Also see: Autoimmunity and Intestinal Flora Bacterial overgrowth in the small intestine can be caused by hypothyroidism (Lauritano, et al., 2007), and the substances produced by these bacteria can damage the lining of the small intestine, causing the loss of lactase enzymes (Walshe, et al., 1990). -Ray Peat, PhD from “Milk in context: allergies, ecology, [...]