This dissertation is composed of two projects dedicated to the development of techniques and technologies for improving the quality of life for patients in both clinical and resource-limited settings. The purpose of the first project was to design a rapid diagnostic device to screen whole blood samples for the presence of infectious agents. Point-of-care (PoC) technologies are becoming increasingly important for the detection of infectious agents in resource-limited settings (RSLs) where state-of-the-art blood screening practices are not feasible for implementation. For this project, a rapid diagnostic device was developed to directly detect pathogen content within freshly drawn whole blood samples using a ligand-binding assay format. The assay is completely self-contained within a hermetically sealed device to minimize operational complexity and ensure operator safety. The diagnostic device is capable of processing complex sample matrices by selectively capturing, concentrating, and labeling infectious agents upon functionalized surfaces. Following sample processing, the assay is optically interrogated with a fluorescence-based reader to provide rapid feedback regarding sample purity. Designs of the rapid diagnostic platform evolved over several prototype generations corresponding to project milestones emphasizing ergonomic performance, military specification testing for environmental resilience, and manufacture to yield production-grade devices for future diagnostic performance data collection. The goal of the regenerative therapy-based portion of this research was to develop a novel technique for the selective enrichment of cells demonstrating enhanced regenerative capacity in tissue-extracted cell samples. Adherent cell cultures of stromal vascular fractions (SVFs) extracted from adipose tissues were exposed to nutrient deficient conditions' eliciting a bimodal cellular response between two dissimilar cell culture subpopulations. The regenerative capacity of these two distinct subpopulations was evaluated by assessing their characteristic morphology, metabolic activity, and ability to undergo multilineage differentiation. The SVF subpopulation which demonstrated sensitivity to the nutrient deficient conditions expressed typical morphological expression of adherent cell cultures, elevated metabolic activity, and the ability to differentiate along adipogenic, chondrogenic, and osteogenic lineages. The SVF subpopulation which demonstrated resistance to the nutrient deficient conditions, however, expressed atypical morphologies, impaired metabolic activity, and did not survive culture with differentiation growth media. Based on the data, the 'treatment-sensitive' SVF subpopulation demonstrated a greater regenerative capacity than the‘treatment-resistant' subpopulation. Furthermore, the treatment-resistant subpopulation of the SVF may be representative of the damaged, senescent, and otherwise less-functional cells that comprise a significant portion of tissue-extracted cell samples and pose a significant risk to therapeutic efficacy and reproducibility. Ultimately, this expedient and inexpensive bioprocessing technique may serve to improve cell-based regenerative therapies by eliminating undesirable cells from culture.

Paired receptor families, consisting of multiple genetically and structurally similar but functionally opposite activating and inhibitory cell surface receptors, are among the fine tuners of the immune regulation. Recent studies on the evolutionary origin of these receptor families have suggested links to pathogen driven diversification, according to which activating receptors continuously evolve in order to counterbalance pathogens that try to subvert the immune response by stimulating the inhibitory receptor through their virulence factors. This thesis is about the CD200R paired receptor family. This family consists of an inhibitory receptor CD200R which is expressed on various leukocytes and delivers inhibitory signals upon engagement with its ligand CD200. In this study, the possibility that the activating members of the family evolved under pathogen pressure was investigated. Genomic DNA from twenty two different mice strains was screened for the presence of members of CD200R family. The number of activating receptors varied, CD200RLe and CD200RLc were found to be mutually exclusive and three strains possessed previously unknown members of CD200R family. In addition, the possibility that CD200R family members and other paired receptors interacted directly with bacteria was tested with a new assay but only the interaction of PIR-A1 with <em)S. aureus was found as previously reported. The rabbit CD200R family has been characterized and ligand receptor interaction between rabbit CD200 and rabbit CD200R has been demonstrated. However, no interaction between rabbit CD200R and a candidate viral CD200 homologue, the M141R protein of myxoma viruses, could be shown. This finding suggested a CD200R independent role for M141R molecule and possibly other homologues in pox viruses. Finally, two novel antibodies (OX131 and OX132) were characterized together with formerly generated antibodies against mouse CD200R family. The binding specificities and their effects on the CD200-CD200R interaction have been shown. This will help usage of these antibodies in various studies on the functionality and distribution of these receptors.

The transferrin iron acquisition system of Neisseria consists of two dissimilar proteins, transferrin binding protein A and B (TbpA and TbpB). TbpA and TbpB both specifically and independently bind human transferrin (Tf). TbpA is a TonB-dependent transporter, expression of which is necessary for Tf iron acquisition. In contrast, the lipoprotein TbpB is not necessary for iron internalization; however it makes this process more efficient. The role of TbpB in the transferrin iron acquisition system has not been completely elucidated. It has been suggested that TbpB is entirely surface exposed and tethered to the outer membrane by its lipid moiety. We inserted the hemagluttinin antigen (HA) epitope into TbpB in an effort to examine surface accessible and functional domains of the lipoprotein. We determined that TbpB was entirely surface exposed from just beyond the mature N-terminus. It was previously reported that the N- and C-terminus of TbpB independently bind Tf. HA epitope analysis defined both the N-terminal and C-terminal binding domains. TbpB was previously reported to play an important role in the release of Tf from the receptor. We established that TbpB exhibited a biphasic dissociation pattern; a C-terminal rapid release followed by a slower N-terminal release. These results suggested that the C-terminus plays a role in ligand turnover of the wild-type receptor. Little is known about the transport of TbpB to the outer membrane. In an attempt to identify the signals/mechanisms required for TbpB localization, the signal sequence of the protein was altered. In the absence of lipid modification, TbpB remained associated with the cell, localized to the periplasm. We also noted that internal cysteine residues were not critical for TbpB localization. Our results suggested that TbpB was transported by a lipoprotein-specific mechanism. Additionally, we demonstrated the major outer membrane secretin, PilQ, was not necessary for proper localization of TbpB. The mechanism responsible for this process remains elusive. This body of work represents the first comprehensive study of TbpB topology and function, utilizing the lipoprotein expressed in its native membrane. These results may translate to other, similar lipoprotein receptors of the pathogenic Neisseria, helping to shed light on these poorly understood proteins.

AIM: The aim of this study was to determine the expression of microbial nucleic acid receptors including Toll like receptor 9 “TLR-9”, DNA-dependent activator of interferon-regulatory factors “DAI” and absent in melanoma “AIM-2” in chronic periodontitis (P) versus healthy (H) tissues. METHODS: 33 chronic periodontitis (P) and 27 periodontally-healthy (H) gingival biopsies were included. The gene and protein expression for each receptor was determined using real-time quantitative PCR and immunohistochemistry. RESULTS: Our results revealed statistically significant up-regulation of TLR-9 (p<0.006) and DAI (p<0.001) gene expression in P tissues compared to H sites. We were also able to demonstrate significant correlation among three DNA receptors (p<0.05). Immunohistochemistry further confirmed the expression of DNA sensors in gingival tissues. CONCLUSION: This study highlights a possible role for nucleic acid sensing in periodontal inflammation. Further investigations will determine whether cytoplasmic receptors and their ligands can be targeted to improve clinical outcomes in periodontitis.

Staphylococcal pathogenicity island SaPI1 is excised from genomic DNA and extrachromosomal copies are amplified during the vegetative growth of staphylococcal phage 80α. The amplified genetic element is subsequently encapsidated and transduced at very high frequency. Previous studies have demonstrated that the transducing particles have virions with tails that appear identical to those of helper phage 80α but have smaller capsids, commensurate with the smaller genome of the SaPI (Lindsay et.al., 1998). The morphology of the transducing particles, coupled with the observation that the genomic sequence of SaPIl (GenBank U93688) does not reveal any obvious phage structural proteins, has led to the hypothesis that SaPIl is encapsidated in a virion comprised of 80α structural proteins. Analysis of SaPIl transducing particles supports this hypothesis. Further investigation of 80α genes involved in SaPI1 mobilization was accomplished by selection of phage mutants resistant to SaPI1 interference. Two classes of SaPI1 jnterference resistant (sir) mutants were obtained, and point mutations were identified in two adjacent genes. In order to confirm the roles of these genes, an in-frame deletion of each candidate gene was constructed in an 80α prophage. All mutant phage and deletion constructs were evaluated for phage replication, SaPI1 replication, SaPIl transduction and SaPI1 interference. One gene (ORF21) was required for 80α growth and replication, but was not required for SaPIl growth or replication. The second gene (ORF22) was not essential for phage replication, but was required for SaPIl replication and high frequency transduction. The product of this gene was subsequently shown to be required for SaPIl excision.

Anaplasma phagocytophilum is an obligate intracellular bacterium that infects neutrophils to cause the emerging tick-transmitted disease, human granulocytic anaplasmosis (HGA). Following entry, the pathogen replicates within a host cell-derived vacuole that fails to mature along the endocytic pathway, does not acidify, and does not fuse with lysosomes. Selective fusogenicity is prototypical of many vacuole-adapted pathogens and has been attributed, at least in part, to pathogen modification of the vacuolar inclusion membrane and/or to selective recruitment or exclusion of host trafficking regulators. As a result, the A. phagocytophilum-occupied vacuolar membrane (AVM) provides a unique interface to study the host-pathogen interactions critical to A. phagocytophilum intracellular survival. Diverse vacuole-adapted pathogens; including Chlamydia, Legionella, and Salmonella; selectively recruit host Rab GTPases to their vacuolar membranes to establish replicative permissive niches within their host cells. Rab GTPases coordinate many aspects of endocytic and exocytic cargo delivery. We determined that the A. phagocytophilum-occupied vacuole (ApV) selectively recruits a subset of fluorescently-tagged Rabs that are predominantly associated with recycling endosomes. Another emerging theme among vacuole-adapted pathogens is the ability to hijack ubiquitin machinery to modulate host cellular processes. Mono- and polyubiquitination differentially dictate the subcellular localization, activity, and fate of protein substrates. Monoubiquitination directs membrane traffic from the plasma membrane to the endosome and has been shown to promote autophagy. We show that monoubiquitinated proteins decorate the AVM during infection of promyelocytic HL-60 cells, endothelial RF/6A cells, and to a lesser extent, embryonic tick ISE6 cells. Importantly, tetracycline treatment concomitantly promotes loss of the recycling endosome-associated GFP-Rabs and ubiquitinated proteins and acquisition of the late endosomal marker, Rab7, and lysosomal marker, LAMP-1, implicating bacterial-derived proteins in the ApV's altered fusogenicity. Therefore, we rationalized that A. phagocytophilum-encoded proteins that associate with the AVM may establish interactions with the host cell that are important for intracellular survival. By focusing on A. phagocytophilum proteins that are induced during host infection, we identified the first two bacterial-encoded proteins -- APH_1387 and APH_0032 -- that modify the AVM. Although functional studies are hindered by the lack of a system to genetically manipulate Anaplasma, the pathobiological roles of APH_1387 and APH_0032 are likely unique, as both proteins exhibit very little or no homology with any previously described protein. APH_1387 and APH_0032 are present at the cytoplasmic face of the AVM, therefore they likely interact with host proteins. We demonstrate that ectopic expression of APH_1387 and APH_0032 inhibits the ApV development in A. phagocytophilum infected cells. The results presented in this dissertation contribute to our understanding of how A. phagocytophilum modifies the vacuolar membrane in which it resides to establish a safe haven and evade lysosomal degradation.

Zymoseptoria tritici is an ascomycete fungus that causes Septoria tritici leaf blotch disease, which is one of the most devastating diseases of wheat. The lack of molecular tools has withheld functional genomics and consequently has left extensive gaps in the knowledge of the biology of infection by Z. tritici. The current research was conducted to develop molecular tools in order to facilitate forward and reserves genetic screens in Z. tritici. These tools include an optimised genetic manipulation protocol, the Z. tritici strains that provide high frequency targeted genome manipulations, a strategy for gene overexpression and protein tagging, and regulatable promoters for controlled gene expression in Z. tritici. The regulatable promoters served to reveal that the Z. tritici β-(1,3)- glucan synthase (BGS1) gene encoded an essential protein, which regulated cell wall stress tolerance and was therefore, a potential drug target. In addition, these molecular tools revealed a virulence-associated role of the glyoxylate cycle in Z. tritici as inactivation of this pathway impeded pre-penetration morphogenesis, which was restored by exogenous glucose application. This result implied that Z. tritici engaged the glyoxylate cycle to produce energy though gluconeogenesis by channelling the by-products of lipolysis. This significance of the glyoxylate cycle during initiation of the bi-phasic infection cycle suggests that Z. tritici is not a hemibiotroph, but a necrotrophic pathogen with an extended asymptomatic phase of infection. Overall, the molecular tools developed in this study will facilitate large-scale functional genomic analyses to interrogate the biology of infection by Z. tritici. The resulting data will inform the development of durable control strategies to combat Z. tritici outbreaks.

Afin de caractériser les voies de signalisation du système immunitaire inné, nous étudions l'interaction entre le ver C. elegans et le champignon Drechmeria coniospora. Une des réponses du ver à l'infection consiste en une augmentation de la production de peptides antimicrobiens (PAM) dans l'épiderme. Des vers transgéniques exprimant le gène rapporteur de la GFP sous le contrôle du promoteur d'un PAM, fluorescent vert après infection. Si un gène nécessaire à l'expression des PAM est inactivé, alors les vers transgéniques ne fluorescent plus après infection. Nous avons effectué un crible pour identifier les molécules de signalisation nécessaires à l'expression des PAM en utilisant une approche quantitative et semi-automatique par ARN interference (ARNi). Deux banques d'ARNi couvrant 95% du génome, soit 20 000 gènes, ont été criblées et 360 candidats bloquant l'induction de la GFP après infection ont été obtenus, correspondant à 343 gènes. Une caractérisation phénotypique a permis de placer les candidats dans différentes catégories fonctionnelles et permis d'identifier d'une part un récepteur agissant en amont de la voie de signalisation p38 nécessaire à l'activation des gènes PAM, d'autre part une implication des granules de stress lors de l'infection. Ces analyses sont le fondement pour l'établissement d'une description compréhensive du réseau génétique régulant le système immunitaire inné du ver et permettront de révéler les interactions complexes entre l'immunité et les processus physiologiques au niveau moléculaire, cellulaire et au niveau de l'organisme. / To investigate innate immune signaling, we study the interaction of C. elegans with the fungus Drechmeria coniospora. One of the responses of the worm to this infection is the up-regulation of a variety of antimicrobial peptide (AMP) genes in the epidermis. Transgenic worms carrying a GFP reporter gene under the control of an AMP promoter fluoresce green after infection by D. coniospora. If a gene required for AMP gene expression is inactivated, the reporter strain will not turn green upon infection. Using this fluorescent read-out, we have been able to screen for signaling molecules required for AMP gene expression using a quantitative semi-automated RNAi approach. We have screened two RNAi libraries that together cover 95% of the ca. 20,000 genes in the C. elegans genome and we obtained 360 high-confidence candidates that reduced the level of induction of green fluorescence after infection, and correspond to 343 genes. A further phenotypic characterization allowed the candidates to be grouped into distinct functional categories and allowed the identification of both a receptor acting upstream the p38 MAPK pathway necessary for the activation of the AMPs, and the implication of stress granules during infection. Altogether, the screen data and its analysis represent the foundation for the establishment of a comprehensive description of the signaling network regulating the innate immune system of the worm and will shed light on the complex interactions between immunity and other physiological processes at the molecular, cellular and organismal level.

Doctor of Philosophy / Department of Chemistry / Jun Li / Reduction in electrode size down to nanometers dramatically enhances the detection sensitivity and temporal resolution. Here we explore nanoelectrode arrays (NEAs) and nanoparticles in building high performance biosensors. Vertically aligned carbon nanofibers (VACNFs) of diameter ~100 nm were grown on a Si substrate using plasma enhanced chemical vapor deposition. SiO[subscript]2 embedded CNF NEAs were then fabricated using techniques like chemical vapor deposition, mechanical polishing, and reactive ion etching, with CNF tips exposed at the final step. The effect of the interior structure of CNFs on electron transfer rate (ETR) was investigated by covalently attaching ferrocene molecules to the exposed end of CNFs. Anomalous differences in the ETR were observed between DC voltammetry (DCV) and AC voltammetry (ACV). The findings from this study are currently being extended to develop an electrochemical biosensor for the detection of cancerous protease (legumain). Preliminary results with standard macro glassy carbon electrodes show a significant decrease in ACV signal, which is encouraging. In another study, NEA was employed to capture and detect pathogenic bacteria using AC dielectrophoresis (DEP) and electrochemical impedance spectroscopy (EIS). A nano-DEP device was fabricated using photolithography processes to define a micro patterned exposed active region on NEA and a microfluidic channel on macro-indium tin oxide electrode. Enhanced electric field gradient at the exposed CNF tips was achieved due to the nanometer size of the electrodes, because of which each individual exposed tip can act as a potential DEP trap to capture the pathogen. Significant decrease in the absolute impedance at the NEA was also observed by EIS experiments. In a final study, we modified gold nanoparticles (GNPs) with luminol to develop chemiluminescence (CL) based blood biosensor. Modified GNPs were characterized by UV-Vis, IR spectroscopy and TEM. We have applied this CL method for the detection of highly diluted blood samples, in both intact and lysed forms, which releases Fe[superscipt]3[superscript]+ containing hemoglobin to catalyze the luminol CL. Particularly, the lysed blood sample can be detected even after 10[superscript]8 dilution (corresponding to ~0.18 cells/well). This method can be readily developed as a portable biosensing technique for rapid and ultrasensitive point-of-care applications.

No description available.