Spiroplasma apis and Spiroplasma melliferum are known as honey bee pathogens and are detected by unspecific methodologies like culturing or dark field microscopy. We developed a multiplex PCR being able to differentiate between both species and detect the genus Spiroplasma. This PCR can directly be used on culture samples or on DNA extracted bees. By PCR on cultured samples we were able to identify S. apis in Bombus pratorum and S. melliferum in Bombus pascuorum.