Mycobacterium tuberculosis is responsible for nearly three million human deaths every year. Understanding the mechanisms and bacterial factors responsible for M. tuberculosis' ability to cause disease in humans is critical for the development of improved treatment strategies. Using negative staining and transmission electron microscopy it was discovered that mycobacteria, including the human pathogen M. tuberculosis, produce fine surface structures known as pili. Mass spectroscopy analysis demonstrated that purified pili from M. tuberculosis are comprised of protein subunits encoded by the predicted M. tuberculosis H37Rv ORF designated Rv3312A. These pili termed M. tuberculosis pili, Mtp, are highly aggregative 2-5 nm diameter fibers and are recognized by IgG antibodies contained within TB patient sera. These results indicate that Mtp are produced during human infection. Mtp bind to the extracellualr matrix protein laminin in vitro suggesting that Mtp are a newly identified adherence factor for M. tuberculosis.A second pili morphotype that appeared as rope-like bundles were observed for M. tuberculosis and it was found that the M. tuberculosis chromosome contains a type IVB pili gene cluster. The M. tuberculosis type IV pili belong to the Flp sub-family of type IVB pili. RT-PCR analysis reveals that flp is expressed by M. tuberculosis and IF microscopy with Flp-specific antibodies shows the Flp protein is secreted from the bacteria. Evidence presented herein also demonstrates that an Flp-derived peptide is capable of polymerizing into pili-like fibers in vitro over a pH range of 4.5-7.5. Further studies show that the M. tuberculosis type IV pili are encoded by a novel 5-kb genomic island that contains the flp prepilin and putative biogenesis genes. The flp genomic island is characterized by an increased G+C content of 70% (the mean G+C content of the M. tuberculosis chromosome is 65%) and is flanked by multiple direct repeats. The identification of type IV pili in M. tuberculosis is the first report of any classical virulence factor for the bacillus and the genetic characteristics of the locus strongly suggest this chromosomal region was horizontally acquired.

The design for this study was tri-phasic: 1) to establish growth time patterns for each group of atypical mycobacteria, 2) to demonstrate the dynamic state of phosphorus in the various fractions by determining its incorporation and turnover, 3) to determine quantitatively the amount of phosphorus in each fraction.

Mycobacterium tuberculosis is an exquisitely adapted intracellular pathogen that encounters hostile, host-derived reactive nitrogen and oxygen intermediates during the course of infection of its human host. These radicals cause DNA damage, which is repaired through various pathways to allow for the continued survival of the organism. Base excision repair (BER) is one such pathway, which depends on DNA glycosylases to identify and excise damaged DNA bases. Formamidopyrimidine DNA glycosylase (Fpg/ MutM/ FAPY) and Endonuclease VIII (Nei) are such enzymes, which both target oxidatively damaged DNA and together, form the Fpg family of DNA glycosylases. Bioinformatic analyses identified two copies each of Fpg and Nei-encoding genes in M. tuberculosis as well as in its non-pathogenic relative, Mycobacterium smegmatis. To understand the role of these multiple glycosylases in the maintenance of genomic integrity and survival of mycobacteria, the genes encoding the four Fpg/Nei glycosylases were individually deleted in M. smegmatis strain mc2155 by homologous recombination. In addition to the four single mutants, double and triple Fpg and Nei glycosylase knockout mutants were generated by sequential gene knockout. When compared to the parental strain, the single and double mutants showed no variation in growth kinetics, no increased sensitivity to hydrogen peroxide and no increase in spontaneous mutation rates. However, a slight increase in frequency of spontaneous C T transition mutations was observed in double knockout mutants compared to the wild type and single mutant strains. These results suggest that these enzymes may be part of an extensive network of enzymes which collectively work to enhance the overall survival of M. smegmatis through the repair of oxidatively damaged DNA.

"Mycobacterium tuberculosis causes tuberculosis, one of the most life-threatening diseases of all time. It infects the host macrophages and survives in its phagosome. The host phagosome is a very hostile environment where M. tuberculosis copes with high concentration of transition metals (Zn2+, Cu2+), low levels of others (Mn2+, Fe2+) and acidic pH. P-ATPases are membrane proteins that transport various ions against their electrochemical gradients utilizing the energy of ATP hydrolysis. Based on their primary sequences; seven of the twelve mycobacterial ATPases are classified as putative heavy metal transporters and a K+-ATPase, while the substrate of four (CtpE, CtpF, CtpH and CtpI) remains unknown. Consistent with their membrane topology and conserved amino acids, CtpE and CtpF are possibly P2 or P3-ATPases that transport alkali metals or protons. We examined the cellular roles of orthologous CtpE and CtpF in M. smegmatis, a non-pathogenic model organism. We hypothesized that these novel P- ATPases play an important role in transporting alkali metals and/or protons. We analyzed growth fitness of strains carrying mutations of the coding gens of these enzymes, in presence of various metals and different pHs, as well as the gene expression levels under different stress conditions. We observed that the M. smegmatis mutant strains, lacking of CtpF or CtpE, are sensitive to high concentrations (mM) of Mn2+. Furthermore, CtpE mutant is sensitive to alkali pH. Our results indicate that CtpE and CtpF might be an Mn2+ or H+-ATPase that are required for cell’s homeostasis sustainability."

The Mycobacteria are a genus of bacteria which are acid-fast, non-motile, grampositive rods. The genus comprises several species classified into three main groups. Firstly, the major group of these organisms, which poses the biggest threat, is the M. tuberculosis complex which can cause tuberculosis-like disease. These include M. bovis, M. africanum and M. microti. Members of the M. tuberculosis complex are not found in the environment. The second group is M. leprae which is the causative agent of leprosy. The last group constitutes the nontuberculous mycobacteria (NTM), which are all the environmental mycobacteria that can cause various diseases resembling tuberculosis. Due to the importance of environmental mycobacteria, 15 mycobacteria isolates were isolated from environmental samples such as soil, water and drinking water biofilms. After PCR amplification of the hsp65 gene using genus specific primers hsp65, the isolates revealed sequences similarities when compared with the well characterized mycobacteria in the GenBank. Alignment of the nucleotide sequences and homology analysis were done with Clustall. It has been suggested that mycobacteria-associated phages (mycobacteriophages) may make an important contribution to the evolution of pathogenic mycobacteria. Spontaneous induction of phage associated with mycobacteria isolates using overlay and indicator plate methods was not successful to detect the presence of any inducible phage. A phage was isolated from soil samples that was designated the name A22. After purification and characterization. A22 phage was compared morphologically to well characterized L5 phage using electron microscopy. Morphological studies revealed that A22 mycobacteriophage had a non-contractile tail approximately 150 nm long with an isometric head approximately 60 nm, the phage could be assigned to the family Siphoviridae, According to these criteria, both of the phages (A22 and L5) belong to the order Caudovirales (tailed bacteriophages). Based on PCR amplification of A22 phage DNA using L5 gp71 specific primers and the infection of M. smegmatis L5 lysogen, we believe that this novel A22 phage differs from L5 phage.

Thesis (Ph. D.)--Oregon State University, 2009. / Printout. Includes bibliographical references (leaves 85-91). Also available on the World Wide Web.

Opportunistic pathogens (e.g., Legionella pneumophila, Mycobacterium avium complex, Acanthamoeba polyphaga, Pseudomonas aeruginosa) residing in human-made water systems, particularly premise plumbing, are now the primary source of water-borne disease in developed countries. The prevention and control of opportunistic pathogens is a new challenge in premise plumbing due to the limited knowledge concerning the factors driving their occurrence and regrowth mechanisms, and also the complexity of premise plumbing conditions. The goal of this study is to identify key factors governing occurrence of opportunistic pathogens in drinking water distribution systems, particularly premise plumbing, via field investigations and lab-scale experiments. A molecular survey of three opportunistic pathogens (L. pneumophila, M. avium, P. aeruginosa), related groups (Legionella and mycobacteria) and two amoeba hosts (Acanthamoeba spp. and Hartmanella vermiformis) was performed in two real-word chloraminated drinking water distribution systems using quantitative polymerase chain reaction (q-PCR). A high occurrence of Legionella (" 69.0%) and mycobacteria (100%), lower occurrence of L. pneumophila (" 20%) and M. avium (" 33.3%), and rare detection of Pseudomonas aeruginosa (" 13.3%) was observed in both systems. Hartmanella vermiformis was more prevalent than Acanthamoeba. Three-minute flushing resulted in reduced gene copies of Legionella, mycobacteria, H. vermiformis and 16S rRNA genes (P<0.05) and distinct microbial community structure in postflushing water, implying strong regrowth potential of opportunistic pathogens in premise pluming. In order to examine the influence of pipe material, disinfectant type, and water age on occurrence and persistence of the target microorganisms, triplicate simulated distribution systems (SDSs) comparing iron, cement and PVC pipe materials were fed either chlorinated or chloraminated tap water, and were sampled at water ages ranging from 1d to 5.7d. q-PCR quantification of target microorganisms in both biofilm and bulk water revealed that Legionella, mycobacteria, P. aeruginosa and both amoebas naturally colonized the six SDSs, but L. pneumophila and M. avium were not detected. Disinfectant type and dose have the strongest influence on the microbiota. Disinfectant decay was noted with water age, particularly in chloraminated SDSs (due to nitrification), generally resulting in increased microbial detection frequencies and densities with water age. Influence of pipe material became apparent at water ages corresponding to low disinfectant residual. Natural colonization of Legionella spp., Mycobacterium spp., Acanthamoeba spp., H. vermiformis and M. avium was also observed in biofilms from five annular reactors, which were used to investigate effects of prior granular activated carbon (GAC) biofiltration and disinfectant type (chlorine, chloramine) on opportunistic pathogens under premise plumbing conditions. GAC pre-treatment effectively reduced total organic carbon (TOC). In most cases, total bacteria and opportunistic pathogens were higher in undisinfected annular reactors, but the levels were not proportional to the level of GAC pre-treatment/TOC. Chlorine was more effective for controlling mycobacteria and Acanthamoeba, whereas chloramine was more effective for controlling Legionella. Both chlorine and chloramine effectively reduced M. avium and H. vermiformis numbers. Pyrosequencing of 16S rRNA genes in biofilms revealed a significant effect of GAC pre-treatment and disinfectant type on the microbial community structure. Overall, the study provides insights to critical factors triggering proliferation of opportunistic pathogens in drinking water systems. Knowledge gained from this study can assist in formulating practical guidance for drinking water utilities and water consumers in terms of opportunistic pathogen prevention and control. / Ph. D.

Macrophages are dynamic, plastic, and heterogeneous immune cells that play an important role in host immune defense against bacterial infection. Various bacterial pathogens, such as Neisseria meningitidis and Mycobacterium tuberculosis, can modulate host immune responses by interfering with macrophage differentiation and polarization. The focus of this thesis was to understand the role of macrophages in the pathogenesis of bacteria-induced diseases, which has important implications in the search for novel therapeutic strategies to control those infectious diseases. In Paper I, we found that NhhA, a conserved meningococcal outer membrane protein, can activate macrophages through both Toll-like receptor 4 (TLR4)-dependent and -independent pathways. In Paper II, we demonstrated that NhhA activates monocytes through TLR2 and triggers autocrine IL-10 and TNF production through the ERK and JNK pathways, which skew monocyte differentiation into CD200Rhi macrophages. These immune homeostatic macrophages are associated with nasopharyngeal carriage of meningococci. In Paper III, we examined the role of human CD46, a ubiquitous transmembrane protein, in regulating macrophage apoptosis, differentiation, and functional polarization. We revealed that macrophages expressing CD46 exhibit an M1 phenotype and are prone to generate proinflammatory cytokines, such as IL-6, TNF, and IL-12, upon lipopolysaccharide challenge or meningococcal infection. The important role of these macrophages in the development of septic shock was further confirmed by in vivo studies using a CD46 transgenic mouse disease model. M. tuberculosis, a gram-positive bacterium, remains an important cause of death in developing countries. In Paper IV, we reported that murine macrophages expressing human CD46 exhibit enhanced viability and bactericidal capacity and are prone to form granulomas following chronic mycobacterial infection. Increased understanding of host factor roles in the physiopathology of tuberculosis is critical for the design of effective vaccines and new drugs. / <p>At the time of the doctoral defense, the following papers were unpublished and had a status as follows: Paper 3: Manuscript. Paper 4: Manuscript.</p>

No description available.

Mycobacterium avium subsp. paratuberculosis (MAP) is the causative agent of Johne's disease, a chronic enteritis that has a damaging economic and welfare impact on the livestock industry. Johne's disease in cattle is known to reduce milk yield and carcass value, making it of economic concern to both dairy and beef farmers. In addition, there is cause for concern regarding zoonotic transmission, as there is an unconfirmed but potential relationship between MAP infection and human Crohn's disease, which presents similar clinical symptoms. MAP is most often contracted by neonates through the faecal-oral route, but can also be spread through contact with contaminated milk and colostrum, as well as in utero. Once the host receives an oral dose, the bacteria traverse the gut epithelium and are phagocytosed by gut macrophages residing in the lamina propria and Peyer's patches. MAP are able to evade the macrophage response by resisting intracellular degradation within phagosomes. Infected macrophages respond to the infection by secreting several pro-inflammatory cytokines that drive the downstream immune response and granuloma formation. This work aimed to elucidate key early responses of bovine monocyte derived macrophages (MDM) to MAP infection, and determine the reliability of using the reference strain, K10 (which is likely to have undergone lab adaptation) to model the infection in vitro, by comparing the MDM response to K10 with the response to a recent clinical isolate, C49. At a multiplicity of infection of 5 (MOI 5), there was a significant decrease in K10 intracellular survival (~90%), compared to C49 intracellular survival, over a 24 hour infection time-course. This suggests that K10 may have lost some virulence mechanism through lab adaptation. Understanding the mechanisms of how MDM respond to these two strains could be informative for the design of targeted vaccines When further investigating the MDM response to both strains, it was found that, at MOI 5, MDM infected with K10 secreted higher levels of IL-1β and IL-10, compared to MDM infected with C49. Both cytokines are associated with mycobacterial infection and could perhaps indicate that MDM are more responsive to the K10 strain at early time-points. In addition, MDM infected with K10 produced significantly higher levels of reactive nitrogen species (RNS). RNS are antimicrobial products that can destroy invading pathogens, and have been shown to have bactericidal effects on MAP. The production of RNS could, therefore be a potential mechanism by which MDM are able to kill K10 more efficiently than C49. An additional aim of this project was to understand the importance of the route of phagocytosis in determining the outcome of MAP infection. MDM express several phagocytic receptors, including Fc receptors (FcRs), complement receptors (CR), Ctype lectin receptors and scavenger receptors. This project mainly focused on the role of the mannose receptor (MR) on bacterial uptake and downstream immune responses, as past studies have suggested that other species of mycobacteria such as M. tuberculosis, target the mannose receptor in order to regulate macrophage immune responses. Blocking the MR reduced intracellular survival for both strains of MAP; however, the mechanism by which the MR influences intracellular survival remains poorly understood The effect of opsonisation on MAP prior to uptake by phagocytic cells was also investigated, as presence of opsonins, such a complement proteins and antibody, can change the mechanism by which pathogens are phagocytosed. MAP were incubated in serum from either MAP- negative or MAP- positive cattle, prior to infection and the percentage uptake and survival assessed by performing colony counts. Opsonisation in serum from Johne's negative cattle resulted in marked increase in MAP uptake but not intracellular survival, whereas opsonisation in serum from Johne's positive cattle did not increase uptake but decreased the intracellular survival rate by 24 HPI. This finding highlights a potential protective role of antibody early in the infection process, and could significantly impact how the infection is modelled in future, as anti-MAP antibody may be present in contaminated milk at the point of infection. Taken together, the data presented in this thesis show that bacterial strain has a significant impact on MDM response to MAP infection, which may have important implications for the interpretation of previous studies and the design of future studies investigating host-pathogen interactions in the context of paratuberculosis. Additionally, this work has shown that RNS production and the mechanism of uptake can affect intracellular survival rates, and although this needs further investigation, the findings could have implications for the design of future vaccines.