The subject of this thesis is experimental studies of electron-transfer processes in ion-atom collisions at velocities significantly higher than typical orbital velocities of electrons in bound states of atoms or molecules. The experimental technique applied combines the high beam intensity of heavy-ion storage rings with a supersonic gas-jet target equipped with a recoil-ion-momentum spectrometer. In singleelectron capture to fast protons from helium atoms, we have for the first time achieved a complete separation of the kinematic and Thomas transfer mechanisms and are able to perform a quantitative comparison with the many theoretical results on a much more detailed level than what was previously possible. For the process of transfer ionization in proton-helium collisions we have determined the velocity dependence of the Thomas transfer ionization cross section to be the expected vp-11 when the projectile velocity, vp, is sufficiently high. Further, we have determined the velocity-dependent probability for shake-off of the second electron from helium provided that the first one is transferred in a kinematic capture process. Finally, we have considered collisions between protons and hydrogen molecules. Here we have found a strong variation in the cross section for transfer and excitation processes when the angle between the direction of the incoming projectile and the internuclear axis of the target molecule is varied. The variation can be explained as a result of quantum mechanical interference related to the two indistinguishable atomic centers of the molecule.

Replacement of thymidine in DNA by halopyrimidines, such as bromodeoxyuridine (BrdU) and iododeoxyuridine (IdU), has long been known to enhance DNA damage and cell death induced by ionizing/UV radiation, but the mechanism of action of halopyrimidines at the molecular level is poorly understood. We have applied advanced time-resolved femtosecond laser spectroscopy to this molecular system of biological, chemical and medical significance. We obtained the first real-time observations of the transition states of the ultrafast electron transfer (UET) reactions of halopyrimidines with the ultrashort-lived precursor to the hydrated electron, which is a general product in ionizing/UV radiation. Our results provide a mechanistic understanding of these photo-/radiosensitizing drugs at the molecular level. We found that the UET reaction of BrdU is completed within 0.2 picosecond (ps) after the electronic exciataion, leading to the formation of the transition state BrdU* with a lifetime of ~1.5 ps that then dissociates into Br and a high reactive radical dU•. We have also demonstrated that the reaction efficiency for the formation of the reactive radical dU• to cause DNA damage and cell death is in the order of IdU>>BrdU>CldU>>FdU. This is due to the availability of two precursor states of ~0.2 ps and ~ 0.54 ps lifetimes for dissociative electron attachment (DEA) to IdU, of one precursor state of ~0.2 ps lifetime for DEAs to BrdU and CldU, and no precursors for DEA to FdU. This explains why BrdU and IdU were found to be effective radio-/photosensitizers and indicates that IdU should be explored as the most effective radiosensitizer among halopyrimidines. Moreover, as a by-product of this project, these halopyrimidines have been employed as quantum-state-specific molecular probes to resolve a long-standing controversy about the nature and lifetimes of prehydrated electrons. These findings also have a broader significance as they indicated that nonequilibrium precursor electrons may play an important role in electron-initiated reactions in many biological, chemical and environmental systems. We have also demonstrated UET reactions of nucleotides with the precursor to the hydrated electrons. Our results indicate that among DNA bases, adenine is the most efficient electron trapper and an effective electron transfer promoter, while guanine is the most effective in dissociative electron attachment. These results not only primarily explain the sequence selectivity of duplex DNA containing BrdU/IdU, but imply that the DEA of guanine is an important mechanism for radiation-induced DNA damage in ionizing radiation and radiotherapy of cancer.

Mechanistic studies of electrochemical proton coupled electron transfer (PCET) have attracted attention for many decades due to their importance in many fields ranging from electrocatalysis to biology. However, mechanistic research is confined to only a few groups, and challenges in this field can be found in both theory and experiment. The contributions to mechanistic studies of electrochemical PCET reaction in this thesis can be categorized under the following two headings: 1) mechanistic studies of an aminobenzoquinone modified monolayer system with multiple electron/proton transfer reaction; 2) studies that attempt to develop the relationship between thermochemical data and electrochemical PCET mechanism. An aminobenzoquinone modified monolayer showing nearly ideal electrochemical behavior and high stability was successfully prepared and used as a model system for the mechanistic study of electrochemical multiple electron/proton transfer. This model system has been proposed to undergo a 2e3H transfer at low pH electrolyte and a 2e2H transfer at high pH electrolyte. Two non-destructive electrochemical techniques (cyclic voltammetry and chronocoulmetry) have been applied for the measurement of apparent standard rate constant as a function of pH. Both pH dependent apparent formal potential and pH dependent apparent standard rate constant have been used to determine the charge transfer mechanism of this monolayer system. Under the assumption of an operative PCET mechanism (i.e. electron transfer step is the rate determining step), a theoretical description of this system has been developed based on the refinement and extension of previous models. By combining this extended theoretical model with pH dependent apparent formal potential and apparent standard rate constant, charge transfer pathways have been determined and shown to be consistent with the observed pH dependent electrochemical response, in addition, the determined pathways in this aminobenzoquinone modified monolayer are similar to previous reported pathways for benzoquinone freely dissolved in aqueous buffered electrolyte. A series of analytical expressions built in this thesis demonstrate that the parameters that differentiate stepwise mechanisms from concerted mechanisms can be classified into two aspects: thermodynamic parameters, namely acid dissociation constants, standard formal potentials; and kinetic parameters, namely standard rate constants, standard transfer coefficients. Although attempts to understand the relation between controlling parameters and electrochemical PCET mechanism (stepwise versus concerted) has been reported previously by some groups, there are still lots of unresolved aspects requiring further investigation. In this thesis, an important conclusion has been drawn which is that for the stepwise mechanism, an apparent experimentally observable kinetic isotope effect (KIE) can be induced by solvent isotope induced variation of acid dissociation constants, which contradicts previous understanding. Additionally, for the first time, values of apparent KIE, which were measured for the aminobenzoquinone modified monolayer system with stepwise PCET mechanism, were successfully explained by variation in acid dissociation constants, not by variation in standard rate constants. Based on theoretical prediction, a nitroxyl radical modified bilayer showing one electron one proton transfer reaction has been prepared in an effort to afford experimental verification. After applying similar analytical procedures as those for the aminobenzoquinone modified monolayer system, this bilayer system has been shown to follow the concerted 1e1H transfer pathway in high pH electrolytes. These latter contributions provide evidence that further development in this field will eventually lead to a comprehensive theory that can use known thermochemical variables to fully predict PCET mechanism.

Replacement of thymidine in DNA by halopyrimidines, such as bromodeoxyuridine (BrdU) and iododeoxyuridine (IdU), has long been known to enhance DNA damage and cell death induced by ionizing/UV radiation, but the mechanism of action of halopyrimidines at the molecular level is poorly understood. We have applied advanced time-resolved femtosecond laser spectroscopy to this molecular system of biological, chemical and medical significance. We obtained the first real-time observations of the transition states of the ultrafast electron transfer (UET) reactions of halopyrimidines with the ultrashort-lived precursor to the hydrated electron, which is a general product in ionizing/UV radiation. Our results provide a mechanistic understanding of these photo-/radiosensitizing drugs at the molecular level. We found that the UET reaction of BrdU is completed within 0.2 picosecond (ps) after the electronic exciataion, leading to the formation of the transition state BrdU* with a lifetime of ~1.5 ps that then dissociates into Br and a high reactive radical dU•. We have also demonstrated that the reaction efficiency for the formation of the reactive radical dU• to cause DNA damage and cell death is in the order of IdU>>BrdU>CldU>>FdU. This is due to the availability of two precursor states of ~0.2 ps and ~ 0.54 ps lifetimes for dissociative electron attachment (DEA) to IdU, of one precursor state of ~0.2 ps lifetime for DEAs to BrdU and CldU, and no precursors for DEA to FdU. This explains why BrdU and IdU were found to be effective radio-/photosensitizers and indicates that IdU should be explored as the most effective radiosensitizer among halopyrimidines. Moreover, as a by-product of this project, these halopyrimidines have been employed as quantum-state-specific molecular probes to resolve a long-standing controversy about the nature and lifetimes of prehydrated electrons. These findings also have a broader significance as they indicated that nonequilibrium precursor electrons may play an important role in electron-initiated reactions in many biological, chemical and environmental systems. We have also demonstrated UET reactions of nucleotides with the precursor to the hydrated electrons. Our results indicate that among DNA bases, adenine is the most efficient electron trapper and an effective electron transfer promoter, while guanine is the most effective in dissociative electron attachment. These results not only primarily explain the sequence selectivity of duplex DNA containing BrdU/IdU, but imply that the DEA of guanine is an important mechanism for radiation-induced DNA damage in ionizing radiation and radiotherapy of cancer.

A large variety of diferrocenyl compounds bridged by an organic wire fragment in a generic form of -CH=CH-X-CH=CH- were first synthesized, in which the X unit is a functional group/atom. These compounds were studied by structural analysis, electrochemistry, intervalence NIR absorption and other spectroscopic techniques. The results indicated that metal-ligand redox matching is most essential in facilitating long-range electron transfer in the mixed-valence complexes. A series of doubly-bridged diferrocenyl compounds and wire-linked triferrocenes were also synthesized and studied. All doubly-bridged diferrocenyl compounds demonstrated nearly doubled electronic coupling in comparison to their singly-bridged analogues. Thus the use of parallel wires in such systems represents a facile approach to improve communication in molecular electronics. For triferrocenes linked by symmetric wires, the electronic interaction between the redox-active centers was rather dynamic when the bridging component was short or the charge was delocalized among the ligand and metal centers. For triferrocenes bridged by asymmetric wires, depending on the direction of the polar linking chain, the central ferrocene becomes a molecular switch, turning on or off the communication between the two end ferrocenes. Finally, to eliminate the metal-ligand orbital mixing problem, we also bound the wires with two redox-active styrylpyrrole termini, for which the molecules are purely organic. It was found that when the ð-conjugation was maintained, the oligomers were fully delocalized systems.

No description available.

Fluorescence microscopy is a powerful analytical tool for visualizing biological processes at the subcellular level. In this regard, 1,3,5-triarylpyrazoline based fluorescent probes which act as "turn-on" probes, have been extensively researched. These probes achieve their fluorescence "turn-on" response by inhibition of fluorescence quenching by acceptor-excited photoinduced electron transfer upon binding of an analyte. It has been recently shown that some fluorescent probes used in biological research form colloids composed of nanoparticles, due to their hydrophobic character. This hydrophobic character can also lead to partitioning of the probe into cellular membranes. Colloid formation and membrane partitioning may affect the probes' photophysical properties such as absorption and emission wavelength and quantum yields. Recently, a series of 1,3,5-triarylpyrazolines synthesized in our group by M. T. Morgan, showed no formation of aggregates in aqueous buffer. Surprisingly, these probes increased their fluorescence intensity in the presence of liposomes. The photoinduced electron transfer process is greatly affected by the polarity of the medium in which the probe is used. In this study, the effect of membrane proximity on the photoinduced electron transfer process for pyrazoline based "turn-on" probes has been investigated. A series of water soluble 1,3,5-triarylpyrazolines have been synthesized in which a N,N-dialkylaniline moiety acts as an electron donor and a proton acceptor and an alkylated sulfonamide moiety acts as a molecular anchor for interaction with neutral and anionic liposomes.

Steady state reflectance and emission characteristics of anthracene adsorbed on silica gel and titania-silica mixed oxides have been investigated as a function of sample loading. Titania-silica mixed oxides with 1, 3, 5 and 10 wt. % TiO2 were prepared by two different methods: a dropwise method and a sol-gel route. Ground state diffuse reflectance and fluorescence emission spectra of anthracene adsorbed on titania-silica surfaces show a dependence on titania content. The absorption peaks of anthracene are difficult to resolve at higher titania content due to the increasing red-shift of the titania absorption edge. The absorption edge of titania is shifted to longer wavelengths and the band gap energy decreases with increasing the titania loading. Diffuse reflectance laser flash photolysis at 355 nm produces both the triplet and radical cation of anthracene and gives relevant information regarding the photochemical transients and the kinetics details of the surface photochemical processes. Energy dependence studies confirm the monophotonic nature of the triplet production, whereas the anthracene radical cation is formed by monophoton or multiphoton ionisation in the mixed titania-silica systems. Energy and electron transfer reactions of anthracene co-adsorbed with azulene as electron donor on silica sol-gel and titania-silica mixed oxides prepared by the sol-gel method with different titania content have been studied using the time-resolved diffuse reflectance laser flash photolysis technique. The fluorescence of excited anthracene adsorbed on silica sol-gel is quenched by the addition of azulene, while co-adsorption of azulene on titania-silica mixed oxides resulted in a decrease in the fluorescence intensity of the adsorbed anthracene due to the formation, at the same time, of anthracene radical cation and Ti3+ species on the titania-silica surface. Triplet-triplet energy transfer from the excited anthracene to ground state azulene and electron transfer from azulene to the anthracene radical cation have been investigated using a time-resolved diffuse reflectance laser flash photolysis technique following laser excitation at 355 nm. Bimolecular rate constants for energy and electron transfer between anthracene and azulene have been obtained. Kinetic analysis of the decay of the anthracene triplet state and radical cation show that the kinetic parameters depend on the titania content of the sample and the azulene concentration. This indicates that the rate of energy and electron transfer reactions increases as a function of azulene concentration and decreases with increasing titania content in titania-silica mixed oxides, whereas the observed rate of reaction on silica sol-gel is predominantly governed by the rate of diffusion of azulene. Electron transfer reactions in a ternary system using azulene for hole transfer between 9-anthracenecarboxylic acid radical cation as electron acceptor and perylene as electron donor were also studied in order to demonstrate the mobility of radical cations on the silica sol-gel and titania-silica surfaces. The co-adsorption of azulene as a molecule shuttle with 9-anthracenecarboxylic acid and perylene on both silica sol-gel and titania-silica systems has been shown to enhance the rate of electron transfer in this ternary system. Activation energies for energy and electron transfer on photoinduced bimolecular and termolecular processes on silica sol-gel and titania-silica mixed oxides have been measured. In bimolecular anthracene / azulene systems, at higher azulene loadings, the activation energies and the pre-exponential factors on titania-silica surfaces are the same for both energy and electron transfer and are comparable with the parameters extracted for azulene diffusion on silica Davisil suggesting that azulene diffuses across the silica Davisil and titania-silica mixed oxides surfaces, while at lower azulene loadings, ion-electron recombination dominates and the activation energy extracted is for this process. In a ternary 9-anthracenecarboxylic acid / azulene / perylene system, the activation energy for perylene diffusion is higher than that observed for the anthracene / azulene system, reflecting the lower mobility of the perylene molecule. In this study, a series of titania-silica samples with different loadings of titania (1 10 wt. %) prepared by the sol-gel method and also the pure TiO2 P25 Degussa have been used to study the photocatalytic degradation of 4-chlorophenol in aqueous solution under UV light irradiation. The absorption peak of 4-chlorophenol at 280 nm decreases with increasing titania content and finally disappeared suggesting that titania has a positive influence on the degradation of 4-chlorophenol. The investigated titania-silica mixed oxides prepared by the sol-gel method are less efficient photocatalysts for the degradation of 4-chlorophenol than TiO2 P25.

This thesis presents studies that examine microbial extracellular electron transfer that an emphasis characterizing how environmental conditions influence electron flux between microbes and a solid-phase electron donor or acceptor. I used bioelectrochemical systems (BESs), fluorescence and electron microscopy, chemical measurements, 16S rRNA analysis, and qRT-PCR to study these relationships among chemical, physical and biological parameters and processes. / Engineering and Applied Sciences

Hydrogen bonding is seen extensively in Nature. It is manifest in DNA/RNA nucleic acid (nucleobase) pairing, the defining feature of the double helix, as well as in secondary structures in protein folding such as hairpin loops. This importance, thus coupled with the aesthetic appeal of nucleobase hydrogen-bonding interactions, has inspired us to design and synthesize new hydrogen-bonded assemblies that make use of Watson-Crick and Hoogsteen interactions. Currently, novel supramolecular architectures are being developed for the formation of supramolecular polymers via Watson-Crick hydrogen bonding of guanosine and cytidine. Supramolecular polymer formation occurs through hydrogen bonding, electronic interactions, and metal chelation, and allows for a highly thermodynamic system that can easily be broken and reformed through external stimuli. By synthesizing linear, metal-nucleobase, and functionalized guanosine entities, a variety of new “monomers” have been obtained. Their use in construction of main chain and side chain polymers, and G-quartet hydrogels are now being explored. The hydrogen bonding motifs used to develop supramolecular polymers are also attractive for developing through bond electron transfer systems. One inspiration for developing artificial donor-acceptor systems (i.e., linked through non-covalent interactions) comes from the light harvesting systems found in Nature. Triggered by a pulse of UV light, electron transfer across bridges, including charge separation and charge recombination processes can occur and the rates can be determined. As one part of this study, collaborators Igor Rubtsov and David Beratan studied how perturbing the vibrational modes of the bridge via IR pulse excitation, affected electron transfer. Mid-IR excitation of the donor-acceptor systems slowed the rate of electron transfer, likely because the molecular vibrations either disrupted the bridging hydrogen bonds or distorted the electronic interactions of the bridge. This observance could lend itself to the possibility of designing IR-controlled molecular switches and other devices Another mode of hydrogen bonding, Hoogsteen interactions, was explored in the context of developing a guanosine-quadruplex binder. Specifically, a pyrrole-based inosine was designed to direct hydrogen bonding via an extended Hoogsteen interaction in order to bind to quadruplex DNA. Quadruplex DNA has been studied as a folded form of DNA and, if stabilized, can inhibit gene replication especially amongst cancer strands. In summary, the candidate’s research efforts have focused on exploiting hydrogen bonding in nucleobases to construct novel supramolecular assemblies that could see eventual applications in materials chemistry, nanotechnology, and gene therapy. / text