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Enterohaemorrhagic Escherichia coli (EHEC) have recently emerged as significant zoonotic pathogens. O157:H7 is one of the most common EHEC serotypes associated with human disease, which is transmitted faeco-orally from a bovine reservoir. EHEC O157:H7 preferentially colonises the bovine terminal rectum (BTR). Injection of virulence factors by type-III secretion is necessary for colonisation of cattle and results in re-modelling of the host cytoskeleton. Flagella machinery is evolutionarily related to the Type III secretion apparatus and O157 strains lacking H7 flagella show reduced adherence to the BTR. Vaccination with FliC, the main component of H7 flagella, has the potential to protect cattle against E. coli O157:H7 infection. The focus of this work was to investigate the molecular basis for H7 flagella binding to the BTR, in order to understand the basis for FliCH7 being an immuno-protective antigen. H7 flagella were shown to adhere across the surface and penetrate into BTR epithelial cells. Both the FliC shaft and the FliD cap components of flagella filaments showed the capacity to adhere to BTR epithelial cells. Preliminary studies indicate that the current FliCH7 vaccination of cattle results in FliD-specific antibodies where oral challenge with O157:H7 does not. FliD is more conserved than FliCH7, which contains a predicted 88aa structural insertion, but variation occurs along the full length of the FliD protein. There was no evidence for post-translational modification of FliCH7. A number of actin binding proteins were identified as potential FliC and FliD binding partners from BTR epithelial cell lysates. From this, a panel of purified galectin-4, cofilin-1 and βγ-actin was used to compare binding of flagella from different pathogens. H7 flagella bound more to cofilin-1 than βγ-actin, whereas phase-1 and phase-2 flagella from Salmonella Typhimurium bound more to βγ-actin, than to cofilin-1. Size-exclusion chromatography indicated that cofilin-1 alters H7 flagella filament polymerisation dynamics. αβ-ctin polymerisation and depolymerisation experiments indicate that H7, phase-1 and phase-2 flagella interactions with actin affect actin dynamics.

Salmonella is an important food borne pathogen. Over 100,000 cases of human Salmonella infection are reported in the European Union each year, resulting in an economic burden estimated to be around 3 billion Euros per year (EFSA, 2012). In a European Food Safety Authority (EFSA) survey between 2006 and 2007 S. Typhimurium was the most common serovar of Salmonella isolated from pig carcasses (EFSA, 2008a). Pigs can be asymptomatic carriers of S. Typhimurium (Berends et al., 1996) and contaminated pork contributes significantly to the number of human infections. It has been estimated that the porcine Salmonella reservoir contributes between 10-20% of human salmonellosis cases per year (VLA, 2010). In addition to improvements in biosecurity and husbandry practices, immune-prophylaxis is an important method to reduce the prevalence of food borne pathogens such as Salmonella in reservoir species. An understanding of the molecular basis of bacterial colonisation and persistence in the reservoir host is crucial to rational vaccine design and targeting relevant species. S. Typhimurium expresses multiple surface factors involved in adherence and colonisation of gut epithelium in several host species. The aim of this project was to identify factors involved in S. Typhimurium colonisation of the porcine gut. The work presented here specifically focuses on the role of flagella in the colonisation of porcine gut epithelium. Flagella are motility organelles possessed by many bacterial species. Flagella can also function as surface adhesins, shown in Escherichia coli O157:H7 (Mahajan et al., 2009), and Pseudomonas (De Bentzmann et al., 1996, Lillehoj et al., 2002). Flagellin is the major flagellar filament structural protein approximately 50kDa in size. Salmonella enterica has the ability to switch between two alternate, antigenic forms of its flagellin filament protein, expressing either FliC or FljB (Macnab, 1996). The biological relevance of these two types of flagella filament protein is still not understood. It has been postulated that the presence of a second phase type of flagella may offer an advantage to the bacteria by avoiding recognition by the immune system. However, studies have shown that both FliC and FljB flagella activate Toll-like receptor-5 (TLR-5) mediated by nuclear factor (NF)-κB signalling (Simon and Samuel, 2007b). One specific objective of this research was to compare the role of flagellar phase types in S. Typhimurium adherence and colonisation of porcine gut. To this end a porcine colonic primary epithelial cell culture and ex vivo tissue explants were developed as in vitro infection models. Primary colonic cell cultures were phenotypically characterised using specific markers for epithelial and M cells. In addition to primary epithelial cell culture, porcine intestinal epithelial cell line, IPEC-J2, was also used for specific flagellar interaction studies. The role of flagella in interaction of S. Typhimurium to porcine intestinal epithelium was tested using S. Typhimurium strain SL1344 and flagella mutant derivative strains. Flagella mutant strains exhibited reduced binding to porcine intestinal epithelial cells. Purified flagella proteins were also shown to bind porcine intestinal epithelial cells. Moreover, flagella specific anti-sera suppressed S. Typhimurium adherence to both porcine intestinal epithelial cells as well as porcine colonic explants. The immuno-protective role of flagella as a potential S. Typhimurium vaccine candidate was tested during vaccine efficacy studies in pigs. Parenteral immunisation of pigs with purified FliC and FljB flagella proteins induced production of both IgG and IgA antibodies. The vaccination of pigs with Salmonella flagella provided some protection against challenge as fewer ileum tissue samples from the pigs in the vaccinated group tested positive for Salmonella. The intestinal contents from the vaccinated pigs tested for Salmonella post mortem appeared to also have lower levels of Salmonella compared to un-vaccinated controls, though these were not significantly different between groups. This project has identified flagella as one potential subunit of a multivalent subunit vaccine to help control salmonellosis in the porcine reservoir.

The recent increase in availability of next generation sequencing methodologies has led to extensive analysis of the genome of Clostridium difficile. In contrast, protein expression analysis, crucial to the elucidation of mechanisms of disease, has severely lagged behind. In this study, in-depth proteomic analysis of three strains of varying virulence, demonstrated previously in an animal model, has been undertaken against a background of the sequenced genomes. Strain B-1 is a historic, virulent, ribotype 005 clone, strain A represents the emerging hypervirulent 027 ribotype, while strain Tra5/5, ribotype 001, is of low virulence. To undertake a comprehensive overview of the expressed proteome, both 1D and 2D gel electrophoresis were used to separate and display the protein content of each isolate. This was coupled to MALDI-TOF and LC-MS/MS mass spectrometry for protein identification. A total of 888 different proteins were characterised by comparative analysis of isolates grown in parallel for 64 hours on blood agar. Of these, only 38% were shared between all isolates. An additional 350, 243 and 398 proteins were detected from broth cultures, and the use of a hexapeptide bead library, designed to capture low abundance proteins, led to the detection of a further 148, 127, and 171 proteins in strains A, B-1 and Tra5/5 respectively. Relative differential expression was investigated using Differential In Gel Electrophoresis (DIGE), and five proteins were shown to have a statistically higher concentration in strain A, twelve in strain B-1 and eight in strain Tra5/5. A number of these were surface proteins, with selected S-layer proteins found to be up-regulated in each strain, and the flagellar protein, FliC, up-regulated in both A and B-1. Furthermore, differential post-translation modification events were seen in flagellar and S-layer proteins. In-vivo expression of these proteins was mapped using Western blotting. Immunodetection of the majority of these, including FliC and the high molecular weight S-layer protein, were conserved between the three strains, but a notable series of immunoreactive protein spots were present in strains A and Tra5/5 but not B-1, most likely corresponding to an additional S-layer protein present in the genomes these strains, but not that of B-1. Protein expression differences for a number of previously proposed virulence proteins were evident between strains, including toxin B, sporulation, flagella and the S-layer proteins, metabolic enzymes, stress response proteins and ABC transporters. This study strongly supports the view that the virulence of Clostridium difficile is multifactorial, and that a number of related factors, although not directly required for pathogenicity, may serve to modulate the virulence of individual strains.