Mycoplasma synoviae is the most common prerequisite for other microbial outbreaks. In that case G. anatis, which is commensal of the upper respiratory tract in poultry, spreads easily to the lower parts of the respiratory tract or through the reproductive system to abdominal cavity. M. synoviae causes subclinical infection of the upper respiratory tract as well as systemic infection with lower egg shell quality. It starts as a respiratory infection which causes airsacculitis and leads to development of other secondary respiratory pathogens. G.anatis causes drop in egg production and leads to lower egg shell quality, depression and diarrhea. Moreover, in cases of chronicle illness, purulent peritonitis is developed. Predisposing disease factors include genetics, stress, hormonal and metabolical disorders, unsuitable zoohygienic conditions along with infections caused by other microorganisms. The purpose of this study was to determine the correlation in prevalence of these two pathogens as well as mutual correlation of their quantity. The aim was to discover possible synergy between M.synoviae and G.anatis. Research has been done on sixteen flocks from eight different farms. The method of choice was qPCR because of its sensitivity and specificity. qPCR guaranty an early stage disease detection what is important for prophlylaxis development. There was statistically significant correlation in analyzed samples regarding prevalence of both pathogens on the farms with significantly higher average levels of G.anatis compared to M.synoviae. However, there was no correlation regarding their number. Therefore, the results of this study indicate that further research and monitoring should be carried out in order to ensure good flock health and production practice.