The interactions of electrons with ions and ions with neutrals are among the most important processes in the chemical evolution of molecules, allowing us to gain a deeper understanding of chemical processes in low-temperature environments in space such as interstellar gas clouds and to obtain feedback for quantum-mechanical calculations. Vari- ous plasma parameters such as kinetic and rotational temperature of ions, their concen- tration, etc. can vary by several orders of magnitude and different diagnostic techniques are used to determine them. Diagnostics such as SA-CRDS and Cryo-CRDS were used in this work. The subject of the study were two molecular ions: N2H+ and N+ 2 from the temperature range of 80-350 K, where we examined their recombination and absorption rate coefficients utilizing the absorption line involving the most populated states. 1

Cavity ring-down spectroscopy (CRDS) and cavity enhanced absorption spectroscopy (CEAS) are two well-established absorption spectroscopic techniques originally developed for gas-phase samples. Condensed-phase applications of these techniques still remain rare, complicated as they are by additional background losses induced by condensed-phase samples as well as the intracavity components in which the sample is constrained. This thesis is concerned with the development and application of optical-cavity-based techniques in the condensed phase. Polarization-dependent evanescent wave CRDS (EW-CRDS) has been used to study the molecular orientation at the solid/air and solid/liquid interfaces. An increase in average orientation angle with respect to the surface normal has been observed for both methylene blue and coumarin molecules as a function of coverage at the fused silica/air interface. An orientation-angle-dependent photobleaching of pyridin molecules at the fused silica/methanol interface have also been observed. EW-CRDS has also been used to monitor slow in situ photobleaching of thin dye films deposited on the prism surface. The photobleaching dynamics is interpreted as a combination of first- and second-order processes. A significant fraction of this thesis has been devoted to studying magnetic field effects (MFEs) on the kinetics of the radical pair (RP) reactions in solution, in an effort to understand the ability of animals to sense the geomagnetic field. Two novel optical-cavity-based techniques – broadband CEAS (BBCEAS) and CRDS have been developed for this purpose. BBCEAS uses a supercontinuum (SC) source as the cavity light source and a CCD camera as photodetector, enabling simultaneous acquisition of absorption spectrum across the whole visible region (400 – 800 nm). In CRDS, a tunable optical parametric oscillator has been used as the cavity light source. Combined with the switching of external magnetic field (SEMF) method, this technique allows the decay kinetics of the geminate RPs to be monitored, with nanosecond resolution. Both BBCEAS and CRDS provide sensitivity superior to single-pass transient absorption (TA), a technique traditionally used in the MFE studies. A series of photochemical systems have been studied by BBCEAS and CRDS, respectively, among which, the MFEs of drosophila melanogaster cryptochrome has been observed. Importantly, this is the first time an MFE has been observed in an animal cryptochrome, and provides key supporting evidence for the cryptochrome hypothesis of magnetoreception in animals. Besides the optical-cavity-based techniques, a novel fluorescence detection method of MFEs has also been demonstrated. This technique proved ultrahigh sensitivity when applicable.

This thesis describes the development and application of condensed-phase cavity-based spectroscopic techniques - namely cavity ring-down spectroscopy (CRDS); cavity enhanced absorption spectroscopy (CEAS); broadband cavity enhanced absorption spectroscopy (BBCEAS) and evanescent wave (EW) variants of all three. The recently-developed cavity technique of EW-broadband cavity enhanced absorption spectroscopy (EW-BBCEAS) has been used—in combination with a supercontinuum source (SC) and a sensitive, fast readout CCD detector—to record of the full visible spectrum (400–700 nm) of a silica-liquid interfacial layer (with an effective thickness ca. 1 µm), at rapid acquisition rates (> 600 Hz) that are sufficient to follow fast kinetics in the condensed phase, in real time. The sensitivity achieved (A_min= 3.9 x 10^-5) is comparable with previous EW-CRDS and EW-CEAS studies, but the spectral region accessed in this broadband variant is much larger. The study of liquid|air interfaces using EW cavity-based techniques is also illustrated for the first time. The first application of BBCEAS to the analysis of microfluidic samples, flowing through a microfluidic chip, is illustrated. Proof-of-principle experiments are presented, demonstrating the technique’s ability to provide full visible broadband spectral measurements of flowing microfluidic droplets, with both high detection sensitivity (α_min < 10^-2 cm^-1) and excellent spatial and temporal resolution: an SC light source and sensitive, fast readout CCD allowed measurement repetition rates of 273 Hz, whilst probing a very small sample volume (ca. 90 nL). A significant portion of this thesis is devoted to demonstrating the powerful capabilities of CEAS, CRDS and BBCEAS in monitoring radical recombination reactions and associated magnetic field effects (MFEs) in solution. The efficacy of CEAS as a high-sensitivity MFE detection method has been established in a proof-of-principle study, using narrow band CEAS in combination with phase-sensitive detection: MFE-induced absorbance changes of ca. 10^-6 could be detected using the modulated CEAS technique and the data are shown to be superior to those obtained using conventional transient absorption (TA) methods typically employed for MFE measurements. The powerful capabilities of CRDS in monitoring radical recombination reactions and associated MFEs are also demonstrated. In particular, a pump-probe CRDS variant allows not only high sensitivity (A_min on the order 10^-6), but also sub-microsecond time-resolution. Combined, these features represent significant advantages over TA. Finally, SC-BBCEAS is used to measure full visible spectra of photoinduced reactions and their MFEs. The applicability of this approach to in vitro MFE studies of Drosophila cryptochrome is demonstrated—the results mark the first in vitro observation of a magnetic field response in an animal cryptochrome, a key result supporting the hypothesis that cryptochromes are involved in the magnetic sense in animals.

In dieser Arbeit sollte eine Derivatisierungsmethode entwickelt werden, die die duale Quantifizierung funktioneller Gruppen an Oberflächen mittels Röntgenphotoelektronenspektroskopie (XPS) und Fluoreszenz ermöglicht. Verschiedene Farbstoffe, die robuste Fluoreszenzeigenschaften mit hohen Fluorgehalten für XPS kombinieren, wurden auf ihre selektive Reaktion mit Aminogruppen getestet und der Prototyp einer tiefergehenden Analyse auf einer Oberfläche unterzogen. Durch Fluoreszenzlöschung konnten die Möglichkeiten der bimodalen Analyse nur begrenzt abgeschätzt werden, obwohl in XPS und Fluoreszenz intensive Signale gemessen wurden. Die Herstellung der Modelloberflächen mittels Gasphasenabscheidung von Silanen konnte durch Kontaktwinkelmessungen schrittweise optimiert werden. Die Kombination zweier Monoalkoxysilane ermöglichte die Herstellung von Oberflächen mit variabler Funktionalgruppendichte. Nach Reaktion mit dem dualen Marker ließen sich die Messungen aus XPS und Fluoreszenz mindestens über eine Größenordnung korrelieren. Durch Synchrotron-XPS (SR-XPS) und Röntgenfluoreszenz unter Totalreflektion (TXRF) konnte eine absolute und rückführbare Quantifizierung erzielt werden. Weitere Modelloberflächen auf Basis von Trialkoxysilanen zeigten, dass bei anwendungsnahen Proben Fluoreszenzlöschung auftritt. Diese konnte in einem gewissen Maße mittels Fluoreszenzlebensdauer berechnet werden. Darüberhinaus konnte mit der Photometrie eine unabhängige Methode gefunden werden, die die Quantifizierung des Farbstoffs an der Oberfläche in hoher Präzision ermöglicht und mit Hilfe der XPS auch der funtionellen Gruppen. Die Cavity Ring-Down Spektroskopie (CRDS) wurde als Laserbasierte Methode zur empfindlichen und ortsaufgelösten Messung der Absorption auf transparenten Substraten untersucht und erste vielversprechende Ergebnisse gewonnen. Weiterhin wurde ein modulares Farbstoffsystem entwickelt, das sowohl Variation der spektralen als auch der Bindungseigenschaften erlaubt. / This work aimed on the development of dual-mode labelling method that combines X-ray photoelectron spectroscopy (XPS) with fluorescence measurements for surface functional group quantification. Label dyes combining robust fluorescence properties with high fluorine contents were investigated towards their selective reaction with surface amino groups and the lead candidate subjected to detailed analysis on a surface. Fluorescence quenching precluded a detailed investigation of the capabilities of dual-mode labelling, despite providing sufficient signal in XPS and fluorescence scanning. The fabrication of surfaces using vapour deposition (VD) of silanes in toluene was optimized under aid of contact angle measurements. Binary mixtures of mono-alkoxy silanes were used to prepare surfaces with variable functional group density. Treatment with the label dye showed that XPS and fluorescence provide a linear overlap in signal generation over at least one order of magnitude. The combination of synchrotron radiation XPS (SR-XPS) and total reflection X-ray fluorescence spectroscopy (TXRF) provided an absolute and traceable quantification . Different model surfaces based on trialkoxy silanes showed strong fluorescence quenching. A fluorescence lifetime based correction was developed to account for such quenching effects. Additionally, the application of spectrophotometry provided a independent method of quantification for the surface bound dye and in combination with information obtained from XPS, to determine the surface functional group density. With cavity ring-down spectroscopy (CRDS), a laser based technique for highly sensitive and spatially resolved absorption measurements on transparent substrates could be developed and applied in a proof-of-concept. A modular system for the fabrication of label dyes with adjustable spectral properties and different binding sites was investigated using prototype candidates to prove the general applicability of such systems.

<p>The Earth–atmosphere energy balance is dictated by incoming solar radiation and outgoing thermal radiation with greenhouse gases (GHG) and aerosols playing a major role in this effect. The atmospheric abundance and properties of airborne particles and gases lead to the redistribution of radiative energy, resulting in a warming or cooling effect. However, the extent of this effect remains to be insufficiently constrained. Improved quantification and characterization of GHG and aerosols are important requirements to inform current climate models. High-precision instrumentation and thoughtful experimental strategies are necessary to yield various analytical measurement datasets, despite complex meteorological and environmental conditions. This dissertation focuses on the assessment of CO₂and atmospheric particles from aircraft-based measurements enabling representative and spatially sampling of local regions of interest.</p> <p>Chapter 1 provides introductory discussion on the atmospheric implication of GHG and aerosols on the climate and related uncertainties. Chapter 2 summarizes the employed experimental techniques for quantification of GHG and characterization of atmospheric particles. We relied on an aircraft platform equipped with an air turbulence probe for 3D wind vector calculation and a high-precision cavity ring-down spectrometer for the quantification of ambient CO₂, CH₄, and H2O_<em>v</em>. Furthermore, the simultaneous composition and morphological information of aerosol samples were assessed using complementary chemical imaging techniques. Chemical composition of elements with Z > 23 was determined using computer-controlled scanning electron microscopy with energy dispersive X-ray spectroscopy (CCSEM/EDX). Scanning transmission X-ray microscopy coupled with near edge X-ray absorption fine structure spectroscopy (STXM/NEXAFS) was used to determined spatially resolved elemental specific molecular information present in atmospheric particles.</p> <p>Chapter 3 presents our study focused on the characterization of mixed mineral dust and biomass burning (BB) aerosols during an intensive burning event. We identified distinct particle types based on individual elemental contribution pre-, syn-, and post-burning event including highly carbonaceous (54–83%) particles, aged mineral dust (1–6%), and sulfur-containing particles (17–41%). X-ray spectromicroscopy techniques were used to characterize the internal chemical heterogeneity of individual BB particles and the morphology of soot inclusions, as well as changes in the particle organic volume fraction (OVF). An estimation method for particle component masses (i.e., organics, elemental carbon, and inorganics) inferred from STXM measurements was used to determine quantitative mixing state metrics based on entropy-derived diversity measures for particles acquired at different periods of the BB event. In general, there was a small difference in the particle-specific diversity among the samples (<em>D</em>_<em>α</em> = 1.3–1.8). However, the disparity from the bulk population diversity observed during the intense periods was found to have high values of <em>D</em>_<em>γ</em> = 2.5–2.9, while particles collected outside of the burning event displayed lower bulk diversity of <em>D</em>_<em>γ</em> = 1.5–2.0. Quantitative methods obtained from chemical imaging measurements presented here will serve to accurately characterize the evolution of mixed BB aerosols within urban environments.</p> <p>Chapter 4 follows the investigation of the physicochemical properties of atmospheric particles collected onboard a research aircraft flown over the Azores using offline spectromicroscopy techniques. Particles were collected within the marine boundary layer (MBL) and free troposphere (FT) comparing samples after long-range atmospheric transport episodes facilitated by dry intrusion (DI) events. The quantification of the OVF of individual particles derived from X-ray spectromicroscopy, which relates to the multi-component internal composition of individual particles, showed a factor of 2.06±0.16 and 1.11±0.04 increase in the MBL and FT, respectively, among DI samples. We show that supplying particle OVF into the <em>κ</em>-Köhler equation can be used as a good approximation of field-measured <em>in situ</em> CCN concentrations. We also report changes in the <em>κ</em> values in the MBL from <em>κ</em>_{MBL, non-DI} = 0.48 to <em>κ</em>_{MBL, DI} = 0.41, while changes in the FT result in <em>κ</em>_{FT, non-D}_I = 0.36 to <em>κ</em>_{FT, DI} = 0.33, which is consistent with enhancements in OVF followed by the DI episodes. Our observations suggest that the entrainment of particles from long-range continental sources alters the mixing state population and CCN properties of aerosol in the region.</p> <p>Chapter 5 discusses the identification and characterization of fine-mode primary biogenic atmospheric particles (PBAP) from the harvesting of crops. Particle samples were analyzed using complementary chemical imaging techniques to apportion the particle-type population based on their size, morphology, and composition. The contribution of PBAP in the size range of 0.15−1.25 μm is estimated to be 10−12% of ∼39,000 analyzed particles. In addition, particle viscosity and phase state were inferred with X-ray spectromicroscopic analysis has shown that the fine-mode organic particles collected are viscous/semisolid (10²−10¹² Pa s) while the majority of PBAP fragments are solid (>10¹²Pa s). The observation of submicrometer, solid carbonaceous fragments of biogenic origin have implications for the regional CCN and ice nuclei budget. Therefore, the seasonal harvesting of crops may play an important, yet unrecognized, role in regional cloud formation and climate.</p> <p>Chapter 6  explores the measurements and quantification of latent heat, sensible heat, and CO₂ fluxes among different land covers in the surrounding area of urban regions using airborne flux techniques. Cities account for the majority of the global CO₂ emissions due to the consumption of energy, resources, infrastructure, and transportation demands. Accordingly, the accurate quantification of these emissions, with exceptional precision, is necessary so that progress towards emission reduction can be monitored. However, a major challenge in quantifying urban emission estimates arises from accurate background emission definitions and apportionment of emission sources in complex urban environments. Airborne eddy covariance measurements were performed to quantify the bidirectional exchange of latent heat, sensible heat, and CO₂ fluxes in the upwind region of Indianapolis within an active biosphere. Here, we observed differences in fluxes across different days and land covers (e.g., corn, soybean, and forests) allowing us to understand the impact of seasonal variability in urban emissions during the full growing season. These experiments illustrate the capability of a research aircraft to perform technically challenging near-direct measurements of atmosphere–surface exchange over local and regional scales.</p> <p>Chapter 7 presents a new method to spatially allocate airborne mass balance CO₂ emissions. We performed seven aircraft measurements downwind of New York City (NYC) quantifying CO₂ emissions during the non-growing seasons of 2018–2020. A series of prior inventories and footprint transport models were used to account for flux contribution outside the area of interest and attribute emission sources within policy-relevant boundaries of the five boroughs encompassing NYC and then employ the modeled enhancement fraction (Φ) to the bulk emission observations from the mass balance approach. Here, we calculated a campaign-averaged source apportioned mass balance CO₂ emission rate of 56±24 kmol/s. The performance and accuracy of this approach were evaluated against other published works including inventory scaling and inverse modeling, yielding a difference of 5.1% with respect to the average emission rate reported by the two complementary approaches. Utilizing the ensemble of emissions inventories and transport models, we also evaluated the overall sources of variability induced by the prior (1.7%), the transport (4.2%), and the daily variability (42.0%). This approach provides a solution to interpreting aircraft-based mass balance results in complex emission environments.</p> <p>Chapter 8 concludes with a brief discussion of technological advances and research outlooks for X-ray spectromicroscopy analysis on atmospheric particles and the quantification of GHG. Opportunities for future applications and novel development of CCSEM/EDX and STXM/NEXAFS to substantially extend the instrument capabilities and improve our understanding of the physicochemical properties of individual atmospheric particles. Chapter 8 also discusses recent developments in satellite-based CO₂ monitoring to complement direct airborne observations. In recent years, significant progress has been made in satellite-based measurements of CO₂ to reveal the spatio-temporal variation in atmospheric CO₂ concentration. The column-averaged dry air CO₂ mole have reached an accuracy of ~1 ppm with a spatial resolution of less than 4 km. Furthermore, column-averaged retrievals can be used to detect and estimate the surface CO₂ fluxes in an active biosphere, quantify anthropogenic emissions over megacities, and monitor the transport of fossil fuel plumes across different continents and seasons.</p>