Published December 20, 2021 | Version Version 1.0
Dataset Restricted

Spectral database of the subspecies of the Mycobacterium abscessus complex (MALDI-TOF Mass Spectrometry)

Authors/Creators

  • 1. Centre d'Immunologie et des Maladies Infectieuses, INSERM, U1135, Sorbonne Université, Département de Bactériologie, Hôpital Saint-Antoine, AP-HP, Sorbonne Université, Paris, France.
  • 2. Centre d'Immunologie et des Maladies Infectieuses, INSERM, U1135, Sorbonne Université, Laboratoire de Bactériologie-Hygiène, Hôpital Pitié-Salpêtrière, AP-HP, Sorbonne Université, Paris, France.
  • 3. Institut Pasteur, Université de Paris, Bioinformatics and Biostatistics HUB, Computational Biology Department
  • 4. APHP, CNR Mycobactéries à croissance rapide

Description

Spectral database of the subspecies of the Mycobacterium abscessus complex (MALDI-TOF Mass Spectrometry)

  • This data set originates from a collection of 41 clinical strains of Mycobacterium abscessus complex corresponding to 1001 mass spectra:
    • 25 strains of Mycobacterium abscessus subsp. abscessus (633 mass spectra)
    • 9 strains of Mycobacterium abscessus subsp. massiliense (204 mass spectra)
    • 7 strains of Mycobacterium abscessus subsp. bolletii (164 mass spectra)

 

  • Each strain has been characterized using molecular method (DNA/DNA hydridation, using GenoType NTM-DR (Hain Lifescience, Nehren, Germany) according to the manufacturer's instructions for identification and analyzed by MALDI-TOF mass spectrometry according MycoEx protocol (Bruker®). The mass spectra spectra were obtained according to the following steps :

 

  1. Each of the 41 strains was cultured in aerobic atmosphere at 37°C for 7 ± 2 days on blood agar (COH, bioMerieux®). Then, one colony was extracted according to the MycoEx protocol (Bruker®). For each of the extracts, 8 technical replicates were realized and analyzed by MALDITOF MS (Bruker®). Dried spots were overlaid with 1µL of MALDI matrix (α-HCCA).

  2. Data acquisition was performed using a Microflex LT (Bruker® Daltonics) mass spectrometer equipped with a N2 laser (λ =377 nm). Instrument parameters used were as follows: a masse range between 200-20000 Da, ion source 1: 20 kV, ion source 2: 18.5 kV, Iens: 8.45 kV, pulsed ion extraction: 330 ns, laser frequency: 20.0 Hz. Spectra were obtained after 500 shots. Each spot was analyzed three times. In total 24 spectra were obtained for each extraction.

  3. Spectra acquired for each isolate were visualized and analyzed using Flex Analysis software (Bruker® Daltonics), and spectra with low quality peaks were removed. A minimum of 15 spectra per extraction was necessary to validate the extraction.

This database is only intended for medical research. Please contact: medecine-drv@sorbonne-universite.fr for data access.

After access agreement, the three following files will be available :

  • The MABSC_spectra.zip file  contains the MS peak list data in a Matlab compatible format.
  • The MABSC_metadata.pdf file contains the molecular identifications of strains.
  • The MABSC_notes.txt file contains informations concerning contains informations on the method of obtaining the data.

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This database is only intended for medical research. Please contact: medecine-drv@sorbonne-universite.fr for data access.

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