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Gumboro Disease in Poultry - Symptoms and Treatment Pathogenic bacteria in the gastrointestinal tract of animals produce toxins or specific proteins that damage or impair the intestinal wall. This process affects the animal's immune system and can sometimes cause inflammation in the gastrointestinal tract. Common pathogens found in poultry and swine include Salmonella spp., Escherichia coli, Clostridium perfringens, Clostridium difficile, Campylobacter spp., Yersinia spp., and Shigella spp. (Referencing Wiriya, 2019). In this article, SAS focuses on a key pathogen in the broiler chicken industry: Escherichia coli (E. coli).