Microorganisms living in the form of symbiosis in the intes tine are called gut microbiota. The gut microbiota consis ts of bacteria, archaea, and eukaryotes. Nonetheless, bacteria are the dominant population of the gut microbiota. The gut microbiota has a beneficial relationship with humans. About 10 14 microorganisms inhabit in the intes tine, which regulate many physiological functions. In addition to the microbiota effect on the diges tive tract, these microorganisms can regulate the function of the brain and the central nervous sys tem. The intes tinal nervous sys tem according to the being autonomous and similarity to the central nervous sys tem is known as the second brain. Conclusion: The gut microbiota is an effective factor in the behavior and mood changes and it also prevents the development of the nervous sys tem diseases, such as multiple sclerosis, autism, schizophrenia, Alzheimer, and Parkinson. The gut microbiota regulates the function of the central nervous sys tem through the intes tinal nervous sys tem, the production of metabolites, the s timulation of enteroendocrine cells, and the immune sys tem. Inappropriate nutrition, excessive use of antibiotics, s tress, anxiety, and depression dis turb the balance of microbiota (dysbiosis), which is an important factor in exacerbating the nervous sys tem diseases.