Cytosolic Proteome Profiling of Aminoglycosides Resistant Mycobacterium tuberculosis Clinical Isolates Using MALDI-TOF/MS

Sharma, Divakar; Lata, Manju; Singh, Rananjay; Deo, Nirmala; Venkatesan, K; Bisht, Deepa

doi:10.3389/fmicb.2016.01816

Cited by 38 publications

(38 citation statements)

References 55 publications

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“…The CAO-specific integration site is located 338 bp upstream of Rv1360 and is in the same orientation. An overexpression of Rv1360 was determined in amikacin-and kanamycin-resistant M. tuberculosis isolates, speculatively suggesting its role in the compensation of drug resistance (18). Finally, it may be noted that a PPE family gene (PPE19, a core mycobacterial gene, conserved in mycobacterial strains) is located immediately downstream of Rv1360.…”

Section: Resultsmentioning

confidence: 99%

Simple Assay for Detection of the Central Asia Outbreak Clade of the Mycobacterium tuberculosis Beijing Genotype

et al. 2019

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The Central Asia outbreak (CAO) clade is a branch of the Mycobacterium tuberculosis Beijing genotype that is associated with multidrug resistance, increased transmissibility, and epidemic spread in parts of the former Soviet Union. Furthermore, migration flows bring these strains far beyond their areas of origin. We aimed to find a specific molecular marker of the Beijing CAO clade and develop a simple and affordable method for its detection. Based on the bioinformatics analysis of the large M. tuberculosis whole-genome sequencing (WGS) data set (n = 1,398), we identified an IS6110 insertion in the Rv1359-Rv1360 intergenic region as a specific molecular marker of the CAO clade. We further designed and optimized a multiplex PCR method to detect this insertion. The method was validated in silico with the recently published WGS data set from Central Asia (n = 277) and experimentally with M. tuberculosis isolates from European and Asian parts of Russia, the former Soviet Union, and East Asia (n = 319). The developed molecular assay may be recommended for rapid screening of retrospective collections and for prospective surveillance when comprehensive but expensive WGS is not available or practical. The assay may be especially useful in high multidrug-resistant tuberculosis (MDR-TB) burden countries of the former Soviet Union and in countries with respective immigrant communities.

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Section: Resultsmentioning

confidence: 99%

Simple Assay for Detection of the Central Asia Outbreak Clade of the Mycobacterium tuberculosis Beijing Genotype

et al. 2019

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“…This may lead to the negligence of the strains identified at the "genus" level, thus underestimating the accuracy of MALDI-TOF MS in identifying anaerobes at the genus level. Despite these problems, MALDI-TOF MS is still widely used in bacterial identification and other fields such as strain typing [54], detection of virulence factors [55] and evaluation of drug resistance [56][57][58].…”

Section: Subgroup Meta-analysesmentioning

confidence: 99%

Application of MALDI-TOF MS to rapid identification of anaerobic bacteria

Liu

Shan

Zhu

et al. 2019

Preprint

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Matrix-assisted laser desorption ionization-time of flight mass spectrometry (MALDI-TOF MS) has been rapidly developed and widely used as an analytical technique in clinical laboratories with high accuracy in microorganism identification. OBJECTIVE: To validate the efficacy of MALDI-TOF MS in identification of clinical pathogenic anaerobes. METHODS: Twenty-eight studies covering 6685 strains of anaerobic bacteria were included in this meta-analysis. Fixed-effects models based on the P -value and the I-squared were used for meta-analysis to consider the possibility of heterogeneity between studies. Statistical analyses were performed by using STATA 12.0. RESULTS : The identification accuracy of MALDI-TOF MS was 84% for species (I 2 = 98.0%, P < 0.1), and 92% for genus (I 2 = 96.6%, P < 0.1). Thereinto, the identification accuracy of Bacteroides was the highest at 96% with a 95% CI of 95-97%, followed by Lactobacillus spp., Parabacteroides spp., Clostridium spp., Propionibacterium spp., Prevotella spp., Veillonella spp. and Peptostreptococcus spp., and their correct identification rates were all above 90%, while the accuracy of rare anaerobic bacteria was relatively low. Meanwhile, the overall capabilities of two MALDI-TOF MS systems were different. The identification accuracy rate was 90% for VITEK MS vs . 86% for MALDI biotyper system. CONCLUSIONS: Our research showed that MALDI-TOF-MS was satisfactory in genus identification of clinical pathogenic anaerobic bacteria. However, this method still suffers from different drawbacks in precise identification of rare anaerobe and species levels of common anaerobic bacteria. Key words : MALDI-TOF MS , anaerobec, bacteria identification

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“…40 STRING analysis revealed that overexpressed proteins of intermediary metabolism and respiration, lipid metabolism, virulence, detoxification, adaptation, cell wall and cell processes, and conserved hypotheticals interacted with the other proteins, which were involved in various pathways of these categories. 20 We suggested that overexpressed proteins along with their interactome hold key pathways, which might cumulatively be involved in the pathogenesis of the prevalent strains of M. tuberculosis. In conclusion, comparative proteomic profiling of CF proteins of prevalent clinical M. tuberculosis isolates of north India by 2D-PAGE and MALDI-TOF/MS revealed consistently increased intensities of 12 proteins in all prevalent isolates, and of these, two are annotated with an unknown function.…”

Section: Have Reported Increasedmentioning

confidence: 99%

Proteomics of Culture Filtrate of Prevalent Mycobacterium tuberculosis Strains: 2D-PAGE Map and MALDI-TOF/MS Analysis

et al. 2017

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Although diverse efforts have been done to identify biomarkers for control of tuberculosis using laboratory strain Mycobacterium tuberculosis H37Rv, the disease still poses a threat to mankind. There are many emerging M. tuberculosis strains, and proteomic profiling of these strains might be important to find out potential targets for diagnosis and/or prevention of tuberculosis. We evaluated the comparative proteomic profiling of culture filtrate (CF) proteins from prevalent M. tuberculosis strains (Central Asian or Delhi type; CAS1_Del, East African-Indian; EAI-3 and Beijing family) by 2D polyacrylamide gel electrophoresis and matrix-assisted laser desorption ionization-time-of-flight mass spectrometry. As a result, we could identify 12 CF proteins (Rv0066c, Rv1310, Rv3375, Rv1415, Rv0567, Rv1886c, Rv3803c, Rv3804c, Rv2031c, Rv1038c, Rv2809, and Rv1911c), which were consistently increased in all prevalent M. tuberculosis strains, and interestingly, two CF proteins (Rv2809, Rv1911c) were identified with unknown functions. Consistent increased intensity of these proteins suggests their critical role for survival of prevalent M. tuberculosis isolates, and some of these proteins may also have potential as diagnostic and vaccine candidates for tuberculosis, which needs to be further explored by immunological analysis.

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Cytosolic Proteome Profiling of Aminoglycosides Resistant Mycobacterium tuberculosis Clinical Isolates Using MALDI-TOF/MS

Cited by 38 publications

References 55 publications

Simple Assay for Detection of the Central Asia Outbreak Clade of the Mycobacterium tuberculosis Beijing Genotype

Simple Assay for Detection of the Central Asia Outbreak Clade of the Mycobacterium tuberculosis Beijing Genotype

Application of MALDI-TOF MS to rapid identification of anaerobic bacteria

Proteomics of Culture Filtrate of Prevalent Mycobacterium tuberculosis Strains: 2D-PAGE Map and MALDI-TOF/MS Analysis

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