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    OpenPayerBilling CodesProprietary Laboratory AnalysesCPT cpt-0010u-bacterial-typing-whole-genome-sequencing-mayo-clinic
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    CPT 0010U: Bacterial Typing by Whole Genome Sequencing, Mayo Clinic

    CPT code 0010U is a Proprietary Laboratory Analyses (PLA) code describing Bacterial Typing by Whole Genome Sequencing performed by Mayo Clinic; the service involves genomic sequencing of multiple identified bacterial cultures to determine genetic types and report degrees of relatedness, classifying isolates for epidemiologic or infection-control purposes. Service type: diagnostic genomic sequencing / infectious disease testing. Typical site of service: clinical molecular or microbiology laboratory handling cultured bacterial specimens, with results reported to ordering clinicians or infection prevention teams.

    For related coverage guidance, see recent payer policy updates: Oral Cancer Screening and Testing, RTM Testing for Alpha-1 Antitrypsin Deficiency, Cytochrome P450 Genotype-Guided Treatment Strategy Corporate Medical Policy.

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    Clinical & Coding Specifications

    Clinical Context

    A hospitalized patient in a tertiary care center develops multiple bacterial infections from different culture sites during a suspected nosocomial outbreak. The patient is a 68-year-old with recent surgery who has positive cultures for the same bacterial species from a surgical wound, blood, and urine. Infection control and the clinical microbiology team request bacterial typing by whole genome sequencing to determine whether isolates are genetically related and to guide outbreak investigation. Specimens (identified bacterial cultures) are submitted from the hospital microbiology lab to the Mayo Clinic reference laboratory. The laboratory performs whole genome sequencing on each isolate, analyzes single nucleotide polymorphism (SNP) differences, assigns sequence types, and generates a report of genetic relatedness for infection prevention, epidemiology, and treating clinicians. Typical workflow steps include: ordering the PLA test on the microbiology panel, obtaining transport of cultured isolates, accessioning and sequencing at the reference lab, bioinformatic analysis, and distribution of the final report to the infection control team and ordering clinician. Typical site of service is a hospital laboratory or reference laboratory; ordering originates from inpatient wards, intensive care units, or the infection prevention office.

    Related CPT Codes

    CPT CodeDescriptionRelationship to This Procedure
    0010UBacterial typing by whole genome sequencing (Mayo Clinic)Primary PLA code describing whole genome sequencing and related analysis for multiple bacterial isolates to determine genetic relatedness
    87110Culture, bacterial, any source, except blood, aerobic, colony count not includedPerformed prior to sequencing to obtain isolates; cultures establish growth and identification
    87040Culture, bacterial; blood, aerobic and anaerobicBlood cultures may yield isolates that are subsequently submitted for WGS typing
    87177Identification by DNA probe, each organismSupplemental molecular identification sometimes used before or alongside sequencing
    87999Unlisted microbiology procedureUsed rarely for other non-standard molecular tests when no specific PLA exists; administrative alternative in complex workflows
    88291Microbial genotyping, infectious agent, amplified probe, each organismOther molecular genotyping methods that may be performed instead of or prior to WGS for typing

    Note: If payor-specific bundling or PLA handling policies apply, coding and claim adjudication may vary by payer (Aetna, Blue Cross Blue Shield, Cigna Health, UnitedHealthcare, BUCA, Medicare).

    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…
    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…
    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…
    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…
    22Modifier –22 (Increased Procedural Services) is used when a reported procedure is substantially more extensive than normally required. The CPT Manual and CMS state it may be appended only when the…- When to use: Append modifier -22 to a procedural CPT code when the service performed is substantially more extensive than the usual service described by that code — i.e., the procedure required…
    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
    207RH0000X
    207K00000X
    207LP2900X
    207L00000X
    208D00000X
    207WX0107X
    207QB0002X
    156FX1900X

    Related Payer Policy Updates

    Specialty: Genetic & Molecular Testing1 / 3

    10 rows

    PolicyPayerEffective Date
    Oral Cancer Screening and TestingOscar Health2027-01-01
    RTM Testing for Alpha-1 Antitrypsin DeficiencyOscar Health2027-01-01
    Cytochrome P450 Genotype-Guided Treatment Strategy Corporate Medical Policybcbsvermont2027-01-01
    Carrier Testing Panels for Genetic Diseases (for Kentucky Only)UnitedHealthcare2026-10-01
    Genetic Testing for Neurological Disorders (for Kansas Only)UnitedHealthcare2026-10-01
    Genetic and Molecular TestingProvidence Health Plan2026-10-01
    Cell-Free Fetal DNA Testing (for Idaho Only)UnitedHealthcare2026-10-01
    Next Generation Sequencing for Minimal Residual Disease DetectionProvidence Health Plan2026-10-01
    Pharmacogenetic Panel Testing (for Kansas Only)UnitedHealthcare2026-10-01
    Non-Covered Genetic Panel TestsProvidence Health Plan2026-10-01

    Related Codes

    CPT-0001U-PRECISETYPE-HEA-MULTIPLEX-RBC-ANTIGEN-GENOTYPING

    CPT 0001U: PreciseType HEA Erythrocyte Antigen Genotyping

    CPT-0002U-POLYPDX-URINE-METABOLOMIC-ASSAY-ADENOMATOUS-POLYP-RISK

    CPT 0002U: PolypDX™ Urine Metabolomic Risk Assay

    CPT-0003U-OVAR-A-NEXT-GENERATION-OVARIAN-CANCER-RISK-ASSAY

    CPT 0003U: Overa (MIA2G) Ovarian Cancer Risk Assay

    CPT-0005U-PROSTATE-EXOSOMEDX-INTELLISCORE-GENE-EXPRESSION-URINE-TEST

    CPT 0005U: ExosomeDx Prostate (IntelliScore) urine gene expression test

    CPT-0007U-TOXPROTECT-URINE-DRUG-SCREEN-WITH-DNA-AUTHENTICATION

    CPT 0007U: ToxProtect Urine Drug Screen With DNA Authentication

    CPT-0008U-H-PYLORI-ANTIBIOTIC-RESISTANCE-SEQUENCING-PANEL

    CPT 0008U: H. pylori Antibiotic Resistance Gene Panel

    CPT-0009U-DEPARRAY-HER2-FISH-TUMOR-CELL-ISOLATION

    CPT 0009U: DEPArray HER2 Tumor‑Cell Isolation with FISH Analysis

    CPT-0011U-CORDANT-CORE-ALGORITHMIC-ORAL-FLUID-DRUG-TEST

    CPT 0011U: Oral Fluid Drug Test with Algorithmic Steady‑State Comparison

    CPT-0016U-BCR-ABL1-MAJOR-MINOR-FUSION-TRANSCRIPT-TESTING

    CPT 0016U: BCR–ABL1 Major and Minor Breakpoint Fusion Transcripts

    CPT-0017U-JAK2-MUTATION-UNIVERSITY-OF-IOWA

    CPT 0017U: JAK2 Mutation Sequencing, University of Iowa

    Showing 1–10 of 536

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    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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