Johne's Disease or paratuberculosis is a mycobacterial infection of ruminants and has a global economical impact. Mycobacterium avium subsp. paratuberculosis is the cause of this disease. It reduces milk production, cause chronic weight loss leading death and major losses. Acute phase reactions are defined as minimum 25% increase or decrease in serum concentrations of acute phase proteins which are triggered by pro or antiinflammatory cytokines released from various cells or tissues. The aim of the study was to investigate the effect of Mycobacterium avium subsp paratuberculosis on blood parameters, some acute phase proteins, cytokines and hepcidin in naturally infected goats with paratuberculosis. In this study, total 45 Saanen goats aged 2-5 years from both sex were used as animal material. Study group were included 35 and control group were included 10 animal for evaluation. Complete blood counts were performed on blood taken from all animals. Also interleukin 6, interleukin 10, serum amyloid A, haptoglobin, fibrinogen, and hepcidin levels were evaluated from serum samples. As a result, interleukin 6 (p<0.01), interleukin 10 (p<0.01) serum amyloid A (p<0.001), haptoglobin (p<0.001), fibrinogen (p<0.05), and hepcidin (p<0.05) differences between groups were statistically important and they can be used to support the diagnosis of paratuberculosis.