In recent years there has been an increased drive towards point of care testing (POCT), in which assays are performed at the site of the patient. This has many benefits, critically; the time for a result to be obtained will be significantly reduced, allowing for greater and more effective decision making. Many currently used bioassay methods are not affordable in resource poor areas where infectious disease is most prevalent, in order to combat this issue many research groups are attempting to miniaturise equipment for portability and make assays more affordable and therefore more accessible. With the aims of generating a new assay platform which is highly portable and affordable, the work in this thesis presents the development of several generic methods utilising nano- and micro-scale beads coated with aptamer which are then monitored interacting with target proteins with Tunable Resistive Pulse Sensing (TRPS). Aptamers are short oligonucleotide sequences which are capable of binding to a wide range of targets with high selectivity and comparable affinity to antibodies while possessing greater stability and have begun to challenge the role of antibodies. When aptamers bind a target, they often undergo a conformational change. In the assays described herein, this conformational change is key to the observed signal changes. TRPS is a pore-based system in which beads moving through a pore cause a measurable increase in resistance which can be used to derive particle size, concentration, and mobility. During the course of this thesis several template TRPS aptasensors have been developed. TRPS was successfully used to confirm the successful coating of nano- and micro-scale beads with DNA aptamers by monitoring an increase in electrophoretic mobility when the negatively charged DNA is added to the surface. Following on from this, TRPS was used to monitor the interaction of aptamer tagged beads with thrombin protein enabling thrombin detection down to 1.4 nM and the comparison of several thrombin-aptamers with results comparable to previously published SPR data. Thrombin was postulated to shield the negative DNA, resulting in a decrease in mobility, and the magnitude of this charge shielding was found to depend upon the binding mechanism of the aptamer used. This effect is not thought to be specific to our system nor to thrombin, the principles outlined here may be applied to other RPS technologies, or by interchanging of the aptamer, different proteins. In later chapters, this method is expanded to include multiplexed detection of growth factors and a significant improvement in signal. vi Following on from this, the controlled aggregation of avidin coated beads in the presence of biotinylated-BSA was explored. Factors impacting upon this assay were discussed including magnetic separation, particle size and particle concentration, and different methods of data interpretation were presented. This aggregation study identified several key parameters in the use of TRPS in aggregation assays. Using the methods outlined by the study of aggregates, a dispersion assay was then designed in which the interaction of thrombin proteins with clusters of particles brought about the release of many small particles by the disruption of double stranded DNA linkages. This dispersion assay incorporated magnetic separation to simplify the read-out and relied on measuring particle concentration rather than mobility, enabling the use of additional pressure to increase speed and ease of use. Using this method, thrombin was able to be detected down to 100 fM, a significant advancement in TRPS aptasensors.

<p>Fully portable, rapid, and user-friendly sensors can successfully lead to the continuous monitoring of toxins present in the ecosystem as well as the detection of biomarkers to prevent diseases. Towards this goal, we explore electrochemical and colorimetric methods to develop platforms for the on-site detection of pesticides, heavy metals, and inflammation biomarkers. </p> <p>This thesis presents work with the primary aim of developing non-biological and biological-based platforms. Chapter 2 describes a fully roll-to-roll electrochemical sensor with high sensing and manufacturing reproducibility for detecting nitroaromatic organophosphorus pesticides (NOPPs). This sensor is based on a flexible, screen-printed silver electrode modified with a graphene nanoplatelets coating and a zirconia coating. This chapter outlines the evaluation of the electrocatalytic activity of zirconia towards the reduction of NOPPs, using methyl parathion as a pesticide sample. Furthermore, it describes the fundamentals of electrochemistry focused on voltammetry techniques used for surface characterization and quantification. The topics reviewed serve as the first step to further manufacturing sensors through large-scale methods (e.g., roll-to-roll). Chapter 3 describes the development of a dual-modality sensing system for the detection of mercury in river waters with high accuracy and precision. The objective of this project was to incorporate colorimetric platforms into the electrochemical methods to create a dual detection design and avert false positives and negatives. Here, novel bio-functional aptamers were incorporated in a sensor containing a paper test that detects mercury by a color change and an electrochemical test that measures charge transfer resistance changes upon aptamer-target interaction. For this platform, the colorimetric test demonstrates the utilization of two systems that consist of silver and gold citrate-capped nanoparticles bio-functionalized with highly specific aptamers. The mechanism of detection of these two systems is through Ps-AgNPs and Ps-AuNPs aggregation as a result of ssDNA-Hg2+ interaction. Using Ps-AuNPs microparticles, Chapter 4 describes a fully colorimetric and smartphone-based biosensor for detecting cardiac troponin T, a biomarker for diagnosing acute myocardial infarction. Here, a comparison in detection performance between Whatman grade 1 and high-flow filter paper is reviewed. Finally, Chapter 5 evaluates the colorimetric detection performance of Ps-AuNPs microparticles towards imidacloprid and carbendazim, two of the pesticides most found in imported produce in the United States. The chapter compares gold-based microparticles in which different aptamers were immobilized, and image acquisition approaches.</p> <p>All sensors reported in this thesis are especially suitable for environmental contaminants monitoring or point-of-care diagnosis applications. The materials selection, use or synthesis, and platforms’ performance optimization, development, and feasibility for scale-up manufacturing are expected to advance on-site biosensing technologies and their commercialization.</p>

<p>The development of low-cost, and reliable platforms for on-site detection of pathogenic agents, and toxic environmental traces is still a critical need for real-time monitoring of potential environmental pollution and imminent outbreaks. The biosensors market is projected to attain 31.5 billion by 2024. In this landscape, colorimetric and electrochemical devices continue to have significant relevance, with paper-based platforms leading the point-of-care (POC) segment for pathogen detection and environmental monitoring.</p> <p>Despite the true potential of biosensors in general, they have witnessed a slow rate in commercialization, mainly due to cost restrictions, and concerns related to their reliability and repeatability once scaled-up. This research evaluates the implementation of printing techniques as a strong approach for the fabrication of paper-based and flexible electrochemical biosensors. The results obtained demonstrated the ability to control and predict the variables affecting the sensing performance, achieving high precision of the printing parameters, and allowing optimization, and iterations since very early stages of prototype development.</p> <p>Besides the novel fabrication approach, this work introduces the use of truncated aptameric DNA sequences for whole cell detection of E. coli O157:H7 and heavy metals (Hg2+ and As3+), providing evidence of high stability and robustness under harsh conditions. Results obtained demonstrate their equal or even superior performance when compared to antibodies.</p> <p>We established the use of aptamer-functionalized multilayered label particles (PEI-grafted gold decorated polystyrene) with high stability as label particles. These particles address the well known drawback of non-selective aggregation typical of traditional naked Gold nanoparticles. The outstanding stability of these multilayered labels was demonstrated when used in an enhanced version of the lateral flow assay for detection of E. coli O157:H7 (state of the art for paper-based colorimetric detection of whole cell bacteria), and in a multiplexed paper-based microfluidic device for dual detection of Mercury and Arsenic. This work sets the foundation of the development of a next generation of health care and environmental monitoring devices that are portable, sensitive, quantitative, and can reliably detect multiple targets with one single test.</p>