scholarly journals MALDI-ToF mass spectrometry analysis with molecular genetic identification of Vibrio spp. in the system of the monitoring of vibrio flora of surface water reservoirs

2014 ◽  
Vol 19 (6) ◽  
pp. 27-36
Author(s):  
L. V Mironova ◽  
E. A Basov ◽  
M. V Afanasev ◽  
Zh. Yu Khunkheeva ◽  
S. K Mitkeeva ◽  
...  

There is presented the assessment of the efficacy of the application of direct protein profiling on the basis of MALDI-ToF mass-spectrometry for identification of Vibrio spp. during monitoring of Vibrio flora in surface water reservoirs implemented in the network of cholera surveillance. The comparison of results of the MALDI-ToF MS and bacteriological detection of taxonomic belonging of583 colonies morphologically similar to Vibrio cholerae (isolated in bacteriological examination of samples from environmental objects in Irkutsk city in 2012-2013) with following random identification based on 16S rRNA and rpoB gene structure showed high diagnostic sensitivity and specificity of mass-spectrometry. The findings determine the expediency of the inclusion of MALDI-ToF MS in the layout of microbiological examination in the monitoring of Vibrio flora in surface water reservoirs.

2020 ◽  
Vol 35 (2) ◽  
Author(s):  
Jari Intra ◽  
Cecilia Sarto ◽  
Giuseppe Serra ◽  
Paolo Brambilla

The infrequency of urinary tract and blood stream infections caused by Aerococcus urinae is most probably due to the difficulties in the identification of this bacterium using standard microbiological methods. With the introduction of more sensitive and accurate techniques in clinical microbiology, such as genetic approaches and Matrix-Assisted Laser Desorption/Ionization-Time Of Flight (MALDI-TOF) mass spectrometry (MS), the incidence of infections due to A. urinae increased. Herein, we described a case of urinary tract and bloodstream infection caused by A. urinae, which occurred in an 86-year-old Caucasian man with a previous history of prostate cancer. The identification of A. urinae was performed by MALDI-TOF MS, since this microorganism cannot be identified by biochemical reactions. In this report, we highlight the need to consider MALDI-TOF MS as technique of choice for A. urinae identification in the presence of subjects with predisposing factors, such as old age, male gender, and genitourinary tract pathologies.


Holzforschung ◽  
2005 ◽  
Vol 59 (3) ◽  
pp. 374-377 ◽  
Author(s):  
Olaf Schmidt ◽  
Wibke Kallow

Abstract MALDI-TOF MS differentiated mycelia within pairs each of the closely related indoor wood decay fungi Serpula lacrymans, S. himantioides, Coniophoraputena, C. marmorata, and Antrodia vaillantii, A. sinuosa. The method is thus suitable to identify unknown samples by spectrum comparison.


2020 ◽  
Author(s):  
Rosa M. Gomila ◽  
Gabriel Martorell ◽  
Pablo A. Fraile-Ribot ◽  
Antonio Doménech-Sánchez ◽  
Antonio Oliver ◽  
...  

ABSTRACTClassification and early detection of severe COVID-19 patients is urgently required to establish an effective treatment. Here, we tested the utility of matrix-assisted laser desorption/ionization time-of-flight mass spectrometry (MALDI-TOF MS) to classify and predict the severity of COVID-19 in a clinical setting. We used this technology to analyse the mass spectra profiles of the sera from 80 COVID-19 patients, clinically classified as mild (33), severe (26) and critical (21), and 20 healthy controls. We found a clear variability of the serum peptidome profile depending on COVID-19 severity. Seventy-eight peaks were significantly different and 12 at least four fold more intense in the set of critical patients than in the mild ones. Analysis of the resulting matrix of peak intensities by machine learning approaches classified severe (severe and critical) and non-severe (mild) patients with a 90% of accuracy. Furthermore, machine learning predicted correctly the favourable outcome of the severe patients in 85% of the cases and the unfavourable in 38% of the cases. Finally, liquid chromatography mass spectrometry analysis of sera identified five proteins that were significantly upregulated in the critical patients. They included serum amyloid proteins A1 and A2, which probably yielded the most intense peaks with m/z 11,530 and 11,686 detected by MALDI-TOF MS.In summary, we demonstrated the potential of the MALDI-TOF MS as a bench to bedside technology to aid clinicians in their decisions to classify COVID-19 patients and predict their evolution.


2019 ◽  
Author(s):  
Wenfa Ng

Mass spectrometry-enabled microbial identification has successfully demonstrated the feasibility of using profiled biomolecules for identifying microorganisms based on a chemometric or proteome database search approach. However, mechanisms driving the preferential ionization and detection of particular biomolecules in various types of mass spectrometry remain poorly understood. Specifically, mass spectra obtained from different microbial species remain poorly annotated with respect to the specific types of biomolecules accounting for the peaks. For example, while ribosomal proteins are known to be a significant class of biomolecules that could partially account for the profiled mass peaks in mass spectra of microorganisms, other classes of proteins and biomolecules remain poorly annotated. This raises the important question of how different mass spectrometry approaches ionize different types of biomolecules from a cellular matrix. Specifically, mass spectra of microorganisms reveal that only a couple of mass peaks could capture the phylogeny of a species. However, the proteome of a cell is much larger and more complicated, and yet is not fully profiled by different types of mass spectrometry methods. For example, electrospray ionization mass spectrometry (ESI-MS) and matrix-assisted laser desorption/ionization time-of-flight mass spectrometry (MALDI-TOF MS) could only provide a small snapshot of the entire bacterial proteome. It could be argued that different mass spectrometry methods provide complementary views of a particular proteome. However, the question remains, how do proteins and biomolecules interact with the different sample preparation and mass spectrometry analysis methods for generating an ion cloud for separation in a mass spectrometer? Thus, efforts could be directed towards understanding how different types of proteins could be preferentially ionized by MALDI-TOF MS. Specifically, different reagents could be used to perform chemical pretreatment on the proteome, which would subsequently be analyzed by mass spectrometry. Thus, a correlative map between types of chemical pretreatment used and the corresponding mass spectra could be obtained. Collectively, knowledge gleaned from the research would illuminate the chemical basis by which specific biomolecules are preferentially ionized under particular conditions, which would inform the development of strategies for increasing the subset of biomolecules ionized from a cellular proteome. Such chemical rules would also aid in the interpretation of mass spectra obtained, particularly in understanding the biological context of the experiment. Overall, the key goal of this research is to help answer the question: what is the biological basis and context of the mass spectrum obtained from cells?


Author(s):  
N. Tyshkivskaya ◽  
A. Tyshkivskaya

Use of MALDI-TOF mass spectrometry to identify yeast and molds in animal feed. The material for the work was animal feed samples received for research from diff erent regions of Ukraine. The presence of yeast and molds was determined according to DSTU ISO 7954:2006. To establish the general contamination of the feed with micromycetes, the fungi were fi rst isolated from the feed by planting them on Saburo medium, and the serial dilution method was used to calculate the content of fungi diaspores in 1 g of feed. The feed samples were incubated and studied at a temperature of 24 ° C for 5–7 days. The identifi cation of molds was carried out using the MALDI-TOF method. In the process of mycological examination of feed during 2018–2019. 198 animal feed samples were examined. During the study period, the largest number of feed was examined, which was 30.4% in 2018, of the total number of samples (19.6% - feed for poultry, 10.8% - for pigs). For fi ve months of 2019, we observed the same trend: in 31.1% of cases, the defi nitions of yeast and molds in compound feeds prevailed, of which 19.8% accounted for compound feeds for poultry and in 11.3% of cases for pigs. In second place in the number of studies, corn samples are 11.9 and 11.3% in 2018 and 2019, respectively. The most common types of fungi in the feed were representatives of the genera Fusarium, Penicillium, Aspergillus, Alternaria, Mucor, Rhizopus, Cladosporium. The affi liation of microscopic fungi to specifi c genera was determined by assessing the morphology of the fungal colony on media and the morphology of conidiophore structures Particular attention was paid to microscopic fungi of the Fusarium family, which are producers of various mycotoxins. Using the MALDI Biotyper software, automatic identifi cation was performed based on a comparison of the collected initial spectra of the fungus with the reference spectra of the database of the instrument itself, as well as with the library of the University of Belgium (BCCM, Belgian Co-Ordinateo collections of micro-organism). Following the results of mass spectrometry, microscopic fungi of the Fusarium family were represented by 9 species. Of these, 5 species were most often found: F. proliferatum, F. acutatum, F. subglutinans, F. verticillioides. Among the fungi of the Aspergillus family, A. fl avus, A. pseudoglaucus, A. tubingensis, and A. niger predominated. Species identifi cation of microscopic fungi using mass spectrometry helps quickly and accurately identify mold fungi and yeast. Determination of the species affi liation of microscopic organisms occurs through analysis of the protein fraction of the lysate of microscopic fungi and yeast ("direct protein profi ling"). MALDI Biotyper software includes automatic identifi cation of molds based on a comparison of the output spectra with the reference spectra of the database. Identifi cation of microorganisms using MALDI-TOF MS is based on the assessment of ribosomal proteins that are usually present in the cell. The sensitivity of the MALDI-TOF MS method is 103106 m.k./cm. In this case, the accuracy of identifi cation depends on the amount of test material. To determine the likelyhood of identifi cation, a given logarithmic indicator is the compliance coeffi cient Score, the value of which is used to evaluate the reliability and adequacy of the results. The higher the match rate, the more likely it is to get the correct identifi cation result. MALDI-TOF technology for mass spectrometric identifi cation of micromycetes has a high measurement speed, low cost of reagents and materials used, and simple preparation holes. MALDI-TOF MS has a high diagnostic sensitivity. Key words: mold identifi cation, MALDI-TOF, mass spectrometry, Fusarium, Penicillium, Aspergillus, Alternaria, Mucor, Rhizopus, Cladosporium.


2007 ◽  
Vol 53 (7) ◽  
pp. 1254-1263 ◽  
Author(s):  
Richard KT Kam ◽  
Terence CW Poon ◽  
Henry LY Chan ◽  
Nathalie Wong ◽  
Alex Y Hui ◽  
...  

Abstract Background: The use of MALDI-TOF mass spectrometry (MS) in quantitative glycan profiling has not been reported. In this study, we attempted to establish a high-throughput quantitative assay for profiling serum N-glycome, and we applied the new assay to identifying serum N-glycans for diagnosis of liver fibrosis and cirrhosis. Methods: N-glycans from whole serum proteins in 2 μL serum were released by enzymatic digestion, cleaned up by hydrophilic chromatography, and subsequently quantitatively profiled with a linear MALDI-TOF MS system, which was originally designed for quantitative proteomic profiling. Serum N-glycome profiles from 46 patients with chronic hepatitis B infection and with different degrees of liver fibrosis were examined. Results: The intra- and interassay CVs of peak intensities of the standard N-glycans were <8% and <17%, respectively. When the assay was applied to the analysis of serum N-glycome profiles, 17 peaks were found to be potential biomarkers for detection of liver fibrosis/cirrhosis. Linear regression analysis revealed that 4 peaks of 1341.5, 1829.7, 1933.3, and 2130.3 m/z (all P <0.005) had complementary value in detecting liver fibrosis and included them, but not any serological markers, in the diagnostic model. Leave-one-out cross-validation showed the diagnostic model could identify significant fibrosis (Ishak score ≥3) and cirrhosis (Ishak score ≥5), both at 85% accuracy. Conclusion: This is the first study to illustrate the quantitative aspect of MALDI-TOF MS in N-glycome profiling and the first study to reveal the potential value of the serum N-glycan profile for identifying liver fibrosis.


2021 ◽  
Vol 9 (10) ◽  
pp. 2006
Author(s):  
Tabea P. Wendel ◽  
Maureen Feucherolles ◽  
Jacqueline Rehner ◽  
Sven Poppert ◽  
Jürg Utzinger ◽  
...  

Taenia saginata is a helminth that can cause taeniasis in humans and cysticercosis in cattle. A species-specific diagnosis and differentiation from related species (e.g., Taenia solium) is crucial for individual patient management and disease control programs. Diagnostic stool microscopy is limited by low sensitivity and does not allow discrimination between T. saginata and T. solium. Molecular diagnostic approaches are not routinely available outside research laboratories. Recently, matrix-assisted laser desorption/ionization time-of-flight (MALDI-TOF) mass spectrometry (MS) was proposed as a potentially suitable technique for species-specific helminth diagnosis. However, standardized protocols and commercial databases for parasite identification are currently unavailable, and pre-analytical factors have not yet been assessed. The purpose of this study was to employ MALDI-TOF MS for the identification of T. saginata proglottids obtained from a human patient, and to assess the effects of different sample storage media on the technique’s diagnostic accuracy. We generated T. saginata-specific main spectral profiles and added them to an in-house database for MALDI-TOF MS-based diagnosis of different helminths. Based on protein spectra, T. saginata proglottids could be successfully differentiated from other helminths, as well as bacteria and fungi. Additionally, we analyzed T. saginata proglottids stored in (i) LC–MS grade water; (ii) 0.45% sodium chloride; (iii) 70% ethanol; and (iv) 37% formalin after 2, 4, 6, 8, 12, and 24 weeks of storage. MALDI-TOF MS correctly identified 97.2–99.7% of samples stored in water, sodium chloride, and ethanol, with log-score values ≥2.5, thus indicating reliable species identification. In contrast, no protein spectra were obtained for samples stored in formalin. We conclude that MALDI-TOF-MS can be successfully employed for the identification of T. saginata, and that water, sodium chloride, and ethanol are equally effective storage solutions for prolonged periods of at least 24 weeks.


Author(s):  
D. V. Ulshina ◽  
D. A. Kovalev ◽  
D. G. Ponomarenko ◽  
D. V. Rusanova ◽  
N. M. Shvetsova ◽  
...  

Aim.Study the possibility to apply time-of-flight mass-spectrometry for detection of causative agent of brucellosis in blood. Materials and methods. Brucella strains: 5 Brucella melitensis and 21 Brucella abortus. Protein profiling in linear mode on MALD1-TOF mass-spectrometer Microflex «Bruker Daltonics». Results. Technique for disinfection and preparation of blood samples was modified and optimized for MALDI-TOF MS analysis. 120 representative protein profiles of sera extract were obtained that contain brucellosis causative agent. A resulting peak-list (super-spectrum) of the studied protein fraction of blood extract of a conditionally healthy human within the studied group was formed and analyzed. Conclusion. A scheme of brucella detection in blood samples by MALDI-TOF MS is proposed, based on detection of a complex of 15 genus-specific fragments. Signals on mass-spectra of extracts of leukocyte fraction of blood, artificially contaminated with brucellosis causative agents are characterized.


2019 ◽  
Author(s):  
Wenfa Ng

Mass spectrometry-enabled microbial identification has successfully demonstrated the feasibility of using profiled biomolecules for identifying microorganisms based on a chemometric or proteome database search approach. However, mechanisms driving the preferential ionization and detection of particular biomolecules in various types of mass spectrometry remain poorly understood. Specifically, mass spectra obtained from different microbial species remain poorly annotated with respect to the specific types of biomolecules accounting for the peaks. For example, while ribosomal proteins are known to be a significant class of biomolecules that could partially account for the profiled mass peaks in mass spectra of microorganisms, other classes of proteins and biomolecules remain poorly annotated. This raises the important question of how different mass spectrometry approaches ionize different types of biomolecules from a cellular matrix. Specifically, mass spectra of microorganisms reveal that only a couple of mass peaks could capture the phylogeny of a species. However, the proteome of a cell is much larger and more complicated, and yet is not fully profiled by different types of mass spectrometry methods. For example, electrospray ionization mass spectrometry (ESI-MS) and matrix-assisted laser desorption/ionization time-of-flight mass spectrometry (MALDI-TOF MS) could only provide a small snapshot of the entire bacterial proteome. It could be argued that different mass spectrometry methods provide complementary views of a particular proteome. However, the question remains, how do proteins and biomolecules interact with the different sample preparation and mass spectrometry analysis methods for generating an ion cloud for separation in a mass spectrometer? Thus, efforts could be directed towards understanding how different types of proteins could be preferentially ionized by MALDI-TOF MS. Specifically, different reagents could be used to perform chemical pretreatment on the proteome, which would subsequently be analyzed by mass spectrometry. Thus, a correlative map between types of chemical pretreatment used and the corresponding mass spectra could be obtained. Collectively, knowledge gleaned from the research would illuminate the chemical basis by which specific biomolecules are preferentially ionized under particular conditions, which would inform the development of strategies for increasing the subset of biomolecules ionized from a cellular proteome. Such chemical rules would also aid in the interpretation of mass spectra obtained, particularly in understanding the biological context of the experiment. Overall, the key goal of this research is to help answer the question: what is the biological basis and context of the mass spectrum obtained from cells?


2018 ◽  
Vol 54 (82) ◽  
pp. 11546-11549 ◽  
Author(s):  
Zengnan Wu ◽  
Ling Lin ◽  
Mashooq Khan ◽  
Weifei Zhang ◽  
Sifeng Mao ◽  
...  

A DNA-mediated rolling circle amplification (RCA) strategy was established for ultrasensitive and specific detection of thrombin via MALDI-TOF MS.


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