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Articles 1 - 9 of 9
Full-Text Articles in Chemistry
The Variability Of Seawater Carbonate Chemistry In Two Florida Urban Mangrove Ecosystems, Alexandrina R. Rangel
The Variability Of Seawater Carbonate Chemistry In Two Florida Urban Mangrove Ecosystems, Alexandrina R. Rangel
All HCAS Student Capstones, Theses, and Dissertations
Anthropogenic carbon dioxide (CO2) emissions into the atmosphere are yielding serious impacts across the world’s ocean, including ocean acidification, sea level rise, and increasing seawater temperature. However, these changes are not occurring uniformly across all marine ecosystems. Coastal ecosystems, such as mangroves, already experience extreme and variable environmental conditions due to natural biogeochemical and physical processes. The goal of this study was to document small-scale variability in two urban mangrove ecosystems to gain insight into how ocean acidification will manifest within these systems. Using a stand-up paddleboard, a suite of sensors, and traditional bottle sampling techniques, we measured …
Morphology Transformation Of Foldamer Assemblies Triggered By Single Oxygen Atom On Critical Residue Switch, Byung-Chang Oh, Eunyoung Yoon, Jintaek Gong, Jaewook Kim, Russell W. Driver, Yongjun Kim, Woo Youn Kim, Hee-Seung Lee
Morphology Transformation Of Foldamer Assemblies Triggered By Single Oxygen Atom On Critical Residue Switch, Byung-Chang Oh, Eunyoung Yoon, Jintaek Gong, Jaewook Kim, Russell W. Driver, Yongjun Kim, Woo Youn Kim, Hee-Seung Lee
Chemistry and Physics Faculty Articles
The synthesis of morphologically well-defined peptidic materials via self-assembly is challenging but demanding for biocompatible functional materials. Moreover, switching morphology from a given shape to other predictable forms by molecular modification of the identical building block is an even more complicated subject because the self-assembly of flexible peptides is prone to diverge upon subtle structural change. To accomplish controllable morphology transformation, systematic self-assembly studies are performed using congener short β-peptide foldamers to find a minimal structural change that alters the self-assembled morphology. Introduction of oxygen-containing β-amino acid (ATFC) for subtle electronic perturbation on hydrophobic foldamer induces a previously inaccessible solid-state …
Motif Wfyy Of Human Primpol Is Crucial To Stabilize The Incoming 3′-Nucleotide During Replication Fork Restart, Patricia R. Calvo, María I. Martínez-Jiménez, Marcos Díaz, Gorazd Stojkovic, Kazutoshi Kasho, Susana Guerra, Sjoerd Wanrooij, Juan Méndez, Luis Blanco
Motif Wfyy Of Human Primpol Is Crucial To Stabilize The Incoming 3′-Nucleotide During Replication Fork Restart, Patricia R. Calvo, María I. Martínez-Jiménez, Marcos Díaz, Gorazd Stojkovic, Kazutoshi Kasho, Susana Guerra, Sjoerd Wanrooij, Juan Méndez, Luis Blanco
Chemistry and Physics Faculty Articles
PrimPol is the second primase in human cells, the first with the ability to start DNA chains with dNTPs. PrimPol contributes to DNA damage tolerance by restarting DNA synthesis beyond stalling lesions, acting as a TLS primase. Multiple alignment of eukaryotic PrimPols allowed us to identify a highly conserved motif, WxxY near the invariant motif A, which contains two active site metal ligands in all members of the archeo-eukaryotic primase (AEP) superfamily. In vivo and in vitro analysis of single variants of the WFYY motif of human PrimPol demonstrated that the invariant Trp87 and Tyr90 residues are essential …
Visualizing Amino Acid Substitutions In A Physicochemical Vector Space, Louis R. Nemzer
Visualizing Amino Acid Substitutions In A Physicochemical Vector Space, Louis R. Nemzer
Chemistry and Physics Faculty Articles
A three-dimensional representation of the twenty proteinogenic amino acids in a physicochemical space is presented. Vectors corresponding to amino acid substitutions are classified based on whether they are accessible via a single-nucleotide mutation. It is shown that the standard genetic code establishes a “choice architecture” that permits nearly independent tuning of the properties related with size and those related with hydrophobicity. This work sheds light on the metarules of evolvability that may have shaped the standard genetic code to increase the probability that adaptive point mutations will be generated. An illustration of the usefulness of visualizing amino acid substitutions in …
Experimental Evidence That Metapopulation Structure Can Accelerate Adaptive Evolution, Partha Pratim Chakraborty, Louis R. Nemzer, Rees Kassen
Experimental Evidence That Metapopulation Structure Can Accelerate Adaptive Evolution, Partha Pratim Chakraborty, Louis R. Nemzer, Rees Kassen
Chemistry and Physics Faculty Articles
Whether the spatial arrangement of a population influences adaptive evolution has been a long-standing question in population genetics. In contrast to standard population genetic models, evolutionary graph theory (EGT) predicts certain topologies amplify (increase) the probability that a beneficial mutation will spread in the population relative to a well-mixed population. Here, we test these predictions empirically by tracking the fixation dynamics of an antibiotic resistant mutant under positive selection as it spreads through networks of different topologies both in vitro and in silico. We show that star-like topologies involving bi-directional dispersal between a central hub and peripheral leaves can …
Protonation Of Methyl Phenyl Porphyrin Isomers Using Uv Spectroscopy, Mamiko Swanson, Isabel De Angelis, Harsh Chheda, Rushi Patel, Raahil Shah, Shreya Patel, Maria Ballester Ph.D.
Protonation Of Methyl Phenyl Porphyrin Isomers Using Uv Spectroscopy, Mamiko Swanson, Isabel De Angelis, Harsh Chheda, Rushi Patel, Raahil Shah, Shreya Patel, Maria Ballester Ph.D.
Chemistry and Physics Faculty Proceedings, Presentations, Speeches, Lectures
The protonation of methyl phenyl porphyrin isomers was studied through UV vis spectroscopy using trifluoroacetic acid (TFA), a strong organic acid. Protonation was achieved by titration of the porphyrin in toluene and toluene/methanol (90:10). A wavelength shift from the free base Soret to the protonated Soret confirms the formation of the dication. The resulting UV spectra was used to calculate an apparent pKa value of each free base porphyrin isomer. Addition of methanol to the porphyrin solution decreased the average pKa values of the Soret and Q-bands for each porphyrin. This could be an indication of a stabilizing monocation, not …
A Composite Textual Phenomenological Approach To Cures Versus Traditional Laboratory Experiences, Amie S. Sommers, Dana Richter-Egger, Christine E. Cutucache
A Composite Textual Phenomenological Approach To Cures Versus Traditional Laboratory Experiences, Amie S. Sommers, Dana Richter-Egger, Christine E. Cutucache
The Qualitative Report
Here we present unique perspectives from undergraduate students (n=3) in STEM who have taken both a traditional laboratory iteration and a Course-based Undergraduate Research Experience (CURE) iteration of the same introductory chemistry course. CUREs can be effective models for integrating research in courses and fostering student learning gains. Via phenomenological interviews, we asked students to describe the differences in their perspectives, feelings, and experiences between a traditional lab guided by a lab manual and a CURE. We found that (i.) critical thinking/problem solving, (ii.) group work/collaboration, (iii.) student-led research questions and activities, and (iv.) time management are the top four …
Effects Of Nitrogen Depletion On The Biosorption Capacities Of Neochloris Minuta And Neochloris Alveolaris For Five Heavy Metals, Dimitri Giarikos, Jessica Brown, Reza Razeghifard, Duy Vo, Ammy Castillo, Nikhil Nagabandi, Justin Gaffney, Miriam Zelden, Anna Antakshinova, Sara Rodriguez, Safiyah Muhammad
Effects Of Nitrogen Depletion On The Biosorption Capacities Of Neochloris Minuta And Neochloris Alveolaris For Five Heavy Metals, Dimitri Giarikos, Jessica Brown, Reza Razeghifard, Duy Vo, Ammy Castillo, Nikhil Nagabandi, Justin Gaffney, Miriam Zelden, Anna Antakshinova, Sara Rodriguez, Safiyah Muhammad
Chemistry and Physics Faculty Articles
Neochloris minuta and Neochloris alveolaris grown in nitrogen-rich (+ N) and nitrogen-depleted (-N) media were tested for their heavy metal maximum biosorption capacities (qmax) and adsorption percent efficiencies (R%). By removing nitrogen from the growth media, both algal species showed an increase in their lipid content and a decrease in their protein content. Langmuir and Freundlich adsorption isotherms were used to determine the qmax and adsorption efficiencies of the + N and −N algae in the recovery of Pb2+, Cd2+, Zn2+, Cu2+, and Ni2+. When comparing the …
Critical And Ictal Phases In Simulated Eeg Signals On A Small-World Network, Louis R. Nemzer, Gary D. Cravens, Robert M. Worth, Francis Motta, Andon Placzek, Victor Castro, Jennie Q. Lou
Critical And Ictal Phases In Simulated Eeg Signals On A Small-World Network, Louis R. Nemzer, Gary D. Cravens, Robert M. Worth, Francis Motta, Andon Placzek, Victor Castro, Jennie Q. Lou
Chemistry and Physics Faculty Articles
Healthy brain function is marked by neuronal network dynamics at or near the critical phase, which separates regimes of instability and stasis. A failure to remain at this critical point can lead to neurological disorders such as epilepsy, which is associated with pathological synchronization of neuronal oscillations. Using full Hodgkin-Huxley (HH) simulations on a Small-World Network, we are able to generate synthetic electroencephalogram (EEG) signals with intervals corresponding to seizure (ictal) or non-seizure (interictal) states that can occur based on the hyperexcitability of the artificial neurons and the strength and topology of the synaptic connections between them. These interictal simulations …