TY - JOUR A1 - Ślęzak, Jakub A1 - Metzler, Ralf A1 - Magdziarz, Marcin T1 - Codifference can detect ergodicity breaking and non-Gaussianity JF - New Journal of Physics N2 - We show that the codifference is a useful tool in studying the ergodicity breaking and non-Gaussianity properties of stochastic time series. While the codifference is a measure of dependence that was previously studied mainly in the context of stable processes, we here extend its range of applicability to random-parameter and diffusing-diffusivity models which are important in contemporary physics, biology and financial engineering. We prove that the codifference detects forms of dependence and ergodicity breaking which are not visible from analysing the covariance and correlation functions. We also discuss a related measure of dispersion, which is a nonlinear analogue of the mean squared displacement. KW - diffusion KW - stochastic time series KW - anomalous diffusion Y1 - 2019 U6 - https://doi.org/10.1088/1367-2630/ab13f3 SN - 1367-2630 VL - 21 PB - Deutsche Physikalische Gesellschaft CY - Bad Honnef ER - TY - JOUR A1 - Zeuschner, Steffen A1 - Parpiiev, Tymur A1 - Pezeril, Thomas A1 - Hillion, Arnaud A1 - Dumesnil, Karine A1 - Anane, Abdelmadjid A1 - Pudell, Jan-Etienne A1 - Willig, Lisa A1 - Rössle, Matthias A1 - Herzog, Marc A1 - von Reppert, Alexander A1 - Bargheer, Matias T1 - Tracking picosecond strain pulses in heterostructures that exhibit giant magnetostriction JF - Structural Dynamics N2 - We combine ultrafast X-ray diffraction (UXRD) and time-resolved Magneto-Optical Kerr Effect (MOKE) measurements to monitor the strain pulses in laser-excited TbFe2/Nb heterostructures. Spatial separation of the Nb detection layer from the laser excitation region allows for a background-free characterization of the laser-generated strain pulses. We clearly observe symmetric bipolar strain pulses if the excited TbFe2 surface terminates the sample and a decomposition of the strain wavepacket into an asymmetric bipolar and a unipolar pulse, if a SiO2 glass capping layer covers the excited TbFe2 layer. The inverse magnetostriction of the temporally separated unipolar strain pulses in this sample leads to a MOKE signal that linearly depends on the strain pulse amplitude measured through UXRD. Linear chain model simulations accurately predict the timing and shape of UXRD and MOKE signals that are caused by the strain reflections from multiple interfaces in the heterostructure. KW - Heterostructures KW - Magnetooptical effects KW - Metal oxides KW - Crystal lattices KW - Transition metals KW - Magnetism KW - Ultrafast X-ray diffraction KW - Lasers KW - Bragg peak KW - Phonons Y1 - 2019 U6 - https://doi.org/10.1063/1.5084140 SN - 2329-7778 VL - 6 IS - 2 PB - AIP Publishing LLC CY - Melville, NY ER - TY - JOUR A1 - Weithoff, Guntram A1 - Beisner, Beatrix E. T1 - Measures and Approaches in Trait-Based Phytoplankton Community Ecology BT - From Freshwater to Marine Ecosystems JF - Frontiers in Marine Science N2 - Trait-based approaches to investigate (short- and long-term) phytoplankton dynamics and community assembly have become increasingly popular in freshwater and marine science. Although the nature of the pelagic habitat and the main phytoplankton taxa and ecology are relatively similar in both marine and freshwater systems, the lines of research have evolved, at least in part, separately. We compare and contrast the approaches adopted in marine and freshwater ecosystems with respect to phytoplankton functional traits. We note differences in study goals relating to functional trait use that assess community assembly and those that relate to ecosystem processes and biogeochemical cycling that affect the type of characteristics assigned as traits to phytoplankton taxa. Specific phytoplankton traits relevant for ecological function are examined in relation to herbivory, amplitude of environmental change and spatial and temporal scales of study. Major differences are identified, including the shorter time scale for regular environmental change in freshwater ecosystems compared to that in the open oceans as well as the type of sampling done by researchers based on site-accessibility. Overall, we encourage researchers to better motivate why they apply trait-based analyses to their studies and to make use of process-driven approaches, which are more common in marine studies. We further propose fully comparative trait studies conducted along the habitat gradient spanning freshwater to brackish to marine systems, or along geographic gradients. Such studies will benefit from the combined strength of both fields. KW - algae KW - functional traits KW - ocean KW - lake KW - biogeochemistry KW - community assembly Y1 - 2019 U6 - https://doi.org/10.3389/fmars.2019.00040 SN - 2296-7745 VL - 6 PB - Frontiers Media CY - Lausanne ER - TY - JOUR A1 - Sieg, Tobias A1 - Schinko, Thomas A1 - Vogel, Kristin A1 - Mechler, Reinhard A1 - Merz, Bruno A1 - Kreibich, Heidi T1 - Integrated assessment of short-term direct and indirect economic flood impacts including uncertainty quantification JF - PLoS ONE N2 - Understanding and quantifying total economic impacts of flood events is essential for flood risk management and adaptation planning. Yet, detailed estimations of joint direct and indirect flood-induced economic impacts are rare. In this study an innovative modeling procedure for the joint assessment of short-term direct and indirect economic flood impacts is introduced. The procedure is applied to 19 economic sectors in eight federal states of Germany after the flood events in 2013. The assessment of the direct economic impacts is object-based and considers uncertainties associated with the hazard, the exposed objects and their vulnerability. The direct economic impacts are then coupled to a supply-side Input-Output-Model to estimate the indirect economic impacts. The procedure provides distributions of direct and indirect economic impacts which capture the associated uncertainties. The distributions of the direct economic impacts in the federal states are plausible when compared to reported values. The ratio between indirect and direct economic impacts shows that the sectors Manufacturing, Financial and Insurance activities suffered the most from indirect economic impacts. These ratios also indicate that indirect economic impacts can be almost as high as direct economic impacts. They differ strongly between the economic sectors indicating that the application of a single factor as a proxy for the indirect impacts of all economic sectors is not appropriate. KW - June 2013 KW - Damage KW - Model KW - Inoperability KW - Disasters KW - Hazards KW - Germany KW - Losses KW - Event KW - Costs Y1 - 2019 U6 - https://doi.org/10.1371/journal.pone.0212932 SN - 1932-6203 VL - 14 IS - 4 PB - Public Library of Science CY - San Francisco ER - TY - JOUR A1 - Rawel, Harshadrai Manilal A1 - Huschek, Gerd A1 - Sagu Tchewonpi, Sorel A1 - Homann, Thomas T1 - Cocoa Bean Proteins BT - Characterization, Changes and Modifications due to Ripening and Post-Harvest Processing JF - Nutrients N2 - The protein fractions of cocoa have been implicated influencing both the bioactive potential and sensory properties of cocoa and cocoa products. The objective of the present review is to show the impact of different stages of cultivation and processing with regard to the changes induced in the protein fractions. Special focus has been laid on the major seed storage proteins throughout the different stages of processing. The study starts with classical introduction of the extraction and the characterization methods used, while addressing classification approaches of cocoa proteins evolved during the timeline. The changes in protein composition during ripening and maturation of cocoa seeds, together with the possible modifications during the post-harvest processing (fermentation, drying, and roasting), have been documented. Finally, the bioactive potential arising directly or indirectly from cocoa proteins has been elucidated. The “state of the art” suggests that exploration of other potentially bioactive components in cocoa needs to be undertaken, while considering the complexity of reaction products occurring during the roasting phase of the post-harvest processing. Finally, the utilization of partially processed cocoa beans (e.g., fermented, conciliatory thermal treatment) can be recommended, providing a large reservoir of bioactive potentials arising from the protein components that could be instrumented in functionalizing foods. KW - cocoa processing KW - cocoa proteins KW - classification KW - extraction and characterization methods KW - fermentation-related enzymes KW - bioactive peptides KW - heath potentials KW - protein–phenol interactions Y1 - 2019 U6 - https://doi.org/10.3390/nu11020428 SN - 2072-6643 VL - 11 IS - 2 PB - Molecular Diversity Preservation International CY - Basel ER - TY - JOUR A1 - Kriegerowski, Marius A1 - Cesca, Simone A1 - Ohrnberger, Matthias A1 - Dahm, Torsten A1 - Krüger, Frank T1 - Event couple spectral ratio Q method for earthquake clusters BT - application to northwest Bohemia JF - Solid Earth N2 - We develop an amplitude spectral ratio method for event couples from clustered earthquakes to estimate seismic wave attenuation (Q-1) in the source volume. The method allows to study attenuation within the source region of earthquake swarms or aftershocks at depth, independent of wave path and attenuation between source region and surface station. We exploit the high-frequency slope of phase spectra using multitaper spectral estimates. The method is tested using simulated full wave-field seismograms affected by recorded noise and finite source rupture. The synthetic tests verify the approach and show that solutions are independent of focal mechanisms but also show that seismic noise may broaden the scatter of results. We apply the event couple spectral ratio method to northwest Bohemia, Czech Republic, a region characterized by the persistent occurrence of earthquake swarms in a confined source region at mid-crustal depth. Our method indicates a strong anomaly of high attenuation in the source region of the swarm with an averaged attenuation factor of Qp < 100. The application to S phases fails due to scattered P-phase energy interfering with S phases. The Qp anomaly supports the common hypothesis of highly fractured and fluid saturated rocks in the source region of the swarms in northwest Bohemia. However, high temperatures in a small volume around the swarms cannot be excluded to explain our observations. KW - west bohemia KW - attenuation tomography KW - swarm earthquakes KW - focal zone KW - parameters KW - locations KW - fault Y1 - 2019 U6 - https://doi.org/10.5194/se-10-317-2019 SN - 1869-9529 IS - 10 SP - 317 EP - 328 PB - Copernicus Publications CY - Göttingen ER - TY - JOUR A1 - Grafe, Marianne A1 - Batsios, Petros A1 - Meyer, Irene A1 - Lisin, Daria A1 - Baumann, Otto A1 - Goldberg, Martin W. A1 - Gräf, Ralph T1 - Supramolecular Structures of the Dictyostelium Lamin NE81 JF - Cells N2 - Nuclear lamins are nucleus-specific intermediate filaments (IF) found at the inner nuclear membrane (INM) of the nuclear envelope (NE). Together with nuclear envelope transmembrane proteins, they form the nuclear lamina and are crucial for gene regulation and mechanical robustness of the nucleus and the whole cell. Recently, we characterized Dictyostelium NE81 as an evolutionarily conserved lamin-like protein, both on the sequence and functional level. Here, we show on the structural level that the Dictyostelium NE81 is also capable of assembling into filaments, just as metazoan lamin filament assemblies. Using field-emission scanning electron microscopy, we show that NE81 expressed in Xenopous oocytes forms filamentous structures with an overall appearance highly reminiscent of Xenopus lamin B2. The in vitro assembly properties of recombinant His-tagged NE81 purified from Dictyostelium extracts are very similar to those of metazoan lamins. Super-resolution stimulated emission depletion (STED) and expansion microscopy (ExM), as well as transmission electron microscopy of negatively stained purified NE81, demonstrated its capability of forming filamentous structures under low-ionic-strength conditions. These results recommend Dictyostelium as a non-mammalian model organism with a well-characterized nuclear envelope involving all relevant protein components known in animal cells. KW - lamin KW - NE81 KW - Dictyostelium KW - nuclear envelope KW - nuclear lamina KW - expansion microscopy Y1 - 2019 U6 - https://doi.org/10.3390/cells8020162 SN - 2073-4409 VL - 8 IS - 2 PB - Molecular Diversity Preservation International CY - Basel ER - TY - JOUR A1 - Choi, Youngeun A1 - Schmidt, Carsten A1 - Tinnefeld, Philip A1 - Bald, Ilko A1 - Rödiger, Stefan T1 - A new reporter design based on DNA origami nanostructures for quantification of short oligonucleotides using microbeads JF - Scientific Reports N2 - The DNA origami technique has great potential for the development of brighter and more sensitive reporters for fluorescence based detection schemes such as a microbead-based assay in diagnostic applications. The nanostructures can be programmed to include multiple dye molecules to enhance the measured signal as well as multiple probe strands to increase the binding strength of the target oligonucleotide to these nanostructures. Here we present a proof-of-concept study to quantify short oligonucleotides by developing a novel DNA origami based reporter system, combined with planar microbead assays. Analysis of the assays using the VideoScan digital imaging platform showed DNA origami to be a more suitable reporter candidate for quantification of the target oligonucleotides at lower concentrations than a conventional reporter that consists of one dye molecule attached to a single stranded DNA. Efforts have been made to conduct multiplexed analysis of different targets as well as to enhance fluorescence signals obtained from the reporters. We therefore believe that the quantification of short oligonucleotides that exist in low copy numbers is achieved in a better way with the DNA origami nanostructures as reporters. KW - nucleic-acids KW - hybridization KW - microrna KW - flourescence KW - biomarkers KW - platform KW - particle KW - binding KW - array KW - gene Y1 - 2019 U6 - https://doi.org/10.1038/s41598-019-41136-x SN - 2045-2322 IS - 9 PB - Macmillan Publishers Limited CY - London ER -