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- 2020 (3) (entfernen)
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- Englisch (3)
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- Biofilms (1)
- Diffraction analysis (1)
- Electron beam cladding (1)
- Exploratory analysis (1)
- FTIR (1)
- High-temperature properties (1)
- Metastable phases (1)
- Microplastics (1)
- Titanium aluminides (1)
- Wear (1)
Organisationseinheit der BAM
Pseudomonas aeruginosa MPAO1 is the parental strain of the widely utilized transposon mutant collection for this important clinical pathogen. Here, we validate a model system to identify genes involved in biofilm growth and biofilm-associated antibiotic resistance. Our model employs a genomics-driven workflow to assemble the complete MPAO1 genome, identify unique and conserved genes by comparative genomics with the PAO1 reference strain and genes missed within existing assemblies by proteogenomics. Among over 200 unique MPAO1 genes, we identified six general essential genes that were overlooked when mapping public Tn-seq data sets against PAO1, including an antitoxin. Genomic data were integrated with phenotypic data from an experimental workflow using a user-friendly, soft lithography-based microfluidic flow chamber for biofilm growth and a screen with the Tn-mutant library in microtiter plates. The screen identified hitherto unknown genes involved in biofilm growth and antibiotic resistance. Experiments conducted with the flow chamber across three laboratories delivered reproducible data on P. aeruginosa biofilms and validated the function of both known genes and genes identified in the Tn-mutant screens. Differential Protein abundance data from planktonic cells versus biofilm confirmed the upregulation of candidates known to affect biofilm formation, of structural and secreted proteins of type VI secretion systems, and provided proteogenomic evidence for some missed MPAO1 genes. This integrated, broadly applicable model promises to improve the mechanistic understanding of biofilm formation, antimicrobial tolerance, and resistance evolution in biofilms.
Ti-Al-Nb based intermetallic layers of sufficient quality and thickness were obtained by non-vacuum electron beam cladding on the surfaces of Ti workpieces. Optical microscopy and X-ray tomography did not reveal any dramatical defects in the structure of cladded layers. X-ray diffraction as well as scanning and transmission electron microscopy were applied to thoroughly investigate the structure and phase composition of coatings. It was found that non-equilibrium cooling conditions of coatings provided by fast removal of heat to untreated Ti substrate after the electron beam cladding was terminated induced the proceeding of metastable phase transformations. For example, γ-phase formation was suppressed in these coatings. In coatings with 8 and 20 at.% Nb (46 and 43% Al respectively) along with ordered with α2, formation of disordered solution of the alloying elements in α-Ti took place. In high-Nb alloys β(B2) phase has undergone the diffusionless transformation to ω’, which is the intermediate phase in β → ω and the coating with the maximum Nb content characterized by appearance of γ1 as a main phase. ω-phase had negative influence to hardness and wear resistance of coatings, however, generally this paremeter increased in 1.3–1.75 times compared to cp-Ti. The high temperature creep and oxidation properties decreased proportionally with increasing Nb and decreasing Al content in the cladded layers.
Exploratory analysis of hyperspectral FTIR data obtained from environmental microplastics samples
(2020)
Hyperspectral imaging of environmental samples with infrared microscopes is one of the preferred methods to find and characterize microplastics. Particles can be quantified in terms of number, size and size distribution. Their shape can be studied and the substances can be identified. Interpretation of the collected spectra is a typical problem encountered during the analysis. The image datasets are large and contain spectra of countless particles of natural and synthetic origin. To supplement existing Analysis pipelines, exploratory multivariate data analysis was tested on two independent datasets. Dimensionality reduction with principal component analysis (PCA) and uniform manifold approximation and projection (UMAP) was used as a core concept. It allowed for improved visual accessibility of the data and created a chemical two-dimensional image of the sample. Spectra belonging to particles could be separated from blank spectra, reducing the amount of data significantly. Selected spectra were further studied, also applying PCA and UMAP. Groups of similar spectra were identified by cluster analysis using k-means, density based, and interactive manual clustering. Most clusters could be assigned to chemical species based on reference spectra. While the results support findings obtained with a ‘targeted analysis’ based on automated library search, exploratory analysis points the attention towards the group of unidientified spectra that remained and are otherwise easily overlooked.