Development of Spectral Pattern‐Matching Approaches to Matrix‐Assisted Laser Desorption/Ionization Time‐of‐Flight Mass Spectrometry for Bacterial Identification

Jarman, Kristin H.; Wahl, Karen L.

doi:10.1002/0471748641.ch7

Cited by 5 publications

(3 citation statements)

References 13 publications

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“…In principle, taxon specific mass patterns of abundant structural proteins such as ribosomal and DNA‐binding proteins are recorded directly from whole‐cell samples (14). Resulting mass spectra can be subjected to pattern‐matching approaches to reveal similarities between individual microbial strains (15). In the present study, a spectral archive and microbial identification system (SARAMIS, Angnostec, Germany, Pat.…”

Section: Introductionmentioning

confidence: 99%

The use of ITS DNA sequence analysis and MALDI‐TOF mass spectrometry in diagnosing an infection with Fusarium proliferatum

Seyfarth

Ziemer

Sayer

et al. 2008

Experimental Dermatology

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Although mycoses are among the most common diseases worldwide, infections with Fusarium spp. occur only rarely. Mostly patients suffering from underlying immune deficiency are infected with this mould, resulting in a considerably decreasing prognosis. In immunocompromised patients, cutaneous manifestations are more often associated with Fusarium sp. than with Candida sp. or Aspergillus sp. We describe one patient with acute lymphoblastic leukaemia, who was first treated with chemotherapy after GMALL protocol 07 ⁄ 03. After relapse, the patient was successfully transplanted in second remission with a human leukocyte antigen (HLA)-matched unrelated peripheral blood stem cell graft. Ten months later, the patient died from respiratory insufficiency and recurrence of leukaemia. Previously, Aspergillus antigen was detected in blood. In the latter course, disseminated papules appeared. One of these was examined histologically and mycologically. Conventional cultural diagnostics led to the diagnosis of a fusariosis, further supported by internal transcribed spacer (ITS) sequencing and matrix assisted laser desorption ⁄ ionisation-time-of-flight mass spectrometry (MALDI-TOF) mass spectrometry, both determining the isolated strain as Fusarium proliferatum, which is a very infrequent pathogen within this genus. Our investigations underline the potential of MALDI-TOF MS based identification of Fusarium species as an innovative, time and cost efficient alternative to ITS sequencing.

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Section: Introductionmentioning

confidence: 99%

The use of ITS DNA sequence analysis and MALDI‐TOF mass spectrometry in diagnosing an infection with Fusarium proliferatum

Seyfarth

Ziemer

Sayer

et al. 2008

Experimental Dermatology

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“…Reproducibility issues had been a major concern, but it was shown that the technique provides reliable results despite some experimental and biological variabilities that are inherent to such a phenotypic approach (14,41,49,51,(54)(55)(56). A sufficient number of stable mass signals of major housekeeping proteins, mainly ribosomal proteins, can reproducibly be detected and used for bacterial species identification by using simple mass pattern-matching approaches or more sophisticated algorithms to compare and estimate the similarities between spectra (3,9,22,23,26,27,29,37,43). These approaches don't rely on actual identification of the biomarker ion peaks in an MS spectrum but on the characteristic mass profile generated by a set of ion peaks that constitute a bacterial "fingerprint."…”

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confidence: 99%

Rapid Screening of Epidemiologically Important Salmonella enterica subsp. enterica Serovars by Whole-Cell Matrix-Assisted Laser Desorption Ionization–Time of Flight Mass Spectrometry

Dieckmann

Malorny

2011

Appl Environ Microbiol

149

104

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Currently, 2,610 different Salmonella serovars have been described according to the White-Kauffmann-Le Minor scheme. They are routinely differentiated by serotyping, which is based on the antigenic variability at lipopolysaccharide moieties (O antigens), flagellar proteins (H1 and H2 antigens), and capsular polysaccharides (Vi antigens). The aim of this study was to evaluate the potential of matrix-assisted laser desorption ionization-time of flight (MALDI-TOF) mass spectrometry for rapid screening and identification of epidemiologically important Salmonella enterica subsp. enterica serovars based on specific sets of serovar-identifying biomarker ions. By analyzing 913 Salmonella enterica subsp. enterica strains representing 89 different serovars using MALDI-TOF mass spectrometry, several potentially serovar-identifying biomarker ions were selected. Based on a combination of genus-, species-, subspecies-, and serovar-identifying biomarker ions, a decision tree classification algorithm was derived for the rapid identification of the five most frequently isolated Salmonella enterica serovars, Enteritidis, Typhimurium/4,[5],12:i:-, Virchow, Infantis, and Hadar. Additionally, sets of potentially serovar-identifying biomarker ions were detected for other epidemiologically interesting serovars, such as Choleraesuis, Heidelberg, and Gallinarum. Furthermore, by using a bioinformatic approach, sequence variations corresponding to single or multiple amino acid exchanges in several biomarker proteins were tentatively assigned. The inclusivity and exclusivity of the specific sets of serovar-identifying biomarker ions for the top 5 serovars were almost 100%. This study shows that whole-cell MALDI-TOF mass spectrometry can be a rapid method for prescreening S. enterica subsp. enterica isolates to identify epidemiologically important serovars and to reduce sample numbers that have to be subsequently analyzed using conventional serotyping by slide agglutination techniques.

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“…The methodology is based on the detection of abundant structural proteins, such as ribosomal proteins or DNA-binding proteins (Ryzhov & Fenselau, 2001;Fagerquist et al, 2005), generating taxonspecific patterns (Valentine et al, 2005). Various mathematical methods have been developed to compare mass spectra and to construct trees based on pattern similarity (Jarman & Wahl, 2006). Fresh cells were transferred directly from agar plates to a MALDI-TOF mass spectro-meter sample plate (stainless steel, 100 wells) by using a sterile pipette tip.…”

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confidence: 99%

Microbacterium binotii sp. nov., isolated from human blood

Clermont

Diard

Bouchier

et al. 2009

INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLO

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Two strains of non-spore-forming, rod-shaped, Gram-positive bacteria, CIP 101303 T and CIP 102116, were isolated from human blood in 1976 and 1977, respectively. These strains had chemotaxonomic markers that were consistent with classification in the genus Microbacterium, i.e. MK-10, MK-11 and MK-12 as the major menaquinones, predominant iso-and anteiso-branched cellular fatty acids, galactose, mannose and rhamnose as the cell-wall sugars and ornithine as the diamino acid in the cell-wall peptidoglycan. The DNA G+C content was 70-72 mol%. Comparative 16S rRNA gene sequence studies revealed that strains CIP 101303 T and CIP 102116 belonged to the genus Microbacterium and that they were related closely to Microbacterium halotolerans. The level of DNA-DNA relatedness showed that the two isolates represented a separate genomic species. Based on phenotypic and genotypic results, it is proposed that strains CIP 101303 T and CIP 102116 be assigned to a novel species, Microbacterium binotii sp. nov. The type strain is CIP 101303 T (5DSM 19164 T ).

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Development of Spectral Pattern‐Matching Approaches to Matrix‐Assisted Laser Desorption/Ionization Time‐of‐Flight Mass Spectrometry for Bacterial Identification

Cited by 5 publications

References 13 publications

The use of ITS DNA sequence analysis and MALDI‐TOF mass spectrometry in diagnosing an infection with Fusarium proliferatum

The use of ITS DNA sequence analysis and MALDI‐TOF mass spectrometry in diagnosing an infection with Fusarium proliferatum

Rapid Screening of Epidemiologically Important Salmonella enterica subsp. enterica Serovars by Whole-Cell Matrix-Assisted Laser Desorption Ionization–Time of Flight Mass Spectrometry

Microbacterium binotii sp. nov., isolated from human blood

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