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    v1.0.28
    OpenPayerBilling CodesFecal Microbiota Transplantation ProcedureCPT cpt-0780t-fecal-microbiota-transplantation-rectal-enema
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    CPT 0780T: Fecal Microbiota Transplantation via Rectal Enema

    CPT code 0780T describes a fecal microbiota transplant performed by administering donor fecal bacteria to a recipient via a rectal enema; this is a therapeutic microbiota transplantation procedure typically classified as an outpatient therapeutic procedure and is usually performed in an endoscopy suite, outpatient clinic, or ambulatory surgery center depending on clinical context and facility capabilities.

    For related coverage guidance, see recent payer policy updates: Esophagogastroduodenoscopy (EGD) Coverage Policy, Magnetic Sphincter Augmentation for the Treatment of Gastroesophageal Reflux Disease (GERD), Fecal Analysis in the Diagnosis of Intestinal Dysbiosis and Fecal Microbiota Transplant Testing.

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    Clinical & Coding Specifications

    Clinical Context

    A typical patient is a 45–75-year-old adult with recurrent Clostridioides difficile infection (rCDI) unresponsive to standard antibiotic therapy, or a patient with other investigational indications enrolled in a clinical protocol. The clinical workflow begins with referral from the gastroenterology or infectious disease clinic. Pre-procedure steps include donor screening (medical history, infectious disease testing), informed consent, medication reconciliation (holding antibiotics per protocol), and bowel preparation as indicated. On the day of service the procedure is performed in an outpatient endoscopy or ambulatory procedure suite. The provider prepares the donor fecal material, typically processed and suspended in isotonic solution, and administers the preparation via rectal enema to the recipient. The patient is monitored for immediate adverse events for a short post-procedure observation period and receives discharge instructions including signs of infection or adverse reaction and follow-up appointments. Documentation includes donor screening records, recipient consent, lot/identifier for the transplant material, procedural note describing enema administration, and post-procedure monitoring and instructions.

    Related CPT Codes

    CPT CodeDescriptionRelationship to This Procedure
    45378Diagnostic colonoscopy, flexible; with biopsy, single or multipleMay be performed prior to fecal transplant to evaluate colonic pathology or obtain biopsies when clinically indicated.
    45380Colonoscopy, flexible; with removal of tumor(s), polyp(s), or other lesion(s) by snare techniquePerformed if therapeutic polypectomy is required during the same encounter; modifier 51 may apply when billed with the enema procedure.
    96372Therapeutic, prophylactic, or diagnostic injection (specify substance or drug); subcutaneous or intramuscularMay be used for administration of adjunctive medications (e.g., antiemetics) in the peri-procedural period.
    99499Unlisted evaluation and management serviceMay be used for non-standard pre-procedure counseling or coordination not represented by other E/M codes when billed separately, subject to payer rules.
    87491Infectious agent antigen detection by immunoassay with direct optical observation; Clostridium difficile toxin A and BRepresents laboratory testing relevant to diagnosis or follow-up testing for C. difficile prior to or after transplant (laboratory codes billed by lab providers).

    Related Modifiers

    12 rows

    ModifierDescriptionWhen to Use
    23Modifier -23 (Unusual Anesthesia) is used on anesthesia service CPT codes when a procedure that normally requires no anesthesia or only local anesthesia must be performed under general anesthesia…- Use modifier -23 only on anesthesia CPT codes (00100–01999) when a procedure that normally requires no anesthesia or only local anesthesia must be performed under general anesthesia because of…
    51Modifier –51 (Multiple Procedures) is used when the same provider performs multiple procedures in the same session to identify secondary, non‑exempt procedures and indicate payment reduction logic…- Use modifier -51 when the same provider performs multiple distinct procedures during the same patient encounter: report the highest‑valued procedure first (no modifier) and append -51 to…
    52Modifier ‑52 (Reduced Services) indicates that a service or procedure was partially reduced or omitted at the provider’s discretion, allowing reporting of the basic procedure number with a qualifier…- Use modifier -52 when a physician or qualified health professional electively reduces or omits part of a procedure or service (for example, performing fewer required views or omitting a portion of…
    53Modifier 53 (Discontinued Procedure) signals that a surgical or diagnostic service was begun by the physician but terminated because of extenuating circumstances that threatened the patient’s…- Use modifier -53 when a physician/qualified healthcare professional has started a surgical or diagnostic procedure (e.g., anesthesia administered, incision or scope insertion) and then discontinues…
    56Modifier ‑56 indicates the reporting provider furnished only the preoperative management for a surgical procedure and did not perform the intraoperative or postoperative care. It is used in…- Use Modifier -56 when a provider performs only the preoperative management in a split‑care situation (one physician manages preop care while a different physician performs the intraoperative…
    62Modifier 62 indicates that two surgeons function as co‑surgeons, each performing distinct parts of the same primary surgical procedure. It is appended to the primary procedure code (and any…- Use modifier -62 when two surgeons act as co‑surgeons (both primary surgeons) on a single definitive primary procedure, each performing distinct parts of the same surgical procedure (append -62 to…
    66Modifier 66 (Surgical Team) is used when three or more surgeons act as primary surgeons on a single, highly complex procedure. The AMA defines it for use when a surgical team — often composed of…- Use modifier 66 when three or more surgeons act as primary surgeons working collaboratively as a surgical team on a single, highly complex or difficult procedure (for example organ…
    73Modifier 73 indicates a facility-level outpatient hospital or ASC procedure that was discontinued after the patient was prepared and taken to the procedure/operating room but before any anesthesia…- When to use: Apply CPT modifier 73 on the FACILITY (outpatient hospital or ASC) claim when the patient has been fully prepared and physically taken into the procedure/operating room but the…
    78CPT modifier -78 indicates an unplanned, related return to the operating or procedure room by the same provider during the global postoperative period. It is appended when treatment for a…- Use modifier -78 when an unplanned, related complication during the original procedure’s global postoperative period requires the patient to return to a formal operating or procedure room and the…
    80CPT® Modifier 80 (Assistant Surgeon) is appended to a surgical CPT code when a physician (MD or DO) provides full, continuous assistance throughout the operative procedure. It is intended only for…- Use CPT Modifier -80 when a physician (MD or DO) serves as an assistant surgeon and provides full, continuous assistance throughout the entire operative procedure; append -80 to the surgical CPT…

    Showing 1–10 of 12

    Related Provider Taxonomies

    8 rows

    Taxonomy CodeSpecialtyNotes
    207RC0000XCardiovascular Disease PhysicianAn internist who specializes in diseases of the heart and blood vessels and manages complex cardiac conditions such as heart attacks and life-threaten…
    208000000XPediatrics PhysicianA pediatrician is concerned with the physical, emotional and social health of children from birth to young adulthood. Care encompasses a broad spectru…
    207K00000XAllergy & Immunology PhysicianAn allergist-immunologist is trained in evaluation, physical and laboratory diagnosis, and management of disorders involving the immune system. Select…
    363L00000XNurse Practitioner(1) A registered nurse provider with a graduate degree in nursing prepared for advanced practice involving independent and interdependent decision mak…
    2278C0205XCritical Care Certified Respiratory TherapistRespiratory emergencies are commonplace in the treatment of critical care patients. Included in the assessment measurements conducted by the respirat…
    207RX0202XMedical Oncology PhysicianAn internist who specializes in the diagnosis and treatment of all types of cancer and other benign and malignant tumors. This specialist decides on a…
    364ST0500XTransplantation Clinical Nurse SpecialistPhysician Assistants & Advanced Practice Nursing Providers · Clinical Nurse Specialist
    2086S0102XSurgical Critical Care PhysicianA surgeon with expertise in the management of the critically ill and postoperative patient, particularly the trauma victim, who specializes in critica…

    Related ICD-10-CM Codes

    25 rows

    ICD-10-CM CodeDescription
    A03.9Shigellosis, unspecified
    A04.8Other specified bacterial intestinal infections
    A06.9Amebiasis, unspecified
    A07.2Cryptosporidiosis
    A09Infectious gastroenteritis and colitis, unspecified
    B96.81Helicobacter pylori [H. pylori] as the cause of diseases classified elsewhere
    E86.0Dehydration
    E86.9Volume depletion, unspecified
    F32.9Major depressive disorder, single episode, unspecified
    K50.00Crohn's disease of small intestine without complications

    Showing 1–10 of 25

    Related Payer Policy Updates

    Specialty: Gastroenterology1 / 3

    7 rows

    PolicyPayerEffective Date
    Esophagogastroduodenoscopy (EGD) Coverage Policyevicore2026-11-05
    Magnetic Sphincter Augmentation for the Treatment of Gastroesophageal Reflux Disease (GERD)univerahealthcare2026-10-15
    Fecal Analysis in the Diagnosis of Intestinal Dysbiosis and Fecal Microbiota Transplant TestingOscar Health2026-10-01
    Serum Testing for Hepatic Fibrosis in the Evaluation and Monitoring of Chronic Liver DiseaseOscar Health2026-10-01
    Pancreatic Enzyme Testing for Acute PancreatitisOscar Health2026-10-01
    Helicobacter pylori TestingOscar Health2026-10-01
    Celiac Disease TestingOscar Health2026-10-01

    Frequently Asked Questions

    References

    1. 1.CPT® Codes and Descriptions. AAPC. Retrieved Aug 11, 2026.Maintains the CPT code set's official descriptions and guidelines, licensed from the American Medical Association, used as the definitional source for CPT codes on this page.
    2. 2.HCPCS Quarterly Update. Centers for Medicare & Medicaid Services (CMS). Retrieved Aug 11, 2026.CMS's quarterly release of HCPCS Level II codes and short/long descriptors, the source for HCPCS code definitions and update history.
    3. 3.ICD-10-CM Full Code List. Centers for Medicare & Medicaid Services (CMS). Retrieved Aug 11, 2026.CMS's complete ICD-10-CM diagnosis code list, used to cross-reference diagnosis codes associated with this procedure or service.
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