xviii, 174 p. : ill. (some col.) A print copy of this thesis is available through the UO Libraries. Search the library catalog for the location and call number. / Hybrid nanoscale complexes incorporate the attributes of organic and inorganic components to yield novel multifunctional materials. Because the individual components themselves and the combinations used can be widely varied to tune the properties of the resulting complex, the potential for new properties and practical applications is nearly limitless. However, widespread use of these materials relies on appropriate design, synthesis and characterization strategies to ensure proper function and compositional integrity. This dissertation describes the chemistry of these hybrids, made possible by combining organic ligands, inorganic nanoparticles, and metal ions, and the interesting optical and spectroscopic properties associated with the hybrid nanomaterials. Organic ligands containing Bunte salt and acyclic malonamide functionalities were attached to gold nanoparticles to produce colorimetric sensors for lanthanide ion detection. Bunte salt functionality stabilizes the gold core and malonamide functionality offers selective and sensitive lanthanide ion binding. The binding interaction controls a nanoparticle cross-linking event that changes the color of the nanoparticle solution, resulting in visual, colorimetric lanthanide ion detection. Next, the concentration of malonamide ligand was diluted and replaced with a diluent ligand yielding nanoparticles stabilized with a mixed ligand composition. The mixed ligand environment makes the optical response of the colorimetric sensor reversible. Furthermore, the use of Bunte salt ligands during nanoparticle synthesis has allowed the investigation of the role of reducing agent on nanoparticle stability. In addition to exploring interactions pertaining to gold nanoparticle complexes, a new approach to sensitize europium ion luminescence was developed by fabricating a zinc oxide/europium complex. A molecular linker permits simultaneous zinc oxide nanoparticle functionalization and trivalent europium binding in order to tether the europium ion close to the nanoparticle surface. The zinc oxide nanoparticle can then act as an inorganic antenna, transferring energy to the europium ion and enhancing its luminescence. Finally, a strategy was developed to synthesize bifunctional bicyclic malonamides. Synthesis of these ligands allows the enhanced f-block ion binding affinity of bicyclic malonamides to be incorporated into functional materials to compare their performance to our previously prepared acyclic malonamide hybrid complexes. This dissertation includes my previously published and co-authored materials. / Committee in charge: Darren Johnson, Chairperson, Chemistry; James Hutchison, Advisor, Chemistry; Catherine Page, Member, Chemistry; Michael Haley, Member, Chemistry; Barbara Roy, Outside Member, Biology

This work sets out a framework to provide a metrological basis for static SIMS measurements. This surface analytical technique has been is use for over thirty years but, because of the lack of an infrastructure, has not achieved its full potential in industry. To build this basis, the measurement chain is studied from the sample through to the detector and data processing. By understanding the effects of each link in the chain, repeatabilities are reduced by orders of magnitude to below 1%, the ion beam current and flux density are calibrated to better than 2%, ion beam damage in polymers is controlled and detection efficiencies calculated. Utilising these developments, a characterised and calibrated SIMS spectrometer is used to establish reference materials. An inter-laboratory study to assess the extent of spectrum variability between spectrometers was conducted involving over twenty laboratories worldwide. Analysis of the data gives the level of repeatability and reproducibility using current procedures. Repeatabilities for some laboratories are as good as 1% but many are at 10% and a few as poor as 80%. A Relative Instrument Spectral Response, RISR, is developed to facilitate the comparison of spectra from one instrument to another or library data. For most instruments reproducibilities of 14% are achievable. Additionally, the wide variety of ion beam sources and energies, presently in use, result in spectra that are only broadly comparable. A detailed study of these effects provides, for the first time, a unified method to relate the behaviour for all ion species and energies. A development of this work gives a totally new spectroscopy, known as G-SIMS or gentle-SIMS. Here, the static SIMS spectrum for a low surface plasma temperature is calculated which promotes those spectral intensities truly representative of the analysed material and reduces those caused by additional fragmentation and rearrangement mechanisms. The resulting GSIMS spectra are easier to identify and are interpreted more directly. This work provides the essential basis for the development of static SIMS. Future work will improve the consistency of library data so that the valid data for molecular identification can be uniquely extracted. The measurement base will be developed to meet the growing requirements for static SIMS analysis of complex organic and biomaterials.

abstract: Metal Organic Frameworks(MOFs) have been used in various applications, including sensors. The unique crystalline structure of MOFs in addition to controllability of their pore size and their intake selectivity makes them a promising method of detection. Detection of metal ions in water using a binary mixture of luminescent MOFs has been reported. 3 MOFs(ZrPDA, UiO-66 and UiO-66-NH2) as detectors and 4 metal ions(Pb2+, Ni2+, Ba2+ and Cu2+) as the target species were chosen based on cost, water stability, application and end goals. It is possible to detect metal ions such as Pb2+ at concentrations at low as 0.005 molar using MOFs. Also, based on the luminescence responses, a method of distinguishing between similar metal ions has been proposed. It is shown that using a mixture of MOFs with dierent reaction to metal ions can lead to unique and specic 3D luminescence maps, which can be used to identify the present metal ions in water and their amount. In addition to the response of a single MOF to addition of a single metal ion, luminescence response of ZrPDA + UiO-66 mixture to increasing concentration of each of 4 metal ions was studied, and summarized. A new peak is observed in the mixture, that did not exist before, and it is proposed that this peak requires metal ions to activate / Dissertation/Thesis / Masters Thesis Materials Science and Engineering 2018

Charge detection is essential for a large number of commercial and scientific applications. A charge amplifier is one of the most fundamental building blocks for a detector system. This thesis describes the design, circuit implementation, and post-silicon testing of two different charge amplifier designs, analog and digital, that address some commonly seen fundamental challenges in the charge detection application. In particular, the proposed designs can be integrated with an image charge detector (ICD) to study the characteristics of dust on Mars. The proposed charge amplifier design utilizes a small 10 fF feedback capacitor to achieve a high gain. The fully integrated custom differential charge amplifier design improves the accuracy and robustness of its charge gain, and provides a compact method to extract detector capacitance for gain calibration. Conventional charge amplifiers' charge-to-voltage gain is a function of the detector parasitic capacitance. Therefore, a high precision photo-current calibration method is proposed here to enable an accurate gain calibration. In addition, a novel "digital amplifier" with close to rail-to-rail output swing is proposed to realize an infinite equivalent open-loop gain. Consisting of an ADC and charge pump as the amplifier core, this proposed design maintains a consistent closed-loop gain independent of the input parasitic capacitance. The ADC is realized as a single comparator, i.e. a 1-bit ADC, which, together with an SR latch and a differential charge pump, replaces the conventional analog amplifier core.

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The Orbitrap is a mass analyzer that employs an electrostatic field to confine ions. The mass of an ion is determined from the frequency of its axial oscillations in the Orbitrap. The Orbitrap has high resolving power and accuracy. However, the electrodes of the Orbitrap have complicated curved shapes. As a consequence the Orbitrap is not easy to miniaturize. In this thesis we have proposed a class of easily machinable cylindrical-electrode structures to mimic the behavior of an Orbitrap. The proposed structure consists of a single cylinder and many coaxial equally spaced thick rings. A detailed numerical simulation of the cylindrical-electrode structure reveals that axial ion oscillations in it have many spurious frequency components in addition to the dominant frequency component. We have carried out a systematic shape optimization that adjusts the dimensions of the structure to minimize the amplitudes of the spurious frequency components of ion motion in the axial direction. The performance of the optimized structure was found to rival that of a practical Orbitrap.

The thesis entitled “New Supramolecular Ion Sensing Probes and their Application in the Detection of Environmentally Relevant Ions” deals with the design and synthesis of several small molecular probes which can specifically sense environmentally relevant ions of (anion or cation) particularly in aqueous or biological medium. The probes have been designed using four different molecular entities which include anthraquinone, oxidized bis-indolyl system, pyrene and rhodamine. The probes afford naked eye detection of a particular ion in the aqueous medium. This work has been divided into six chapters. Chapter 1. Introduction The first chapter gives a brief idea of ion sensor. It provides the description of various approaches used for designing molecular sensors. The chapter further presents an overview of the four different dyes (anthraquinone, oxidized-bis-indole, pyrene and rhodamine) used for designing probes in this work. The properties of these probes, their advantages and disadvantages to use as a signaling subunit have been discussed. This chapter also describes the use of micellar medium for solubilizing different organic dyes in water. Chapter 2. Colorimetric Probes based on Anthraimidazolediones for Selective Sensing of Fluoride and Cyanide ion via Intramolecular Charge Transfer. The second chapter describes the design and synthesis of four different probes based on anthra [1, 2-d] imidazole-6, 11-dione. The anthraquinone part of each molecule has an acceptor moiety whereas substituted nitrogen linked aromatic unit forms the donor site. Each probe acted as strong colorimetric sensor for fluoride and cyanide ion detection and exhibited intramolecular charge transfer (ICT) band which showed significant red-shifts after addition of either the F¯ or CN¯ ion. One of the probes 2 showed selective colorimetric sensing for both cyanide and fluoride ions. In organic medium 2 showed selective color change with fluoride and cyanide, whereas in aqueous organic medium it showed a selective ratiometric response towards cyanide ion. The effect of anionic charge (on the donor moiety) on ICT has been discussed. Among the various donor moieties, the donor site having negative charges on them was found to disperse greater electron density on them. Figure 1. Molecular structures of the sensors Chapter 3 deals with chemodosimetric detection of cyanide ion in water using various oxidized bis-indole based compounds. Chapter 3A. A Chemodosimetric Probe based on a Conjugated and oxidized Bis¬ indolyl System for Selective Naked Eye Sensing of Cyanide ion in Water. The chapter 3A describes the design and synthesis of a new water-soluble bis-indolyl based probe, 5 which possesses two –COOH groups. This probe specifically reacted with the CN¯ ion in pure water at ambient temperature and produced a remarkable change in color from red to colorless. The mechanism of this process was investigated by NMR (1H, 13C and DEPT-135) spectroscopy, mass spectrometry and kinetic studies. The mechanism investigation showed that the cyanide ion reacts with the probe and removes the conjugation of the bis-indolyl moiety of the probe with that of the 4-substituted aromatic ring which renders the probe colorless. Taken together a plausible mechanism of the reaction was presented which showed to operate via a Michael type adduct formation under ambient conditions of pH and temperature in water. The probe gave a detection limit of 0.38 ppm for detection of cyanide ion in water. Figure 2. Molecular structure of the probe 5. Chapter 3B. Micelle Assisted ppb level Detection of Cyanide ion in Water by Chemodosimetry and Visual detection of the Endogenous Cyanide. The chapter 3B deals with the synthesis of a bis-indole based colorimetric probe 6. The probe showed selective detection of the cyanide ion in water at ppb level and a visible detection of endogenous cyanide from cassava (a major staple food in the developing world) by chemodosimetry. The cyanide ion binds with the probe 6 in a chemodosimetric fashion and follows pseudo first-order kinetics in water under appropriate conditions. It showed a highly sensitive detection of the cyanide ion in water with a detection limit of 0.33 ppm. The use of the micellar medium improved the detection limit drastically and a ppb level detection limit was achieved. The probe also showed the detection of the endogenously bound cyanide in cassava both visually and by spectrophotometer. Figure 3. Molecular structure of the probe 6. Chapter 3C. Ratiometric Cyanide ion probe in Water and for the detection of the Endogenously bound cyanide. Chapter 3C presents the synthesis of two new bis-indolyl (7 and 8) based probes for colorimetric detection of cyanide ion in pure water. Compound 8 showed a ratiometric response with cyanide in water and a visual detection of the endogenously bound cyanide ion in cassava. Using compound 8 the selective detection of the cyanide ion in water was achieved with a detection limit of ~ 17 ppb which is almost 13 times lower than the permitted limit as specified by EPA, United States. 7; R = H 8; R = -(OCH2CH2)3CH3 Figure 4. Molecular structures of the probes 1 and 2. Chapter 4 deals with the colorimetric and ratiometric detection of the Cu2+and Hg2+ions using different small synthetic molecular probes. Chapter 4A. Colorimetric Sensors for Ratiometric Detection of Copper and Mercury ions in Biological media and below ppm level in Water. The chapter 4A deals with the synthesis of two novel colorimetric probes (9, 10) using bispicolyl unit as the binding moiety and anthraimidazolediones and bis-indolyl system as a signaling sub-unit. Using the two sensors, Cu2+ion can be detected below the permitted limit (1.3 ppm) in both drinking water and at physiological pH 7.4. Sensor 9 can detect both Cu2+and Hg2+ in water with very low detection limit. It showed specific binding with Cu2+ at physiological pH 7.4 and in presence of serum albumins. Chemosensor 10 can be used for the specific detection of both Cu2+and Hg2in water as well as for the contamination in microorganisms. Figure 5. Molecular structure of the sensors 9 and 10. Chapter 4B. A New Molecular Probe for the Selective Sensing of Cu2+ and Hg2+ ions in Micellar Media and in Live ells.This chapter describes a synthesis of a novel bispicolyl based sensor 11 which can detect Cu2+ ion specifically in water medium and both Cu2+ and Hg2+ ions selectivelyin Brij-58 micellar medium. In micellar medium both the ions can be detected in the ppb level. Using fluorescence spectroscopy these two metal ions can be discriminated.The probe is also be useful for checking metal ion contamination in cellular samples. Figure 6. Molecular structure of the sensor 11. Chapter 4C. Rhodamine based Sensors for Cu2+ and Hg2+ ions in Water and in Biological media. The chapter 4C presents the synthesis and the sensing properties of the three positional isomers of the pyridine end of the rhodamine-pyridine compounds (12-14). The three isomers only differ in the position of nitrogen of the pyridine moiety. Sensor 12, which contains the pyridine nitrogen at the ortho-position showed selective sensing toward Cu2+ ion in both pure water and in buffered physiological media of pH 7.4. It gave a detection limit of ~13 ppb which is 100 times lesser than the EPA permitted limit. The other two sensors 13 and 14, which possessed the pyridine ends with the nitrogen atom at the meta- and the para- positions respectively showed the selective sensing of Hg2+ ion in water and did not show any interaction with the Cu2+ ion. Probes 2 and 3 showed ‘turn-on’ detection of Hg2+ ion both in the UV-vis and the fluorescence emission spectroscopy. Compound 2 and 3 showed a detection limit of ~ 9 and 4 ppb respectively. The NMR titration showed the change in color was due to the opening of the spirolactam ring of the rhodamine. The sensors can also be used for the detection of Cu2+ and Hg2+ ion in real life water samples and in the live cells. Figure 7. Molecular structure of the sensors 12, 13 and 14. Chapter 5. Ratiometric and ppb level Detection of Toxic Transition Metal ions using a Single Probe in Micellar media. This chapter describes the selective sensing of multiple ions using a single probe 15. The probe incorporates pyrene and pyridine as signaling and interacting moiety respectively. The sensor showed different responses towards different metal ions just by varying the medium of detection. In organic solvent (acetonitrile), the probe showed selective detection of Hg2+ ion. In water the fluorescence quenching was observed with three metal ions, Cu2+, Hg2+ and Ni2+. Further just by varying the surface charge of different micellar media, the probe showed selective interaction with Hg2+ ion in neutral micelles (Brij-58). However, in anionic micellar medium (SDS), the probe showed selective changes with both Cu2+ and Ni2+ in the UV-vis spectroscopy. The discrimination between these two ions was achieved by emission spectroscopy, where it showed selective quenching only with Cu2+. Thus using a single probe all the three metal ions Cu2+, Hg2+ and Ni2+ can be detected and discriminated just by varying the surface charge of the micellar medium. Figure 8. Molecular structure of the sensors 15. Chapter 6. Highly sensitive Rhodamine Based Dual Probes for the Visual detection of F¯ and Hg2+ ions in Water. This chapter deals with the design and synthesis of two new rhodamine based probes (16-17) which act as dual probes for the ppb level selective detection of Hg2+ and F¯ ions in water and at physiological pH 7.4. The two probes were synthesized by coupling tert-butyldiphenylsilyl (TBDPS) protected forms of 4-hydroxybenzaldehyde and 2, 4- dihydroxy benzaldehyde with rhodamine hydrazone. The F¯ ion detection is based on the desilylation of the probe, whereas the spirolactam ring opening leads to the detection of Hg2+ ion. The two probes gave turn-on detection of both Hg2+ and F¯ ion selectively in aqueous medium with the detection limit well below the EPA permitted limits. The probes showed detection of both the ions by dual mode with visibly different color and fluorescence under UV-lamp. The F¯ ion interacts with the silyl bond of probe and the cleavage results into yellow color whereas; the addition of Hg2+ ion to the probe solution opened the spirolactam ring and resulted into appearance of pink color. Figure 9. Molecular structure of the probes 16 and 17. (For structural formula pl see the abstract file)