Most of the concern about foodborne disease has been focused on the immediate effects of acute infection. Recent information has shown that many of these foodborne infections also have long-term sequelae with serious health effects and a significant economic impact. To increase the awareness of animal health professionals to these sequelae, the authors discuss two groups of sequelae which are strongly associated with preceding infection (reactive arthritides, including Reiter's syndrome, and the Guillain-Barré syndrome) as well as the possible association between Crohn's disease and Mycobacterium paratuberculosis. The discussion includes a description of the disease syndromes along with epidemiological and economic information. More reliable epidemiologial and economic data on chronic sequelae to foodborne disease will be needed for future evaluation of the cost-effectiveness of mitigation strategies to reduce the occurrence of foodborne pathogens.