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Test ID BTWGS Bacterial Typing by Whole Genome Sequencing

Biohazard Infectious

Useful For

Aiding in the investigation of a potential outbreak by a single bacterial species


May assist in identification of recurrent infection in an individual patient

Method Name

Whole Genome Sequencing

Reporting Name

Bacterial Typing, Whole Genome Seq

Specimen Type


Advisory Information

Currently, Staphylococcus aureus, Acinetobacter baumannii, Klebsiella pneumoniae, Legionella pneumophila, and Clostridioides (Clostridium) difficile are being tested by this method. Additional species will be added in the near future.


For other bacterial species, order PFGE / Bacterial Typing by Pulsed-Field Gel Electrophoresis (PFGE). PFGE orders for S aureus, A baumannii, K pneumoniae, L pneumophila, and C difficile will be automatically converted to BTWGS / Bacterial Strain Typing by Whole Genome Sequencing.

Additional Testing Requirements

Each slant must be submitted under a separate order.


If uncertain of organism identification, concomitantly order IDENT / Organism Referred for Identification, Aerobic Bacteria.

Shipping Instructions

1. See Infectious Specimen Shipping Guidelines in Special Instructions for shipping information.

2. Place isolates in a large infectious container (T146) and label as an etiologic agent/infectious substance.

3. Place all isolates (all patients and/or sites to be compared) submitted for whole genome sequencing (WGS) together in 1 large bag, and send in the same shipping container. This is necessary for comparison of isolates by this method.

Necessary Information

1. Organism identification and specimen source are required.

2. Klebsiella pneumoniae: Isolate must be a member of the K pneumoniae complex (ie, K pneumoniae species. pneumoniae, K pneumoniae species. ozaenae, or K pneumoniae species. rhinoscleromatis).

3. Acinetobacter baumannii: Isolate must be A baumannii. Identifications of A baumannii complex and A baumannii/calcoaceticus complex are not acceptable.

4. An email address registered on the Mayo Clinic Laboratories website is required for report delivery.

Specimen Required

Supplies: Infectious Container, Large (T146)

Container/Tube: Agar slant

Specimen Volume: Isolates on separate agar slants in pure culture

Collection Instructions:

1. Isolate the bacteria (must be Staphylococcus aureus, Acinetobacter baumannii, Klebsiella pneumoniae, Legionella pneumophila, or Clostridioides (Clostridium) difficile.

2. Bacterial organism must be in pure culture, actively growing. Do not submit mixed cultures.

Specimen Stability Information

Specimen Type Temperature Time
Varies Ambient (preferred)

Reference Values

Reported as isolates are "related", "possibly related", or "unrelated" by whole genome sequencing.

Day(s) and Time(s) Performed

Varies; Batch tested 1 time per week

Performing Laboratory

Mayo Clinic Laboratories in Rochester

Test Classification

This test was developed and its performance characteristics determined by Mayo Clinic in a manner consistent with CLIA requirements. This test has not been cleared or approved by the U.S. Food and Drug Administration.

CPT Code Information

0010U-Bacterial Typing, Whole Genome Seq

87900-Bioinformatics Reanalysis (if appropriate)

87077-Ident by MALDI-TOF mass spec (if appropriate)

87153-Aerobe ident by sequencing (if appropriate)

87077-Additional identification procedure (if appropriate)

LOINC Code Information

Test ID Test Order Name Order LOINC Value
BTWGS Bacterial Typing, Whole Genome Seq 90246-0


Result ID Test Result Name Result LOINC Value
BTWGS Bacterial Typing, Whole Genome Seq 90246-0

Reflex Tests

Test ID Reporting Name Available Separately Always Performed
BIORE Bioinformatics Reanalysis No, (Bill Only) No
RMALD Ident by MALDI-TOF mass spec No, (Bill Only) No
ISAE Aerobe Ident by Sequencing No, (Bill Only) No
REFID Additional Identification Procedure No, (Bill Only) No

Testing Algorithm

Organism identification is required. All bacteria submitted will be tested. Organism identifications that are incorrect or incomplete may result in no results at final analysis. Laboratory may perform matrix-assisted laser desorption/ionization time-of-flight mass spectrometry (MALDI-TOF MS) or other testing as listed in Reflex Tests to confirm identification, report this finding, and charge accordingly.


When reanalysis of previously submitted isolates for comparison to new isolates is requested, bioinformatics reanalysis will be added by Mayo Clinic Laboratories. Original patient submission information (names and order numbers) must be provided.


If not ordering electronically, complete, print, and send a Microbiology Test Request (T244) with the specimen.