How to: identify non-tuberculous Mycobacterium species using MALDI-TOF mass spectrometry

Alcaide, Fernando; Amlerová, Jana; Bou, Germán; Ceyssens, Pieter‐Jan; Coll, Pere; Corcoran, Daniel; Fangous, Marie-Sarah; González-Álvarez, I.; Gorton, Rebecca; Greub, Gilbert; Héry-Arnaud, Geneviève; Hrabák, Jaroslav; Ingebretsen, André; Lucey, Brigid; Mareković, Ivana; Mediavilla-Gradolph, Concepción; Monté, Maria Rosa; O'Connor, James A.; O’Mahony, Jim; Opota, Onya; O’Reilly, Barry; Orth‐Höller, Dorothea; Oviaño, Marina; Palacios, Juan-José; Palop, Begoña; Pranada, Arthur B.; Quiroga, Lidia; Rodríguez-Temporal, David; Ruiz‐Serrano, María Jesús; Tudó, Griselda; Bossche, An Van den; Ingen, Jakko van; Rodríguez‐Sánchez, Belén

doi:10.1016/j.cmi.2017.11.012

Cited by 89 publications

(77 citation statements)

References 26 publications

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“…The screening method used for NTM species are based on PNB which can inhibit growth of M. tuberculosis complex in most published paper in China [16], a method which is time-consuming and strenuous. The laboratory diagnosis methods used for mycobacterial species identi cation have evolved though the past decades [17].With the development of several extraction methods that enhance the amount of bacterial proteins available for MALDI-TOF MS identi cation and the increasing number of mycobacterial spectra in commercial databases, MALDI-TOF MS technology has been implemented for NTM identi cation in many laboratories [7,18]. Several researches have proved this method achieved more than 95% agreement with the DNA sequencing of variable genomic regions (16S rRNA, hsp65, rpoB and ITS genes) [5,19].…”

Section: Discussionmentioning

confidence: 99%

“…Therefore, an accurate and rapidly method used for NTM identi cation is particularly important. Matrix-assisted laser desorption ionization-time of ight mass spectrometry (MALDI-TOF MS), a technology with low time consumption, low cost and high accuracy, has been used for identi cation of mycobacterium species in some clinical laboratory [7,8]. In this study, we used MALDI-TOF MS for screening NTM from 5203 cultured clinical strains isolated from sputum of acid-fast.…”

Section: Introductionmentioning

confidence: 99%

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Non-Tuberculous Mycobacterial Pulmonary Disease Prevalence Status in China

Liu¹,

Song

et al. 2020

Preprint

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Introduction: The information on the pulmonary disease caused by non-tuberculosis mycobacterium (NTM) in China is limited, mainly based on local or regional studies.Methods: Retrospective study involving 72 tuberculosis clusters provided sputa of enrolled presumptive cases for mycobacterial and drug-susceptibility testing in 31 provinces of Chinese mainland. Minimal inhibitory concentrations (MICs) test was used to measure the susceptibility of NTM isolates.Results: Of 4917 mycobacterial isolates cultured, 317 (6.4%, 95% confidence interval [CI], 5.8 to 7.2) isolates were confirmed as NTM, among 207 (12.1%, 95% CI, 10.6 to 13.8) isolates were detected from the southeastern region with the highest NTM prevalence. Slow growing mycobacteria (SGM) contributed 93.3% (95% CI, 76.4 to 98.8) and 56.1% (95% CI, 50.1 to 61.9) in northern and southern China, respectively. A total of 29 species were detected, the three most frequently isolated NTM belonged to Mycobacterium abscessus complex (36.0%, 95% CI, 33.3 to 38.7), Mycobacterium avium-intracellulare complex (34.1%, 95% CI, 29.1 to 39.5), Mycobacterium kansasii (9.8%, 95% CI, 8.1 to 11.4), respectively. Clarithromycin and amikacin were showed lower resistant rates to NTM in vitro. Conclusions: The southeastern region should be paid more attention to NTM pulmonary disease. More rapid growing mycobacteria (RGM) were present in southern China than the northern (P < 0.001). Considering clear correlations between in vitro activity and the in vivo outcomes of treatment, macrolides and amikacin were recommended in NTM treatment in China.

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Section: Discussionmentioning

confidence: 99%

Section: Introductionmentioning

confidence: 99%

Non-Tuberculous Mycobacterial Pulmonary Disease Prevalence Status in China

Liu¹,

Song

et al. 2020

Preprint

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“…Finally, with the in-house library developed and validated and with the commercial library MALDI Biotyper (Bruker Daltonics, Bremen, Germany), 62 clinical isolates, previously identified by conventional phenotypic methods and by gene sequencing, were used to test the robustness of both libraries on identification: N. dimidiatum (16), Microsporum canis (11), Trichophyton interdigitale (11), T. rubrum (14), Sporothrix globosa (5), and S. schenckii s.s. (5). These isolates originate from clinical samples of the skin, nail, and hair sent for analysis by general practitioners or dermatologists to the microbiological laboratory.…”

Section: Reference Strains and Clinical Isolatesmentioning

confidence: 99%

Development and Validation of an In-House Library for Filamentous Fungi Identification by MALDI-TOF MS in a Clinical Laboratory in Medellin (Colombia)

Gómez-Velásquez¹,

Loaiza-Díaz²,

Hernández

et al. 2020

Microorganisms

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Identification of filamentous fungi by conventional phenotypic methods are time-consuming, and a correct identification at the species level is prone to errors. Therefore, a more accurate and faster time-to-results, and cost-effective technique, is required, such as the Matrix-Assisted Laser Desorption/Ionization Time-of-Flight Mass Spectrometry (MALDI-TOF MS). In this study, we describe the development of an in-house spectra library for the identification of filamentous fungi frequently isolated from patients with infections. An in-house spectra library was constructed using 14 reference strains grown in solid medium. Clinical isolates were identified either by the in-house spectra library or the Biotyper commercial library from Bruker Daltonics. Fungal identification was carried following the Biotyper’s established scores: ≤1.699: not reliably identified (NRI); 1.700–1.999: genus-level; ≥2.000: species-level. Clinical isolates were identified, with the in-house library, at species- and genus-level at 88.70% (55) and 3.22% (2), respectively. While 4.80% (3) was NRI and 3.22% (2) was discrepant concerning sequencing. On the contrary, identification up to species and genus-level with the commercial library was 44.44% (16) and 22.22% (8), respectively. NRI and the discrepancy was 30.55% (11) and 2.77% (1), respectively. For the reaming 26 isolates, 16 from Neoscytalidium dimidiatum and 10 from Sporothrix spp., respectively, the absence of spectrum and the specific spectra within the Sporothrix complex in the commercial library resulted in the inability to obtain an identification. In conclusion, the current results advocate the importance that each clinical microbiological laboratory needs to develop an ad hoc library associated with the MALDI-TOF MS fungal identification to overcome the limitations of the available commercial libraries.

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“…63 Two systems have been approved for clinical use, the MALDI Biotyper CA (Bruker Daltonics) and VITEK MS (bioMerieux). Promising results have been reported with successful identification rates of 80 to 98%, 64 although results when used with liquid media have been less impressive. 65…”

Section: Microbiologicalmentioning

confidence: 99%

Diagnosis of Nontuberculous Mycobacteria Lung Disease

Cowman

Loebinger

2018

Semin Respir Crit Care Med

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The diagnosis of pulmonary nontuberculous mycobacteria (NTM) disease may be challenging, as their presence alone does not necessarily indicate disease and diagnosis requires the integration of clinical, radiological, and microbiological findings. The first step is to suspect NTM disease; however, clinical manifestations of NTM are nonspecific and it may not be possible to separate them from those caused by underlying respiratory disease. The radiological appearance generally falls into two patterns, fibrocavitary disease and nodular-bronchiectatic disease; consolidation, infiltrates, and solitary nodules are also described. The isolation of NTM from clinical samples is fundamental to the diagnosis and they may be cultured from sputum, bronchoalveolar lavage fluid, or tissue specimens. If sputum is used, more than one isolate is required for diagnosis due to the propensity of NTM to contaminate clinical samples. The correct identification of NTM is vital, as their clinical relevance varies widely between species, and treatment is dictated by the identity of the isolated organism. This review covers the clinical presentation of NTM disease, the interpretation of radiological findings, and issues surrounding the isolation and identification of mycobacteria.

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How to: identify non-tuberculous Mycobacterium species using MALDI-TOF mass spectrometry

Abstract: Microbiology laboratories where MALDI-TOF MS is available can benefit from its capacity to identify most clinically interesting non-tuberculous mycobacteria in a rapid, reliable, and inexpensive manner.

Cited by 89 publications

References 26 publications

Non-Tuberculous Mycobacterial Pulmonary Disease Prevalence Status in China

Non-Tuberculous Mycobacterial Pulmonary Disease Prevalence Status in China

Development and Validation of an In-House Library for Filamentous Fungi Identification by MALDI-TOF MS in a Clinical Laboratory in Medellin (Colombia)

Diagnosis of Nontuberculous Mycobacteria Lung Disease

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