Matching Items (43)
Description
[FeFe]-hydrogenases are enzymes for the reduction of protons to hydrogen. They rely on only the earth abundant first-row transition metal iron at their active site (H cluster). In recent years, a multitude of diiron mimics of hydrogenases have been synthesized, but none of them catalyzes hydrogen production with the same exquisite combination of high turnover frequency and low activation energy as the enzymes. Generally, model complexes fail to include one or both of two features essential to the natural enzyme: an intricate array of outer coordination sphere contacts that constrain the coordination geometry to attain a catalytically optimal conformation, and the redox non-innocence of accessory [FeS] clusters found at or near the hydrogen-activating site. The work presented herein describes the synthesis and electrocatalytic characterization of iron-dithiolate models designed to incorporate these features. First, synthetic strategies are developed for constructing peptides with artificial metal-binding motifs, such as 1,3-dithiolate and phosphines, which are utilized to append diiron-polycarbonyl clusters onto a peptide. The phosphine-functionalized peptides are shown to be better electrocatalysts for proton reduction in water/acetonitrile mixtures than in neat acetonitrile. Second, we report the impact of redox non-innocent ligands on the electrocatalytic properties of two types of [FeFe]-hydrogenase models: dinuclear and mononuclear iron complexes. The bidentate, redox non-innocent α-diimine ligands (N-N), 2,2'-bipyridine and 2,2' bipyrimidine, are used to create complexes with the general formula (μ-SRS)Fe2(CO)4(N-N), new members of the well known family of asymmetric diiron carbonyls. While the 2,2'-bipyridine derivatives can act as electrocatalysts for proton reduction, surprisingly, the 2,2'-bipyrimidine analogues are found to be inactive towards catalysis. Electrochemical investigation of two related Fe(II) complexes, (bdt)Fe(CO)P2 for bdt = benzene-1,2-dithiolate and P2 = 1,1'-diphenylphosphinoferrocene or methyl-2-{bis(diphenylphosphinomethylamino}acetate, related to the distal iron in [FeFe]-hydrogenase show that these complexes catalyze the reduction of protons under mild conditions. However, their reactivities toward the external ligand CO are distinguished by gross geometrical differences.
ContributorsRoy, Souvik (Author) / Jones, Anne K (Thesis advisor) / Moore, Thomas (Committee member) / Trovitch, Ryan (Committee member) / Arizona State University (Publisher)
Created2013
Description
The addition of aminoalkyl-substituted α-diimine (DI) ligands to bis(1,5 cyclooctadiene) nickel (or (COD)2Ni) resulted in the formation of two new nickel complexes with the general formula of (Me2NPrDI)2Ni and (PyEtDI)2Ni. Investigation of these complexes by 1H NMR spectroscopy revealed diimine coordination but also the absence of amine arm coordination. Using the 1H NMR spectra in conjunction with structures determined through single crystal X-ray diffraction, the electronic structure of both complexes was described as having a Ni(II) metal center that is antiferromagnetically coupled to 2 DI radical monoanions. A greater ligand field was sought by replacing the pendant amines with phosphine groups on the DI ligands. This yielded ligands with the general formula (Ph2PPrDI) and (Ph2PEtDI). Upon addition to (COD)2Ni, each ligand immediately displaced both COD ligands from the Ni0 center to produce new κ4 N,N,P,P complexes, (Ph2PPrDI)Ni and (Ph2PEtDI)Ni, as observed via single crystal X-ray diffraction and NMR spectroscopy. Reduction of the DI backbone was observed in both complexes, with both complexes being described as having a Ni(I) metal center that is antiferromagnetically coupled to a DI radical monoanion. In addition to alkylphosphine substituted DI ligands, the coordination of a pyridine diimine (PDI) ligand featuring pendant alkylphosphines was also investigated. The addition of (Ph2PPrPDI) to (COD)2Ni produced a new paramagnetic (μeff = 1.21 μB), κ4-N,N,N,P complex identified as (Ph2PPrPDI)Ni. Reduction of the PDI chelate was observed through single crystal X-ray diffraction with the electronic structure described as having a low-spin Ni(I) metal center that is weakly coupled to a PDI radical monoanion (SNi = 1/2). The ability of the three Ni complexes to mediate the hydrosilylation of several unsaturated organic substrates was subsequently investigated. Using a range of catalyst loadings, the hydrosilylation of various substituted ketones afforded a mixture of both the mono- and di-hydrosilylated products within 24 hours, while the hydrosilylation of various substituted aldehydes afforded the mono-hydrosilylated product almost exclusively within hours. (Ph2PEtDI)Ni and (Ph2PPrPDI)Ni were identified as the most effective catalysts for the hydrosilylation of aldehydes at ambient temperature using catalyst loadings of 1 mol%.
ContributorsPorter, Tyler Mathew (Author) / Trovitch, Ryan (Thesis director) / Jones, Anne (Committee member) / Mujica, Vladimiro (Committee member) / Barrett, The Honors College (Contributor) / Department of Chemistry and Biochemistry (Contributor)
Created2014-05
Description
Lonsdaleite, also called hexagonal diamond, has been widely used as a marker of asteroidal impacts. It is thought to play a central role during the graphite-to-diamond transformation, and calculations suggest that it possesses mechanical properties superior to diamond. However, despite extensive efforts, lonsdaleite has never been produced or described as a separate, pure material. Here we show that defects in cubic diamond provide an explanation for the characteristic d-spacings and reflections reported for lonsdaleite. Ultrahigh-resolution electron microscope images demonstrate that samples displaying features attributed to lonsdaleite consist of cubic diamond dominated by extensive {113} twins and {111} stacking faults. These defects give rise to nanometre-scale structural complexity. Our findings question the existence of lonsdaleite and point to the need for re-evaluating the interpretations of many lonsdaleite-related fundamental and applied studies.
ContributorsNemeth, Peter (Author) / Garvie, Laurence (Author) / Aoki, Toshihiro (Author) / Dubrovinskaia, Natalia (Author) / Dubrovinsky, Leonid (Author) / Buseck, Peter (Author) / Department of Chemistry and Biochemistry (Contributor) / College of Liberal Arts and Sciences (Contributor) / School of Earth and Space Exploration (Contributor) / Center for Meteorite Studies (Contributor) / Ira A. Fulton Schools of Engineering (Contributor) / LeRoy Eyring Center for Solid State Science (Contributor) / School of Molecular Sciences (Contributor)
Created2014-11-01
Description
This research project investigated known and novel differential genetic variants and their associated molecular pathways involved in Type II diabetes mellitus for the purpose of improving diagnosis and treatment methods. The goal of this investigation was to 1) identify the genetic variants and SNPs in Type II diabetes to develop a gene regulatory pathway, and 2) utilize this pathway to determine suitable drug therapeutics for prevention and treatment. Using a Gene Set Enrichment Analysis (GSEA), a set of 1000 gene identifiers from a Mayo Clinic database was analyzed to determine the most significant genetic variants related to insulin signaling pathways involved in Type II Diabetes. The following genes were identified: NRAS, KRAS, PIK3CA, PDE3B, TSC1, AKT3, SOS1, NEU1, PRKAA2, AMPK, and ACC. In an extensive literature review and cross-analysis with Kegg and Reactome pathway databases, novel SNPs located on these gene variants were identified and used to determine suitable drug therapeutics for treatment. Overall, understanding how genetic mutations affect target gene function related to Type II Diabetes disease pathology is crucial to the development of effective diagnosis and treatment. This project provides new insight into the molecular basis of the Type II Diabetes, serving to help untangle the regulatory complexity of the disease and aid in the advancement of diagnosis and treatment. Keywords: Type II Diabetes mellitus, Gene Set Enrichment Analysis, genetic variants, KEGG Insulin Pathway, gene-regulatory pathway
ContributorsBucklin, Lindsay (Co-author) / Davis, Vanessa (Co-author) / Holechek, Susan (Thesis director) / Wang, Junwen (Committee member) / Nyarige, Verah (Committee member) / School of Human Evolution & Social Change (Contributor) / School of Life Sciences (Contributor) / Barrett, The Honors College (Contributor)
Created2019-05
Description
This research project investigated known and novel differential genetic variants and their associated molecular pathways involved in Type II diabetes mellitus for the purpose of improving diagnosis and treatment methods. The goal of this investigation was to 1) identify the genetic variants and SNPs in Type II diabetes to develop a gene regulatory pathway, and 2) utilize this pathway to determine suitable drug therapeutics for prevention and treatment. Using a Gene Set Enrichment Analysis (GSEA), a set of 1000 gene identifiers from a Mayo Clinic database was analyzed to determine the most significant genetic variants related to insulin signaling pathways involved in Type II Diabetes. The following genes were identified: NRAS, KRAS, PIK3CA, PDE3B, TSC1, AKT3, SOS1, NEU1, PRKAA2, AMPK, and ACC. In an extensive literature review and cross-analysis with Kegg and Reactome pathway databases, novel SNPs located on these gene variants were identified and used to determine suitable drug therapeutics for treatment. Overall, understanding how genetic mutations affect target gene function related to Type II Diabetes disease pathology is crucial to the development of effective diagnosis and treatment. This project provides new insight into the molecular basis of the Type II Diabetes, serving to help untangle the regulatory complexity of the disease and aid in the advancement of diagnosis and treatment.
ContributorsDavis, Vanessa Brooke (Co-author) / Bucklin, Lindsay (Co-author) / Holechek, Susan (Thesis director) / Wang, Junwen (Committee member) / School of Molecular Sciences (Contributor) / Barrett, The Honors College (Contributor)
Created2019-05
Description
The synthesis of the bis(2-diphenylphosphinoethyl)amine chelating ligand (1) was a crucial component in the preparation of non-canonical amino acids (NCAAs) throughout the project. Studies in this project indicated the need to isolate the ligand from its hydrochloride salt form seen in (1) which led to the synthesis of the brown oil, (Ph2PCH2CH2)2NH, (2). The ligand features a phosphine-nitrogen-phosphine group that is not observed in existing NCAAs. Phosphine groups are rarely seen in existing NCAAs and avoided by biochemists because they tend to oxidize before metal addition. In this project, (1) was used in a 1-[bis(dimethylamino)methylene]-1H-1,2,3-triazolo[4,5-b]pyridinium 3-oxid hexafluorophosphate (HATU) mediated method and palladium-catalyzed method to tether an amino acid to the nitrogen atom of the ligand framework. Both methods were monitored through the use of Nuclear Magnetic Resonance (NMR) spectroscopy. While the palladium catalyzed method exhibited little to no coupling, the 31P NMR spectrum obtained for the HATU mediated method did reveal that some coupling had occurred. The unsuccessful attempts to tether an amino acid to (1) led to the hypothesis that the phosphine groups were interfering with the palladium catalyst during the cross-coupling reaction. In an effort to test this hypothesis, (2) was reacted with the dimer, [Rh(nbd)Cl]2, to coordinate the rhodium metal to the free phosphorous arms and the nitrogen atom of the isolated PNP ligand. The PNP-based metal complex was used in the palladium catalyzed method, but cross-coupling was not observed. The new PNP-based metal complex was investigated to demonstrate that it exhibits moisture and air stability.
ContributorsManjarrez, Yvonne (Author) / Trovitch, Ryan (Thesis director) / Stephanopoulos, Nicholas (Committee member) / Herckes, Pierre (Committee member) / School of Molecular Sciences (Contributor) / Barrett, The Honors College (Contributor)
Created2018-05
Description
High throughput transcriptome data analysis like Single-cell Ribonucleic Acid sequencing (scRNA-seq) and Circular Ribonucleic Acid (circRNA) data have made significant breakthroughs, especially in cancer genomics. Analysis of transcriptome time series data is core in identifying time point(s) where drastic changes in gene transcription are associated with homeostatic to non-homeostatic cellular transition (tipping points). In Chapter 2 of this dissertation, I present a novel cell-type specific and co-expression-based tipping point detection method to identify target gene (TG) versus transcription factor (TF) pairs whose differential co-expression across time points drive biological changes in different cell types and the time point when these changes are observed. This method was applied to scRNA-seq data sets from a SARS-CoV-2 study (18 time points), a human cerebellum development study (9 time points), and a lung injury study (18 time points). Similarly, leveraging transcriptome data across treatment time points, I developed methodologies to identify treatment-induced and cell-type specific differentially co-expressed pairs (DCEPs). In part one of Chapter 3, I presented a pipeline that used a series of statistical tests to detect DCEPs. This method was applied to scRNA-seq data of patients with non-small cell lung cancer (NSCLC) sequenced across cancer treatment times. However, this pipeline does not account for correlations among multiple single cells from the same sample and correlations among multiple samples from the same patient. In Part 2 of Chapter 3, I presented a solution to this problem using a mixed-effect model. In Chapter 4, I present a summary of my work that focused on the cross-species analysis of circRNA transcriptome time series data. I compared circRNA profiles in neonatal pig and mouse hearts, identified orthologous circRNAs, and discussed regulation mechanisms of cardiomyocyte proliferation and myocardial regeneration conserved between mouse and pig at different time points.
ContributorsNyarige, Verah Mocheche (Author) / Liu, Li (Thesis advisor) / Wang, Junwen (Thesis advisor) / Dinu, Valentin (Committee member) / Arizona State University (Publisher)
Created2022
Description
The development of sustainable catalysts that exhibit exceptional activity has become a major goal of organometallic chemists. Considering their low cost and environmentally benign nature, the use of base metals in catalysis has recently been explored. This dissertation is focused on the development of manganese catalysts for organic transformations and inorganic polymerizations. Previous advances in Mn-based hydrosilylation and hydroboration catalysis are reviewed in Chapter 1 and set the stage for the experimental work described herein.In Chapter 2, the electronic structure of [(2,6-iPr2PhBDI)Mn(μ-H)]2 is explored. This compound was evaluated by density functional theory calculations, SQUID magnetometry and EPR spectroscopy at low temperature. Single crystal X-ray diffraction data was collected for related compounds that feature bridging X-type ligands. The data revealed how bridging ligands impact the Mayer bond order between the two Mn atoms and explained why [(2,6-iPr2PhBDI)Mn(μ-H)]2 is an active catalyst for organic transformations.
Chapter 3 spotlights the first study to systematically demonstrate commercial aminosilane CVD precursor synthesis by way of SiH4 and amine dehydrocoupling using [(2,6-iPr2PhBDI)Mn(μ-H)]2. In addition, the study provided an efficient and halogen-free preparation of highly cross-linked polycarbosilazanes under ambient conditions. Furthermore, exceptionally pure perhydropolysilazane was directly prepared from ammonia and silane at room temperature through dehydrogenative coupling. These are also the first reported examples of Mn-catalyzed Si–N dehydrocoupling.
This research was then extended to the Mn-catalyzed dehydrogenative coupling of NH3 and diamines to organic silanes. Organic polysilazanes and polycarbosilazanes were synthesized and the structures were characterized by NMR, FT-IR, and MALDI-TOF spectroscopy. The thermal properties and coating applications of the products were evaluated by TGA, DSC, X-ray powder diffraction, SEM and EDX. A turnover frequency (TOF) experiment using 0.01 mol% of [(2,6-iPr2PhBDI)Mn(μ-H)]2 revealed a maximum TOF of 300 s-1, which is the highest activity ever reported for this transformation.
The last chapter highlights the first examples of nitrile dihydroboration mediated by a manganese catalyst. Using 0.5 mol% of [(2,6-iPr2PhBDI)Mn(μ-H)]2, 14 nitriles were reduced with HBPin at 80 ℃ to afford N,N-diborylamines after 24 h. A mechanism was proposed based on the isolation of [(2,6-iPr2PhBDI)Mn(NCHPh)]2 as an intermediate and further substantiated by DFT.
ContributorsNguyen, Thu Thao (Author) / Trovitch, Ryan (Thesis advisor) / Jones, Anne (Committee member) / Ackerman, Laura (Committee member) / Arizona State University (Publisher)
Created2022
Description
Due to the potential synergistic properties from combining inorganic and organic moieties, inorganic/organic hybrids materials have recently attracted great attention. These hybrids are critical components in coating and nanocomposite additive technologies and have potential for future application in catalysis, energy production or storage, environmental remediation, electronic, and sensing technologies. Most of these hybrids utilize low dimensional metal oxides as a key ingredient for the inorganic part. Generally, clay materials are used as inorganic components, however, the use of low dimensional transition metal oxides may provide additional properties not possible with clays. Despite their potential, few methods are known for the use of low dimensional transition metal oxides in the construction of inorganic/organic hybrid materials.Herein, new synthetic routes to produce hybrid materials from low dimensional early transition metal oxides are presented. Included in this thesis is a report on a destructive, chemical exfoliation method designed specifically to exploit the Brønsted acidity of hydrated early transition metal oxides. The method takes advantage of (1) the simple acid-base reaction principle applied to strong two-dimensional Brønsted solid acids and mildly basic, high-polarity organic solvents, (2) the electrostatic repulsion among exfoliated nanosheets, and (3) the high polarity of the organic solvent to stabilize the macroanionic metal oxide nanosheets in the solvent medium. This exfoliation route was applied to tungstite (WO3∙H2O) and vanadium phosphate hydrate (VOPO4∙H2O) to produce stable dispersions of metal oxide nanosheets. The nanosheets were then functionalized by adduct formation or silane surface modification. Both functionalization methods resulted in materials with unique properties, which demonstrates the versatility of the new exfoliation methods in preparing novel hybrid materials.
Further extension of the method to aqueous systems allowed discovery of a new synthetic method for electrically-conducting polyaniline-polyoxometalate hybrid materials. Namely, destructive dissolution of MoO2(HPO4)(H2O) in water produces protons and Strandberg-type phosphomolybdate clusters, and in the presence of aniline and an oxidizing agent, the clusters self-assemble with protonated anilines and selectively form polyaniline-phosphomolybdate hybrids on various types of surfaces through in situ oxidative chemical polymerization. New conductive nanocomposite materials were produced by selectively coating the surface of silica nanoparticles.
ContributorsCiota, David (Author) / Seo, Dong-Kyun (Thesis advisor) / Trovitch, Ryan (Committee member) / Birkel, Christina (Committee member) / Arizona State University (Publisher)
Created2022
Description
Beta-Amyloid(Aβ) plaques and tau protein tangles in the brain are now widely recognized as the defining hallmarks of Alzheimer’s disease (AD), followed by structural atrophy detectable on brain magnetic resonance imaging (MRI) scans. However, current methods to detect Aβ/tau pathology are either invasive (lumbar puncture) or quite costly and not widely available (positron emission tomography (PET)). And one of the particular neurodegenerative regions is the hippocampus to which the influence of Aβ/tau on has been one of the research projects focuses in the AD pathophysiological progress.
In this dissertation, I proposed three novel machine learning and statistical models to examine subtle aspects of the hippocampal morphometry from MRI that are associated with Aβ /tau burden in the brain, measured using PET images. The first model is a novel unsupervised feature reduction model to generate a low-dimensional representation of hippocampal morphometry for each individual subject, which has superior performance in predicting Aβ/tau burden in the brain. The second one is an efficient federated group lasso model to identify the hippocampal subregions where atrophy is strongly associated with abnormal Aβ/Tau. The last one is a federated model for imaging genetics, which can identify genetic and transcriptomic influences on hippocampal morphometry. Finally, I stated the results of these three models that have been published or submitted to peer-reviewed conferences and journals.
ContributorsWu, Jianfeng (Author) / Wang, Yalin (Thesis advisor) / Li, Baoxin (Committee member) / Liang, Jianming (Committee member) / Wang, Junwen (Committee member) / Wu, Teresa (Committee member) / Arizona State University (Publisher)
Created2022