruiting trainees to post-bac programs can be challenging for reasons including a lack of awareness about available programs. To address this gap, an Open House event was created with the goal of raising awareness and generating interest among potential students for future post-bac programs. Students were recruited from partnering Minority Serving Institutions (MSIs) to attend a …

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Neuproio: A Dual-Action Solid Drug Nanoparticle Topical Formulation For Simultaneous Intraocular Pressure Reduction And Neuroprotection For Glaucoma, Lei Xu, Mu Li, Lin Qi, Tzu Chen Wang, Dong Liu, Vimalin Jeyalatha Mani, Hsin Yin Chuang, Qingbo Yang, Ruipu Mu, Samira Mahdi, Da Huang, Honglan Shi, Yang Hu, Hu Yang Feb 2026

Neuproio: A Dual-Action Solid Drug Nanoparticle Topical Formulation For Simultaneous Intraocular Pressure Reduction And Neuroprotection For Glaucoma, Lei Xu, Mu Li, Lin Qi, Tzu Chen Wang, Dong Liu, Vimalin Jeyalatha Mani, Hsin Yin Chuang, Qingbo Yang, Ruipu Mu, Samira Mahdi, Da Huang, Honglan Shi, Yang Hu, Hu Yang

Chemical and Biochemical Engineering Faculty Research & Creative Works

Glaucoma is a leading cause of irreversible blindness, primarily due to elevated intraocular pressure (IOP) that damages the retina and optic nerve. Most topical glaucoma treatments focus solely on IOP-lowering without direct neuroprotection, as drug delivery to the posterior eye is challenging. Here, we developed NeuProIO, a dual-action solid drug nanoparticle (NP) eye drop for simultaneous IOP reduction and neuroprotection. Using flash nanoprecipitation in a multi-inlet vortex mixer, we fabricated the first NeuProIO solid drug NPs incorporating the repurposed neuroprotective agent maprotiline (MAP) and the IOP-lowering agent betaxolol (BX), forming MAP/BX NPs for synergistic glaucoma treatment. The NeuProIO improved stability …

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Development Of An Ied Response Model For Testing Of The Snapping Shrimp Resource Allocation Algorithm, Joanna Morris Feb 2026

Development Of An Ied Response Model For Testing Of The Snapping Shrimp Resource Allocation Algorithm, Joanna Morris

Student Research Symposium (SRS)

"Models must be capable of demonstrating adaptability across multiple case studies to confirm their reliability and versatility. The Snapping Shrimp Resource Allocation Algorithm, which has been successfully applied in a wildfire response scenario, models efficient, decentralized coordination inspired by the behavior of snapping shrimp. Building on this foundation, the current work explores the potential application of the Snapping Shrimp Resource Allocation algorithm to improvised explosive device response where rapid, autonomous coordination could significantly enhance safety and operational efficiency. Improvised explosive devices remain a persistent issue in modern conflict, requiring strategies for response that are cost-effective, scalable, and capable of adapting …

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Albumin-Binding Domains In Therapeutic Protein Engineering: A Structural And Computational Perspective On Rational Design, Matthew Argyle, Dallin M. Chipman, Anna Claire Woolley, Bradley C. Bundy, Dennis Della Corte Feb 2026

Albumin-Binding Domains In Therapeutic Protein Engineering: A Structural And Computational Perspective On Rational Design, Matthew Argyle, Dallin M. Chipman, Anna Claire Woolley, Bradley C. Bundy, Dennis Della Corte

Faculty Publications

Therapeutic proteins face a critical pharmacokinetic challenge: rapid clearance from circulation limits their clinical efficacy. Albumin-binding domains (ABDs) offer an elegant solution by enabling therapeutic proteins to “hitchhike” on serum albumin’s favorable 19-day half-life through FcRn-mediated recycling. Clinical validation through approved therapeutics like ozoralizumab demonstrates the success of this approach, with preclinical studies showing fusion to an ABD extended half-life to 18 days. This review provides an analysis of ABD-fusion protein design, integrating structural biology, computational prediction, and rational engineering principles. We catalog the major classes of albumin-binding modalities, including bacterial three-helix bundle domains, engineered peptides, antibody-derived binders, and alternative …

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The Structure, Pathogenesis, And Inhibition Of The P53-Mdm2 Pathway, Amanda L. Brown, Xiaoying Lian, Qian Wang Feb 2026

The Structure, Pathogenesis, And Inhibition Of The P53-Mdm2 Pathway, Amanda L. Brown, Xiaoying Lian, Qian Wang

Faculty Publications

The p53 tumor suppressor protein plays a central role in maintaining genomic stability by regulating cell cycle arrest, apoptosis, and DNA repair under cellular stress. Mouse double minute 2 (MDM2), an E3 ubiquitin ligase, negatively regulates p53 via direct binding and proteasomal degradation. Overexpression or amplification of MDM2 can disrupt this pathway and promote tumorigenesis, even in cancers with wild-type p53. This review outlines the structural features of MDM2, particularly its N-terminal hydrophobic pocket and C-terminal RING domain, and their roles in p53 regulation. We further examine the pathological effects of MDM2 dysregulation and SNPs linked to increased cancer risk. …

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Ecologic Factors Contributing To West Nile Virus Hyperendemicity In Central South Carolina: An Integrated Vector–Human–Environmental Study, Elba S. Fridriksson, Ahayla Muraleedharan, Kyndall C. Dye-Braumuller, Madeleine M. Meyer, Kia Zellars, Hiuxuan Li, Melissa S. Nolan Ph.D., Mph Feb 2026

Ecologic Factors Contributing To West Nile Virus Hyperendemicity In Central South Carolina: An Integrated Vector–Human–Environmental Study, Elba S. Fridriksson, Ahayla Muraleedharan, Kyndall C. Dye-Braumuller, Madeleine M. Meyer, Kia Zellars, Hiuxuan Li, Melissa S. Nolan Ph.D., Mph

Faculty Publications

West Nile virus (WNV) is an endemic arboviral infection in the United States that has undergone phyloge-netic evolution since its introduction 25 years ago. An integrated vector–human–pathogen study was conducted in the summer of 2023 to unearth contemporary Culex quinquefasciatus habitat patterns and human transmission spillover foci in South Carolina, a state with historically little WNV data. A serosurvey revealed WNV seroprevalence 10 times the national average (22% versus 2%, respectively), with unusual epidemiologic risk factors. Female Culex quinquefas-ciatus WNV positivity was low (2.7%), with viral phylogenetics 100% homologous to the WN02 clade. Mosquito vectors clustered in affluent urban neighborhoods …

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Boronate Esters For The Binding And Detection Of Low Molecular Weight Volatile Amines, Xiaoning Li, James Boyt, Steven Sloope, Luke T. Lackovic, Mark D. Smith, James J. Lavingne Feb 2026

Boronate Esters For The Binding And Detection Of Low Molecular Weight Volatile Amines, Xiaoning Li, James Boyt, Steven Sloope, Luke T. Lackovic, Mark D. Smith, James J. Lavingne

Faculty Publications

Conjugated thiophene-based diboronate esters, 1–4, were synthesized to investigate how substituents on catechol alter the Lewis acidity and accessibility to boron, and influence binding interactions with low molecular weight Lewis basic amines. Crystallographic analysis indicated that both boron centres bind analyte and that Lewis base coordination induces deplanarization of the conjugated system. Spectroscopic studies demonstrate that amine binding disrupts conjugation, producing distinct and reproducible optical responses that depend on analyte basicity and structure, with association constants in organic solvent ranging from 103 to 106 M−1. Quantitative binding analyses indicate strong negative cooperativity between the two boron …

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Characterization And Advancement Of Molluscan Venom Gland Cell Model Systems, James V. Parziale Feb 2026

Characterization And Advancement Of Molluscan Venom Gland Cell Model Systems, James V. Parziale

Dissertations, Theses, and Capstone Projects

Venomous mollusks, including cone snails and coleoid cephalopods, produce rich repertoires of bioactive peptides with profound effects on cellular physiology, yet there are few tractable experimental systems that exist to study their development, maintenance, and venom secretion. Although therapeutics such as the cone snail peptide Ziconotide demonstrate the biomedical potential of molluscan venoms, progress in understanding how venom glands form, function, and evolve has been hindered by the lack of reliable husbandry and the complete absence of in vitro cell models. Modern comparative genomics has revealed widespread convergent evolution across venomous lineages, but molluscan datasets remain underrepresented, limiting insights into …

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Impact Of Iron-Bearing Fillers On The Mechanical Strength And Chemical Stability Of Magnesium Potassium Phosphate Matrices Incorporating Rhenium, Sergey Sayenko, Volodymyr Shkuropatenko, Hans Conrad Zur Loye, Petr Vecernik, Monika Kiselova, Vlastislav Kašpar, Vlastimil Miller, Petr Bezdicka, Jan Šubrt, Petra Ecorchard, Natalija Murafa, Iva Milisavljevic, Scott T. Misture Feb 2026

Impact Of Iron-Bearing Fillers On The Mechanical Strength And Chemical Stability Of Magnesium Potassium Phosphate Matrices Incorporating Rhenium, Sergey Sayenko, Volodymyr Shkuropatenko, Hans Conrad Zur Loye, Petr Vecernik, Monika Kiselova, Vlastislav Kašpar, Vlastimil Miller, Petr Bezdicka, Jan Šubrt, Petra Ecorchard, Natalija Murafa, Iva Milisavljevic, Scott T. Misture

Faculty Publications

We report on the study of the immobilization process of non-radioactive rhenium (Re), a chemical analogue of technetium-99 (99Tc), in compounds based on magnesium potassium phosphate (MKP), as well as the possibility of enhancing their properties with iron-bearing additives/fillers. Powdered Re2O7 was used as the initial Re-containing source. Because of the solubility and high leachability of Tc (VII), which is also volatile at high temperatures, its immobilization for long-term storage and disposal poses a serious challenge to researchers. Taking this into account, low-temperature stabilization technology based on MKP, a cementitious material, is currently considered promising. We prepared experimental …

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Dna Stability In Aqueous Solutions: A Case Study On Poly A - Poly T Duplex Using Molecular Dynamics Simulations, Haripriya Chennuru Feb 2026

Dna Stability In Aqueous Solutions: A Case Study On Poly A - Poly T Duplex Using Molecular Dynamics Simulations, Haripriya Chennuru

Biochemistry and Molecular Biology

This thesis relies on molecular dynamics (MD) simulations, which apply the AMBER software package to analyze the structural stability, energetics, and dynamics of Poly A - Poly T DNA duplexes. This work is mainly concerned with testing configurations of non-bonded interaction cutoffs (12 Å and 15 Å) on the Generalized Born solvation models (IGB1 and IGB2) to determine the most appropriate conditions regarding computation time and physical reliability in DNA molecular dynamics. The solvation models enable effective simulation of solvent effects, facilitating the calculation of simulation parameters to evaluate structural stability within different environmental conditions. Overall, the performance indicates that …

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Study Of Nano-Bio Interactions In Biological Fluids: Modelling And Simulations., Beatrice Cipriani Feb 2026

Study Of Nano-Bio Interactions In Biological Fluids: Modelling And Simulations., Beatrice Cipriani

Doctoral

Nanoparticles have attracted significant interest due to their tunable properties and unique physicochemical characteristics, offering promising applications in drug delivery, biosensing, and diagnostics. Their use in medicine has the potential to reshape current paradigms by enabling more efficient, precise, and patient-centric approaches. Although advances in nanomaterial synthesis have rapidly expanded the library of available nanodevices, our understanding of the mechanisms that govern their behaviour at biological interfaces remains limited. Nanoparticles are similar in size to biomolecules found in biological environments, leading to complex, competitive interactions that affect their functional performance, biological fate, and acquired bioidentity. Unlike traditional small molecules, which …

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Benzothiazole Sulfones As A Tool For Peptide Modification And Cleavage, Phoebe R. Rubiio, Gavin A. Clausen, Zachary D. Ruighaver, Abigail F. Dalton, John P. Blobe, Amanda L. Moore, Christopher R. Shugrue Feb 2026

Benzothiazole Sulfones As A Tool For Peptide Modification And Cleavage, Phoebe R. Rubiio, Gavin A. Clausen, Zachary D. Ruighaver, Abigail F. Dalton, John P. Blobe, Amanda L. Moore, Christopher R. Shugrue

Chemistry Faculty Publications

We report the development of a new benzothiazole sulfone (BTS) tool for peptide modification and cleavage. Benzothiazole sulfones are electrophiles that rapidly react with thiols in nucleophilic aromatic substitution (SNAr) reactions. Alkyne-containing BTS compounds were incorporated onto azidolysine-containing peptides through copper-catalyzed azide-alkyne cycloadditions (CuAACs). BTS-containing peptides were found to react rapidly with two equivalents of thiol nucleophiles at room temperature in 30 min or less. BTS-containing peptides were conjugated to a variety of different compounds, including small molecules, fluorophores, and peptides. Alternatively, a BTS-based cleavable linker could also be synthesized with small molecule cargo, such as biotin, and …

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Monosaccharide Binding To Synthetic Carbohydrate Receptor Microarrays, Milan A. Shlain Feb 2026

Monosaccharide Binding To Synthetic Carbohydrate Receptor Microarrays, Milan A. Shlain

Dissertations, Theses, and Capstone Projects

Chapter 1: A glycan detection platform comprised of synthetic carbohydrate receptors (SCRs) immobilized onto polymer brushes was prepared. SCR043, an alkene-containing SCR, was incorporated into grafted-from polymer brushes using hypersurface photolithography, resulting in microarrays of SCR043-functionalized polymer brushes, where brush height (h) and SCR grafting density (Γ) is controlled precisely at each feature in the array. The influence of h and Γ on the binding to five fluorescently labelled monosaccharides – α-glucose (α-Gluc-FL), α-galactose (α-Gal-FL), α-mannose (α-Man-FL), β-glucose (β-Gluc-FL), and β-galactose (β-Gal-FL) – in aqueous buffer …

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4e-Bp1 Differentially Regulates Translation Of A Subset Of Human Mrnas, Mehreen Mahbub Feb 2026

4e-Bp1 Differentially Regulates Translation Of A Subset Of Human Mrnas, Mehreen Mahbub

Dissertations, Theses, and Capstone Projects

Elevated levels of eukaryotic initiation factor 4E-binding protein 1 (4E-BP1) influence cap-independent translation by forming a complex with eukaryotic initiation factor 4E (eIF4E) (eIF4E•4E-BP1). Certain mRNAs—including those encoding hypoxia-inducible factor-1α (HIF-1α), fibroblast growth factor-9 (FGF-9), and two isoforms of tumor suppressors, p53 (p53A, and p53B)—contain structured 5’untranslated regions (UTRs) that enable translation either via cap-independent translation enhancer (CITE)-like or internal ribosomal entry site (IRES)-like mechanisms. However, how 4E-BP1 modulates these mechanisms remains unclear. Using fluorescence-based anisotropy assays, we showed that the eIF4E•4E-BP1 binds more tightly to the 5’ m7G-cap of these mRNAs than eIF4E …

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Computational And Functional Characterization Of Terebrid Venom Peptides, Favour T. Achimba Feb 2026

Computational And Functional Characterization Of Terebrid Venom Peptides, Favour T. Achimba

Dissertations, Theses, and Capstone Projects

Venom peptides represent a natural repertoire of bioactive compounds that are potent modulators of ion channels. Teretoxins, venom peptides from terebrid snails, remain underexplored despite their structural and functional diversity. This thesis is the first to comprehensively explore the structure and function of teretoxins using a comparative computational sequence and structure model followed by experimental assays. The majority of the functional focus has been on identifying the ion channel molecular targets of uncharacterized teretoxins. Teretoxins, like other venom peptides, are hypothesized to manipulate the cellular function of a diversity of ion channels. Dysregulation of ion channels leads to several …

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Protein Allostery Probed By Ligands Across Sites, Virgil A. Woods Feb 2026

Protein Allostery Probed By Ligands Across Sites, Virgil A. Woods

Dissertations, Theses, and Capstone Projects

Allostery is a pervasive regulatory principle throughout biology, yet the structural pathways by which distal inputs alter active‑site chemistry within protein structures remain incompletely defined and exploited. This dissertation uses protein tyrosine phosphatase 1B (PTP1B) as a tractable model to map those pathways with complementary experimental and computational tools. I integrate high‑resolution hydrogen-deuterium exchange mass spectrometry (HDX-MS), room-temperature crystallography, NMR, steady-state kinetics, crystallographic pseudo-ensembles, and machine-learning-guided ligand discovery. The working premise is that regulation reflects redistribution within a conformational ensemble rather than a binary switch. That orthogonal perturbations by small molecules, mutations, and protein partners can be used to both …

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