4 Material und Umwelt
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Organisationseinheit der BAM
- 4 Material und Umwelt (139) (entfernen)
A fundamental question in ecology is how biodiversity affects ecosystem function. Biodiversity is commonly estimated based on genetic variation. We investigated a new approach that defines and measures biodiversity in complex microbial communities. We used the variation in multiple functionally-relevant, phenotypic traits measured in parallel in single cells as a metric for microbial phenotypic diversity. We studied phenotypic diversity and ecosystem functioning throughout different photosynthetic layers dominated by divergent microbial communities in the gradient of Lago di Cadagno. We determined genetic diversity by 16S and 18S amplicon sequencing and bulk ecosystem functioning (photosynthesis). In addition, we determined phenotypic diversity using single-cell technologies such as nanometer-scale secondary ion mass spectrometry (NanoSIMS) correlated with confocal laser scanning microscopy (CLSM) and scanning flow-cytometry. We measured functional trait variation between individuals in 13CO2 fixation, 15NH4+ uptake, and variation in physio-morphological cell traits, such as cell size, shape, and auto-fluorescence for various pigments related to photosynthesis. We used the distances between individuals in a multidimensional trait space to derive phenotypic trait-based diversity indices, such as trait richness, trait evenness, and trait divergence. We find that phenotypic trait divergence associates with ecosystem functioning, whereas genetic diversity does not. Including activity-based, single-cell phenotypic measurements with NanoSIMS provided an additional accuracy to the trait-based diversity assessment and allowed us to formulate hypotheses on the mechanisms that shape the correlation between phenotypic diversity and eco-system function. Together, our results show that phenotypic diversity is a meaningful concept to measure microbial biodiversity and associate it with ecosystem functioning.
Background Bacterial biofilms are regarded as the most common cause of chronic infections and are often associated with medical devices, such as implants and catheters. Bacteria growing in biofilms produce a protective, extracellular matrix, which enables them to tolerate much higher antimicrobial concentrations than free-living bacteria and survive long enough to acquire antimicrobial resistance. Preventive and therapeutic strategies against biofilm infections in clinical settings commonly involve the application of multiple antimicrobials: biocidal coatings on the biomaterials and systemically administered antibiotics. This frequent practice harbors the risk of the development of cross-resistance via shared resistance mechanisms between antimicrobials used in material coatings and administered antibiotics.
Aim Our goal is to determine how bacteria adapt to antimicrobials during biofilm formation on surfaces coated with antimicrobials and how population dynamics within biofilms affect the transmission of resistance mutations. Specifically, we want to identify antimicrobial-antibiotic-combinations that select for and against antibiotic resistance in biofilms by following the population dynamics of resistant and susceptible strains in competition assays on a single cell level.
Methodology To study the effect of antimicrobial-antibiotic exposure on resistance development and population dynamics on bacterial biofilms in a multidrug environment, we will grow Pseudomonas aeruginosa on glass surfaces with and without antimicrobial coatings and expose them to antibiotics. First, we will screen in vitro for combinations of antibiotics and antimicrobials that select for and against antibiotic resistance. Second, effective combinations will be chosen for in-depth investigations during bacterial adhesion and of mature biofilms of resistant and susceptible genotypes. Third, based on the outcome of the screen and the obtained mechanistic understanding we will choose a clinical example in which we study the relevance of our findings in biofilms grown in vivo.
Relevance Studying the biointerfacial interactions between bacterial biofilms and medical devices in terms of population dynamics as well as on single cell level during multidrug selection will help us understand how drug resistance develops and spreads in persistent biofilm infections. Based on our findings we aim to provide clinical recommendations for improved administration of antibiotics/antimicrobials in combination with medical device materials in order to mitigate against biofilm associated antimicrobial resistance.
Introduction: Biofilms are regarded as a common cause of chronic infections on medical devices. Preventive and therapeutic strategies against biofilm infections commonly involve applications of multiple antimicrobial substances: antimicrobial coatings on the implanted biomaterials in combination with systemically administered antibiotics. While this practice of combination therapy harbours the risk of developing cross-resistance, it might also provide the possibility to implement specific antimicrobial-antibiotic combinations (AACs) that can slow down the selection of antibiotic resistant strains.
Hypothesis and aims: Specific AACs can exert combinatorial effects on the growth of susceptible and antibiotic-resistant Pseudomonas aeruginosa that either suppress or increase their individual effects.
Our aim is to identify AACs with antagonistic or synergistic effects on pseudomonal biofilms and to understand their impact on selection of resistant strains. Specifically, we want to identify AACs that select for and against antibiotic resistance during biofilm formation.
Methodology: We screened for AACs that cause antagonistic or synergistic effects on planktonic P. aeruginosa.
To study the effect of antimicrobial-antibiotic exposure on resistance selection in bacterial biofilms, we will grow resistant and sensitive strains on PDMS surfaces with and without antimicrobial coatings and expose them to antibiotics.
Results: Several combinations with synergistic or antagonistic interaction on the growth rate of P. aeruginosa were detected. We observed a strong antagonism when combining the antimicrobial substance chlorhexidine with the carbapenem drug meropenem. A meropenem-resistant mutant showed a selection advantage in low concentrations of chlorhexidine combined with a sub-inhibitory concentration of meropenem over the wild-type. No antagonistic effect was observed for the same combination when E. coli was exposed to chlorhexidine and meropenem, suggesting a non-chemical basis for the observed effect on P. aeruginosa.
Conclusion: Gaining a better understanding about resistance selection during biofilm formation on biomedical surfaces will enable us to mitigate against biofilm-associated antimicrobial resistance.
Background Bacterial biofilms are regarded as the most common cause of chronic infections and are often associated with medical devices, such as implants and catheters. Bacteria growing in biofilms produce a protective, extracellular matrix, which enables them to tolerate much higher antimicrobial concentrations than free-living bacteria and survive long enough to acquire antimicrobial resistance. Preventive and therapeutic strategies against biofilm infections in clinical settings commonly involve the application of multiple antimicrobials: biocidal coatings on the biomaterials and systemically administered antibiotics. This frequent practice harbors the risk of the development of cross-resistance via shared resistance mechanisms between antimicrobials used in material coatings and administered antibiotics.
Aim Our goal is to determine how bacteria adapt to antimicrobials during biofilm formation on surfaces coated with antimicrobials, how antimicrobial resistance mutations are acquired and evolve within mature biofilms, and how population dynamics within biofilms affect the transmission of resistance mutations. Specifically, we want to identify antimicrobial-antibiotic-combinations that select for and against antibiotic resistance in biofilms by following the population dynamics of resistant and susceptible strains in competition assays.
Methodology We will grow biofilms of Pseudomonas aeruginosa on glass surfaces with and without antimicrobial coatings and expose them to antibiotics. Then we will track their physiological properties, evolutionary adaptations, and population dynamics. First, we will screen in vitro for combinations of antibiotics and antimicrobials that select for and against antibiotic resistance. Second, effective combinations will be chosen for in-depth investigations during bacterial adhesion and of mature biofilms of resistant and susceptible genotypes. Third, based on the outcome of the screen and the obtained mechanistic understanding we will choose a clinical example in which we study the relevance of our findings in biofilms grown in vivo.
Relevance Studying the biointerfacial interactions between bacterial biofilms and medical devices in terms of population dynamics as well as on single cell level during multidrug selection will help us understand how drug resistance develops and spreads in persistent biofilm infections. Based on our findings we aim to provide clinical recommendations for improved administration of antibiotics/antimicrobials in combination with medical device materials in order to mitigate against biofilm associated antimicrobial resistance.
Im Zusammenhang mit dem Horizon2020 geförderten Projekt SCALE (GA°730105) untersuchen wir an der BAM die Scandium Spezies in industriellen Restsoffen wie zum Beispiel Rotschlamm. Dabei kommen Methoden wie Elektronenmikroskopie, LA-ICP-MS und auch X-ray Adsorption near edge structure an Synchrotron-Lichtquellen zum Einsatz. Das Verständnis der Bindungsformen des Scandiums soll im Weiteren helfen, metallurgische Gewinnungsmethoden zu verbessern und anzupassen.
The SCALE Project is a Horizon2020 Project (GA°730105) that aims to develope a secure supply chain for Scandium in Europe. To achieve that, the whole value chain is investigated and new methodologies and techniques are being developed. In BAM we are characterizing potential Scandium-bearing industrial by-products.
A mobile Bruker S2 Picofox TXRF spectrometer has been used in two field campaigns within the EMPIR env07 AEROMET project for the on-site analysis of cascade impactor aerosol samples.The results show that even at moderate air pollution levels – i.e.PM10 fairly below 20 μg/m³ - element mass concentrations in air in the range of 100 pg/m³could be measured in up to 13 size bins after sampling times of less than only 0.5 days.
Quality Improvement of VOC chamber emission tests observed for 10 years with round robin tests
(2018)
In Europe, the Construction Products Regulation (CPR, 2011/305/EU) sets basic requirements (BR) on how construction works must be designed and built. BR 3 “hygiene, health and the environment” states low emissions of toxic gases, Volatile Organic Compounds (VOCVOCs), particles, etc. from building materials. Meanwhile, a worldwide network of professional Commercial and non-commercial laboratories performing emission tests for the evaluation of products for interior use has been established.
Therefore, comparability of test results must be ensured. The participation in Round Robin Tests (RRTRRTs) is a means to prove a laboratory’s proficiency. Since 2006 BAM offers such proficiency test for emission chamber test every two years.
Any commercially available product on the market can be used as reference material, provided it is thoroughly characterised. However, these materials often emit only a few and material specific VOCs and appropriate homogeneity is not given. Therefore, alternative materials should be found. BAM used different materials over the years. Currently, the best suited reference material is a cured lacquer surface which contained several VOCs added to the liquid lacquer system. The round robin tests 2014, 2016 and 2018 were conducted with such a system.
Compounds like Styrene or n-Alkanes like Decane or Tridecane were tested in many of the proficiency test operated by BAM. Up to now the relative standard deviation of these compounds decrease continuously. Starting with values about 30 % in 2008 we reached values for the mentioned compounds 15 to 20 % now. But even for more polar compounds improved results were received.
Over the years the results of a large group of laboratories detected many compounds with much higher accuracy than at the beginning. So, the comparability between results of different laboratories becomes much better.
Generation of experimental uptake rates (UR) for > 70 VOCs (7d /100 μg m-3)
Application in German Environmental Survey – VOC exposure assessment
Assurance of transparency concerning UR generation and uncertainty creates basis for decision making and comparability of measurement results.
Exemplarily the uncertainty u(UR) of toluene UR was modelled and determined statistically with own laboratory data (relative standard deviation of actively sampled test gas atmosphere – RSDa and n = 5 exposed passive samplers – RSDp) in line with EN 838 as well as from variation of literature UR – RSD UR,lit.
Soil microbes are exposed to different environmental stressors originating from various sources. Biocides used as material preservatives can represent environmental stressors since they are in direct contact with the environment including soil. Microorganism in soils can adapt to stress by different mechanisms; for example, by transferring mobile genetic elements via horizontal gene transfer (HGT). Here, we hypothesize that material preservatives can cause increased frequencies of HGT (i.e. altered community permissiveness) facilitating microbial community adaptation to stress. Furthermore, we hypothesize that soil microbial communities are primed by biocide exposure facilitating the response to different types of stresses. We will incubate soil mesocosms with selected biocides to investigate if these compounds promote HGT of plasmids that carry resistance genes in soil microbial communities. Subsequently, we will prime the soil microbial community with sub-inhibitory concentrations of biocides followed by exposure to toxic biocide concentrations or other types of common environmental stresses including metals, antibiotics, and salt. Using suitable control experiments, a shift in the functional response of the primed as compared to the non-primed community would indicate that biocides prime microbial communities via HGT. Together these results will elucidate the effect of biocides on HGT-mediated adaptation to environmental stressors in soil microbial communities.
Soil microbes are exposed to different environmental stressors originating from various sources. Biocides used as material preservatives can represent environmental stressors since they are in direct contact with the environment including soil. Microorganism in soils can adapt to stress by different mechanisms; for example, by transferring mobile genetic elements via horizontal gene transfer (HGT). Here, we hypothesize that material preservatives can cause increased frequencies of HGT (i.e. altered community permissiveness) facilitating microbial community adaptation to stress. Furthermore, we hypothesize that soil microbial communities are primed by biocide exposure facilitating the response to different types of stresses. We will incubate soil mesocosms with selected biocides to investigate if these compounds promote HGT of plasmids that carry resistance genes in soil microbial communities. Subsequently, we will prime the soil microbial community with sub-inhibitory concentrations of biocides followed by exposure to toxic biocide concentrations or other types of common environmental stresses including metals, antibiotics, and salt. Using suitable control experiments, a shift in the functional response of the primed as compared to the non-primed community would indicate that biocides prime microbial communities via HGT. Together these results will elucidate the effect of biocides on HGT-mediated adaptation to environmental stressors in soil microbial communities.
Due to the vital importance of phosphorus (P) and its increasing scarcity as a natural resource, phosphorus recovery has recently gained significant scientific and technical interest. An interesting sources of phosphorus are sewage sludge (SS) and sewage sludge ash (SSA) due to the major part of the phosphate from P rich wastewater is transferred to the sludge (approx. 90%). Despite the fact that the raw materials base is large (PURE report indicates that in 2020 the amount of sewage sludge generated in Poland will reach 180% of the dry matter of sewage sludge produced in 2010), at present recycling of phosphorus is not a commonly used practice in Poland.
Micro-(nano-)encapsulation technology involves building of a barrier between the core and the environment and offers a number of benefits to preserve the functional and physicochemical properties of core material. Tremendous progress has been made in synthesizing well-defined capsules to achieve desired properties such as particle size, chemical composition, and controlled release of the payload.
Encapsulation of volatile organic compounds (VOCs) that could evaporate with a defined rate is of immense interest for application in emission reference materials (ERM). These are urgently needed for quality assurance and quality control purposes (QA/QC) required by test standards for the determination of chemical emissions of construction and other materials for interior use. As such ERMs are hardly available on the market, the EU-funded EMPIR project MetrIAQ [1] was started to fill this gap by developing a material with temporally constant emission of VOCs typically found in indoor air.
Different capsules in a size range between 5 and 50 μm were synthesized through an interfacial polyaddition/polycondensation reaction in direct (water-in-oil) system. As VOC several types of hydrophobic liquid materials were used. After synthesis, the morphology and physicochemical properties of capsules were characterized by electron microscopy, FTIR and DSC/TGA. An encapsulation efficiency up to 90% could be reached. The emission kinetic of volatile agents was studied in emission test chambers at 23 °C and 50% RH for 14 days. First results indicate that variation of the cross-linking grade of the shell material is one important parameter to adjust the desired emission rate. The overall aim is to achieve a consistent emission profile that decreases by less than 10 % over a target period of at least 14 days.
Micro-(nano-)encapsulation technology involves building a barrier between the core and the environment and offers several benefits to preserve the functional and physicochemical properties of core material. Tremendous progress has been made in synthesizing well-defined capsules to achieve desired properties such as particle size, chemical composition, and controlled release of loaded compounds.
Encapsulation of volatile organic compounds (VOCs) that could evaporate with a defined rate is of immense interest for application in emission reference materials (ERM). These are urgently needed for quality assurance and quality control purposes (QA/QC) required by test standards for the determination of chemical emissions of construction and other materials for interior use. As such ERMs are hardly available on the market, the EU-funded EMPIR project MetrIAQ was started to fill this gap by developing a material with temporally constant emission of VOCs typically found in indoor air.
Antimicrobials can exert specific physiological effects when used in combination that are different from those when applied alone. These effects include physiological effects (i.e. synergy, antagonism and suppression) as well as evolutionary effects on the selection of resistant strains (i.e. cross-resistance and collateral sensitivity). While combination effects have been extensively mapped for antibiotic-antibiotic combinations, the combination effects of antibiotics with antimicrobials used as biocides or antiseptics have not been systematically investigated.
Here, we investigated the physiological and evolutionary consequences of combinations of antibiotics (meropenem, gentamicin and ciprofloxacin) and substances used as biocides or antiseptics (octenidine, benzalkonium chloride, cetrimonium bromide, chlorhexidine, povidone-iodine, silver) on growth and selection of Pseudomonas aeruginosa. We find prevalent physiological combination effects with synergy occurring 6 times and antagonism occurring 10 times. The effects are specific to the antibiotic-biocide combination with meropenem showing a tendency for antagonism with biocides (6 of 7), while gentamicin has a tendency for synergy (5 of 7). A particular strong antagonism is apparent for the meropenem-chlorhexidine combination, for which we conducted an in-depth study on the underlying molecular mechanism using RNASeq. Moreover, we find widespread effects of the biocide-antibiotic combinations on selection of P. aeruginosa strains resistant to the antibiotics, including cross-resistance and collateral sensitivity.
In conclusion, antibiotics and biocides or antiseptics exert physiological and evolutionary combination effects on the pathogen P. aeruginosa. These effects have consequences for the efficacy of both types of substances and for the selection of antimicrobial resistant strains in clinical applications with combined exposure (e.g. wound care, coated biomaterials).
Disinfectants are important to prevent the transmission of pathogens, especially in the face of the current antibiotic resistance crisis. The crisis is further exacerbated by phenotypically tolerant persister subpopulations that can survive transient antibiotic treatment and facilitate resistance evolution. Despite the transient nature of disinfectant application, persistence to disinfectants and its role for the evolution of tolerance and cross-resistance to antibiotics has not been studied. Our work shows that E. coli displays persistence against several widely used disinfectants, including benzalkonium chloride (BAC), didecyldimethylammoniumchlorid (DDAC) and isopropanol. The molecular mechanism of BAC persistence is triggered in stationary phase and affected by several antibiotic persister genes (hipA, tisB, tolC, relA, spoT). Experimental evolution and population dynamic modeling show that repeated failure of disinfection due to persisters rapidly selects for BAC tolerance underpinned by reduced cell surface charge due to mutations in genes related to lipid A acylation (lpxML). Furthermore, evolved BAC tolerance affects the susceptibility to antibiotics, leading to positive selection of disinfectant tolerant strains at environmentally relevant antibiotic concentrations and variations in evolvability of antibiotic resistance due to epistatic effects. These results highlight the need for faithful application of disinfectants to steward their efficacy and the efficacy of antibiotics. A better understanding of the bacterial response to disinfectants is crucial to understand and avert the ongoing antimicrobial resistance crisis.
Antimicrobial resistance is a major threat to human health. The prevalence of multi-drug resistant (MDR) bacteria is predicted to increase in the future requiring robust control strategies. One cornerstone to prevent the spread of MDR bacteria in clinical settings is the application of disinfectants to improve hygiene standards. However, bacteria can evolve resistance to disinfectants, which in turn can confer cross-resistance to antibiotics. Additionally, clonal bacterial populations can display phenotypic heterogeneity with respect to the tolerance of antibiotic stress leading to a prolonged survival of a sub-population; this phenomenon is termed persistence. Persistence to antibiotics is an evolvable trait and can serve as a stepping stone for the evolution of genetically encoded resistance. Until now, there is a lack of systematic studies that investigate if bacterial populations establish persister subpopulations that tolerate disinfectant stress longer than the majority of the population. Our results in E. coli indicate that persistence is a bacterial survival strategy against benzalkonium chloride, a widely used disinfectant.
In future experiments, we will investigate the evolution of persistence in the face of fluctuating exposure to disinfectants and whether persistence facilitates resistance against disinfectants. Lastly, we will test how tolerance and resistance against disinfectants affects susceptibility against antibiotics.
Background:
One cornerstone to prevent the spread of antibiotic resistant bacteria in clinical settings is the application of disinfectants. However, bacteria can evolve resistance to disinfectants, which in turn can confer cross-resistance to antibiotics. Additionally, clonal bacterial populations can display phenotypic heterogeneity with respect to the tolerance of antibiotic stress leading to a prolonged survival of a sub-population; this phenomenon is termed persistence. Persistence to antibiotics is an evolvable trait and can serve as a stepping stone for the evolution of genetically encoded resistance. Until now, there is a lack of systematic studies that investigate if bacterial populations establish persister subpopulations that tolerate disinfectant stress longer than most of the population.
Objectives:
Our objective is to investigate if persistence is a bacterial survival strategy against disinfectants. Furthermore, we investigate the mechanisms of disinfectant persistence and if persistence can evolve in the face of fluctuating exposure to disinfectants. Lastly, we test if the evolved mechanisms of disinfectant tolerance lead to disinfectant resistance and if they confer cross-tolerance and cross-resistance against antibiotics.
Methods:
We use time-kill assays in the presence of disinfectants and experimental evolution combined to whole-genome sequencing in the model organism E. coli.
Results:
We find persister sub-populations against chlorhexidine and quaternary ammonium compounds, but not to alcohols, aldehydes and oxidative compounds. We will present the relationship of mechanisms known to underlie antibiotic persister formation to the formation of persisters against disinfectants. In addition, we will present data from an ongoing evolution experiment for persistence against disinfectants.