Η παρούσα διατριβή εξειδίκευσης αποτελεί το προοίμιο μιας μακρόπνοης εμπλοκής του εργαστηρίου υλοποίησής της στη μελέτη ενδεχόμενης μετανάστευσης ουσιών που χρησιμοποιούνται ως ενισχυτικά φραγής ή/και ως χημικοί αισθητήρες σε βιοπολυμερικές συσκευασίες τροφίμων και αποδέσμευσής τους σε προσομοιωτές τροφίμων. Στο πλαίσιο αυτό, η εργασία αυτή αποτελεί μια προσπάθεια ανάδειξης της μεθόδου επιφανειακής ενίσχυσης της σκέδασης Raman (Surafce Enhanced Raman Scattering) ως κατάλληλης για τον ποσοτικό προσδιορισμό μικρού μοριακού βάρους ενώσεων που ενδεχομένως αποδεσμεύονται σε υδατικά διαλύματα ή/και συγκεκριμένους προσομοιωτές τροφίμων. Η μελέτη εστιάστηκε στην ελεγχόμενη αποδέσμευση φαρμακευτικών ουσιών από μια βιοπολυμερική μήτρα κυρίως κατά το πρώιμο στάδιο της μελέτης και τις παραμέτρους που επηρεάζουν το φαινόμενο αυτό. Βασικός στόχος της μελέτης ήταν η κατά το δυνατό μείωση του ορίου ανίχνευσης με SERS της αποδεσμευόμενης ουσίας με την εμβάπτιση της βιοπολυμερικής μήτρας που την εμπεριέχει σε πρότυπα υδατικά διαλύματα. Πραγματοποιήθηκε μια διεξοδική μελέτη των υποστρωμάτων που χρησιμοποιούνται στο SERS και συγκεκριμένα του νανοκολλοειδούς αργύρου (Ag). Για τον σκοπό αυτό, πραγματοποιήθηκαν πειράματα τα οποία έδειξαν την εξάρτηση της έντασης SERS από τη συσσωμάτωση των υποστρωμάτων Ag συναρτήσει του χρόνου και του παράγοντα συσσωμάτωσης, NaCl. Η εφαρμογή του SERS σε μελέτες ουσιών εξαιρετικά χαμηλών συγκεντρώσεων αναδεικνύεται ως ένα πολύ ενδιαφέρον πεδίο έρευνας. Επίσης, ως πρότυπο πείραμα, παρουσιάζεται μεθοδολογία μελέτης με την τεχνική SERS της αποδέσμευσης του αντικαρκινικού φαρμάκου Μitoxantrone (ΜΤΧ) από εμπορικά ράμματα Maxon. Για το σκοπό αυτό, παρασκευάστηκαν πολυμερικά υμένια με εγκλωβισμένη τη δραστική ουσία και η μελέτη της αποδέσμευσης της σε νερό και PBS (phosphate buffered saline) πραγματοποιήθηκε με SERS και UV-Vis, αντίστοιχα. Η φασματοσκοπία UV-Vis χρησιμοποιήθηκε συμπληρωματικά. Στηριζόμενοι στη μεθοδολογία που αναπτύξαμε εξάγαμε ποσοτικά αποτελέσματα από τρία διαφορετικά εργαστηριακά δείγματα, τα οποία προήλθαν από ανάμιξη εμπορικών ραμμάτων Maxon με 1% κ.β. MTX: (α) στην άμορφη φάση έπειτα από ταχεία ψύξη του τήγματος, (β) στην ημικρυσταλλική φάση με σχετικά χαμηλό ποσοστό κρυσταλλικότητας, που λάβαμε έπειτα από ανόπτηση της άμορφης φάσης για περιορισμένο χρόνο στη θερμοκρασία κρυστάλλωσης και (γ) σε μια επίσης ημικρυσταλλική φάση με αρκετά μεγάλο ποσοστό κρυστάλλωσης (όσης και τα εμπορικά ράμματα). Τα αποτελέσματα δείχνουν πως υπάρχει συσχέτιση μεταξύ κρυσταλλικότητας και αποδέσμευσης του φαρμάκου, με τα μικρότερα ποσά αποδέσμευσης στην περίπτωση του άμορφου δείγματος. Αυτό που παρατηρήθηκε στα πρώιμα στάδια της αποδέσμευσης από τις μετρήσεις SERS φαίνεται να επαληθεύεται από αντίστοιχα αποτελέσματα σε μεταγενέστερα στάδια αποδέσμευσης που λάβαμε με εφαρμογή της συμβατικής τεχνικής απορρόφησης ορατού – υπεριώδους (UV-Vis). Ωστόσο, οι ποσοτικές μετρήσεις με τη χρήση του SERS σε πολύ μικρές συγκεντρώσεις έδειξαν μεγαλύτερη ανιχνευτική ευαισθησία σε σχέση με αυτές που πραγματοποιήθηκαν με την απορρόφηση UV-Vis. Συμπερασματικά, το SERS δείχνει ικανό στον ποσοτικό προσδιορισμό ενεργών ουσιών που αποδεσμεύονται από βιοσυμβατά πολυμερικά συστήματα μεταφοράς δραστικών ουσιών σε πολύ μικρές συγκεντρώσεις. / This thesis of specialization is the precursor of a long-term involvement of the laboratory of Applied Molecular Spectroscopy of FORTH/ICE-HT in the implementation of the study of the migration of substances used as barrier and/or as chemical sensors in biopolymer based food packaging and their release into food simulants. In this context, this work attempts to highlight the method of surface enhanced Raman scattering (SERS) as appropriate for quantifying low molecular weight compounds that may be released in aqueous solutions and/or specific food simulants. The study focused on the controlled release of pharmaceuticals from a biopolymeric matrix mainly during the early stage of the study and the parameters affecting this phenomenon. The main objective of the study was to reduce SERS detection limit of the released substance by emerging the substance-incorporated biopolymeric matrix in standard aqueous solutions. In this context, we developed methods to maximize SERS enhancement and consequently reduce the limit of detection of an active substance, Mitoxantrone (MTX). This was achieved by a thorough study of the substrates used in SERS, namely nanocolloidal silver (Ag) suspensions. For this purpose, we contacted experiments which show the dependence of the SERS intensity on the aggregation of Ag substrates as a function of both time and the aggregating agent, NaCl. Also, as a standard experiment, present SERS methodology was applied in the study of the release of the anticancer drug Mitoxantrone (MTX) from commercially available sutures, Maxon. For this purpose, polymeric films prepared with the encapsulated active substance were immersed either in water or/and in PBS (phosphate buffered saline) and the release of MTX was probed by both SERS and UV-Vis. Based on the developed methodology we obtained quantitative results from three different laboratory samples produced by mixing commercial Maxon sutures with 1 wt% MTX: (a) an almost completely amorphous mixture produced by quenching from the melt, (b) a semi-crystalline one possessing low crystallinity that was produced by annealing the amorphous sample at the temperature close to the crystallization one and (c) a semi-crystalline one possessing high crystallinity similar to the commercial product. The results indicate a correlation between crystallinity and drug release rate; the more amorphous the sample is the less quantity of the drug is released. SERS was able to probe the active agent at the early state of release; UV-Vis has supported these results at a later state of the release process. In conclusion, SERS may enable low concentration quantitative assessment of controlled release of drugs from biopolymer-based delivery systems.

Currently, it is very challenging to accurately monitor the response of patients to radiation therapy over the course of treatment. The initial response to ionizing radiation occurs in the cells at a molecular level, and effects of the response are not typically noticeable on short time scales. Surface-enhanced Raman Spectroscopy, or SERS, has proven to be a useful technique in the analysis of tissues and cells at a molecular level. Specifically, the use of targeted SERS probes allows for the detection of specific proteins on the cell membrane. The work presented here looks to assess the feasibility of using targeted SERS probes and two-dimensional SERS microscopy to measure the response of tumour cells to ionizing radiation, by identifying changes in the distribution of membrane proteins following exposure to clinically relevant doses of ionizing radiation (≤ 60Gy). Two different types of targeted SERS probes were investigated, based on the work of Grubisha et al. ([1]; Type I) and Qian et al. ([2]; Type II), both containing a gold nanoparticle core. In a simplified cellular experiment, biotin on the surface of biotinylated OVCAR5 cells was targeted with streptavidin-SERS probes, and the Type-II SERS probes showed the most promising results. However, SERS maps still provided less characteristic spectral signal than expected, and challenges remain in the development of a reproducible cellular imaging technique. Despite difficulties in cellular imaging, the functionality of the Type-II SERS probes was verified separately, using gold slides with a biotin monolayer in place of cells. Following verification, the SERS intensities provided by differently sized clusters of the SERS probes were characterized. To begin, both SERS maps and scanning electron microscope (SEM) images of gold slides were acquired after incubation with Type-II SERS probes for multiple times (1hr, 2hr, 3hr, 12hr). Data analysis of the SEM images provided a measure of the physical distribution of the SERS probes on the surface of the slide, while analysis of the SERS maps provided information about the spectral distribution of the probes. By relating the information provided by the SEM images and SERS maps, a simple polynomial relationship between SERS intensity and the number of clustered SERS probes providing the enhancement was determined, providing a framework for quantifiable SERS imaging. Finally, an independent experiment was devised to ensure that exposure to clinically relevant doses of ionizing radiation would affect the ability of the targeted protein to bind to SERS probes, thus leading to measurable differences in SERS maps of irradiated and unirradiated cells. A series of experiments utilizing the enzyme-linked immunosorbant assay (ELISA) was performed to test the effect of ionizing radiation-induced damage on the ability of streptavidin to bind to biotin, and the results confirmed that a noticeable reduction in binding could be detected at doses as low as 10 Gy. The results of this work demonstrate that following the development of a suitable cell/SERS probe incubation technique, Type-II SERS probes would be appropriate for use in quantifiable SERS imaging. Also, it is suggested that a measurable change in protein function will be present when comparing SERS maps of control cells to those of cells irradiated to clinically relevant doses. / Graduate

Vaginal fluid is most often found at crime scenes where a sexual assault has taken place or on clothing or other items collected from sexual assault victims or perpetrators. Because the victim is generally known in these cases, detection of vaginal fluid is not a matter of individual identification, as it might be for semen identification. Instead, linkages can be made between victim and suspect if the sexual assault was carried out digitally or with a foreign object (e.g., bottle, pool cue, cigarette, handle of a hammer or other tool, etc.). If such an object is only analyzed for DNA and the victim is identified, the suspect may claim that the victim’s DNA is present because she handled and/or is the owner of the object and not because it was used to sexually assault her; identification of vaginal fluid residue would alleviate such uncertainty. Most of the research conducted thus far regarding methods for the identification of vaginal fluid involves mRNA biomarkers and identification of various bacterial strains.1-3 However, these approaches require extensive sample preparation and laboratory analysis and have not fully explored the genomic differences among all body fluid RNAs. No existing methods of vaginal fluid identification incorporate both high specificity and rapid analysis.4 Therefore, a new rapid detection method is required. Surface-enhanced Raman spectroscopy (SERS) is an emerging technique with high sensitivity for the forensic analysis of various body fluids. This technique has the potential to improve current vaginal fluid identification techniques due to its ease-of-use, rapid analysis time, portability, and non-destructive nature. For this experiment, all vaginal fluid samples were collected from anonymous donors by saturation of a cotton swab via vaginal insertion. Samples were analyzed on gold nanoparticle chips.4 This nanostructured metal substrate is essential for the large signal-enhancement effect of SERS and also quenches any background fluorescence that sometimes interferes with normal Raman spectroscopy measurements.5 Vaginal fluid SERS signal variation of a single sample over a six-month period was evaluated under both ambient and frozen storage conditions. Vaginal fluid samples were also taken from 10 individuals over the course of a single menstrual cycle. Four samples collected at one-week intervals were obtained from each individual and analyzed using SERS. The SERS vaginal fluid signals showed very little variation as a function of time and storage conditions, indicating that the spectral pattern of vaginal fluid is not likely to change over time. The samples analyzed over the span of one menstrual cycle showed slight intra-donor differences, however, the overall spectral patterns remained consistent and reproducible. When cycle spectra were compared between individuals, very little donor-to-donor variation was observed indicating the potential for a universal vaginal fluid signature spectrum. A cross-validated, partial least squares – discriminant analysis (PLS-DA) model was built to classify all body fluids, where vaginal fluid was identified with 95.0% sensitivity and 96.6% specificity, which indicates that the spectral pattern of vaginal fluid was successfully distinguished from semen and blood. Thus, SERS has a high potential for application in the field of forensic science for vaginal fluid analysis.

This dissertation comprises experimental studies on the synthesis and applications of metallic nanoshells. These are a class of nanoparticles composed of a dielectric core and a thin metallic shell. Metallic nanoshells play an important role in nanotechnology, particularly in nanomedicine, due to their peculiar optical properties. The overall objectives of the dissertation were to improve the fabrication of these nanoparticles, and to demonstrate new applications of these materials in cancer research and spectroscopy. The fabrication of nanoshells is a multi-step process. Previously to our work, the procedures for the synthesis of nanoshells reported in the literature lacked systematic characterization of the various steps. The procedure was extremely time-consuming and the results demonstrated a high degree of size variation. In Chapter 3, we have developed characterization tools that provide checkpoints for each step of the synthesis. We demonstrated that it is possible to control the degree of coverage on the shell for a fixed amount of reagents, and also showed important differences on the shell growth phase for gold and silver. The synthetic optimization presented in Chapter 3 led to an overall faster protocol than those previously reported. Although the improvements presented in Chapter 3 led to a higher degree of control on the synthesis of nanoshells, the variations in the resulting particle population were still too large for applications in single particle spectroscopy and imaging. In Chapter 4, the synthesis was completely reformulated, aiming to narrow the size distribution of the nanoshell colloids. Through the use of a reverse microemulsion, we were able to fabricate ultramonodisperse silica (SiO2) cores, which translate into nanoshell colloids with narrow extinction bands that are comparable to those of a single nanoshell. We then fabricate a library of colloids with different core sizes, shell thicknesses and composition (gold or silver). The localized surface plasmon resonance (LSPR) of these colloids span across the visible range. From this library, two nanoshells (18nm silver on a 50nm SiO2 core, and 18nm gold on a 72nm SiO2 core) were selected for a proof of principle cell imaging experiment. The silver nanoshells were coated with a nuclear localization signal, allowing it to target the nuclear membrane. The gold nanoshells were coated with an antibody that binds to a receptor on the plasma membrane of MCF-7 human breast cancer cells. The nanoshells were easily distinguishable by eye in a dark field microscope and successful targeting was demonstrated by hyperspectral dark field microscopy. A comparison was made between fluorescent phalloidin and nanoshells, showing the superior photostability of the nanoparticles for long-term cell imaging. The results from Chapter 4 suggest that the nanoshells obtained by our new synthetic route present acceptable particle-to-particle variations in their optical properties that enables single particle extinction spectroscopy for cell imaging. In Chapter 5 we explored the use of these nanoshells for single-particle Surface-enhanced Raman spectroscopy (SERS). Notice that particle-to-particle variations in SERS are expected to be more significant than in extinction spectroscopy. This is because particle-to-particle SERS variabilities are driven by subtle changes in geometric parameters (particle size, shape, roughness). Two types of gold nanoshells were prepared and different excitation wavelengths (λex) were evaluated, respective to the LSPR of the nanoshells. Individual scattering spectra were acquired for each particle, for a total of 163 nanoshells, at two laser excitation wavelengths (632.8 nm and 785 nm). The particle-to-particle variations in SERS intensity were evaluated and correlated to the efficiency of the scattering at the LSPR peak. Chapter 6 finally shows the application of gold nanoshells as a platform for the direct visualization of circulating tumor cells (CTCs). 4T1 breast cancer cells were transduced with a non-native target protein (Thy1.1) and an anti-Thy1.1 antibody was conjugated to gold nanoshells. The use of a transduced target creates the ideal scenario for the assessment of nonspecific binding. On the in vitro phase of the study, non-transduced cells were used as a negative control. In this phase, parameters such as incubation times and nanoshell concentration were established. A murine model was then developed with the transduced 4T1 cells for the ex vivo portion of the work. Non-transduced cells were implanted in a control group. Blood was drawn from mice in both groups over the course of 29 days. Antibody-conjugated nanoshells were incubated with the blood samples and detection of single CTCs was achieved in a dark field microscope. Low levels of nonspecific binding were observed in the control group for non-transduced cells and across different cell types normally found in peripheral blood (e.g. lymphocytes). All positive and negative subjects were successfully identified. Chapter 7 provides an outlook of the work presented here and elaborates on possible directions to further develop the use of nanoshells in bioapplications and spectroscopy. / Graduate / 2019-05-03

This thesis presents a light scattering-based method for biomarker detection, which could potentially be used for the quantification of multiple biomarkers specific to B-cell malignancies. This method uses fabricated gold nanoparticle probes to amplify inelastic light scattering in a process referred to as surface-enhanced Raman scattering. These gold nanoparticle probes were conjugated to antibodies for specific and targeted molecular binding. The spectrum of the amplified inelastic light scattering was detected using a spectrometer and a detector. To detect the light scattering signal from the gold nanoparticle probes, several commercial Raman spectrometer instruments were evaluated. Initial results from these evaluations are presented in this thesis. After system evaluation, a custom Raman microscope system was designed, built, and tested. This system was used for the development of a surface-enhanced Raman spectroscopy-based immunoassay. The development of this assay confirms the successful design of gold nanoparticle probes for the specific targeting and detection of immunoglobulins. The immunoassay also shows promise for the simultaneous detection of multiple biomarkers specific to B-cell malignancies.

This thesis presents results of studies using the technique of surface-enhanced Raman scattering (SERS) spectroscopy to investigate surface processes occurring on gold during electrochemical experiments in thiosulfate solutions and during leaching in ammoniacal copper(II) thiosulfate systems. The gold SERS electrode was characterised using X-ray photoelectron spectroscopy (XPS), scanning electron microscopy (SEM), X-ray diffraction (XRD), energy dispersive X-ray analysis (EDX), linear sweep voltammetry (LSV) and cyclic voltammetry (CV). SEM investigations of the SERS activated gold surface showed the presence of electrodeposited dendrites with nanoscale features. XRD studies of the dendrites showed them to be polycrystalline with a large proportion of Au(111). Rotating disk electrode (RDE) studies of polished and SERS electrodes were undertaken in order to clarify the electrochemistry of various thiosulfate systems. The ex situ techniques of XPS and attenuated total reflectance Fourier transform infrared (ATR-FTIR) spectroscopy were used to determine the presence of sulfur, copper and nitrogen on leached or electro-oxidised surfaces. Voltammetric methods were used to determine sulfur and copper surface coverages at various potentials in sulfide, thiosulfate and ammoniacal copper(II) thiosulfate media. The electro-oxidation of sulfide was examined as a model system in order to identify spectral features and coverage associated with various potential-dependent sulfur layers. In the hydrogen evolution region, a surface layer formed by underpotential deposition in acid and basic media was characterised by a gold-sulfur stretching band, Au-S, attributed in the literature to a monoatomic stretching mode of sulfur bonded to gold. The surface coverage in this potential region was limited to 0.35 ML, representing adsorption in a (3x3)R30 structure. Bands were found to be absent that would have indicated the adsorption of SH– species as has been reported in the literature. A facile change in the position of the Au-S band with potential, unaccompanied by Faradaic processes, was seen when the adsorbed (3x3)R30 sulfur layer was examined in a sulfide-free solution. This may indicate a change in sulfur adsorption sites with potential in the hydrogen evolution region. At potentials above the S II/S0 reversible value in sulfide solutions, the surface coverage increased and S-S bands were observed, indicating the formation of an adsorbed polysulfide species, Au-Sn. A change in the position of the Au-S band was seen to accompany the formation of the S-S bands. As coverage further increased, bands due to S-S-S bending, S-S-S, developed that were characteristic of cyclo octasulfur, S8. On removal from sulfide solution and rinsing, a characteristic SERS spectrum was observed ex situ. The spectrum showed a characteristic S-S at 460 cm-1 and Au-S at 325 cm-1 and was assigned to an adlayer of S8 adsorbed on gold in a crown configuration, Au S8. Gold was polarised in thiosulfate solutions at a potential at which gold dissolution is known to occur. In situ SERS spectra showed bands characteristic of S-S bonding and Au2S to occur after 1 hr for thiosulfate with sodium and ammonium counter-ions and for both systems in the presence of ammonia. XPS studies of polished gold held in sodium thiosulfate under these conditions showed S 2p binding energies corresponding to metal sulfide and pyritic sulfur, S22-. After 72 hrs at the mixed potential in air saturated sodium thiosulfate, SERS investigations showed a spectrum with Au-S8 characteristics. XPS studies on a polished electrode under these conditions showed a third type of S 2p binding with a binding energy between that of pyritic sulfur and S8. The sodium thiosulfate system showed an adsorbed tetrathionate-like surface species, Au-S4O6, to be present at the mixed potential and to disappear with increased potential prior to the formation of bulk S8 via an Au-S8 intermediate. In the presence of the ammonium cation at high potentials, Au-Sn bands appear in the presence of a more intense and broad Au-S characteristic of gold sulfide, Au2S. This was assigned to a mixed gold sulfide/polysulfide phase, Au2S/Sn. With addition of ammonia, the surface species Au S4O6, Au2S/Sn and, tentatively, adsorbed NH3 were observed above the mixed potential. For gold in air-saturated copper(II) ammoniacal thiosulfate media, bands due S-S at 382 cm-1 and symmetric S-O stretching, symS-O, at 1017 cm-1 developed during leaching at the mixed potential. These modes diminished and, when rinsed and examined in water, were replaced by a single band at 255 cm 1 assigned to a metal sulfide stretch. In typical leach solutions, sulfur and copper coverages showed a 2:1 atomic ratio after leaching for 16 h. Ex situ ATR and XPS studies showed that ammonia was adsorbed to a surface copper sulfide. Kinetic studies using atomic absorption spectroscopy (AAS) to measure gold in solution showed that the ammoniacal copper(II) thiosulfate leaching solution exhibited higher dissolution rates in the presence of the sodium counter ion than the ammonium. Thiourea as an additive to thiosulfate solutions was seen to disrupt S-S bonding in both Au-S8 and Au2S/Sn surface structures.

Current micro-scale electronics technology has been approaching rapidly towards its technological limit. This has shifted the focus towards nano-scale technology in recent years. More and more researchers around the globe are working in pursuit of bringing nano-scale technology into mainstream. The research carried out here is a small step towards a similar goal. The remarkable optical properties exhibited by certain nano-scale structures are in stark contrast to their bulk form and this provides the basis for this research. Two kinds of nanostructures are developed and investigated for their optical properties. One of these is nanofibers processed from a polymer known as polyaniline (PANI). The focus of this study is to investigate its optical and conductive properties under different conditions of doping environments, temperature and polymerization conditions. Optical characterization technique such as UV-Visible spectroscopy is developed to carry out the investigation. The developed nanofibers have been demonstrated to possess optical and conductive properties to be dependent on doping variables. Study of these optical properties could prove very useful in the development of electrochromic devices and gas sensors. Later in the research, UV-Visible spectroscopy has been improved into a low cost Raman spectroscopy setup which is validated by experimentation carried out on some samples. The second type of nano-structure developed and investigated, is an array of nanoparticles of noble metals such as gold and silver. Such an array is shown to exhibit a phenomenon called plasmon resonance effect when excited by light. UV-Visible spectroscopy technique is utilized to investigate this effect for metal nano-arrays. A biologically nano-structured surface (wing of an insect called cicada) is used as the substrate for the fabrication of metal array. A serious attempt has also been made to do 'Surface Enhanced Raman Spectroscopy (SERS)', making use of the metal nano-array developed. This technique improves the raman lines intensities of certain less sensitive samples such as thiophenol, which are known to give weak raman lines. This is carried out by adsorbing the sample on the metal nano-array.

Plasmonic nanoparticles and their assembly have the potential to serve as a platform in practical applications such as photonics, sensing, and nano-medicine. To use plasmonic nanoparticles in these applications, it is important to understand their optical properties and find methods to control their optical response. Using polarization-sensitive dark-field spectroscopy to study self-assembled nanoparticle rings on substrates with different permittivities I show that the interaction between collective plasmon resonances and the substrate can control the spatial scattering image. Using liquid crystals as an active medium that can be controlled with an external electric field I show that the Fano resonance of an asymmetric plasmonic assembly can be actively controlled utilizing the polarization change of scattered light passing through the liquid crystal device. Furthermore, utilizing the strong electromagnetic field enhancement of coupled plasmonic “nanospikes” on the surface of gold nanoshells with a silica core, I show the use of single spiky nanoshells as surface-enhanced Raman spectroscopy substrates. Individual spiky nanoshells give surprisingly reproducible surface-enhanced Raman spectroscopy intensities with a low standard deviation compared to clusters of nanoparticles. In summary, the work presented here provides understanding of the plasmonic response for assembled nanoparticles on different substrates, illustrated a new method to actively control the optical response of plasmonic nanoparticles, and characterizes spiky nanoshells as surface-enhanced Raman scattering platform.

A nanofluidic biosensor using surface-enhanced Raman scattering (SERS) was developed to detect the β-amyloid (Aβ) protein, one of the biomarkers of Alzheimer’s disease (AD). Recent studies have indicated that investigating changes in relative concentrations of structure specific Aβ oligomers in cerebral spinal fluid (CSF) during the progression of AD could be important indicators for diagnosing AD pre-mortem. However, there is no definitive pre-mortem diagnosis of AD thus far because of the lack of technology available for sensitive Aβ detection. Hence, the development of a system for detecting the structure specific Aβ oligomers, along with the concentrations of these oligomers in CSF, would be useful in the investigation of the molecular mechanisms of Aβ cytotoxicity associated with AD. In this thesis, a nanofluidic trapping device trapping system for detecting biomolecules at sub-picomolar concentrations was developed for using SERS. The device, with a microchannel leading to a nanochannel, carries out dual functions: encouraging sizedependent trapping of gold nanoparticles (60nm) at the entrance of the nanochannel as well as restricting the target molecules between the gaps created by the aggregated nanoparticles. Initially, the trapping capability of the nanofluidic device was tested using fluorescent polystyrene and gold nanoparticles. UV-vis absorption spectroscopy was used to characterize the gold nanoparticle clusters at the entrance to the nanochannel. The device established controlled, reproducible, SERS active sites within the interstices of gold nanoparticle clusters and shifted the plasmon resonance to the near infrared, in resonance with incident laser light. Two strongly Raman active molecules, adenine and Congo red, were used to test the feasibility of the SERS nanofluidic device as a platform for the detection of multiple analytes. The results showed that strong SERS signals were obtained from the nanoparticle clusters at the nanochannel entrance. Once the feasibility of the approach was determined with strong Raman molecules, Aβ was detected using this nanofluidic SERS platform. Distinct surface-enhanced Raman spectra of Aβ was observed in different conformational states as a function of concentration and structure (monomer versus oligomer form) due to Aβ refolding from α-helical to a predominantly β-pleated sheet form. The sensor was also shown to potentially distinguish Aβ from insulin and albumin, confounder proteins in cerebral spinal fluid. Thus, a novel platform was developed to detect picomoler levels of Aβ with the ultimate goal of facilitating the diagnosis and understanding of Alzheimer’s disease by means of detecting structure specific oligomers of Aβ.

Nanochannel devices have been explored over the years with wide applications in bio/chemical analysis. With a dimension comparable to many bio-samples, such as proteins, viruses and DNA, nanochannels can be used as a platform to manipulate and detect such analytes with unique advantages. As a prerequisite to the development of nanochannel devices, various nanofabrication techniques have been investigated by many researchers for decades. In this dissertation, three different fabrication approaches for nanochannels are discussed, including a novel scanning coaxial electrospinning process, a heat-induced stretching approach and a standard contact photolithography process. The scanning coaxial electrospinning process is established based on conventional electrospinning process. A coaxial jet, with the motor oil as the core and spin-on-glass-coating/PVP solution as the shell, is deposited on the rotating collector as oriented coaxial nanofibers. These nanofibers are then annealed to eliminate the core material and form the hollow interior. Silica nanochannels with an inner diameter as small as 15 nm were obtained. The heat-induced stretching approach includes using commercially available fused silica tubings to create nanochannels by thermal deforming. This method and the electrospinning technique both focus on fabricate one-dimensional nanochannels with a circular opening. Fluorescent dye was used as a testing sample for single molecule detection and electrokinetic analysis in the resultant nanochannels. Another nanochannel device described in this dissertation has a deep-shallow step structure. It was fabricated by standard contact lithography, followed by etching and bonding. This device was applied as a powerful detection platform for surface-enhanced Raman spectroscopy (SERS). The experiment results proved that it is able to highly improve the sensitivity and efficiency of SERS. The SERS enhancement factor obtained from the device is 108. Moreover, the molecule enrichment effect of this device provides an extra 105 enhancement. The detection can be efficiently finished within minutes after simply loading the mixture of analytes solution and gold nanoparticles in the device. The sample consumption is in micro-liter range. Potential applications in diagnostics, prognositics and water pollutants detection could be achieved using this device.