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Chien-Hsun Huang, Lina Huang, Mu-Tzu Chang, Kuo-Lung Chen
Members of the Bacillus subtilis group (BSG) possess industrial applicability; unfortunately, B. subtilis and its phylogenetically closest species are indistinguishable from one another using 16S rDNA sequencing, physiological and biochemical tests. Matrix-assisted laser desorption ionization-time of flight mass spectrometry (MALDI-TOF MS) is a relatively novel technique for the fast and reliable identification of microorganisms. The aim of this study was to construct a unique analytical in-house database (IHDB) for BSG discrimination based on whole-cell protein fingerprinting using MALDI-TOF MS, as well as to discover biomarkers from the MS peaks to generate a classification model for further differentiation using the ClinProTools software...
August 6, 2016: Molecular and Cellular Probes
Yuzheng Huang, Wei Li, Kun Liu, Chunrong Xiong, Peng Cao, Jianping Tao
Oncomelania hupensis snails along the Yangtze River and the low positive rate and infectiosity of human and livestock schistosomiasis still pose a threat to public health in China. Adult blood flukes were recognized as Schistosoma japonicum, which are found in the portal system of the sentinel mice bred in the laboratory for 35 days after contact with the water. However, 35 days was too long from the field test to dissection, and the dissection in the laboratory was also time-consuming and labor-intensive...
November 2016: Parasitology Research
Rafaella C Grenfell, Afonso R da Silva Junior, Gilda M B Del Negro, Regina B Munhoz, Viviane M F Gimenes, Diego M Assis, Anna C Rockstroh, Adriana L Motta, Flavia Rossi, Luiz Juliano, Gil Benard, João N de Almeida Júnior
Candida haemulonii is now considered a complex of two species and one variety: C. haemulonii sensu stricto, Candida duobushaemulonii and the variety C. haemulonii var. vulnera. Identification (ID) of these species is relevant for epidemiological purposes and for therapeutic management, but the different phenotypic commercial systems are unable to provide correct species ID for these emergent pathogens. Hence, we evaluated the MALDI-TOF MS performance for the ID of C. haemulonii species, analyzing isolates/strains of C...
2016: Frontiers in Microbiology
Guan-heng Ren, Ning-guo Liu, Yi-jiu Chen, Yan Shi, Dong-hua Zou, Ping Huang, Zheng-dong Li, Ho Yu Sha, Kai-fei Deng
OBJECTIVE: To establish a diagnostic model for diffuse axonal injury (DAI) by matrix-assisted laser desorption/ionization time-of-flight mass spectrometry (MALDI-TOF-MS). To screen the proteins or peptides associated with DAI for providing the biomarkers with theoretic foundation. METHODS: Fifteen male Sprague-Dawley rats were randomly divided into DAI group (n = 10) and control group (n = 5). The protein or peptide expression profiles of rat brain stem were detected by MALDI-TOF-MS...
February 2016: Fa Yi Xue za Zhi
E V Zyeva, N A Stoyanova, N K Tokarevich, Areg A Totolyan
AIM: Creation of a classification model of Leptospira spp. serovar model using ClinProTools 3.0 software and evaluation of use of MALDI-TOF MS as a method of quality control of reference strains of leptospira. MATERIALS AND METHODS: 10 reference strains of Leptospira spp. were used in the study according to microscopic agglutination reaction from the collection of Pasteur RIEM. All the strains were cultivated for 10 days in Terskikh medium at 28 degrees C. Cell extracts were obtained by ethanol/formic acid method...
November 2015: Zhurnal Mikrobiologii, Epidemiologii, i Immunobiologii
Suthamat Niyompanich, Kitima Srisanga, Janthima Jaresitthikunchai, Sittiruk Roytrakul, Sumalee Tungpradabkul
Whole-cell matrix-assisted laser desorption/ionization time-of-flight mass spectrometry (whole-cell MALDI-TOF MS) has been widely adopted as a useful technology in the identification and typing of microorganisms. This study employed the whole-cell MALDI-TOF MS to identify and differentiate wild-type and mutants containing constructed single gene mutations of Burkholderia pseudomallei, a pathogenic bacterium causing melioidosis disease in both humans and animals. Candidate biomarkers for the B. pseudomallei mutants, including rpoS, ppk, and bpsI isolates, were determined...
2015: PloS One
S Nakano, Y Matsumura, Y Ito, T Fujisawa, B Chang, S Suga, K Kato, T Yunoki, G Hotta, T Noguchi, M Yamamoto, M Nagao, S Takakura, M Ohnishi, T Ihara, S Ichiyama
Surveillance of Streptococcus pneumoniae serotypes is important for the successful implementation of vaccination strategies to prevent the spread of invasive pneumococcal diseases. The standard method of serotyping of pneumococcal isolates is the phenotypic Neufeld test, which is cost- and labor-intensive. Recently, matrix-assisted laser desorption ionization-time of flight mass spectrometry (MALDI-TOF MS) has been implemented as a rapid, simple and inexpensive method for identifying species. We evaluated the performance of MALDI-TOF MS for serotyping ten major serotypes of S...
November 2015: European Journal of Clinical Microbiology & Infectious Diseases
Tingting Zhang, Jinya Ding, Xiancai Rao, Jingbo Yu, Meiling Chu, Wei Ren, Lu Wang, Wencheng Xue
Methicillin-resistant Staphylococcus aureus (MRSA) is an important pathogen associated with nosocomial infections in many countries. Multilocus sequence typing (MLST) is one of the genetic typing methods used to type MRSA with a high discriminatory power, however, it is labor-intensive, timely, and costly. Matrix-assisted laser desorption ionization-time of flight mass spectrometry (MALDI-TOF MS) coupled with ClinProTools is a potential tool to discover biomarker peaks and to generate a classification model based on highly sophisticated mathematical algorithms to discriminate clonal lineages...
October 2015: Journal of Microbiological Methods
Joanna Hajduk, Jan Matysiak, Piotr Kokot, Piotr Nowicki, Paweł Dereziński, Zenon J Kokot
An alternative bioinformatics approach based on fuzzy theory statistics and linear discriminant analysis is proposed for the interpretation of MALDI MS spectra in peptide profiling. When applied, the methodology enables the establishment of a reproducible plasma preparation protocol appropriate for the evaluation of small data sets. The samples were collected from pregnant women affected by gestational diabetes mellitus (GDM), n=18 and control group, n=13. The following pre-treatment sets were tested: pipette tips with C18 stationary phase (ZipTip, Millipore and Omix, Agilent) and magnetic bead-based weak cation exchange chromatography kit (MB WCX, Bruker Daltonics)...
August 25, 2015: Clinica Chimica Acta; International Journal of Clinical Chemistry
Juan Yang, Xin Zhang, Xiaofan Xiong, Qiuhua Wu, Lingyu Zhao, Liying Liu, Yannan Qin, Tusheng Song, Chen Huang
The serum proteomic profiles of mice exposed to terrified-sound-induced stress and after stress release were investigated. Serum samples from 32 mice were divided into four groups (n = 8 each) and analyzed using matrix-assisted laser desorption and ionization time-of-flight mass spectrometry techniques (MALDI-TOF MS) combined with magnetic bead-based weak cation-exchange chromatography. ClinProTools software identified several distinct markers that differed between the stressed and control groups and between the stress released and stressed released controls...
October 2015: Journal of Molecular Neuroscience: MN
Lin Yang, Chuanhao Tang, Bin Xu, Weixia Wang, Jianjie Li, Xiaoyan Li, Haifeng Qin, Hongjun Gao, Kun He, Santai Song, Xiaoqing Liu
OBJECTIVES: Epidermal growth factor receptor (EGFR) gene mutations in tumors predict tumor response to EGFR tyrosine kinase inhibitors (EGFR-TKIs) in non-small-cell lung cancer (NSCLC). However, obtaining tumor tissue for mutation analysis is challenging. Here, we aimed to detect serum peptides/proteins associated with EGFR gene mutation status, and test whether a classification algorithm based on serum proteomic profiling could be developed to analyze EGFR gene mutation status to aid therapeutic decision-making...
2015: PloS One
Jonathan H K Chen, Kevin K K She, Oi-Ying Wong, Jade L L Teng, Wing-Cheong Yam, Susanna K P Lau, Patrick C Y Woo, Vincent C C Cheng, Kwok-Yung Yuen
BACKGROUND: Differentiation of Streptococcus pneumoniae from other viridans group streptococci is well known to be challenging in clinical laboratories. Matrix assisted laser desorption ionisation-time of flight mass spectrometry (MALDI-TOF MS) had been reported to be a good alternative for Streptococcus species level identification. However, differentiation of S. pneumoniae from other Streptococcus mitis group organisms was found to be problematic using the Bruker MALDI Biotyper system...
August 2015: Journal of Clinical Pathology
Viktor Månsson, Fredrik Resman, Markus Kostrzewa, Bo Nilson, Kristian Riesbeck
Haemophilus influenzae type b (Hib) is, in contrast to non-type b H. influenzae, associated with severe invasive disease, such as meningitis and epiglottitis, in small children. To date, accurate H. influenzae capsule typing requires PCR, a time-consuming and cumbersome method. Matrix-assisted laser desorption ionization-time of flight mass spectrometry (MALDI-TOF MS) provides rapid bacterial diagnostics and is increasingly used in clinical microbiology laboratories. Here, MALDI-TOF MS was evaluated as a novel approach to separate Hib from other H...
July 2015: Journal of Clinical Microbiology
Li-jun Wang, Xin-xin Lu, Wei Wu, Wen-jun Sui, Gui Zhang
In order to evaluate a rapid matrix-assisted laser desorption ionization-time of flight mass spectrometry (MAIDI-TOF MS) assay in screening vancomycin-resistant Enterococcus faecium, a total of 150 E. faecium clinical strains were studied, including 60 vancomycin-resistant E. faecium (VREF) isolates and 90 vancomycin-susceptible (VSEF) strains. Vancomycin resistance genes were detected by sequencing. E. faecium were identified by MALDI-TOF MS. A genetic algorithm model with ClinProTools software was generated using spectra of 30 VREF isolates and 30 VSEF isolates...
2014: European Journal of Mass Spectrometry
Yang Zhao, Ya-Nan Liu, Yi Li, Li Tian, Xue Ye, Heng Cui, Xiao-Hong Chang
BACKGROUND: We investigated possible biomarkers for endometriosis (EM) using the ClinProt technique and proteomics methods. METHODS: We enrolled 50 patients with EM, 34 with benign ovarian neoplasms and 40 healthy volunteers in this study. Serum proteomic spectra were generated by matrix-assisted laser desorption/ionization time-of-flight mass spectrometry (MS) combined with weak cationic exchange (WCX) magnetic beads. Possible biomarkers were analyzed by a random and repeat pattern model-validation method that we designed, and ClinProtools software, results were refined using online liquid chromatography-tandem MS...
February 20, 2015: Chinese Medical Journal
Wei Liu, Wen-Xu Hong, Yanfang Zhang, Peiwu Huang, Xifei Yang, Xiaohu Ren, Haiyan Huang, Jianjun Liu
Trichloroethylene (TCE) has long been well known as a major pollutant that affects both occupational and general environments. Occupational medicamentosa-like dermatitis induced by TCE (OMLDT) is an autoimmune disease, which has become one of the critical occupational health issues in China. In this study, we analyzed 18 OMLDT patients and 29 professional TCE contact people on serum proteomic analysis by matrix-assisted laser desorption ionization time-of-flight mass spectrometry and ClinProTools bioinformatics software...
November 2015: Clinical and Experimental Medicine
Juan Yang, Jin Yang, Yan Gao, Lingyu Zhao, Liying Liu, Yannan Qin, Xiaofei Wang, Tusheng Song, Chen Huang
OBJECTIVE: To investigate discriminating protein patterns and serum biomarkers between clear cell renal cell carcinoma (ccRCC) patients and healthy controls, as well as between paired pre- and post-operative ccRCC patients. METHODS: We used magnetic bead-based separation followed by matrix-assisted laser desorption ionization (MALDI) time-of-flight (TOF) mass spectrometry (MS) to identify patients with ccRCC. A total of 162 serum samples were analyzed in this study, among which there were 58 serum samples from ccRCC patients, 40 from additional paired pre- and post-operative ccRCC patients (n = 20), and 64 from healthy volunteers as healthy controls...
2014: PloS One
Juan Yang, Jiang Zhu, Kang He, Ling-Yu Zhao, Li-Ying Liu, Tu-Sheng Song, Chen Huang
AIM: To reveal the serum proteomic profiling of intraductal carcinoma (IDC) patients in China, establish a serum proteome fractionation technique for choosing magnetic beads for proteomic analysis in breast cancer research; and identify differentially expressed peptides (m/z; P < 0.0001) as potential biomarkers of early IDCs. METHODS: We used two different kinds of magnetic beads (magnetic bead-based weak cation exchange chromatography (MB-WCX) and immobilized metal ion affinity chromatography (MB-IMAC-Cu)) to analyze 32 patients with early stage (stages I-II) IDC and 32 healthy control serum samples for proteomic profiling by matrix-assisted laser desorption/ionization time-of-flight mass spectrometry (MALDI-TOF MS) analysis...
July 2015: Journal of Clinical Laboratory Analysis
Marlène Sauget, Marie-Hélène Nicolas-Chanoine, Nadège Cabrolier, Xavier Bertrand, Didier Hocquet
Escherichia coli classification into phylogroups reflects the diversity of their pathogenicity and their ecological niche, B2 isolates being the most virulent among extra-intestinal strains. MALDI-TOF MS allows a quick, automated, simple and inexpensive bacterial identification. We evaluated the MALDI-TOF MS as a tool for E. coli phylogroup differentiation. We used 656 E. coli isolates, previously assigned to phylogroup A, B1, B2, and D by multiplex PCR, to constitute independent training and validation sets...
November 2014: International Journal of Medical Microbiology: IJMM
Satoshi Nakano, Yasufumi Matsumura, Karin Kato, Tomoyuki Yunoki, Go Hotta, Taro Noguchi, Masaki Yamamoto, Miki Nagao, Yutaka Ito, Shunji Takakura, Satoshi Ichiyama
Vancomycin-resistant enterococci are important nosocomial pathogens that require rapid and accurate detection for infection control. Matrix-assisted laser desorption/ionisation time-of-flight mass spectrometry (MALDI-TOF/MS) has begun to be used in many clinical laboratories because it is a rapid, simple and inexpensive method for identifying micro-organisms. In this study, the performance of MALDI-TOF/MS to differentiate vanA-positive Enterococcus faecium (VPEF) from vanA-negative E. faecium (VNEF) was evaluated...
September 2014: International Journal of Antimicrobial Agents
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