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MALDI-TOF-MS-based identification of monoclonal murine anti-SARS-CoV-2 antibodies within one hour
(2022)
During the SARS-CoV-2 pandemic, many virus-binding monoclonal antibodies have been developed for clinical and diagnostic purposes. This underlines the importance of antibodies as universal bioanalytical reagents. However, little attention is given to the reproducibility crisis that scientific studies are still facing to date. In a recent study, not even half of all research antibodies mentioned in publications could be identified at all. This should spark more efforts in the search for practical solutions for the traceability of antibodies. For this purpose, we used thirty-five monoclonal antibodies against SARS-CoV-2 to demonstrate how sequence-independent antibody identification can be achieved by simple means applied onto the protein. First, we examined the intact and light chain masses of the antibodies relative to the reference material NIST-mAb 8671. Already half of the antibodies could be identified based solely on these two parameters. In addition, we developed two complementary peptide mass fingerprinting methods with MALDI-TOF-MS that can be performed in 45 minutes and had a combined sequence coverage of over 80%. One method is based on the partial acidic hydrolysis of the protein by 5 mM of sulfuric acid at 99 °C. Furthermore, we established a fast way for a tryptic digest without an alkylation step. We were able to show that the distinction of clones is possible simply by a brief visual comparison of the mass spectra. In this work, two clones originating from the same immunization gave the same fingerprints. Later, a hybridoma sequencing confirmed the sequence identity of these sister clones. In order to automate the spectral comparison for larger libraries of antibodies, we developed the online software ABID 2.0 (https://gets.shinyapps.io/ABID/). This open-source software determines the number of matching peptides in the fingerprint spectra. We propose that publications and other documents critically relying on monoclonal antibodies with unknown amino acid sequences should include at least one antibody fingerprint. By fingerprinting an antibody in question, its identity can be confirmed by comparison with a library spectrum at any time and context.
Muon Tomography of the Interior of a Reinforced Concrete Block: First Experimental Proof of Concept
(2021)
Quality assurance and condition assessment of concrete structures is an important topic world-wide due to the aging infrastructure and increasing traffic demands. Common topics include, but are not limited to, localisation of rebar or tendon ducts, geometrical irregularities, cracks, voids, honeycombing or other flaws. Non-destructive techniques such as ultrasound or radar have found regular, successful practical application but sometimes suffer from limited resolution and accuracy, imaging artefacts or restrictions in detecting certain features. Until the 1980s X-ray transmission was used in case of special demands and showed a much better resolution than other NDT techniques. However, due to safety concerns and cost issues, this method is almost never used anymore. Muon tomography has received much attention recently. Novel detectors for cosmic muons and tomographic imaging algorithms have opened up new fields of application, such as the investigation of freight containers. Muon imaging also has the potential to fill some of the gaps currently existing in concrete NDT. As a first step towards practical use and as a proof of concept we used an existing system to image the interior of a reference reinforced 600 kg concrete block. Even with a yet not optimized setup for this kind of investigation, the muon imaging results are at least of similar quality compared to ultrasonic and radar imaging, potentially even better. The data acquisition takes more time and signals contain more noise, but the images allowed to detect the same important features that are visible in conventional high energy X-ray tomography. In our experiment, we have shown that muon imaging has potential for concrete inspection. The next steps include the development of mobile detectors and optimising acquisition and imaging parameters.
Tooth wear induced by abrasive particles is a key process affecting dental function and life expectancy in mammals. Abrasive particles may be plant endogenous opal phytoliths, exogene wind-blown quartz dust or rain borne mineral particles ingested by mammals. Nano-indentation hardness of abrasive particles and dental tissues is a significant yet not fully established parameter of this tribological system. We provide consistent nano-indentation hardness data for some of the major antagonists in the dental tribosystem (tooth enamel, tooth dentine and opaline phytoliths from silica controlled cultivation). All indentation data were gathered from native tissues under stable and controlled conditions and thus maximize comparability to natural systems. Here we show that native (hydrated) wild boar enamel exceeds any hardness measures known for dry herbivore tooth enamel by at least 3 GPa. The native tooth enamel is not necessarily softer then environmental quartz grit, although there is little overlap. The native hardness of the tooth enamel exceeds that of any silica phytolith hardness recently published. Further, we find that native reed phytoliths equal native suine dentine in hardness, but does not exceed native suine enamel. We also find that native suine enamel is significantly harder than dry enamel and dry phytoliths are harder than native phytoliths. Our data challenge the claim that the culprit of tooth wear may be the food we chew, but suggest instead that wear may relates more to exogenous than endogenous abrasives.
Microspectroscopy reveals dust-derived apatite grains in acidic, highly-weathered Hawaiian soils
(2021)
Dust deposition is an important source of phosphorus (P) to many ecosystems. However, there is little evidence of dust-derived P-containing minerals in soils. Here we studied P forms along a well-described climatic Gradient on Hawaii, which is also a dust deposition gradient. Soil mineralogy and soil P forms from six sites along the climatic gradient were analyzed with bulk (X-ray diffraction and P K-edge X-ray absorption near edge structure) and microscale (X-ray fluorescence, P K-edge X-ray absorption near edge structure, and Raman) analysis methods. In the wettest soils, apatite grains ranging from 5 to 30 μm in size were co-located at the micro-scale with quartz, a known continental dust indicator suggesting recent atmospheric deposition. In addition to co-location with quartz, further evidence of dust-derived P included backward trajectory modeling indicating that dust particles could be brought to Hawaii from the major global dust-loading areas in central Asia and northern Africa. Although it is not certain whether the individual observed apatite grains were derived from long-distance transport of dust, or from local dust sources such as volcanic ash or windblown fertilizer, these observations offer direct evidence that P-containing minerals have reached surface layers of highly-weathered grassland soils through atmospheric deposition.
In additive manufacturing (AM) directed energy deposition (DED), parts are built by welding layers of powder or wire feedstock onto a substrate with applications for steel powders in the fields of forging tools, spare parts, and structural components for various industries. For large and bulky parts, the choice of toolpaths influences the build rate, the mechanical performance, and the distortions in a highly geometry-dependent manner. With weld-path lengths in the range of hundreds of meters, a reliable, automated tool-path generation is essential for the usability of DED processes. This contribution presents automated tool-path generation approaches and discusses the results for arbitrary geometries. Socalled “zig-zag” and “contour-parallel” processing strategies are investigated and the tool-paths are automatically formatted into machine-readable g-code for experimental validation to build sample geometries. The results are discussed in regard to volume-fill, microstructure, and porosity in dependence of the path planning according to photographs and metallographic cross-sections.
Efficient Near UV excited materials (350<λ<400 nm) responding with green line emission are sparse in comparison to higher energy UV excited emitters (λ<350 nm), while corresponding red line emitters are more abundant, albeit typically also restricted to excitation wavelengths below 400 nm. This situation is disadvantageous for several important actual and potential applications. Among these, excitation with high power UV-LEDs and laser diodes are of particular interest. Here we present results on green emitting YBO3:Ce, Tb, which can be excited with 370–380 nm radiation at quantum efficiencies of up to 60% and decay times in excess of 2 ms. Moreover, as powderous phosphors typically require stable matrices to be hosted in, we investigated low melting, lead- and fluoride-free glasses for their capability to accommodate the phosphor and yet retain its optical properties. In these, we even observed an increase of the quantum efficiencies of up to 70% at decay times approaching 3 ms. Finally, we characterized the thermal quenching behavior, which showed a clear advantage of the phosphors in glassy matrices.
Photophysical studies of nonlinear lanthanide-doped photon upconverting nanoparticles (UCNPs) increasingly used in biophotonics and photovoltaics require absolute measurements of the excitation power density (P)-dependent upconversion luminescence (UCL) and luminescence quantum yields (ΦUC) for quantifying the material performance, UCL deactivation pathways, and possible enhancement factors. We present here the P-dependence of the UCL spectra, ΦUC, and slope factors of the different emission bands of representative 25 nm-sized oleate-capped β-NaYF4:17% Yb3+, 3% Er3+ UCNPs dispersed in toluene and as powder as well as ΦUC of 3 μm-sized upconversion particles (UCμP), all measured with a newly designed integrating sphere setup, enabling controlled variation of P over four orders of magnitude. This includes quantifying the influence of the beam shape on the measured ΦUC and comparison of experimental ΦUC with simulations utilizing the balancing power density model of the Andersson-Engels group and the simulated ΦUC of UCμP from the Berry group, underpinned by closely matching decay kinetics of our UC material. We obtained a maximum ΦUC of 10.5% for UCμP and a ΦUC of 0.6% and 2.1% for solid and dispersed UCNPs, respectively. Our results suggest an overestimation of the contribution of the purple and an underestimation of that of the red emission of β-NaYF4:Yb3+,Er3+: microparticles by the simulations of the Berry group. Moreover, our measurements can be used as a guideline to the absolute determination of UCL and ΦUC
Evidence for the formation of difluoroacetic acid in chlorofluorocarbon-contaminated ground water
(2019)
The concentrations of difluoroacetic acid (DFA) and trifluoroacetic acid (TFA) in rainwater and surface water from Berlin, Germany resembled those reported for similar urban areas, and the TFA/DFA ratio in rainwater of 10:1 was in accordance with the literature. In contrast, nearby ground water historically contaminated with 1,1,2-trichloro-1,2,2-trifluoroethane (R113) displayed a TFA/DFA ratio of 1:3. This observation is discussed versus the inventory of microbial Degradation products present in this ground water along with the parent R113 itself. A microbial Transformation of chlorotrifluoroethylene (R1113) to DFA so far has not been reported for environmental media, and is suggested based on well-established mammalian metabolic pathways.
Purpose: To prospectively depict carcinoembryonic antigen (CEA)-expressing tumors in mice with a high-affinity probe consisting of a near-infrared (NIR) fluorochrome and the clinically used anti-CEA antibody fragment arcitumomab.
Materials and Methods: This study was approved by the regional animal committee. By coupling a NIR fluorescent (NIRF) cyanine dye (DY-676) to a specific antibody fragment directed against CEA (arcitumomab) and a nonspecific IgG Fab fragment, a bio-optical high-affinity fluorescent probe (anti-CEADY-676) and a low-affinity fluorescent probe (FabIgGDY-676) were designed. The dye-to-protein ratios were determined, and both probes were tested for NIRF imaging in vitro on CEA-expressing LS-174T human colonic adenocarcinoma cells and CEA-nonexpressing A-375 human melanoma cells by using a bio-optical NIR small-animal imager. In vivo data of xenografted LS-174T and A-375 tumors in mice (n = 10) were recorded and statistically analyzed (Student t test).
Results: The dye-to-protein ratios were determined as 3.03.5 for both probes. In vitro experiments revealed the specific binding of the anti-CEADY-676 probe on CEA-expressing cells as compared with CEA-nonexpressing cells; the FabIgGDY-676 probe showed a markedly lower binding affinity to cells. In vivo LS-174T tumors xenografted in all mice could be significantly distinguished from A-375 tumors with application of the anti-CEADY-676 but not with that of the FabIgGDY-676 at different times (224 hours, P < .005) after intravenous injection of the probes. Semiquantitative analysis revealed maximal fluorescence signals of anti-CEADY-676 to CEA-expressing tumors about 8 hours after injection.
Conclusion: Findings of this study indicate the potential use of the high-affinity probe anti-CEADY-676 for specific NIRF imaging in in vivo tumor diagnosis.