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    v1.0.30
    OpenPayerBilling CodesSurgical Pathology ProceduresCPT cpt-88312-special-stain-microorganisms-technical-component
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    CPT 88312: Special Stain, Technical Component for Microorganisms

    Medicare pays $76 and commercial payers pay $82 on average nationally for this procedure.

    CPT code 88312 describes the technical component provided by a laboratory analyst who performs special staining of a specimen for microorganisms (Group I); the service is a special stain (technical processing) typically performed in a clinical laboratory or hospital pathology lab and results in prepared slides that are subsequently interpreted and reported by a qualified pathologist.

    For related coverage guidance, see recent payer policy updates: Destruction of Pre-Malignant Skin Lesions, Onychomycosis diagnostic testing and coverage, Treatment of Capillary Malformations (Port Wine Stains).

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    National Reimbursement Benchmarks

    National mean rates cluster with BUCA’s average commercial rate at $82.4 and Medicare’s mean at $76.2, placing Medicare slightly below the commercial aggregate. The proximity of these means—only $6.2 apart—suggests moderate alignment between a typical commercial benchmark and Medicare for CPT 88312, while individual commercial payers still have distinct central tendencies around those averages.

    Dispersion measured by the interquartile range (P75 minus P25) varies meaningfully: Aetna’s IQR is $77.4, Blue Cross Blue Shield’s is $51.9, Cigna’s is $81.3, UnitedHealth Group’s is $47.5, and BUCA’s is $63.1; Medicare’s IQR is $81. Since UnitedHealth Group and Blue Cross Blue Shield have the tightest IQRs ($47.5 and $51.9 respectively), they exhibit the least mid-range variability, while Cigna, Medicare, and Aetna show the widest mid-range spread (roughly $81–$77).

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    National Payer Mean Reimbursement Rates

    State Reimbursement Rates

    State: Alaska1 / 51

    Rate by payer

    Clinical & Coding Specifications

    Clinical Context

    A 52-year-old immunocompromised man with known HIV disease (B20) presents with cough, fever, and weight loss. Chest radiograph shows patchy infiltrates and the clinician suspects an opportunistic pulmonary infection such as tuberculosis (A15.0) or invasive fungal disease (eg, aspergillosis B44.9). A bronchoscopy is performed and bronchoalveolar lavage (BAL) and transbronchial biopsy specimens are submitted to the pathology laboratory. In the histology lab, a medical laboratory scientist performs a Group I special stain for microorganisms using CPT 88312 to highlight organisms (for example, acid-fast bacilli stains for mycobacteria or fungal stains for yeasts and hyphae). A board-certified pathologist reviews the stained slides, interprets the findings, and issues a final pathology report. The technical component (staining) is coded with 88312; the pathologist’s interpretation and report are typically billed separately (eg, 88313 when applicable). Typical site of service is an outpatient surgical center, hospital pathology laboratory, or independent diagnostic laboratory. The workflow includes specimen accessioning, fixation and slide preparation, performance of the special stain by laboratory personnel, slide quality control, pathologist review, and issuance of a diagnostic report to the ordering clinician.

    Related CPT Codes

    CPT Code

    Related Modifiers

    8 rows

    ModifierDescriptionWhen to Use
    26Modifier 26 (Professional Component) identifies and bills only the professional portion of a split service — the physician’s interpretation, report, and medical judgment — when the technical…- Use CPT Modifier -26 when you are billing only the professional component (PC) of a split‑bill eligible service—i.e., you performed the physician interpretation, medical judgment and prepared a…
    90Modifier ‑90 (Reference/Outside Laboratory) indicates that a laboratory test was performed by an entity other than the treating or reporting provider. The American Medical Association defines…- Use CPT modifier -90 when a laboratory test is performed by an outside/reference laboratory (an entity other than the treating or reporting physician or qualified professional) and the claim needs…
    91Modifier 91 — “Repeat Clinical Diagnostic Laboratory Test” — is appended when the exact same CPT laboratory test is performed more than once for the same patient on the same day because serial,…- Use modifier 91 when the exact same CPT laboratory test is performed more than once on the same patient on the same date because serial or repeated testing is medically necessary to monitor…
    59Modifier 59 indicates a distinct procedural service when two procedures that are not normally billed together are clinically and procedurally separate. The CPT definition (as reiterated by CMS)…- Use modifier -59 to report a distinct procedural service when documentation supports that the procedure reported is not normally billed together with another service on the same day because of a…
    76Modifier -76, Repeat Procedure or Service by Same Physician or Other Qualified Health Care Professional, is appended when the same provider performs an identical, medically necessary procedure or…- Use modifier -76 when the same physician or other qualified health care professional performs an identical procedure or service a second (or subsequent) time on the same date of service and the…
    77Modifier 77 indicates that a previously performed procedure or service was legitimately repeated by a different physician or other qualified health care professional. The AMA’s CPT definition…- Use modifier 77 when a basic procedure or service already performed is repeated by a different physician or other qualified health care professional (for example, a second provider independently…
    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…

    Related Provider Taxonomies

    8 rows

    Taxonomy Code
    207ZP0102X
    207ZP0101X
    207ZP0007X
    2278P1004X
    207RI0001X
    152WC0802X
    133VN1201X
    163WC2100X

    Related ICD-10-CM Codes

    29 rows

    ICD-10-CM CodeDescription
    A15.0Tuberculosis of lung
    A41.9Sepsis, unspecified organism
    B20Human immunodeficiency virus [HIV] disease
    B37.0Candidal stomatitis
    B44.9Aspergillosis, unspecified
    B95.1Streptococcus, group B, as the cause of diseases classified elsewhere
    B95.3Streptococcus pneumoniae as the cause of diseases classified elsewhere
    B96.5Pseudomonas (aeruginosa) (mallei) (pseudomallei) as the cause of diseases classified elsewhere
    C50.912Malignant neoplasm of unspecified site of left female breast
    D72.829Elevated white blood cell count, unspecified

    Showing 1–10 of 29

    Related Payer Policy Updates

    Specialty: Dermatology1 / 3

    10 rows

    PolicyPayerEffective Date
    Destruction of Pre-Malignant Skin LesionsAnthem2026-10-01
    Onychomycosis diagnostic testing and coverageOscar Health2026-10-01
    Treatment of Capillary Malformations (Port Wine Stains)universityofutahhealthplans2026-09-28
    AnzupgoCigna2026-09-15
    Zevaskyn Coverage for Recessive Dystrophic Epidermolysis BullosaCigna2026-09-01
    Topical Acne-Non-Retinoid ProductsCigna2026-08-15
    Dermatology - Vtama Drug Quantity Management Policy - Per DaysCigna2026-08-15
    Medical Necessity Guidelines: Acne and Rosacea Medicationsharvard pilgrim health care2026-08-11
    Dermatology - Anzupgo Prior Authorization PolicyCigna2026-08-05
    Light Therapy for Dermatologic Conditionsbcbsvermont2026-08-01

    Related Codes

    CPT-88300-LEVEL-I-SURGICAL-PATHOLOGY-GROSS-EXAMINATION-ACCESSIONING

    CPT 88300: Surgical Pathology, Level I Gross Examination

    CPT-88302-SURGICAL-PATHOLOGY-LEVEL-II-GROSS-AND-MICROSCOPIC-EXAMINATION

    CPT 88302: Surgical Pathology, Level II Gross and Microscopic Exam

    CPT-88304-SURGICAL-PATHOLOGY-LEVEL-III-GROSS-AND-MICROSCOPIC

    CPT 88304: Surgical Pathology, Level III Examination

    CPT-88305-SURGICAL-PATHOLOGY-LEVEL-IV-EXAMINATION

    CPT 88305: Surgical Pathology, Gross and Microscopic Examination, Level IV

    CPT-88307-SURGICAL-PATHOLOGY-LEVEL-V-EXAMINATION

    CPT 88307: Surgical Pathology Level V Examination

    CPT-88309-LEVEL-VI-SURGICAL-PATHOLOGY-EXAMINATION

    CPT 88309: Level VI Surgical Pathology Examination

    CPT-88311-DECALCIFICATION-SPECIMEN-PREPARATION

    CPT 88311: Decalcification Procedure for Tissue Specimens

    CPT-88313-SPECIAL-STAIN-TECHNICAL-COMPONENT

    CPT 88313: Technical Special Stain for Group II (e.g., iron, trichrome)

    CPT-88314-FROZEN-TISSUE-HISTOCHEMICAL-SPECIAL-STAIN

    CPT 88314: Frozen Tissue Histochemical Special Stain, Interpretation

    CPT-88319-ENZYME-SPECIAL-STAIN-PATHOLOGY-INTERPRETATION

    CPT 88319: Special Stain for Enzyme Constituents, With Interpretation

    Showing 1–10 of 47

    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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    Trek Health ingests and normalizes Transparency in Coverage data and payer policy updates to give provider organizations a clear view of how commercial reimbursement behaves across markets, payers, and services. Our platform transforms raw payer disclosures into structured intelligence that supports contract evaluation, payer negotiations, and service line strategy. By combining market benchmarks with ongoing policy visibility, Trek helps teams identify variability, risk, and opportunity in commercial reimbursement. The result is faster insight, stronger negotiating positions, and more informed financial decisions.

    Description
    Relationship to This Procedure
    88313Special stain including interpretation and report; group IIRelated special stain code where the pathologist’s interpretation and report are included; used when reporting Group II stains with interpretation.
    88321Consultation and report on referred material and/or preparation of slidesUsed when cases or slides are referred to another pathologist for consultation after stains are performed.
    88322Consultation and report on referred material and/or preparation of slidesAdditional level of consultation services for complex referral cases.
    88323Consultation and report on referred material and/or preparation of slidesFurther consultation code in the referral series.
    88324Consultation and report on referred material and/or preparation of slidesHigher-level consultative service related to referred pathology material.
    88325Consultation and report on referred material and/or preparation of slidesHighest-level consultative report for referred pathology material.