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HelpTest Code DMAID Mycobacterium abscessus Complex Subspecies Identification, Next-Generation Sequencing
Ordering Guidance
This test is used to identify the subspecies of Mycobacterium abscessus from a known M abscessus isolate.
For the identification of M abscessus (not the subspecies) from culture isolate growth, order CTBID / Culture Referred for Identification, Mycobacterium and Nocardia, Varies.
Shipping Instructions
1. For shipping information see Infectious Specimen Shipping Guidelines.
2. Place specimen in a large infectious container and label as an etiologic agent/infectious substance.
Necessary Information
Specimen source and suspected organism identification are required.
Specimen Required
Supplies: Infectious Container, Large (T146)
Specimen Type: Mycobacterium abscessus isolate growing in pure culture
Container/Tube:
Preferred: Solid slant medium (eg. Middlebrook 7H10, 7H11 or Lowenstein Jensen agar)
Acceptable: Broth medium (eg. Mycobacteria Growth Indicator Tube, 7H9 broth, BACT/ALERT MP or VersaTREK bottle). Note: Broth specimens will require subculture which will delay results.
Specimen Volume:
Solid slant medium: Isolate with visible growth
Broth medium: Greater than or equal to 3 mL of broth culture
Collection Instructions:
1. Organism must be in pure culture, actively growing. Do not submit mixed cultures.
2. Place specimen in a large infectious container and label as an etiologic agent/infectious substance.
Useful For
Determining the subspecies of a Mycobacterium abscessus complex culture isolate
Testing Algorithm
When this test is ordered, subspecies identification will always be performed at an additional charge if the organism is not already identified to the subspecies level.
Special Instructions
Method Name
Next-Generation Sequencing (NGS)
Reporting Name
M abscessus subspecies ID, NGSSpecimen Type
VariesSpecimen Minimum Volume
See Specimen Required
Specimen Stability Information
| Specimen Type | Temperature | Time |
|---|---|---|
| Varies | Ambient (preferred) | |
| Refrigerated | ||
Reject Due To
| Agar plate | Reject |
| Mixed culture | Reject |
Clinical Information
This assay provides a subspecies-level identification of microbiologic culture isolates previously identified to be Mycobacterium abscessus. Subspecies level identification can be important for patient care and for epidemiologic investigations since the subspecies can differ in macrolide susceptibility.
Reference Values
Not applicable
Interpretation
This assay can differentiate the subspecies of Mycobacterium abscessus, which are, M abscessus subspecies abscessus, M abscessus subspecies bolletii, and M abscessus subspecies massiliense.
Cautions
Only pure culture isolates of Mycobacterium abscessus should be submitted. Mixed cultures will result in a delay because the M abscessus must be isolated prior to performing the next-generation sequencing assay.
This assay has not been verified for the direct detection and direct subspecies identification of M abscessus from clinical specimens. It is intended for use on microbiologic culture isolates already identified as M abscessus.
Clinical Reference
1 Daley CL, Iaccarino JM, Lange C, et al. Treatment of Nontuberculous Mycobacterial Pulmonary Disease: An Official ATS/ERS/ESCMID/IDSA Clinical Practice Guideline. Clin Infect Dis. 2020;71(4):905-913. doi:10.1093/cid/ciaa1125
2. Kumar K, Daley CL, Griffith DE, Loebinger MR. Management of Mycobacterium avium complex and Mycobacterium abscessus pulmonary disease: therapeutic advances and emerging treatments. Eur Respir Rev. 2022;31(163):210212. Published 2022 Feb 9. doi:10.1183/16000617.0212-2021
Method Description
The subspecies of Mycobacterium abscessus are differentiated using the Genoscreen Deeplex Myc-TB assay. This test is a targeted next generation sequencing test for identification of Mycobacterium species using deep sequencing of a single 24-plexed amplicon mix for identification. The gene target used in this assay for species identification is primarily hsp65 but additional targets such as rrl, rrs, rpoB are used to help with nontuberculous mycobacteria identification to permit discrimination of closely related species and subspecies. This test was validated to demonstrate its ability to differentiate the 3 subspecies within the M abscessus from microbiologic culture isolates using the Nextera XT DNA Library Preparation kit, the MiSeq Reagent Kit V2. 300 cycle kit and the Illumina MiSeq sequencing platform.(Buckwalter SP, Olson SL, Fida M, et al. Mycobacterium abscessus subspecies identification using the Deeplex Myc-TB targeted NGS assay. J Clin Microbiol. 2023;61(10):e0048923. doi:10.1128/jcm.00489-23)
Day(s) Performed
Monday through Friday
Report Available
7 to 14 daysSpecimen Retention Time
1 yearPerforming 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. It has not been cleared or approved by the US Food and Drug Administration.CPT Code Information
87153
LOINC Code Information
| Test ID | Test Order Name | Order LOINC Value |
|---|---|---|
| DMAID | M abscessus subspecies ID, NGS | 112278-7 |
| Result ID | Test Result Name | Result LOINC Value |
|---|---|---|
| DMAID | M abscessus subspecies ID, NGS | 112278-7 |