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CPT 0010U: Bacterial Typing by Whole Genome Sequencing, Mayo Clinic

CPT code 0010U designates a Proprietary Laboratory Analyses (PLA) test: Bacterial Typing by Whole Genome Sequencing developed by Mayo Clinic. This genomic sequencing assay characterizes multiple identified bacterial cultures to determine genetic type and report the degree of relatedness, supporting epidemiologic investigations, infection control, and outbreak detection. Nationally, PLA codes like 0010U matter because they identify laboratory tests that are unique to a single manufacturer or laboratory, affecting coverage, pricing, and clinical adoption for advanced molecular diagnostics.

Key payers addressed in this analysis include Aetna, Blue Cross Blue Shield, Cigna Health, UnitedHealthcare, and Medicare. Readers will find a concise overview of clinical purpose and service setting, an explanation of how the PLA designation shapes coding and billing, and what to expect in payer coverage considerations. The publication summarizes common modifier usage, typical sites of service, and places the test in clinical context for infection prevention and public health microbiology. It also outlines where input data were available and notes items marked as "Data not available in the input." The content is intended for billing managers, laboratory directors, and policy analysts seeking a national-level briefing on CPT code 0010U and its role in genomic bacterial typing.

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Billing Code Overview

CPT code 0010U is a Proprietary Laboratory Analyses (PLA) code that describes Bacterial Typing by Whole Genome Sequencing by Mayo Clinic. The code covers a genomic sequencing service performed on multiple identified bacterial cultures to determine genetic type and report degree of relatedness among isolates.

Service type: Genomic sequencing for bacterial typing (clinical laboratory service)

Typical site of service: Clinical reference laboratory or specialized molecular microbiology laboratory

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CPT 0010U: Bacterial Typing by Whole Genome Sequencing, Mayo Clinic

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Billing Code Overview

Service type: Genomic sequencing for bacterial typing (clinical laboratory service)

Typical site of service: Clinical reference laboratory or specialized molecular microbiology laboratory

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.

Coding Specifications

Modifier	Description	When to Use
`TC`	Technical component	Use when billing only the laboratory technical component (sequencing, bioinformatics) without professional interpretation billed separately
`26`	Professional component	Use when billing only the professional component (interpretation and report) separate from the lab technical work
`59`	Data not available in the input.	Data not available in the input.
`62`	Two surgeons	Rarely applicable; use if two qualified laboratorians or pathologists share distinct portions of professional work (institutional policy-dependent)
`78`	Return to operating/procedure room after intraoperative complication	Not applicable clinically to this lab test except in institutional billing workflows for combined services
`80`	Assistant surgeon	Not typically used for laboratory PLA codes; included for institutional policy reference
`QK`	Medical direction of two or more providers	Use if one pathologist medically directs multiple assistants in interpretation services
`QX`	Modifiers for assistant at surgery	Not typically applicable; included for completeness when assistant billing conventions exist
`QY`	Medical supervision by physician: more than four concurrent procedures	Rarely applicable; use only if supervision rules are met per payer policy
`22`	Increased procedural services	Use when documentation supports substantially greater lab effort or complexity (rare for standardized PLA sequencing)
`52`	Reduced services	Use when a reduced or partial sequencing service is performed and documented
`53`	Discontinued procedure	Use if sequencing was initiated but discontinued for documented clinical reasons
`AD`	Pathology code: Physician assisting at surgery	Sometimes used in pathology/workflow contexts per payer rules; not routine for PLA codes
`QY`	Data not available in the input.	Data not available in the input.

Taxonomy Code	Specialty	Notes
207RH0000X	Infectious Disease	Clinicians who order and interpret implications for patient management and infection control
207K00000X	Clinical Pathology	Pathologists who oversee laboratory testing, interpretation, and reporting of genomic analyses
207LP2900X	Clinical Laboratory	Clinical laboratory directors and technologists who perform sequencing and technical workflows
207L00000X	Medical Microbiology	Specialists in microbiology who select isolates, perform culture-based workup, and coordinate with reference lab
208D00000X	Public Health	Infection preventionists and public health laboratorians who use results for outbreak investigation

Related Diagnoses

ICD-10 Code	Description	Clinical Relevance
`A41.9`	Sepsis, unspecified organism	Sepsis with positive cultures may prompt typing to assess relatedness between isolates in a patient or cluster
`T81.4XXA`	Infection following a procedure, initial encounter	Postoperative infections where multiple isolates suggest a potential outbreak source
`Z11.59`	Encounter for screening for other bacterial diseases	Public health screening contexts when typing is used for surveillance and epidemiology
`A49.9`	Bacterial infection, unspecified	General bacterial infections when isolate typing informs management or epidemiology
`R78.81`	Bacteremia	Presence of bacteria in blood that require isolate comparison across sites or patients for outbreak control

Related CPT Codes

CPT Code	Description	Relationship to This Procedure
`0010U`	Bacterial 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
`87110`	Culture, bacterial, any source, except blood, aerobic, colony count not included	Performed prior to sequencing to obtain isolates; cultures establish growth and identification
`87040`	Culture, bacterial; blood, aerobic and anaerobic	Blood cultures may yield isolates that are subsequently submitted for WGS typing
`87177`	Identification by DNA probe, each organism	Supplemental molecular identification sometimes used before or alongside sequencing
`87999`	Unlisted microbiology procedure	Used rarely for other non-standard molecular tests when no specific PLA exists; administrative alternative in complex workflows
`88291`	Microbial genotyping, infectious agent, amplified probe, each organism	Other 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).

CPT 0001U: PreciseType HEA Multiplex Erythrocyte Antigen Assay

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

CPT 0002U: Urine Metabolomic Polyp Risk Assay (PolypDX™)

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

CPT 0003U: Overa™ (OVA1 Next Generation) Ovarian Cancer Risk Assay

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

CPT 0005U: ExosomeDx Prostate (IntelliScore) Urine Gene Expression Risk 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 Panel, Gene Sequence Analysis

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: Cordant CORE™ 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 Transcript Testing

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

CPT 0017U: JAK2 Mutation Sequencing (Exons 12–14)

Showing 1–10 of 536

References

1.CPT® Codes and Descriptions. AAPC. Retrieved Jul 29, 2026.
2.HCPCS Quarterly Update. Centers for Medicare & Medicaid Services (CMS). Retrieved Jul 29, 2026.
3.ICD-10-CM Full Code List. Centers for Medicare & Medicaid Services (CMS). Retrieved Jul 29, 2026.

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Trek Health powers OpenPayer with a leading commercial payer intelligence platform, seamlessly converting fragmented payer data into actionable insights for provider organizations.

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.

Clinical & Coding Specifications

Clinical Context

Coding Specifications

Modifier	Description	When to Use
`TC`	Technical component	Use when billing only the laboratory technical component (sequencing, bioinformatics) without professional interpretation billed separately
`26`	Professional component	Use when billing only the professional component (interpretation and report) separate from the lab technical work
`59`	Data not available in the input.	Data not available in the input.
`62`	Two surgeons	Rarely applicable; use if two qualified laboratorians or pathologists share distinct portions of professional work (institutional policy-dependent)
`78`	Return to operating/procedure room after intraoperative complication	Not applicable clinically to this lab test except in institutional billing workflows for combined services
`80`	Assistant surgeon	Not typically used for laboratory PLA codes; included for institutional policy reference
`QK`	Medical direction of two or more providers	Use if one pathologist medically directs multiple assistants in interpretation services
`QX`	Modifiers for assistant at surgery	Not typically applicable; included for completeness when assistant billing conventions exist
`QY`	Medical supervision by physician: more than four concurrent procedures	Rarely applicable; use only if supervision rules are met per payer policy
`22`	Increased procedural services	Use when documentation supports substantially greater lab effort or complexity (rare for standardized PLA sequencing)
`52`	Reduced services	Use when a reduced or partial sequencing service is performed and documented
`53`	Discontinued procedure	Use if sequencing was initiated but discontinued for documented clinical reasons
`AD`	Pathology code: Physician assisting at surgery	Sometimes used in pathology/workflow contexts per payer rules; not routine for PLA codes
`QY`	Data not available in the input.	Data not available in the input.

Taxonomy Code	Specialty	Notes
207RH0000X	Infectious Disease	Clinicians who order and interpret implications for patient management and infection control
207K00000X	Clinical Pathology	Pathologists who oversee laboratory testing, interpretation, and reporting of genomic analyses
207LP2900X	Clinical Laboratory	Clinical laboratory directors and technologists who perform sequencing and technical workflows
207L00000X	Medical Microbiology	Specialists in microbiology who select isolates, perform culture-based workup, and coordinate with reference lab
208D00000X	Public Health	Infection preventionists and public health laboratorians who use results for outbreak investigation

Related Diagnoses

ICD-10 Code	Description	Clinical Relevance
`A41.9`	Sepsis, unspecified organism	Sepsis with positive cultures may prompt typing to assess relatedness between isolates in a patient or cluster
`T81.4XXA`	Infection following a procedure, initial encounter	Postoperative infections where multiple isolates suggest a potential outbreak source
`Z11.59`	Encounter for screening for other bacterial diseases	Public health screening contexts when typing is used for surveillance and epidemiology
`A49.9`	Bacterial infection, unspecified	General bacterial infections when isolate typing informs management or epidemiology
`R78.81`	Bacteremia	Presence of bacteria in blood that require isolate comparison across sites or patients for outbreak control

Related CPT Codes

CPT Code	Description	Relationship to This Procedure
`0010U`	Bacterial 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
`87110`	Culture, bacterial, any source, except blood, aerobic, colony count not included	Performed prior to sequencing to obtain isolates; cultures establish growth and identification
`87040`	Culture, bacterial; blood, aerobic and anaerobic	Blood cultures may yield isolates that are subsequently submitted for WGS typing
`87177`	Identification by DNA probe, each organism	Supplemental molecular identification sometimes used before or alongside sequencing
`87999`	Unlisted microbiology procedure	Used rarely for other non-standard molecular tests when no specific PLA exists; administrative alternative in complex workflows
`88291`	Microbial genotyping, infectious agent, amplified probe, each organism	Other 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).

CPT 0001U: PreciseType HEA Multiplex Erythrocyte Antigen Assay

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

CPT 0002U: Urine Metabolomic Polyp Risk Assay (PolypDX™)

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

CPT 0003U: Overa™ (OVA1 Next Generation) Ovarian Cancer Risk Assay

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

CPT 0005U: ExosomeDx Prostate (IntelliScore) Urine Gene Expression Risk 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 Panel, Gene Sequence Analysis

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: Cordant CORE™ 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 Transcript Testing

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

CPT 0017U: JAK2 Mutation Sequencing (Exons 12–14)

Showing 1–10 of 536

References

1.CPT® Codes and Descriptions. AAPC. Retrieved Jul 29, 2026.
2.HCPCS Quarterly Update. Centers for Medicare & Medicaid Services (CMS). Retrieved Jul 29, 2026.
3.ICD-10-CM Full Code List. Centers for Medicare & Medicaid Services (CMS). Retrieved Jul 29, 2026.

Published by

Trek Health powers OpenPayer with a leading commercial payer intelligence platform, seamlessly converting fragmented payer data into actionable insights for provider organizations.

OpenPayer

CPT 0010U: Bacterial Typing by Whole Genome Sequencing, Mayo Clinic

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Billing Code Overview

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CPT 0010U: Bacterial Typing by Whole Genome Sequencing, Mayo Clinic

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Billing Code Overview

Clinical & Coding Specifications

Clinical Context

Coding Specifications

Related Diagnoses

Related CPT Codes

Related Codes

References

Clinical & Coding Specifications

Clinical Context

Coding Specifications

Related Diagnoses

Related CPT Codes

Related Codes

References