Dermatophytes’ identification by Matrix-assisted laser desorption ionization-time of flight mass spectrometry. (MALDI-TOF MS) - the experience of a clinical laboratory

Objectives: Dermatophytes are a challenging group of fungi that infect the keratinized tissues. The taxonomy of these fungi has changed recently with the reclassification of some species and description of new ones. However, many clinical laboratories still base the identification of dermatophytes on their phenotype. Since dermatophytes are very pleomorphic, macro and micromorphology are often insufficient to reach a correct classification and may lead to misidentifications. The identification based on MALDI-TOF relies on the protein profile of the microorganism. Thus, this study aims to summarize our current laboratorial experience of dermatophyte identification using MALDI-TOF MS. Methods: From january to april 2018, 95 dermatophytes isolates, collected from human keratinized samples and also from quality control programs were characterized by phenotypic analysis, and by VITEK MS V3.2 bioMerieux. Before identification procedure, isolates were inoculated on Sabouraud Dextrose agar plates and incubated at 27°C during 5 to 10 days. Species were identified taking into account clinical features, as well as cultural, microscopic and physiological characteristics. Prior to MALDI-TOF MS analysis, the samples were pre-treated according to the manufacturer’s protocol for filamentous fungi. Molecular identification by sequencing of the internal transcribed spacer 1 (ITS1) was performed in 34 of those isolates Results: Through phenotypic analysis eight different species were identified (54 Trichophyton rubrum; 4 T.soudanense; 22 T.interdigitale; 1 T.mentagrophytes; 3 T.tonsurans; 7 Microsporum canis; 3 M.audouinii; 1 Microsporum spp.- (non canis or audouinii). MALDI-TOF analysis showed an identification agreement in 80 cases (84,2%) with a confidence level of 99,9%. Eight isolates showed divergent identification results: three T.rubrum were identified as T.violaceum, three T.soudanense were identified as T.rubrum, one T.mentagrophytes was identified as T.interdigitale and one T.tonsurans was identified as T.rubrum. In four cases MALDI-TOF analysis did not get a profile. The ITS sequencing analysis of discrepant results corroborated the MALDI-TOF identification in five of them. On the other hand, T.soudanense was only identified by phenotypic analysis since MALDI-TOF and ITS sequencing result was T.rubrum. MALDITOF identification of T.violaceum was not confirmed by ITS sequencing that identified T. rubrum instead, in accordance with the phenotypic identification. Conclusion: Correct identification of dermatophytes to species level requires sequencing of the ITS, LSU, and/or betatubulin regions. The implementation of this methodology in a clinical laboratory is expensive and time consuming. MALDI-TOF identification is a good option for dermatophytes’ identification performed in laboratory routine, since costs of consumables as well as time of sample preparation are lower than for PCR analysis and doesn’t require long training period as phenotypic identification does. In this study, however, both methods failed to identify some species variants like Trichophyton soudanense or T. violaceum. The combined use of both MALDI-TOF and phenotypic methods seems to be the better approach for dermatophytes’ identification since some species show significant phenotypic and clinical differences.info:eu-repo/semantics/publishedVersio

Education Composition and Growth: A Pooled Mean Group Analysis of OECD Countries

This paper uses the pooled mean group (PMG) estimator and a dataset restricted to OECD countries to examine the relationship between different levels of education, i.e. between education composition and growth. The PMG estimator allows a greater degree of parameter heterogeneity than the usual estimator procedures used in empirical growth studies by imposing common long run relationships across countries while allowing for heterogeneity in the short run responses and intercepts. Results point to a significant longterm relationship not only between higher education and growth but also between lower schooling levels and growth. This indicates that public spending on education in OECD countries should be spread across the different levels of education in a balanced way.Levels of education, Economic growth, Dynamic heterogeneous panels.

The influence of microbial ecology of drinking water biofilms on their resistance to disinfection

The knowledge of the role of microbial ecology of drinking water (DW) biofilms on disinfection might help to improve our understanding of their resistance mechanisms and allow the development of effective strategies to apply in drinking water distribution systems (DWDS). In this study six opportunistic bacteria (Acinetobacter calcoaceticus, Burkholderia cepacia, Methylobacterium sp., Mycobacterium mucogenicum, Sphingomonas capsulata and Staphylococcus sp.) isolated from a DWDS were used to form single and multispecies biofilms. Those biofilms were exposed to sodium hypochlorite (SHC) at different oncentrations for 1 h and biofilm control was assessed in terms of mass removal and metabolic activity, cultivability and viability reduction. Biofilm recovery was also assessed 24 h after SHC treatment. The results demonstrate that total biofilm mass removal (single and multispecies biofilms) was not achieved for the SHC concentrations tested. Total biofilm inactivation was only achieved for A. calcoaceticus and Staphylococcus sp. single species biofilms and for multispecies biofilms without A. calcoaceticus, when exposed to high SHC concentrations. From the single species biofilms, Methylobacterium sp. and M. mucogenicum had the highest resistance to SHC, while Staphylocooccus sp. and A. calcoaceticus formed the most susceptible biofilms. Multispecies biofims with all the six bacteria had the highest resistance to SHC, while those without A. calcoaceticus were the most susceptible. However, in general multispecies biofilms were more resistant to inactivation and removal than the single biofilms. The recovery results demonstrated that only biofilms without A. calcoaceticus were not able to recover their biomass from the SHC treatments. Also, those biofilms had a decreased ability to recover their viability. This study highlights the importance of A. calcoaceticus in the resistance and functional resilience of DW biofilms. Despite this bacterium being one of the most susceptible to SHC, its presence in multispecies biofilms increased their resistence to disinfection and their ability to recover from SHC exposure

Acinetobacter calcoaceticus plays a bridging function in drinking water biofilms

Intergeneric coaggregation of six drinking water autochthonous heterotrophic bacteria isolated from a model laboratory system were tested for their ability to coaggregate by a visual assay and by two microscopic techniques (epifluorescence and scanning electron microscopies). One isolate, identified as Acinetobacter calcoacticus, was found not only to autoaggregate, but also to coaggregate with four of the five other isolates (Burkholderia cepacia, Methylobacterium sp., Mycobacterium mucogenicum, Sphingomonas capsulata and Staphylococcus sp.) to different degrees as assessed by the visual assay, highlighting a possible bridging function in a biofilm consortium. In its absence, no coaggregation was found. Microscopic observations revealed a higher degree of interaction for all the aggregates than did the visual assay. Heat and protease reversed autoaggregation and coaggregation, suggesting that interactions were lectin-saccharide mediated. The increase/decrease in the level of extracellular proteins and polysaccharides produced during intergeneric bacteria association was not correlated with coaggregation occurrence, but probably with coaggregation strength. The bridging function of A. calcoaceticus was evidenced by multispecies biofilm studies through a strain exclusion process.Este trabalho investiga a co-agregação intergenérica de seis bactérias heterotróficas autóctones de água potável isoladas de um sistema laboratorial modelo, testando assim a sua capacidade de co-agregação através do ensaio visual e de duas técnicas microscópicas (microscopia de epifluorescência e microscopia electrónica de varrimento). Para o isolado identificado como Acinetobacter calcoaceticus, foi detectado através do ensaio visual que não só auto-agrega, mas também co-agrega, a diferentes intensidades, com quatro dos outros cinco isolados (Burkholderia cepacia, Methylobacterium sp., Mycobacterium mucogenicum, Sphingomonas capsulata and Staphylococcus sp.), realçando a possível função de ligação em biofilmes multi-espécie. Na sua ausência não foi detectada co-agregação. As observações microscópicas revelaram um maior grau de interacção para todos os agregados do que a detectada pelo ensaio visual. O tratamento com calor e protease reverteram a auto-agregação e a co-agregação, sugerindo que as interacções são mediadas por lectinas-açúcares. O aumento/diminuição no nível de proteínas e polissacarídeos extracelulares produzidos durante os fenómenos de co-agregação não estão relacionados com a sua ocorrência, mas provavelmente com a sua força de interacção. A função de ligação da A. calcoaceticus nos consórcios microbianos foi evidenciada pela formação de biofilmes multi-espécie, através de um processo de exclusão bacteriana.Fundação para a Ciência e a Tecnologia (FCT) - SFRH/BD/31661/2006, FRH/BPD/20582/200

A review of current and emergent biofilm control strategies

Microbial adhesion to surfaces and the consequent biofilm formation has been documented in many different environments. Biofilms constitute a protected mode of growth that allows microorganisms to survival in hostile environments, being their physiology and behavior significantly different from their planktonic counterparts. In dairy industry, biofilms may be a source of recalcitrant contaminations, causing food spoilage and are possible sources of public health problems such as outbreaks of foodborne pathogens. Biofilms are difficult to eradicate due to their resistant phenotype. However, conventional cleaning and disinfection regimens may also contribute to inefficient biofilm control and to the dissemination of resistance. Consequently, new control strategies are constantly emerging with main incidence in the use of biosolutions (enzymes, phages, interspecies interactions and antimicrobial molecules from microbial origin). The present review will focus on describing the mechanisms involved in biofilm formation and behavior, deleterious effects associated with their presence, and some of the current and emergent control strategies, providing new insight of concern for food industry.Fundação para a Ciência e a Tecnologia (FCT) - SFRH/BD/31661/200

Comparison of methods to assess biofilm disinfection and recovery by drinking water-isolated bacteria

Drinking water (DW) distribution systems are known to harbour biofilms even in the presence of disinfectants. DW biofilms are constituted by microbial communities adapted to low nutrient concentrations and high chlorine levels. Biofilm formation and resistance to disinfection have been recognized as important factors that contribute to the survival and persistence of microbial contamination in DW. The purpose of this work was the comparison of diverse methods to assess the disinfection of biofilms formed by six DW-isolated opportunistic bacteria (Acinetobacter calcoaceticus, Burkholderia cepacia, Methylobacterium sp., Mycobacterium mucogenicum, Sphingomonas capsulata and Staphylococcus sp.) by sodium hypochlorite (SHC). Single and multi-species biofilms (composed of combinations of 6 and 5 bacteria) were developed in 96- wells microtiter plates for 3 days, afterwards, were exposed to several independent SHC concentrations (0.1, 0.5, 1 and 10 mg/L) during 1 h. The potential of biofilms to recover was assessed 24 h after disinfection. The disinfection efficacy and recovery were assessed in terms of variation in: biofilm mass (crystal violet staining); metabolic activity (XTT staining); cultivability (CFUs) and viability (Live/Dead staining). The results indicated that biomass removal increased with increasing SHC concentration, but total biofilm mass removal was not achieved. The effects of SHC on the biofilm activity, cultivability and viability were also concentration dependent. Total biofilm inactivation was achieved only for A. calcoaceticus biofilms and for multi-species biofilms without A. calcoaceticus, when exposed to high SHC concentrations. Almost all multispecies biofilms were more resistant to removal and inactivation than the single biofilms. Methylobacterium sp. and A. calcoaceticus formed the most resistant and the most susceptible biofilms, respectively. On the other hand, biofilm combination with the six DW bacteria was the most resistant to SHC and combination without A. calcoaceticus was the least resistant, for all concentration tested. The several methods used to assess of biofilm activity (metabolic activity, cultivability and viability) provided comparable results. However the viability results provide the worst case scenario in terms of biofilm control analysis (higher number of viable cells for all the SHC concentrations tested). The recovery results demonstrated that only biofilms without A.calcoaceticus were not able to recover their biomass from the SHC treatments. Also, those biofilms had a decreased ability to recover their metabolic activity, cultivability and viability. Conversely, multi-species biofilms without Staphylococcus sp. had the highest ability to recover from disinfection. Biofilm mass and activity recovery were not correlated for all the biofilms tested. However, the data of biofilm recovery in terms of metabolic activity, cultivability and viability also provided comparable results