Clostridium perfringens is the aetiological agent of Necrotic enteritis (NE); a disease that impacts on the health and welfare of broilers. This disease is a large cost to the industry and presents as lesions in the small intestine hindering productivity. Antibiotics are commonly used to treat NE but as pressure increases to limit their use further information about disease onset and broiler responses to the bacteria and it’s virulence factors during infection is required to implement new preventative measures and treatments. NetB is a secreted toxin from C. perfringens which has an important role in NE onset. Using an in situ intestinal loop model we have been able to characterise: I) temporal broiler responses to NetB positive bacterial culture supernatant (Chapter 2), ii) early host responses to different isolates possessing NetB (virulent) or not (avirulent) in the presence or absence of bacterial cells (Chapter 3) and iii) the responses of two commercial broiler breeds (Chapter 4) four hours post exposure. Samples collected from these experiments have been used for histology, mRNA expression and immunohistology. We have shown differences in mRNA expression in the duodenum of broilers after exposure to C. perfringens cells as well as the culture supernatant from the isolates used after four hours. The presence of bacteria cells resulted in up-regulation of pro-inflammatory cytokine, IFN-γ, mRNA, whereas it resulted in down-regulation of B-LA, mRNA a gene involved in presentation of pathogens to immune cells. IL-6 mRNA expression was also reduced in the presence of virulent isolates. This could indicate a possible evasion strategy for C. perfringens in broilers. Immunohistochemical analysis indicated that slower growing broilers have increased numbers of immune cells (macrophages and γδ T cells) in their duodenum compared with faster growing broilers, although this did not appear to have an effect on mRNA expression levels of pro-inflammatory cytokines, 4h post antigen infusion. Overall we detect greater changes when bacteria are included with culture supernatant and have highlighted possible mechanisms for C. perfringens to avoid the broiler immune system. Induction of NE in the literature requires pre-disposing factors, including co-infection with other intestinal pathogens and dietary manipulation of the host. The final experiment trialled protocols administering a virulent isolate of C. perfringens in-feed and via gavage along with an increased protein source to induce NE (Chapter 5). These models were not considered to be consistent for further investigation of NE in the future.

Clostridium perfringens is a Gram-positive bacterium that secretes a biofilm matrix material. The goal of these experiments was to identify pilin mutants that are needed for secretion of the biofilm matrix and develop a functional model for a type II secretion system (T2SS) in C. perfringens. Protein tagging, western blot, and slot blot experiments were done to quantify protein secretion. After performing experiments using a CPE0515-FLAG construct, it was concluded from immunoblot densitometry data that, except for the pilA1 deletion mutant, none of the 18 tested pilin mutants had a statistically significant difference from the wild type (WT) with regard to protein secretion. From slot blot densitometry assays, it was concluded that the pilA1 and CPE2280 mutants showed statistically significant lower values than the WT but the pilA2 and CPE1841 mutants had values that were higher than the wild type. Testing the construct containing only CPE0514 and CPE0515-FLAG showed that CPE0516 and CPE0517 are not needed for secretion of the protein CPE0515. HA-tagged CPE0516 qualitative immunoblots showed that, unlike CPE0515, oligomerization of CPE0516 is not occurring, and that this protein likely forms a heat stable dimer. Overall, the data did not allow us to construct a T2SS model, since there were not enough proteins revealed to be involved to create a complete Type II secretion system. / Master of Science / The methods by which C. perfringens can persist and survive in environmental conditions is something that would be useful to learn more about. One of the methods that many bacteria use to survive is by creating a biofilm matrix material, which provides protection for the bacteria from environmental stresses. In this study, the goal was to determine which specific proteins are needed for the secretion of the biofilm matrix material. Using molecular biology techniques, the proteins thought to be involved in biofilm formation quantified. The results showed that while two proteins ultimately appeared to be needed for secretion, there were not enough proteins involved to create a complete model for a functional secretion system in C. perfringens.

This study was conducted to determine if alternative heating times and slower cooling times, other than those defined by FSIS, could be utilized and still comply with FSIS performance standards. Large (10.43 to 12.25 kg), cured bone-in hams (n = 190) and large (greater than or equal to 9.07 kg), uncured beef inside rounds (n = 180) were utilized in a two-phase study. Phase 1 of the study investigated the effect of alternative lethality parameters on toxin production of Staphylococcus aureus and log reduction of Salmonella Typhimurium and coliforms. Both the hams and roast beef were subjected to 1 of 10 treatments defined by varying final internal product temperatures (48.9 degrees C, 54.4 degrees C, 60.0 degrees C, 65.6 degrees C, or 71.1 degrees C) and smokehouse relative humidities (50% or 90%). Phase 2 investigated the effect of alternative stabilization parameters on log growth of Clostridium perfringens. Stabilization treatments extended the times taken to reduce internal product temperature from 54.4 degrees C to 26.7 degrees C and from 26.7 degrees C to 7.2 degrees C (ham) or 4.5 degrees C (beef), independently. Further, a control treatment following current FSIS, Appendix B guidelines was conducted for ham, and a "worst case" scenario was assessed for both products. The "worst case" treatment evaluated the effects of cooling products at room temperature (approximately 22.8 degrees C) in place of normal cooling procedures in a temperature controlled environment. Results of the study showed at least a 6.5-log10 reduction in S. Typhimurium across all lethality treatments for both products. Further, coliform counts also were reduced significantly, and S. aureus toxin kits returned negative results for toxin production for all treatments of ham and roast beef. Stabilization showed less than 1-log growth of C. perfringens for any treatment, with the exception of the "worst case" scenario for roast beef. As expected, > 1 log growth of C. perfringens was found for uncured roast beef maintained at room temperature for cooling. This study supports that there are multiple time and temperature combinations, other than those currently provided by FSIS, which may be utilized for cooking and cooling large roast beef and bone-in ham products while still meeting FSIS lethality and stabilization microbiological performance standards.

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Clostridium perfringens entérotoxinogène figure parmi les principales causes de toxi-infection alimentaire dans le monde. L’utilisation d’une approche par culture bactérienne classique pour isoler C. perfringens entérotoxinogène dans la viande de volailles est courante. Cependant, cette méthode d’isolement de ce microorganisme s’appuie sur le phénotype d’une double hémolyse attribuable, alors que peu des souches entérotoxinogènes de C. perfringens n’en produisent. Cet aspect complique ainsi l’étude des réservoirs de cet important pathogène. Les objectifs de cette étude étaient de valider la capacité d’une sonde marquée à la digoxigénine à détecter le gène cpe codant pour l’entérotoxine de C. perfringens et de valider l’utilisation d'une approche d'isolement combinée à l'hybridation sur colonie pour détecter C. perfringens entérotoxinogène. Des échantillons de liquides de rinçage de carcasses de poulets de chair ont été utilisés pour la réalisation de la présente étude. L’ADN et colonies lysées de souches entérotoxingènes de C. perfringens, et des échantillons de liquides de rinçage de carcasses de poulets de chair ont été soumis à la méthode d'hybridation sur colonie afin d'identifier la présence du gène cpe de C. perfringens. Les résultats de cette étude ont montré que la sonde d’ADN synthétisée est spécifique et sensible, permettant ainsi la détection du gène cpe de C. perfringens à partir de séquences d’ADN et de colonies lysées d’une souche contrôle de C. perfringens positifs au gène cpe, mais aussi à partir de colonies isolées des échantillons de liquides de rinçage de carcasses de poulets de chair contaminés artificiellement par C. perfringens entérotoxinogène. Notre étude suggère que cette méthode d’isolement combinée à l’hybridation sur colonie permet de récupérer C. perfringens entérotoxinogène à partir d’échantillons de liquides de rinçage de carcasses de poulets de chair. / Enterotoxigenic Clostridium perfringens is one of the main causes of foodborne illness worldwide. The use of a conventional bacterial culture approach to isolate enterotoxigenic C. perfringens from poultry meat is common. However, this method relies on the phenotype of attributable double hemolysis, whereas few enterotoxigenic strains of C. perfringens produce it. This aspect complicates the study of the reservoirs of this important pathogen. The objectives of this study were to validate the ability of a digoxigenin-labeled probe to detect the cpe gene encoding C. perfringens enterotoxin and to validate the use of an isolation approach combined with hybridization on colony to detect enterotoxigenic C. perfringens. DNA and pure colonies of enterotoxigenic strains of C. perfringens, and samples of broiler carcass rinses were subjected to the colony hybridization method to identify the presence of the cpe gene encoding the C. perfringens enterotoxin. The results of the present study revealed that the synthesized DNA probe is sensitive, thus allowing the detection of the cpe gene of C. perfringens from DNA sequences and from lysed colonies of a control strain of C. perfringens positive for the cpe gene. The probe also hybridized to the DNA of lyzed colonies isolated from carcass rinsates artificially contaminated with cpe-positive C. perfringens. Our study suggests that this isolation method combined with colony hybridization allows the recovery of enterotoxigenic C. perfringens from broiler carcass rinse fluid samples.