TY - JOUR A1 - Schiebenhoefer, H. A1 - Schallert, K. A1 - Renard, B. Y. A1 - Trappe, K. A1 - Schmid, E. A1 - Benndorf, D. A1 - Riedel, K. A1 - Muth, Thilo A1 - Fuchs, S. T1 - A complete and flexible workflow for metaproteomics data analysis based on MetaProteomeAnalyzer and Prophane JF - Nature Protocols N2 - Metaproteomics, the study of the collective protein composition of multi-organism systems, provides deep insights into the biodiversity of microbial communities and the complex functional interplay between microbes and their hosts or environment. Thus, metaproteomics has become an indispensable tool in various fields such as microbiology and related medical applications. The computational challenges in the analysis of corresponding datasets differ from those of pure-culture proteomics, e.g., due to the higher complexity of the samples and the larger reference databases demanding specific computing pipelines. Corresponding data analyses usually consist of numerous manual steps that must be closely synchronized. With MetaProteomeAnalyzer and Prophane, we have established two open-source software solutions specifically developed and optimized for metaproteomics. Among other features, peptide-spectrum matching is improved by combining different search engines and, compared to similar tools, metaproteome annotation benefits from the most comprehensive set of available databases (such as NCBI, UniProt, EggNOG, PFAM, and CAZy). The workflow described in this protocol combines both tools and leads the user through the entire data analysis process, including protein database creation, database search, protein grouping and annotation, and results visualization. To the best of our knowledge, this protocol presents the most comprehensive, detailed and flexible guide to metaproteomics data analysis to date. While beginners are provided with robust, easy-to-use, state-of-the-art data analysis in a reasonable time (a few hours, depending on, among other factors, the protein database size and the number of identified peptides and inferred proteins), advanced users benefit from the flexibility and adaptability of the workflow. KW - Bioinformatics KW - Protocol KW - Microbial proteomics KW - Software KW - Mass spectrometry KW - Metaproteomics PY - 2020 DO - https://doi.org/10.1038/s41596-020-0368-7 SN - 1750-2799 VL - 15 IS - 10 SP - 3212 EP - 3239 PB - Nature Publishing Group AN - OPUS4-51335 LA - eng AD - Bundesanstalt fuer Materialforschung und -pruefung (BAM), Berlin, Germany ER - TY - JOUR A1 - Van Den Bossche, T. A1 - Kunath, B. A1 - Schallert, K. A1 - Schäpe, S. A1 - Abraham, P. E. A1 - Armengaud, J. A1 - Arntzen, M. Ø. A1 - Bassignani, A. A1 - Benndorf, D. A1 - Fuchs, S. A1 - Giannone, R. J. A1 - Griffin, T. J. A1 - Hagen, L. H. A1 - Halder, R. A1 - Henry, C. A1 - Hettich, R. L. A1 - Heyer, R. A1 - Jagtap, P. A1 - Jehmlich, N. A1 - Jensen, M. A1 - Juste, C. A1 - Kleiner, M. A1 - Langella, O. A1 - Lehmann, T. A1 - Leith, E. A1 - May, P. A1 - Mesuere, B. A1 - Miotello, G. A1 - Peters, S. L. A1 - Pible, O. A1 - Queiros, P. T. A1 - Reichl, U. A1 - Renard, B. Y. A1 - Schiebenhoefer, H. A1 - Sczyrba, A. A1 - Tanca, A. A1 - Trappe, K. A1 - Trezzi, J.-P. A1 - Uzzau, S. A1 - Verschaffelt, P. A1 - von Bergen, M. A1 - Wilmes, P. A1 - Wolf, M. A1 - Martens, L. A1 - Muth, Thilo T1 - Critical Assessment of MetaProteome Investigation (CAMPI): A multi-laboratory comparison of established workflows JF - Nature communications N2 - Metaproteomics has matured into a powerful tool to assess functional interactions in microbial communities. While many metaproteomic workflows are available, the impact of method choice on results remains unclear. Here, we carry out a community-driven, multi-laboratory comparison in metaproteomics: the critical assessment of metaproteome investigation study (CAMPI). Based on well-established workflows, we evaluate the effect of sample preparation, mass spectrometry, and bioinformatic analysis using two samples: a simplified, laboratory-assembled human intestinal model and a human fecal sample. We observe that variability at the peptide level is predominantly due to sample processing workflows, with a smaller contribution of bioinformatic pipelines. These peptide-level differences largely disappear at the protein group level. While differences are observed for predicted community composition, similar functional profiles are obtained across workflows. CAMPI demonstrates the robustness of present-day metaproteomics research, serves as a template for multi-laboratory studies in metaproteomics, and provides publicly available data sets for benchmarking future developments. KW - Metaproteomics KW - Mass spectrometry KW - Data science KW - Benchmarking KW - Bioinformatics PY - 2021 UR - https://nbn-resolving.org/urn:nbn:de:kobv:b43-541220 DO - https://doi.org/10.1038/s41467-021-27542-8 SN - 2041-1723 VL - 12 SP - 1 EP - 15 PB - Nature Publishing Group CY - London AN - OPUS4-54122 LA - eng AD - Bundesanstalt fuer Materialforschung und -pruefung (BAM), Berlin, Germany ER - TY - GEN A1 - Trappe, Volker A1 - Spancken, D. A1 - Zeiser, A. A1 - Kose, K. A1 - DeMonte, M. T1 - Kurzfaserverstärkte Thermoplaste - Zug-Druck-Schubprüfung mit einem Rohrprobekörper unter schwingender Beanspruchung T2 - DIN-Spezifikation N2 - Diese DIN SPEC legt ein Verfahren für die Prüfung von unverstärkten und partikel- und kurzfaserverstärkten Kunststoffen mittels Zug-Druck-Schubprüfung fest. Dieses Verfahren findet Anwendung zur Bestimmung der Schwingfestigkeit im Bereich von 103 bis 107 Schwingspielen und der Nachgiebigkeiten unter statischer Belastung sowie der Zugfestigkeit. Alle Beanspruchungen und berechneten Größen sind nennspannungs-basiert. Grundsätzlich besteht bei Rohrprobekörpern auch die Möglichkeit eine Beanspruchung in Längs- und in Umfangsrichtung durch Innendruck zu erzeugen. Dies wird in dieser Spezifikation nicht berücksichtigt, um die Anwendung überschaubar zu halten. Bei Rohrproben mit ausgeprägter Querschnittsverkleinerung (z. B. der Prüfkörper Typ B), entsteht eine Umfangsspannung auch aufgrund einer Zugkraft (siehe Anhang C). Die Umfangsspannung muss dann mittels FEA lokal berechnet werden. Das Verfahren gilt für rohrförmige Prüfkörper deren spezifische Form den Anforderungen der Werkstoff-prüfung und bei Kurzfaserverstärkung einer hohen Vorzugsausrichtung in Probenlängsrichtung genügen. Diese DIN SPEC gilt nicht für endlosfaserverstärkte Kunststoffe. Wegen der vollkommen unterschiedlichen Fertigungstechnologien und der zu erwartenden hohen Prüflasten, sind hier die Anforderungen an die Prüfkörpergeometrie gesondert zu betrachten. Es wird nicht zielführend sein, beide Werkstoffklassen in einer Norm zu behandeln. KW - Kurzfaser-verstärkte Thermoplaste KW - Zug-Druck-Schubprüfung KW - Betriebsfestigkeit KW - Rohrprobekörper PY - 2019 DO - https://doi.org/10.31030/3085076 IS - DIN SPEC 16457:2019-12 SP - 1 EP - 58 PB - Beuth CY - Berlin AN - OPUS4-50092 LA - deu AD - Bundesanstalt fuer Materialforschung und -pruefung (BAM), Berlin, Germany ER - TY - JOUR A1 - Schartel, Bernhard A1 - Humphrey, J.K. A1 - Gibson, A.G. A1 - Hörold, Andreas A1 - Trappe, Volker A1 - Gettwert, V. T1 - Assessing the structural integrity of carbon-fibre sandwich panels in fire: Bench-scale approach JF - Composites Part B N2 - The fire resistance of lightweight sandwich panels (SW) with carbon fibre/epoxy skins and a poly(methacryl imide) (PMI) foam core is investigated in compression under direct application of a severe flame (heat flux=200 kW m−2). A bench-scale test procedure was used, with the sample held vertically. The epoxy decomposition temperature was quickly exceeded, with rapid flash-over and progressive core softening and decomposition. There is a change in failure mode depending on whether the load is greater or less than 50% of the unexposed failure load, or in other words if one or two skins carry the load. At high loads, failure involved both skins with a single clear linear separation across each face. There is an inflection in the failure time relationship in the ∼50% load region, corresponding to the time taken for heat to be transmitted to the rear face, along with a change in the rear skin failure mode from separation to the formation of a plastic hinge. The integrity of the carbon front face, even with the resin burnt out, and the low thermal diffusivity of the core, both play key roles in prolonging rear face integrity, something to be borne in mind for future panel design. Intumescent coatings prolong the period before failure occurs. The ratio of times to failure with and without protection is proposed as a measure of their effectiveness. Apart from insulation properties, their adhesion and stability under severe fire impact play a key role. KW - Carbon fibres KW - Sandwich KW - Structural composites KW - Fracture KW - High-temperature properties KW - Surface treatments PY - 2019 DO - https://doi.org/10.1016/j.compositesb.2018.11.077 SN - 1359-8368 VL - 164 SP - 82 EP - 89 PB - Elsevier AN - OPUS4-46908 LA - eng AD - Bundesanstalt fuer Materialforschung und -pruefung (BAM), Berlin, Germany ER -