Epidemiological surveillance of gastrointestinal communicable diseases in Slovenia from 1999 to 2009 Introduction: The surveillance of infectious diarrhoea (ID) in Slovenia is based on the Law on Communicable Diseases (Official Gazette 33 / 06) and the Act on Registration (Official Gazette 16/99). The incidence of ID is based on passive notification. Methods: The epidemiological situation of infectious diarrhoea in Slovenia from 1999 to 2009 was estimated. The estimation was based on notifications. Results: From 1999 to 2009, the incidence of all ID inclusive of bacterial, viral and unknown etiology increased. The incidence of all ID increased for 61% from 1999 to 2009 in spite of decrease of incidence of bacterial ID. The incidence of viral enteritis increased: the incidence of rotavirus enteritis by 80% and the incidence of norovirus enteritis by 360%. On the contrary, the incidence of bacterial gastroenterocolitis decreased. The decrease in incidence was greatest for salmonella ID (71%), then E.coli ID (53%) and campylobacter ID (32%). The average incidence of all ID from 1999 to 2009 was 536 / 100 000 inhabitants. Conclusions: Notifications for all ID comprise a quarter of all the notifications of all infectious diseases and remain an important public health problem. PUBLICATION ABSTRACT