Stress causes significant disorders in gastrointestinal tract whitch results in appearance of functional diseases such as functional dyspepsia, inflammatory bowel disease (ulcerative colitis, Chron`s disease) and irritable bowel syndrome. Although pharmacotherapy is usually used as primary therapeutic method in this diseases, it is symptomatic, can cause various side effects, interactions with other drugs and also it is highly priced. However, a growing body of evidence point to effectiveness of alternative measures in reducing the impact of stress on the gastrointestinal system. These measaures include implementation of probiotics, prebiotics, fecal microbiota transplantation, change in diet, cognitive behavioural therapy, mindfulness, acupuncture, hypnotherapy and psychotherapy. However, despite the safety and low costs of these alternative approaches, they are often neglected in the daily practice of pharmacy counseling. Written thesis describes the known mechanisms by which stress causes disordes in the gastrointestinal system, as well as diseases that occur as the result of long-term exposure to stress. Furthermore, the thesis pays attention to alternative methods for which there is evidence of their effectiveness in the treatment of GIT disorders. The aim of the detailed literature research used to write this thesis is raising the pharmacists' awareness about the connection between stress and the gastrointestinal system as well about alternative approaches that can be applied when counseling patients in pharmacies with the aim of providing complete information related to functional diseases of the GIT as well as patient support in relation to stress managament and maintaining the health of the gastrointestinal system.