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 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 - JOUR A1 - Van Den Bossche, T. A1 - Arntzen, M. O. A1 - Becher, D. A1 - Benndorf, D. A1 - Eijsink, V. G. H. A1 - Henry, C. A1 - Jagtap, P. D. A1 - Jehmlich, N. A1 - Juste, C. A1 - Kunath, B. J. A1 - Mesuere, B. A1 - Muth, Thilo A1 - Pope, P. B. A1 - Seifert, J. A1 - Tanca, A. A1 - Uzzau, S. A1 - Wilmes, P. A1 - Hettich, R. L. A1 - Armengaud, J. T1 - The Metaproteomics Initiative: a coordinated approach for propelling the functional characterization of microbiomes N2 - Through connecting genomic and metabolic information, metaproteomics is an essential approach for understanding how microbiomes function in space and time. The international metaproteomics community is delighted to announce the launch of the Metaproteomics Initiative (www.metaproteomics.org), the goal of which is to promote dissemination of metaproteomics fundamentals, advancements, and applications through collaborative networking in microbiome research. The Initiative aims to be the central information hub and open meeting place where newcomers and experts interact to communicate, standardize, and accelerate experimental and bioinformatic methodologies in this feld. We invite the entire microbiome community to join and discuss potential synergies at the interfaces with other disciplines, and to collectively promote innovative approaches to gain deeper insights into microbiome functions and dynamics. KW - Microbiome KW - Metaproteomics KW - Networking KW - Meta-Omics KW - Interactions KW - Education PY - 2021 UR - https://nbn-resolving.org/urn:nbn:de:kobv:b43-542290 DO - https://doi.org/10.1186/s40168-021-01176-w VL - 9 IS - 1 SP - 243 PB - BMC AN - OPUS4-54229 LA - eng AD - Bundesanstalt fuer Materialforschung und -pruefung (BAM), Berlin, Germany ER - TY - JOUR A1 - Scherb, Tobias A1 - Kimber, S. A. J. A1 - Stephan, Christiane A1 - Henry, P. F. A1 - Schumacher, G. A1 - Escolástico, S. A1 - Serra, J. M. A1 - Seeger, J. A1 - Just, J. A1 - Hill, A.H. A1 - Banhart, J. T1 - Nanoscale order in the frustrated mixed conductor La5.6WO12-Delta N2 - This article reports a comprehensive investigation of the average and local structure of La5.6WO12-δ, which has excellent mixed proton, electron and oxide ion conduction suitable for device applications. Synchrotron X-ray and neutron powder diffraction show that a cubic fluorite supercell describes the average structure, with highly disordered lanthanum and oxide positions. On average, the tungsten sites are sixfold coordinated and a trace [3.7 (1.3)%] of anti-site disorder is detected. In addition to sharp Bragg reflections, strong diffuse neutron scattering is observed, which hints at short-range order. Plausible local configurations are considered and it is shown that the defect chemistry implies a simple 'chemical exchange' interaction that favours ordered WO6 octahedra. The local model is confirmed by synchrotron X-ray pair distribution function analysis and EXAFS experiments performed at the La K and W L-3 edges. It is shown that ordered domains of similar to 3.5 nm are found, implying that mixed conduction in La5.6WO12-δ is associated with a defective glassy-like anion sublattice. The origins of this ground state are proposed to lie in the nonbipartite nature of the face-centred cubic lattice and the pairwise interactions which link the orientation of neighbouring octahedral WO6 sites. This 'function through frustration' could provide a means of designing new mixed conductors. KW - neutron diffraction KW - x-ray diffraction KW - proton conductors PY - 2016 UR - https://nbn-resolving.org/urn:nbn:de:kobv:b43-366756 DO - https://doi.org/10.1107/S1600576716006415 SN - 1600-5767 VL - 49 IS - Issue 3 SP - 997 EP - 1008 PB - International Union of Crystallography CY - Chester, UK AN - OPUS4-36675 LA - eng AD - Bundesanstalt fuer Materialforschung und -pruefung (BAM), Berlin, Germany ER - TY - JOUR A1 - Yu, Z. A1 - Musnier, B. A1 - Wegner, Karl David A1 - Henry, M. A1 - Chovelon, B. A1 - Desroches-Castan, A. A1 - Fertin, A. A1 - Resch-Genger, Ute A1 - Bailly, S. A1 - Coll, J.-L. A1 - Usson, Y, A1 - Josserand, V. A1 - Le Gúevel, X. T1 - High-Resolution Shortwave Infrared Imaging of Vascular Disorders Using Gold Nanoclusters N2 - We synthesized a generation of water-soluble, atomically precise gold nanoclusters (Au NCs) with anisotropic Surface containing a short dithiol pegylated chain (AuMHA/TDT). The AuMHA/TDT exhibit a high brightness (QY ∼ 6%) in the shortwave infrared (SWIR) spectrum with a detection above 1250 nm. Furthermore, they show an extended half-life in blood (t1/2ß = 19.54 ± 0.05 h) and a very weak accumulation in organs. We also developed a non-invasive, whole-body vascular imaging system in the SWIR window with high-resolution, benefiting from a series of Monte Carlo image processing. The imaging process enabled to improve contrast by 1 order of magnitude and enhance the spatial Resolution by 59%. After systemic administration of these nanoprobes in mice, we can quantify vessel complexity in depth (>4 mm), allowing to detect very subtle vascular disorders non-invasively in bone morphogenetic protein 9 (Bmp9)-deficient mice. The combination of these anisotropic surface charged Au NCs plus an improved SWIR imaging device allows a precise mapping at high-resolution and an in depth understanding of the organization of the vascular network in live animals. KW - Nanoparticle KW - Nanosensor KW - Fluorescence KW - Metal cluster KW - NIR KW - SWIR KW - Photophysics KW - Ligand KW - Size KW - Surface chemistry KW - Quantum yield KW - Mechanism KW - Lifetime KW - Decay kinetics PY - 2020 DO - https://doi.org/10.1021/acsnano.0c01174 VL - 14 IS - 4 SP - 4973 EP - 4981 PB - ACS Publication AN - OPUS4-50671 LA - eng AD - Bundesanstalt fuer Materialforschung und -pruefung (BAM), Berlin, Germany ER -