In alternative embodiments, the invention provides compositions and methods for treating various disorders and conditions in mammals, including
chronic disorders in which there is a presence of an abnormal microbiota or an
abnormal distribution of microflora in the
gastrointestinal tract. In alternative embodiments, the invention provides liquid preparations or formulations derived from a human fecal material (e.g., a stool) processed, e.g., filtered and / or centrifuged, such that all
bacteria, fungal spores and viruses are removed, but retaining the native biologically active molecules from the fecal material and bacteriophages. In alternative embodiments, the invention provides a "rough-", "incomplete-" or medium- filtered microbiota which still comprises native physiological components or nutritive agents for the
bacteria, e.g., retains native biologically and nutritionally
active components. In alternative embodiments, the invention provides a highly filtered or substantially purified microbiota in combination with, or having added back, a liquid preparation or formulation of the invention. In alternative embodiments, the invention provides compositions or formulations where the
bacteria, or microbiota, component has been cultured, or cultured under anaerobic conditions, or harvested, stored and / or cultured under anaerobic conditions. In alternative embodiments, the invention provides various additives, compositions and donor restrictions for treating these disorders and conditions.