The cross-reactivity of mycobacterial antigens in immune-based diagnostic assays has been a major concern and a criticism of the current tests that are used for the detection of paratuberculosis. In the present study, Mycobacterium avium subsp. paratuberculosis recombinant proteins were evaluated for antigenic specificity compared to a whole-cell sonicate preparation ( A major struggle in the field diagnosis of paratuberculosis has been the cross-reactivity of serologic diagnostic tests with other mycobacteria. Of particular concern is the potential for false-positive identification of Mycobacterium avium subsp. paratuberculosis infection in animals that are either infected or have been exposed to M. avium subsp. avium (M. avium) or other environmental mycobacteria when using serum-based paratuberculosis diagnostic tests (1). Genomic studies have demonstrated a 98 to 99% homology between M. avium subsp. paratuberculosis and M. avium, making it difficult to identify antigens that will distinguish between exposures or infections with the 2 subspecies in a specific and sensitive manner (2, 3). The presence of M. avium in a wide breadth of environmental sources, such as water, soil, biofilms, and plants, as well as the contamination of feedstuffs and bedding by birds, makes cross-reactivity with current diagnostics for M. avium subsp. paratuberculosis a staunch reality (4, 5).In recent years, the reemergence of M. bovis infection in U.S. dairy herds has contributed to concerns about the cross-reactivity of M. avium subsp. paratuberculosis diagnostics in animals that are infected with or exposed to M. bovis. The development of new serodiagnostic tests based upon M. bovis antigens has improved the ability to distinguish between animals that have been either vaccinated or infected with M. avium subsp. paratuberculosis from those with bovine tuberculosis (6,7,8,9,10,11). Mycobacterium kansasii infections occur rarely in cattle, and cross-reactivity might be more of a concern with a bovine tuberculosis diagnosis; however, reports suggest that M. kansasii might share some epitopes with M. avium subsp. paratuberculosis, thereby confounding the diagnostic tests for paratuberculosis (12,13,14,15,16).Although numerous studies have evaluated M. avium subsp. paratuberculosis recombinant proteins as potential diagnostic tools, the ability of M. avium subsp. paratuberculosis proteins to discriminate between different mycobacterial infections has not been adequately addressed (17,18). This dearth of information is particularly evident for measures of cell-mediated immunity in animals exposed to different mycobacteria, as most studies report only serologic data based upon antigenspecific antibody responses. The present study is the first of its kind to compare immune responses to M. avium subsp. paratuberculosis antigens in calves infected with either live M. avium subsp. paratuberculosis, M. avium, M. bovis, or M. kansasii. Recombinant M. avium subsp. paratuberculosis proteins were compared to a whole-cell sonicate preparation of ...