Indices of an Unbalanced Microbiome. Also, abnormal gut microbiota can cause symptoms like gas, bloating, diarrhea, consrummy plustipation, and food intolerances. The Secret to a Healthy Gut is Dietary Habits. Dietary habits can also be used to determine belly gold. A diet high in fruits, vegetables, fiber, & fermented foods can help support a balanced gut microbiota.