TY - JOUR A1 - Kuhring, M. A1 - Doellinger, J. A1 - Nitsche, A. A1 - Muth, Thilo A1 - Renard, B. Y. T1 - TaxIt: An Iterative Computational Pipeline for Untargeted Strain-Level Identification Using MS/MS Spectra from Pathogenic Single-Organism Samples N2 - Untargeted accurate strain-level classification of a priori unidentified organisms using tandem mass spectrometry is a challenging task. Reference databases often lack taxonomic depth, limiting peptide assignments to the species level. However, the extension with detailed strain information increases runtime and decreases statistical power. In addition, larger databases contain a higher number of similar proteomes. We present TaxIt, an iterative workflow to address the increasing search space required for MS/MS-based strain-level classification of samples with unknown taxonomic origin. TaxIt first applies reference sequence data for initial identification of species candidates, followed by automated acquisition of relevant strain sequences for low level classification. Furthermore, proteome similarities resulting in ambiguous taxonomic assignments are addressed with an abundance weighting strategy to increase the confidence in candidate taxa. For benchmarking the performance of our method, we apply our iterative workflow on several samples of bacterial and viral origin. In comparison to noniterative approaches using unique peptides or advanced abundance correction, TaxIt identifies microbial strains correctly in all examples presented (with one tie), thereby demonstrating the potential for untargeted and deeper taxonomic classification. TaxIt makes extensive use of public, unrestricted, and continuously growing sequence resources such as the NCBI databases and is available under open-source BSD license at https://gitlab.com/rki_bioinformatics/TaxIt. KW - Bioinformatics KW - Mass spectrometry KW - Microbial proteomics KW - Strain identification KW - MS/MS PY - 2020 DO - https://doi.org/10.1021/acs.jproteome.9b00714 VL - 19 IS - 6 SP - 2501 EP - 2510 PB - ACS AN - OPUS4-50942 LA - eng AD - Bundesanstalt fuer Materialforschung und -pruefung (BAM), Berlin, Germany ER - TY - JOUR A1 - Gornushkin, Igor B. A1 - Sennikov, P. A1 - Kornev, R. A1 - Ermakov, A. A1 - Shkrunin, V. T1 - Laser Induced Dielectric Breakdown for Chemical Vapor Deposition by Hydrogen Reduction of Volatile Boron Halides BCl3 and  BF3 N2 - A possibility of deposition from laser-induced plasma is investigated in search for an economic and simple method for obtaining isotopic compounds from enriched gaseous precursors although no isotopic compounds are used in this the proof-of-principle work. A breakdown in mixtures of BCl3 and BCl3 with hydrogen, argon, and methane are studied both theoretically and experimentally. Equilibrium chemistry calculations show the deposition of boron, boron carbide, and carbon is thermodynamically favorable in BCl3 systems and only carbon in BF3 systems. Dynamic calculation of expanding plasma is performed using fluid dynamics coupled with equilibrium chemistry. Condensed phases of boron, boron carbide, and graphite are predicted with maximum concentrations in peripheral zones of the plasma. In experiment, plasma is induced in mixtures BCl3, H2 + BCl3, H2 + Ar + BCl3, H2 + BCl3 + CH4, BF3, H2 + BF3, H2 + Ar + BF3, and H2 + Ar + BF3. The gases are analyzed before, during, and after laser irradiation by optical and mass spectrometry methods. The results show the composition of reaction products close to that predicted theoretically. The conversion of precursor gases BCl3 and BF3 into gaseous and condensed products is 100% for BCl3 and 80% for BF3. Solid deposits of up to 30 mg are obtained from all reaction mixtures. Due to technical reasons only FTIR characterization of the BCl3 + H2 + CH4 deposit is done. It points to presence of condensed boron and boron carbide predicted by the model. Overall, the calculations and preliminary experimental results imply the chemical vapor deposition with laser induced plasma is promising for conversion of gaseous enriched precursors into elemental isotopes and their isotopic compounds. KW - Boron halides KW - Chemical vapor deposition KW - Laser induced dielectric breakdown, Hydrogen reduction PY - 2020 DO - https://doi.org/10.1007/s11090-020-10096-w VL - 40 IS - 5 SP - 1145 EP - 1162 PB - Springer AN - OPUS4-50968 LA - eng AD - Bundesanstalt fuer Materialforschung und -pruefung (BAM), Berlin, Germany ER - TY - JOUR A1 - Ahmadi, Samim A1 - Burgholzer, P. A1 - Jung, P. A1 - Caire, G. A1 - Ziegler, Mathias T1 - Super resolution laser line scanning thermography N2 - In this paper we propose super resolution measurement and post-processing strategies that can be applied in thermography using laser line scanning. The implementation of these techniques facilitates the separation of two closely spaced defects and avoids the expected deterioration of spatial resolution due to heat diffusion. The experimental studies were performed using a high-power laser as heat source in combination with pulsed thermography measurements (step scanning) or with continuous heating measurements (continuous scanning). Our work shows that laser line step scanning as well as continuous scanning both can be used within our developed super resolution (SR) techniques. Our SR techniques make use of a compressed sensing based algorithm in post- processing, the so-called iterative joint sparsity (IJOSP) approach. The IJOSP method benefits from both - the sparse nature of defects in space as well as from the similarity of each measurement. In addition, we show further methods to improve the reconstruction quality e.g. by simple manipulations in thermal image processing such as by considering the effect of the scanning motion or by using different optimization algorithms within the IJOSP approach. These super resolution image processing methods are discussed so that the advantages and disadvantages of each method can be extracted. Our contribution thus provides new approaches for the implementation of super resolution techniques in laser line scanning thermography and informs about which experimental and post-processing parameters should be chosen to better separate two closely spaced defects. KW - Super resolution KW - Laser thermography KW - Compressed sensing KW - Laser scanning KW - Joint sparsity PY - 2020 UR - https://nbn-resolving.org/urn:nbn:de:kobv:b43-509796 DO - https://doi.org/10.1016/j.optlaseng.2020.106279 SN - 0143-8166 VL - 134 SP - 106279 PB - Elsevier Ltd. AN - OPUS4-50979 LA - eng AD - Bundesanstalt fuer Materialforschung und -pruefung (BAM), Berlin, Germany ER - TY - JOUR A1 - Rus, J. A1 - Gustschin, A. A1 - Mooshofer, H. A1 - Grager, J.-C. A1 - Bente, Klaas A1 - Gaal, Mate A1 - Pfeiffer, F. A1 - Grosse, C. U. T1 - Qualitative comparison of non-destructive methods for inspection of carbon fiber-reinforced polymer laminates N2 - In the rapidly expanding composite industry, novel inspection methods have been developed in recent years. Particularly promising for air-coupled testing are cellular polypropylene transducers which offer better impedance matching to air than piezoelectric transducers. Furthermore, broadband transmitters (laser-induced ultrasound and thermoacoustic emitters) and receivers (optical microphones) have opened a completely new chapter for advanced contact-free ultra-sound inspection. X-ray dark-field radiography offers a different approach to detect porosity and microcracks, employing small angle X-ray scattering. These innovative ultrasonic and radiographic alternatives were evaluated in comparison with well-established inspection techniques. We applied thirteen different non-destructive methods to inspect the same specimen (a carbon fiber-reinforced polymer laminate with induced impact damage): air-coupled ultrasound testing (using piezoelectric transducers, broadband optical microphones, cellular polypropylene transducers, and a thermoa- coustic emitter), laser-induced ultrasound testing, ultrasonic immersion testing, phased array ultrasonic testing, optically excited lock-in thermography, and X-ray radiography (projectional absorption and dark-field, tomosynthesis, and micro-computed tomography). The inspection methods were qualitatively characterized by comparing the scan results. The conclusions are advantageous for a decision on the optimal method for certain testing constraints. KW - Carbon fiber-reinforced polymer KW - Air-coupled ultrasound KW - Optically excited lock-in thermography KW - X-ray micro-computed tomography KW - X-ray dark-field radiography PY - 2020 UR - https://nbn-resolving.org/urn:nbn:de:kobv:b43-509473 DO - https://doi.org/10.1177/0021998320931162 SN - 0021-9983 VL - 54 IS - 27 SP - 4325 EP - 4337 PB - SAGE AN - OPUS4-50947 LA - eng AD - Bundesanstalt fuer Materialforschung und -pruefung (BAM), Berlin, Germany ER - TY - JOUR A1 - Tiitta, M. A1 - Tiitta, V. A1 - Gaal, Mate A1 - Heikkinen, J. A1 - Lappalainen, R. A1 - Tomppo, L. T1 - Air-coupled ultrasound detection of natural defects in wood using ferroelectret and piezoelectric sensors N2 - Air-coupled ultrasound was used for assessing natural defects in wood boards by through-transmission scanning measurements. Gas matrix piezoelectric (GMP) and ferroelectret (FE) transducers were studied. The study also included tests with additional bias voltage with the ferroelectret receivers. Signal analyses, analyses of the measurement dynamics and statistical analyses of the signal parameters were conducted. After the measurement series, the samples were cut from the measurement regions and the defects were analyzed visually from the cross sections. The ultrasound responses were compared with the results of the visual examination of the cross sections. With the additional bias voltage, the ferroelectret measurement showed increased signal-to-noise ratio, which is especially important for air-coupled measurement of high-attenuation materials like wood. When comparing the defect response of GMP and FE sensors, it was found that FE sensors had more sensitive dynamic range, resulting from better s/n ratio and short response pulse. Classification test was made to test the possibility of detecting defects in sound wood. Machine learning methods including decision trees, k-nearest neighbor and support vector machine were used. The classification accuracy varied between 72 and 77% in the tests. All the tested machine learning methods could be used efficiently for the classification. KW - Air-coupled transducers KW - Wood KW - Ultrasound KW - Ultrasonic imaging KW - Ferroelectret KW - Machine learning PY - 2020 UR - https://nbn-resolving.org/urn:nbn:de:kobv:b43-509503 DO - https://doi.org/10.1007/s00226-020-01189-y SP - 1 EP - 14 PB - Springer AN - OPUS4-50950 LA - eng AD - Bundesanstalt fuer Materialforschung und -pruefung (BAM), Berlin, Germany ER - TY - JOUR A1 - Faßbender, Sebastian A1 - Rodiouchkina, K. A1 - Vanhaecke, F. A1 - Meermann, Björn T1 - Method development for on-line species-specific sulfur isotopic analysis by means of capillary electrophoresis/multicollector ICP-mass spectrometry N2 - In this work, a method for species-specific isotopic analysis of sulfur via capillary electrophoresis hyphenated on-line with multicollector ICP-MS (CE/MC-ICP-MS) was developed. Correction for the mass bias caused by instrumental mass discrimination was realized via external correction with multiple-injection sample-standard bracketing. By comparing the isotope ratio measurement results obtained using the newly developed on-line CE/MC-ICP-MS method with those obtained via traditional MC-ICP-MS measurement after analyte/matrix separation by anion exchange chromatography for isotopic reference materials and an in-house bracketing standard, the most suitable data evaluation method could be identified. The repeatability for the sulfate-δ34S value (calculated from 18 measurements of a standard conducted over seven measurement sessions) was 0.57‰ (2SD) and thereby only twice that obtained with off-line measurements (0.30‰, n = 68). As a proof of concept for analysis of samples with a real matrix, the determination of the sulfur isotopic composition of naturally present sulfate was performed for different river systems. The CE/MC-ICP-MS results thus obtained agreed with the corresponding off-line MC-ICP-MS results within the 2SD ranges, and the repeatability of consecutive δ34S measurements (n = 3) was between 0.3‰ and 1.3‰ (2SD). Finally, the isotopic analysis of two different S-species in a river water sample spiked with 2-pyridinesulfonic acid (PSA) was also accomplished. KW - River water sulfate KW - Environmental speciation KW - Sulfur isotopes KW - On-line CE/MC-ICP-MS KW - Multiple-injection sample-standard bracketing PY - 2020 UR - https://nbn-resolving.org/urn:nbn:de:kobv:b43-509549 DO - https://doi.org/10.1007/s00216-020-02781-8 SN - 1618-2642 VL - 412 IS - 23 SP - 5637 EP - 5646 PB - Springer CY - Berlin, Heidelberg AN - OPUS4-50954 LA - eng AD - Bundesanstalt fuer Materialforschung und -pruefung (BAM), Berlin, Germany ER - TY - JOUR A1 - Bhattacharya, Biswajit A1 - Das, S. A1 - Lal, G. A1 - Soni, S. R. A1 - Ghosh, A. A1 - Reddy, C. M. A1 - Ghosh, S. T1 - Screening, crystal structures and solubility studies of a series of multidrug salt hydrates and cocrystals of fenamic acids with trimethoprim and sulfamethazine N2 - Multidrug solids have a potential use to efficiently treat and control a superfluity of medical conditions. To address the current drawbacks of drug development in R&D, it was targeted to achieve new pharmaceutical solid forms of fenamic acids having improved solubility and thermal stability. Subsequently, five new multicomponent solids consisting of three salt hydrates of trimethoprim (TMP) with mefenamic acid (TMP-MFA-H2O), tolfenamic acid (TMP-TFA-H2O) and flufenamic acid (TMP-FFA-H2O), and two cocrystals of sulfamethazine (SFZ) with flufenamic acid (SFZ-FFA) and niflumic acid (SFZ-NFA) were prepared by liquid assisted grinding. Looking at the structures of active pharmaceutical ingredient (API) molecules, it was quite expected that a wide range of supramolecular synthons would lead to cocrystallization. New forms were characterized thoroughly by various solid-state techniques, including single crystal X-ray diffraction (SCXRD), which provided details of hydrogen bonding, molecular packing and interactions between drug and coformer. Kinetic solubility at pH 7.4 buffer study has been carried out and a comparison is made with respect to the parent drugs. A significant enhancement of NSAIDs solubility was observed in all salt hydrate systems of TMP. Thus with increasing physicochemical properties such as improved solubility further leads to the enhancement of bioavailability, which has implications to overcoming the formulation related problems of active pharmaceutical ingredients (APIs). KW - Cocrystals KW - Crystal engineering KW - Solubility PY - 2020 DO - https://doi.org/10.1016/j.molstruc.2019.127028 SN - 0022-2860 VL - 1199 SP - 127028 PB - Elsevier B.V. AN - OPUS4-49873 LA - eng AD - Bundesanstalt fuer Materialforschung und -pruefung (BAM), Berlin, Germany ER - TY - JOUR A1 - Haller, T. A1 - Völker, Christoph A1 - Hartmann, T. T1 - Machine learning based multi-sensor fusion for the nondestructive testing of corrosion in concrete N2 - Half-cell potential mapping (HP) is the most popular non-destructive testing method (NDT) for locating corrosion damage in concrete. It is generally accepted that HP is susceptible to environmental factors caused by salt-related deterioration, such as different moisture and chloride gradients. Additional NDT methods are able to identify distinctive areas but are not yet used to estimate more accurate test results. We present a Supervised Machine Learning (SML) based approach to data fusion of seven different signal features to obtain higher quality information. SMLs are methods that explore (or learn) relationships between different (sensor) data from predefined data labels. To obtain a representative, labelled data set we conducted a comprehensive experiment simulating the deterioration cycle of a chloride exposed device in the laboratory. Our data set consists of 18 measurement campaigns, each containing HP, Ground Penetrating- Radar, Microwave Moisture and Wenner resistivity data. We compare the performance of different ML approaches. Many outperform the best single method, HP. We describe the intrinsic challenges posed by a data-driven approach in NDT and show how future work can help overcome them. T2 - SMAR2019 - 5th International Conference on Smart Monitoring, Assessment and Rehabilitation of Civil Structures CY - Potsdam, Germany DA - 27.08.2019 KW - Machine Learning KW - NDT KW - Half-Cell Potential Mapping KW - Corrosion KW - Reinforced Concrete KW - Data Fusion PY - 2020 UR - https://nbn-resolving.org/urn:nbn:de:kobv:b43-498563 UR - http://www.ndt.net/?id=24890 VL - 25 IS - 1 SP - 24890-1 EP - 24890-8 PB - NDT.net CY - Kirchwald AN - OPUS4-49856 LA - eng AD - Bundesanstalt fuer Materialforschung und -pruefung (BAM), Berlin, Germany ER - TY - JOUR A1 - Thummerer, G. A1 - Mayr, G. A1 - Hirsch, Philipp Daniel A1 - Ziegler, Mathias A1 - Burgholzer, P. T1 - Photothermal Image Reconstruction in Opaque Media with Virtual Wave Backpropagation N2 - Thermographic reconstruction of defects that lie in the bulk of a sample is a difficult task because entropy production during heat diffusion leads to information loss. To reconstruct defects one has to solve an inverse heat conduction problem. The quality of the reconstruction is closely related to the information content of the observed data set that is reflected by the decreasing ability to spatially resolve a defect with growing defect depth. In this work we show a 2D reconstruction of rectangular slots with different width-to-depth ratios in a metallic sample. For this purpose, we apply the virtual wave concept and incorporate positivity and sparsity as prior information to overcome the diffusion-based information loss partially. The reconstruction is based on simulated and experimental pulse thermography data. In the first reconstruction step, we compute a virtual wave field from the surface temperature data. This allows us, in the second step, to use ultrasonic backpropagation methods for image reconstruction. KW - Virtual wave concept KW - Thermography KW - Photothermal Technique KW - Image reconstruction PY - 2020 UR - https://nbn-resolving.org/urn:nbn:de:kobv:b43-506166 DO - https://doi.org/10.1016/j.ndteint.2020.102239 VL - 112 SP - 102239 PB - Elsevier Ltd. CY - Netherlands AN - OPUS4-50616 LA - eng AD - Bundesanstalt fuer Materialforschung und -pruefung (BAM), Berlin, Germany ER - TY - JOUR A1 - Maiwald, Michael T1 - The internet of things in the lab and in process - The digital transformation challenges for the laboratory 4.0 T1 - Das Internet of Things in Labor und Prozess - Herausforderungen des digitalen Wandels für das Labor 4.0 N2 - It is a fact that much of the time spent on analytical laboratory instrumentation these days goes into system maintenance. Digital transformation could give us more time again for creativity and our actual laboratory work – if we shape it the right way. N2 - Fakt ist: Einen Großteil der Zeit, der an analytischen Laborgeräten verbracht wird, nimmt heute die Systempflege in Anspruch. Der digitale Wandel kann uns endlich wieder mehr Zeit für Kreativität und die eigentliche Laborarbeit geben – wenn wir ihn richtig gestalten. KW - Lab of the Future KW - Digitalisation KW - Automation KW - Data Analysis KW - Instrument Communication KW - Labor der Zukunft KW - Digitale Transformation KW - Automatisierung KW - Gerätekommunikation PY - 2020 IS - 4 SP - 1 EP - 3 PB - Lumitos AG CY - Darmstadt AN - OPUS4-50618 LA - eng AD - Bundesanstalt fuer Materialforschung und -pruefung (BAM), Berlin, Germany ER - TY - JOUR A1 - Zhang, Zhiyang A1 - Li, Y. A1 - Frisch, J. A1 - Bär, M. A1 - Rappich, J. A1 - Kneipp, Janina T1 - In situ surface-enhanced Raman scattering shows ligand-enhanced hot electron harvesting on silver, gold, and copper nanoparticles N2 - Hot carriers (electrons and holes) generated from the decay of localized surface plasmon resonances can take a major role in catalytic reactions on metal nanoparticles. By obtaining surface enhanced Raman scattering (SERS) spectra of p-aminothiophenol as product of the reduction of p-nitrothiophenol by hot electrons, different catalytic activity is revealed here for nanoparticles of silver, gold, and copper. As a main finding, a series of different ligands, comprising halide and non-halide species, are found to enhance product formation in the reduction reaction on nanoparticles of all three metals. A comparison with the standard electrode potentials of the metals with and without the ligands and SERS data obtained at different electrode potential indicate that the higher catalytic activity can be associated with a higher Fermi level, thereby resulting in an improved efficiency of hot carrier generation. The concept of such a ligand-enhanced hot electron reduction provides a way to make light-to-chemical energy conversion more efficient due to improved electron harvesting. KW - Ligands KW - Hot electrons KW - SERS KW - p-Nitrothiophenol KW - p-Aminothiophenol PY - 2020 DO - https://doi.org/10.1016/j.jcat.2020.01.006 VL - 383 SP - 153 EP - 159 PB - Elsevier Inc. CY - Amsterdam, NL AN - OPUS4-50626 LA - eng AD - Bundesanstalt fuer Materialforschung und -pruefung (BAM), Berlin, Germany ER - TY - JOUR A1 - Ahmadi, Samim A1 - Burgholzer, P. A1 - Mayr, G. A1 - Jung, P. A1 - Caire, G. A1 - Ziegler, Mathias T1 - Photothermal super resolution imaging: A comparison of different thermographic reconstruction techniques N2 - This paper presents different super resolution reconstruction techniques to overcome the spatial resolution limits in thermography. Pseudo-random blind structured illumination from a onedimensional laser array is used as heat source for super resolution thermography. Pulsed thermography measurements using an infrared camera with a high frame rate sampling lead to a huge amount of data. To handle this large data set, thermographic reconstruction techniques are an essential step of the overall reconstruction process. Four different thermographic reconstruction techniques are analyzed based on the Fourier transform amplitude, principal component analysis, virtual wave reconstruction and the maximum thermogram. The application of those methods results in a sparse basis representation of the measured data and serves as input for a compressed sensing based algorithm called iterative joint sparsity (IJOSP). Since the thermographic reconstruction techniques have a high influence on the result of the IJOSP algorithm, this paper Highlights their Advantages and disadvantages. KW - Super resolution KW - Compressed sensing KW - Laser thermography KW - Virtual wave KW - Defect reconstruction PY - 2020 DO - https://doi.org/10.1016/j.ndteint.2020.102228 VL - 111 SP - 2228 PB - Elsevier Ltd. CY - Netherlands AN - OPUS4-50419 LA - eng AD - Bundesanstalt fuer Materialforschung und -pruefung (BAM), Berlin, Germany ER - TY - JOUR A1 - Ebel, Kenny A1 - Bald, Ilko T1 - Length and Energy Dependence of Low-Energy Electron-Induced Strand Breaks in Poly(A) DNA N2 - The DNA in living cells can be effectively damaged by high-energy radiation, which can lead to cell death. Through the ionization of water molecules, highly reactive secondary species such as low-energy electrons (LEEs) with the most probable energy around 10 eV are generated, which are able to induce DNA strand breaks via dissociative electron attachment. Absolute DNA strand break cross sections of specific DNA sequences can be efficiently determined using DNA origami nanostructures as platforms exposing the target sequences towards LEEs. In this paper, we systematically study the effect of the oligonucleotide length on the strand break cross section at various irradiation energies. The present work focuses on poly-adenine sequences (d(A4), d(A8), d(A12), d(A16), and d(A20)) irradiated with 5.0, 7.0, 8.4, and 10 eV electrons. Independent of the DNA length, the strand break cross section shows a maximum around 7.0 eV electron energy for all investigated oligonucleotides confirming that strand breakage occurs through the initial formation of negative ion resonances. When going from d(A4) to d(A16), the strand break cross section increases with oligonucleotide length, but only at 7.0 and 8.4 eV, i.e., close to the maximum of the negative ion resonance, the increase in the strand break cross section with the length is similar to the increase of an estimated geometrical cross section. For d(A20), a markedly lower DNA strand break cross section is observed for all electron energies, which is tentatively ascribed to a conformational change of the dA20 sequence. The results indicate that, although there is a general length dependence of strand break cross sections, individual nucleotides do not contribute independently of the absolute strand break cross section of the whole DNA strand. The absolute quantification of sequence specific strand breaks will help develop a more accurate molecular level understanding of radiation induced DNA damage, which can then be used for optimized risk estimates in cancer radiation therapy. KW - DNA origami KW - DNA radiation damage KW - DNA strand breaks KW - Low-energy electrons KW - Sequence dependence PY - 2020 UR - https://nbn-resolving.org/urn:nbn:de:kobv:b43-503563 DO - https://doi.org/10.3390/ijms21010111 VL - 21 IS - 1 SP - 1 EP - 11 PB - MDPI CY - Basel, Switzerland AN - OPUS4-50356 LA - eng AD - Bundesanstalt fuer Materialforschung und -pruefung (BAM), Berlin, Germany ER - TY - JOUR A1 - Schmidt, C. A1 - Schierack, P. A1 - Gerber, U. A1 - Schröder, C. A1 - Choi, Youngeun A1 - Bald, Ilko A1 - Lehmann, W. A1 - Rödiger, S. T1 - Streptavidin Homologues for Applications on Solid Surfaces at High Temperatures N2 - One of the most commonly used bonds between two biomolecules is the bond between biotin and streptavidin (SA) or streptavidin homologues (SAHs). A high dissociation constant and the consequent high-temperature stability even allows for its use in nucleic acid detection under polymerase chain reaction (PCR) conditions. There are a number of SAHs available, and for assay design, it is of great interest to determine as to which SAH will perform the best under assay conditions. Although there are numerous single studies on the characterization of SAHs in solution or selected solid phases, there is no systematic study comparing different SAHs for biomolecule-binding, hybridization, and PCR assays on solid phases. We compared streptavidin, core streptavidin, traptavidin, core traptavidin, neutravidin, and monomeric streptavidin on the surface of microbeads (10–15 μm in diameter) and designed multiplex microbead-based experiments and analyzed simultaneously the binding of biotinylated oligonucleotides and the hybridization of oligonucleotides to complementary capture probes. We also bound comparably large DNA origamis to capture probes on the microbead surface. We used a real-time fluorescence microscopy imaging platform, with which it is possible to subject samples to a programmable time and temperature profile and to record binding processes on the microbead surface depending on the time and temperature. With the exception of core traptavidin and monomeric streptavidin, all other SA/SAHs were suitable for our investigations. We found hybridization efficiencies close to 100% for streptavidin, core streptavidin, traptavidin, and neutravidin. These could all be considered equally suitable for hybridization, PCR applications, and melting point analysis. The SA/SAH–biotin bond was temperature-sensitive when the oligonucleotide was mono-biotinylated, with traptavidin being the most stable followed by streptavidin and neutravidin. Mono-biotinylated oligonucleotides can be used in experiments with temperatures up to 70 °C. When oligonucleotides were bis-biotinylated, all SA/SAH–biotin bonds had similar temperature stability under PCR conditions, even if they comprised a streptavidin variant with slower biotin dissociation and increased mechanostability. KW - Biopolymers Probes KW - Hybridization KW - Fluorescence KW - Genetics PY - 2020 DO - https://doi.org/10.1021/acs.langmuir.9b02339 VL - 36 IS - 2 SP - 628 EP - 636 PB - American Chemical Society Publication CY - Washington AN - OPUS4-50357 LA - eng AD - Bundesanstalt fuer Materialforschung und -pruefung (BAM), Berlin, Germany ER - TY - JOUR A1 - Gornushkin, Igor B. A1 - Gaft, M. A1 - Nagli, L. A1 - Raichlin, Y. T1 - Laser-induced breakdown spectroscopy (LIBS) of BaF2-Tm3+ N2 - Our recent study was focused on the emission from Laser Induced Plasma (LIP) at the delay times of tenths of microseconds after the laser pulse. At these long delays, the spectrum is dominated by the broadband molecular emission and plasma induced luminescence (PIL) produced by a luminescent matrix; only solitary atomic emission lines can be seen. Barium fluoride BaF2 activated by thulium (Tm) is a famous scintillator that presents the promising object for LIP in terms of both the potential for BaF molecular emission and Tm3+ PIL. The detection of molecular and PIL bands presents a new opportunity for analysis of halogens and rare-earth elements, which are the difficult objects for LIBS. In this paper, we show that the UV, Green, Extreme Red, and Infrared molecular bands from BaF and blue luminescence from Tm3+ are present in the LIP emission spectra while the detection of atomic Emission from F I and Tm I was impossible with the same experimental setup. Thus, the detection of molecular emission and PIL can be more sensitive than the traditional detection of Emission from atoms and ions. KW - BaF KW - Laser-Induced Breakdown Spectroscopy (LIBS) KW - Rare-Earth elements (Tm3+) KW - Plasma-induced luminescence PY - 2020 DO - https://doi.org/10.1016/j.sab.2020.105767 VL - 164 SP - 105767 PB - Elsevier B.V. AN - OPUS4-50360 LA - eng AD - Bundesanstalt fuer Materialforschung und -pruefung (BAM), Berlin, Germany ER - TY - JOUR A1 - von der Au, Marcus A1 - Borovinskaya, O. A1 - Flamigni, L. A1 - Kuhlmeier, K. A1 - Büchel, C. A1 - Meermann, Björn T1 - Single cell-inductively coupled plasma-time of flight-mass spectrometry approach for ecotoxicological testing N2 - Diatoms play a key role in assessing the eco-toxicology of metals and are already part of several national and international guidelines and regulations. Data on metal uptake and its correlation with a natural metal composition of the diatoms are mostly lacking on a cellular basis - mainly due to the lack of a suitable method on both the preparation and detection side. Therefore, within this work a fully automated approach based on the on-line coupling of a high performance liquid chromatograph (HPLC) and an inductively coupled plasma-time of flight-mass spectrometer (ICP-ToF-MS) was applied to analyze single cells of the alga Cyclotella meneghiniana multi-elementally in order to provide a deeper insight into the metal composition and its response to environmental stress. Multi-elemental analysis in single diatoms also enables assessment of combined toxicity of a set of metals. A set of four fingerprint elements, characteristically for diatoms (Mg, P, Si, Fe), were identified and hence the investigation of environmental stress onto the cells was enabled by performing incubation experiments with environmentally relevant toxic elements. It could be shown at moderate environmental stress caused by increasing the metal concentration in the medium (zinc) that the fingerprint element concentrations remained stable and thus the suitability of the selected elements for algae tracing was demonstrated. With regard to further ecotoxicological assessments, a multivariate approach was successfully applied allowing for cell classification upon different incubation concentration levels. This multivariate approach also facilitated an effective identification of three different diatom species (Cyclotella meneghiniana, Thalassiosira weissflogii and Thalassiosira pseudonana). KW - ICP-TOF-MS KW - Ecotoxicological Testing KW - Diatoms PY - 2020 DO - https://doi.org/10.1016/j.algal.2020.101964 VL - 49 SP - 101964 PB - Elsevier B.V. AN - OPUS4-50875 LA - eng AD - Bundesanstalt fuer Materialforschung und -pruefung (BAM), Berlin, Germany ER - TY - JOUR A1 - Szymoniak, Paulina A1 - Pauw, Brian Richard A1 - Qu, Xintong A1 - Schönhals, Andreas T1 - Competition of nanoparticle-induced mobilization and immobilization effects on segmental dynamics of an epoxy-based nanocomposite N2 - The complex effects of nanoparticles on a thermosetting material based on an anhydride cured DGEBA/Boehmite nanocomposite with different particle concentrations is considered. A combination of X-ray scattering, calorimetry, including fast scanning calorimetry as well as temperature modulated calorimetry and dielectric spectroscopy, was employed to study the structure, the vitrification kinetics and the molecular dynamics of the nanocomposites. For the first time in the literature for an epoxy-based composite a detailed analysis of the X-ray data was carried out. Moreover, the unfilled polymer was found to be intrinsically heterogeneous, showing regions with different crosslinking density, indicated by two separate dynamic glass transitions. The glass transition temperature decreases with increasing nanoparticle concentration, resulting from a change in the crosslinking density. Moreover, on the one hand, for nanocomposites the incorporation of nanofiller increased the number of mobile segments for low nanoparticle concentrations, due to the altered crosslinking density. On the other hand, for higher loading degrees the number of mobile segments decreased, resulting from the formation of an immobilized interphase (RAF). The simultaneous mobilization and immobilization of the segmental dynamics cannot be separated unambiguously. Taking the sample with highest number of mobile segments as reference state it was possible to estimate the amount of RAF. KW - Nanocomposite PY - 2020 DO - https://doi.org/10.1039/d0sm00744g SN - 1744-683X VL - 16 IS - 23 SP - 5406 EP - 5421 PB - Royal Chemical Society AN - OPUS4-50883 LA - eng AD - Bundesanstalt fuer Materialforschung und -pruefung (BAM), Berlin, Germany ER - TY - JOUR A1 - Marques, T. S. A1 - Schürmann, Robin A1 - Ebel, Kenny A1 - Heck, C. A1 - Smialek, M. A1 - Eden, Sam A1 - Mason, N. A1 - Bald, Ilko T1 - Kinetics of molecular decomposition under irradiation of gold nanoparticles with nanosecond laser pulses-A 5-Bromouracil case study N2 - Laser illuminated gold nanoparticles (AuNPs) efficiently absorb light and heat up the surrounding medium, leading to versatile applications ranging from plasmonic catalysis to cancer photothermal therapy. Therefore, an in-depth understanding of the thermal, optical, and electron induced reaction pathways is required. Here, the electrophilic DNA nucleobase analog 5-Bromouracil (BrU) has been used as a model compound to study its decomposition in the vicinity of AuNPs illuminated with intense ns laser pulses under various conditions. The plasmonic response of the AuNPs and the concentration of BrU and resulting photoproducts have been tracked by ultraviolet and visible (UV–Vis) spectroscopy as a function of the irradiation time. A kinetic model has been developed to determine the reaction rates of two parallel fragmentation pathways of BrU, and their dependency on laser fluence and adsorption on the AuNP have been evaluated. In addition, the size and the electric field enhancement of the decomposed AuNPs have been determined by atomic force microscopy and finite domain time difference calculations, respectively. A minor influence of the direct photoreaction and a strong effect of the heating of the AuNPs have been revealed. However, due to the size reduction of the irradiated AuNPs, a trade-off between laser fluence and plasmonic response of the AuNPs has been observed. Hence, the decomposition of the AuNPs might be limiting the achievable temperatures under irradiation with several laser pulses. These findings need to be considered for an efficient design of catalytic plasmonic systems. KW - Kinetics KW - Gold nanoparticles KW - 5-Bromouracil PY - 2020 DO - https://doi.org/10.1063/1.5137898 VL - 152 IS - 12 SP - 24712 EP - 24712 PB - AIP Publishing AN - OPUS4-50787 LA - eng AD - Bundesanstalt fuer Materialforschung und -pruefung (BAM), Berlin, Germany ER - TY - JOUR A1 - Kanwal, S. A1 - Ali, Naveed Zafar A1 - Hussain, R. A1 - Shah, F.U. A1 - Akhter, Z. T1 - Poly-thiourea formaldehyde based anticorrosion marine coatings on Type 304 stainless steel N2 - In the present study, hexamethylene diisocyanate (HMDI) encapsulated poly-thiourea formaldehyde (PTF) (10 wt%) coating was developed in an epoxy-polyamine matrix and their anticorrosion studies on Type SS304 stainless steel substrate have been conducted using electrochemistry techniques. The compact and hydrophobic shell wall of PTF proved to be a potent shell wall material for HMDI encapsulation. The effect of temperature and pH values was found to be decisive factor in the synthesis of microcapsules. The PTF microcapsules were synthesized in acidic condition with a pH value of 3. Over 90% of the core fraction is retained in water after 21 days immersion. However, core content decreased with increasing temperature. The capsules were characterized by Fourier transform infrared spectroscopy (FTIR), scanning electron microscopy (SEM), thermogravimetric analysis (TGA) and Electrochemical Impedance spectroscopy (EIS). Scanning electron microscopic analysis depicts the uniform morphology of coating with a particle size in the range of 1.08 µm–22.06 µm. The vibrational band at 2271 cm−1 attributed to NCO signal further endorses the successful encapsulation of HMDI into the PTF capsules. Electrochemical testing on steel specifies the appreciable anticorrosion performance of the synthesized poly thiourea formaldehyde (PTF) coating against artificial sea water. KW - In-situ polymerization KW - Encapsulation KW - Thiourea-formaldehyde KW - Marine corrosion PY - 2020 UR - https://nbn-resolving.org/urn:nbn:de:kobv:b43-507932 DO - https://doi.org/10.1016/j.jmrt.2019.12.045 VL - 9 IS - 2 SP - 2146 EP - 2153 PB - Elsevier B.V. AN - OPUS4-50793 LA - eng AD - Bundesanstalt fuer Materialforschung und -pruefung (BAM), Berlin, Germany ER - TY - JOUR A1 - Kepsutlu, B. A1 - Wycisk, V. A1 - Achazi, K. A1 - Kapishnikov, S. A1 - Perez-Berna, A.J. A1 - Guttmann, P. A1 - Cossmer, Antje A1 - Pereiro, E. A1 - Ewers, H. A1 - Ballauff, M. A1 - Schneider, G. A1 - McNally, J.G. T1 - Cells Undergo Major Changes in the Quantity of Cytoplasmic Organelles after Uptake of Gold Nanoparticles with Biologically Relevant Surface Coatings N2 - Here, we use cryo soft X-ray tomography (cryo-SXT), which delivers 3D ultrastructural volumes of intact cells without chemical fixation or staining, to gain insight about nanoparticle uptake for nanomedicine. We initially used dendritic polyglycerol sulfate (dPGS) with potential diagnostic and therapeutic applications in inflammation. Although dPGS-coated gold nanoparticle (dPGS-AuNP) uptake followed a conventional endocytic/degradative pathway in human lung epithelial cell lines (A549), with cryo-SXT, we detected ∼5% of dPGS-AuNPs in the cytoplasm, a level undetectable by confocal light microscopy. We also observed ∼5% of dPGS-AuNPs in a rarely identified subcellular site, namely, lipid droplets, which are important for cellular energy metabolism. Finally, we also found substantial changes in the quantity of cytoplasmic organelles upon dPGS-AuNP uptake over the 1–6 h incubation period; the number of small vesicles and mitochondria significantly increased, and the number of multivesicular bodies and the number and volume of lipid droplets significantly decreased. Although nearly all organelle numbers at 6 h were still significantly different from controls, most appeared to be returning to normal levels. To test for generality, we also examined cells after uptake of gold nanoparticles coated with a different agent, polyethylenimine (PEI), used for nucleic acid delivery. PEI nanoparticles did not enter lipid droplets, but they induced similar, albeit less pronounced, changes in the quantity of cytoplasmic organelles. We confirmed these changes in organelle quantities for both nanoparticle coatings by confocal fluorescence microscopy. We suggest this cytoplasmic remodeling could reflect a more common cellular response to coated gold nanoparticle uptake. KW - Cellular trafficking KW - Confocal laser scanning microscopy KW - Cytoplasmic remodeling KW - Dendritic polyglycerol sulfate KW - Polyethylenimine KW - 3D ultrastructural analysis KW - Cryo-soft X-ray tomography PY - 2020 DO - https://doi.org/10.1021/acsnano.9b09264 VL - 14 IS - 2 SP - 2248 EP - 2264 AN - OPUS4-50464 LA - eng AD - Bundesanstalt fuer Materialforschung und -pruefung (BAM), Berlin, Germany ER -