Rapid identification of microorganisms isolated from throat swab specimens of community-acquired pneumonia patients by two MALDI-TOF MS systems

Xiao, Di; Zhao, Fei; Lv, Min; Zhang, Huifang; Zhang, Yongchan; Huang, Hui; Su, Peng; Zhang, Zhen; Zhang, Jianzhong

doi:10.1016/j.diagmicrobio.2012.04.004

Cited by 23 publications

(10 citation statements)

References 27 publications

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“…Samples of the examined strains were pre-extracted using previously described procedures [2]. Samples from liquid Mycoplasma , Leptospira , and Borrelia burgdorferi cultures were subjected to the following treatment prior to protein extraction.…”

Section: Methodsmentioning

confidence: 99%

“…A Microflex LT (Bruker Daltonics, Bremen, Germany) MALDI-TOF MS system was used in this study, and the database of PMRS consulted in this investigation was provided by the Biotyper 3.0 software package (Bruker Daltonics, Bremen, Germany). MALDI-TOF MS Biotyper system (MBS) parameters were established and sample acquiring methods were performed in accordance with previously described procedures [2]. Twenty spots were dropped onto a sample target for acquiring twenty spectra for a reference spectrum construction.…”

Section: Methodsmentioning

confidence: 99%

See 1 more Smart Citation

The Construction and Evaluation of Reference Spectra for the Identification of Human Pathogenic Microorganisms by MALDI-TOF MS

Xiao

Zhang

et al. 2014

PLoS ONE

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Matrix-assisted laser desorption/ionization time-of-flight mass spectrometry (MALDI-TOF MS) is an emerging technique for the rapid and high-throughput identification of microorganisms. There remains a dearth of studies in which a large number of pathogenic microorganisms from a particular country or region are utilized for systematic analyses. In this study, peptide mass reference spectra (PMRS) were constructed and evaluated from numerous human pathogens (a total of 1019 strains from 94 species), including enteric (46 species), respiratory (21 species), zoonotic (17 species), and nosocomial pathogens (10 species), using a MALDI-TOF MS Biotyper system (MBS). The PMRS for 380 strains of 52 species were new contributions to the original reference database (ORD). Compared with the ORD, the new reference database (NRD) allowed for 28.2% (from 71.5% to 99.7%) and 42.3% (from 51.3% to 93.6%) improvements in identification at the genus and species levels, respectively. Misidentification rates were 91.7% and 57.1% lower with the NRD than with the ORD for genus and species identification, respectively. Eight genera and 25 species were misidentified. For genera and species that are challenging to accurately identify, identification results must be manually determined and adjusted in accordance with the database parameters. Through augmentation, the MBS demonstrated a high identification accuracy and specificity for human pathogenic microorganisms. This study sought to provide theoretical guidance for using PMRS databases in various fields, such as clinical diagnosis and treatment, disease control, quality assurance, and food safety inspection.

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Section: Methodsmentioning

confidence: 99%

Section: Methodsmentioning

confidence: 99%

The Construction and Evaluation of Reference Spectra for the Identification of Human Pathogenic Microorganisms by MALDI-TOF MS

Xiao

Zhang

et al. 2014

PLoS ONE

Self Cite

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“…The investigators recognized three proteins - S100A8, lactotransferrin (LTF), and actinin 1 (ACTN1) - which could be combined to create a good discrimination between patients with and those without VAP (93% sensitivity and 94% specificity). In another study using mass spectrometry analysis, Xiao and colleagues [6] applied matrix-assisted laser desorption ionization time-of-flight (MALDI-TOF) mass spectrometry to identify the etiologic agents from 70 patients with CAP by using throat-swab samples. The MALDI-TOF methodology identified 210 of the 212 colonies that had been identified on blood agar.…”

Section: Disease Mechanisms and Pathogenesismentioning

confidence: 99%

Year in review 2012: Critical Care - respiratory infections

Nair

Niederman

2013

Critical Care

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Over the last two decades, considerable progress has been made in the understanding of disease mechanisms and infection control strategies related to infections, particularly pneumonia, in critically ill patients. Patient-centered and preventative strategies assume paramount importance in this era of limited health-care resources, in which effective targeted therapy is required to achieve the best outcomes. Risk stratification using severity scores and inflammatory biomarkers is a promising strategy for identifying sick patients early during their hospital stay. The emergence of multidrug-resistant pathogens is becoming a major hurdle in intensive care units. Cooperation, education, and interaction between multiple disciplines in the intensive care unit are required to limit the spread of resistant pathogens and to improve care. In this review, we summarize findings from major publications over the last year in the field of respiratory infections in critically ill patients, putting an emphasis on a newer understanding of pathogenesis, use of biomarkers, and antibiotic stewardship and examining new treatment options and preventive strategies.

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“…However, these methodologies require comprehensive knowledge about the individual characteristics of each species of microorganism, besides being very laborious and slow, requiring more than 48 h for expert appraisal. Moreover, some strains exhibit unique biochemical characteristics that do not fit into patterns that have been used as a characteristic of any known genus and species [5,6].…”

Section: Introductionmentioning

confidence: 99%

“…They include gas chromatography [7,8], capillary electrophoresis [9], mass spectroscopy [6,10], Raman spectroscopy [11], infrared spectroscopy [12][13][14], fluorescence [15,16], and nuclear magnetic resonance [17]. Despite the ability of these instrumental analytical techniques to obtain reliable and accurate results in the identification and classification of microorganisms, the use of digital images presents some advantages, since it has low-cost equipment, avoids the manipulation of the Petri plate where microorganisms are grown, and does not require the knowledge of a skillful microbiologist.…”

Section: Introductionmentioning

confidence: 99%

Using color histograms and SPA-LDA to classify bacteria

et al. 2014

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In this work, a new approach is proposed to verify the differentiating characteristics of five bacteria (Escherichia coli, Enterococcus faecalis, Streptococcus salivarius, Streptococcus oralis, and Staphylococcus aureus) by using digital images obtained with a simple webcam and variable selection by the Successive Projections Algorithm associated with Linear Discriminant Analysis (SPA-LDA). In this sense, color histograms in the red-green-blue (RGB), hue-saturation-value (HSV), and grayscale channels and their combinations were used as input data, and statistically evaluated by using different multivariate classifiers (Soft Independent Modeling by Class Analogy (SIMCA), Principal Component Analysis-Linear Discriminant Analysis (PCA-LDA), Partial Least Squares Discriminant Analysis (PLS-DA) and Successive Projections Algorithm-Linear Discriminant Analysis (SPA-LDA)). The bacteria strains were cultivated in a nutritive blood agar base layer for 24 h by following the Brazilian Pharmacopoeia, maintaining the status of cell growth and the nature of nutrient solutions under the same conditions. The best result in classification was obtained by using RGB and SPA-LDA, which reached 94 and 100 % of classification accuracy in the training and test sets, respectively. This result is extremely positive from the viewpoint of routine clinical analyses, because it avoids bacterial identification based on phenotypic identification of the causative organism using Gram staining, culture, and biochemical proofs. Therefore, the proposed method presents inherent advantages, promoting a simpler, faster, and low-cost alternative for bacterial identification.

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Rapid identification of microorganisms isolated from throat swab specimens of community-acquired pneumonia patients by two MALDI-TOF MS systems

Cited by 23 publications

References 27 publications

The Construction and Evaluation of Reference Spectra for the Identification of Human Pathogenic Microorganisms by MALDI-TOF MS

The Construction and Evaluation of Reference Spectra for the Identification of Human Pathogenic Microorganisms by MALDI-TOF MS

Year in review 2012: Critical Care - respiratory infections

Using color histograms and SPA-LDA to classify bacteria

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