USDA-ARS Dairy and Functional Foods Research Unit, Eastern Regional Research Center 1 article published in JoVE Bioengineering Applying Advanced In Vitro Culturing Technology to Study the Human Gut Microbiota Jenni Firrman1, LinShu Liu1, Pieter Van den Abbeele2, Ceylan Tanes3, Kyle Bittinger3, Peggy Tomasula1 1Dairy and Functional Foods Research Unit, Eastern Regional Research Center, Agricultural Research Service, United States Department of Agriculture, 2ProDigest, 3 Here, we present a protocol for culturing the gut microbiota of the colon in vitro, using a series of bioreactors that simulate the physiological conditions of the gastro intestinal tract.