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- Item4D Biofabrication of fibrous artificial nerve graft for neuron regeneration(Bristol : IOP Publ., 2020) Apsite, Indra; Constante, Gissela; Dulle, Martin; Vogt, Lena; Caspari, Anja; Boccaccini, Aldo R.; Synytska, Alla; Salehi, Sahar; Ionov, LeonidIn this paper, we describe the application of the 4D biofabrication approach for the fabrication of artificial nerve graft. Bilayer scaffolds consisting of uniaxially aligned polycaprolactone-poly(glycerol sebacate) (PCL-PGS) and randomly aligned methacrylated hyaluronic acid (HA-MA) fibers were fabricated using electrospinning and further used for the culture of PC-12 neuron cells. Tubular structures form instantly after immersion of fibrous bilayer in an aqueous buffer and the diameter of obtained tubes can be controlled by changing bilayer parameters such as the thickness of each layer, overall bilayer thickness, and medium counterion concentration. Designed scaffolds showed a self-folded scroll-like structure with high stability after four weeks of real-time degradation. The significance of this research is in the fabrication of tuneable tubular nerve guide conduits that can simplify the current existing clinical treatment of neural injuries. © 2020 The Author(s). Published by IOP Publishing Ltd.
- ItemBEXIS2: A FAIR-aligned data management system for biodiversity, ecology and environmental data(Sofia : Pensoft Publishers, 2021) Chamanara, Javad; Gaikwad, Jitendra; Gerlach, Roman; Algergawy, Alsayed; Ostrowski, Andreas; König-Ries, BirgittaObtaining fit-to-use data associated with diverse aspects of biodiversity, ecology and environment is challenging since often it is fragmented, sub-optimally managed and available in heterogeneous formats. Recently, with the universal acceptance of the FAIR data principles, the requirements and standards of data publications have changed substantially. Researchers are encouraged to manage the data as per the FAIR data principles and ensure that the raw data, metadata, processed data, software, codes and associated material are securely stored and the data be made available with the completion of the research.
- ItemImpacts of enhanced weathering on biomass production for negative emission technologies and soil hydrology(Katlenburg-Lindau [u.a.] : Copernicus, 2020) De Oliveira Garcia, Wagner; Amann, Thorben; Hartmann, Jens; Karstens, Kristine; Popp, Alexander; Boysen, Lena R.; Smith, Pete; Goll, DanielLimiting global mean temperature changes to well below 2 °C likely requires a rapid and large-scale deployment of negative emission technologies (NETs). Assessments so far have shown a high potential of biomass-based terrestrial NETs, but only a few assessments have included effects of the commonly found nutrient-deficient soils on biomass production. Here, we investigate the deployment of enhanced weathering (EW) to supply nutrients to areas of afforestation-reforestation and naturally growing forests (AR) and bioenergy grasses (BG) that are deficient in phosphorus (P), besides the impacts on soil hydrology. Using stoichiometric ratios and biomass estimates from two established vegetation models, we calculated the nutrient demand of AR and BG. Insufficient geogenic P supply limits C storage in biomass. For a mean P demand by AR and a lowgeogenic-P-supply scenario, AR would sequester 119 Gt C in biomass; for a high-geogenic-P-supply and low-AR-Pdemand scenario, 187 Gt C would be sequestered in biomass; and for a low geogenic P supply and high AR P demand, only 92 GtC would be accumulated by biomass. An average amount of ∼ 150 Gt basalt powder applied for EW would be needed to close global P gaps and completely sequester projected amounts of 190 Gt C during the years 2006-2099 for the mean AR P demand scenario (2-362 Gt basalt powder for the low-AR-P-demand and for the high-AR-P-demand scenarios would be necessary, respectively). The average potential of carbon sequestration by EW until 2099 is ∼ 12 GtC (∼ 0:2-∼ 27 Gt C) for the specified scenarios (excluding additional carbon sequestration via alkalinity production). For BG, 8 kg basaltm2 a1 might, on average, replenish the exported potassium (K) and P by harvest. Using pedotransfer functions, we show that the impacts of basalt powder application on soil hydraulic conductivity and plant-Available water, to close predicted P gaps, would depend on basalt and soil texture, but in general the impacts are marginal. We show that EW could potentially close the projected P gaps of an AR scenario and nutrients exported by BG harvest, which would decrease or replace the use of industrial fertilizers. Besides that, EW ameliorates the soil's capacity to retain nutrients and soil pH and replenish soil nutrient pools. Lastly, EW application could improve plant-Available-water capacity depending on deployed amounts of rock powder - adding a new dimension to the coupling of land-based biomass NETs with EW. © 2020 Royal Society of Chemistry. All rights reserved.
- ItemVariable tree rooting strategies are key for modelling the distribution, productivity and evapotranspiration of tropical evergreen forests(Katlenburg-Lindau : European Geosciences Union, 2021) Sakschewski, Boris; Bloh, Werner von; Drüke, Markus; Sörensson, Anna Amelia; Ruscica, Romina; Langerwisch, Fanny; Billing, Maik; Bereswill, Sarah; Hirota, Marina; Oliveira, Rafael Silva; Heinke, Jens; Thonicke, KirstenA variety of modelling studies have suggested tree rooting depth as a key variable to explain evapotranspiration rates, productivity and the geographical distribution of evergreen forests in tropical South America. However, none of those studies have acknowledged resource investment, timing and physical constraints of tree rooting depth within a competitive environment, undermining the ecological realism of their results. Here, we present an approach of implementing variable rooting strategies and dynamic root growth into the LPJmL4.0 (Lund-Potsdam-Jena managed Land) dynamic global vegetation model (DGVM) and apply it to tropical and sub-tropical South America under contemporary climate conditions. We show how competing rooting strategies which underlie the trade-off between above- and below-ground carbon investment lead to more realistic simulation of intra-annual productivity and evapotranspiration and consequently of forest cover and spatial biomass distribution. We find that climate and soil depth determine a spatially heterogeneous pattern of mean rooting depth and below-ground biomass across the study region. Our findings support the hypothesis that the ability of evergreen trees to adjust their rooting systems to seasonally dry climates is crucial to explaining the current dominance, productivity and evapotranspiration of evergreen forests in tropical South America.
- ItemSurface-Enhanced Raman Spectroscopy to Characterize Different Fractions of Extracellular Vesicles from Control and Prostate Cancer Patients(Basel : MDPI, 2021) Osei, Eric Boateng; Paniushkina, Liliia; Wilhelm, Konrad; Popp, Jürgen; Nazarenko, Irina; Krafft, ChristophExtracellular vesicles (EVs) are membrane-enclosed structures ranging in size from about 60 to 800 nm that are released by the cells into the extracellular space; they have attracted interest as easily available biomarkers for cancer diagnostics. In this study, EVs from plasma of control and prostate cancer patients were fractionated by differential centrifugation at 5000× g, 12,000× g and 120,000× g. The remaining supernatants were purified by ultrafiltration to produce EV-depleted free-circulating (fc) fractions. Spontaneous Raman and surface-enhanced Raman spectroscopy (SERS) at 785 nm excitation using silver nanoparticles (AgNPs) were employed as label-free techniques to collect fingerprint spectra and identify the fractions that best discriminate between control and cancer patients. SERS spectra from 10 µL droplets showed an enhanced Raman signature of EV-enriched fractions that were much more intense for cancer patients than controls. The Raman spectra of dehydrated pellets of EV-enriched fractions without AgNPs were dominated by spectral contributions of proteins and showed variations in S-S stretch, tryptophan and protein secondary structure bands between control and cancer fractions. We conclude that the AgNPs-mediated SERS effect strongly enhances Raman bands in EV-enriched fractions, and the fractions, EV12 and EV120 provide the best separation of cancer and control patients by Raman and SERS spectra.
- ItemCold atmospheric plasma is a potent tool to improve chemotherapy in melanoma in vitro and in vivo(Basel : MDPI, 2020) Alimohammadi, Mina; Golpour, Monireh; Sohbatzadeh, Farshad; Hadavi, Seyedehniaz; Bekeschus, Sander; Niaki, Haleh Akhavan; Valadan, Reza; Rafiei, AlirezaMalignant melanoma is a devastating disease. Because of its aggressiveness, it also serves as a model tumor for investigating novel therapeutic avenues. In recent years, scientific evidence has shown that cold atmospheric plasma (CAP) might be a promising modality in cancer therapy. In this study, we aimed to evaluate the effect of CAP generated by an argon plasma jet alone or in combination with dacarbazine (DAC) on melanoma cells in vitro and in vivo. The effects of the CAP on inducing lipid peroxidation and nitric oxide production were higher in B16 melanoma cells in comparison to non-malignant L929 cells. Assays on cell growth, apoptosis, and expression of genes related to, e.g., autophagic processes, showed CAP to have a substantial impact in melanoma cells while there were only minoreffects in L929 cells. In vivo, both CAP monotherapy and combination with DAC significantly decreased tumor growth. These results suggest that CAP not only selectively induces cell death in melanoma but also holds promises in combination with chemotherapy that might lead to improved tumor control. © 2020 by the authors.
- ItemOn the liquid chemistry of the reactive nitrogen species peroxynitrite and nitrogen dioxide generated by physical plasmas(Basel : MDPI, 2020) Bruno, Giuliana; Wenske, Sebastian; Lackmann, Jan-Wilm; Lalk, Michael; Von Woedtke, Thomas; Wende, KristianCold physical plasmas modulate cellular redox signaling processes, leading to the evolution of a number of clinical applications in recent years. They are a source of small reactive species, including reactive nitrogen species (RNS). Wound healing is a major application and, as its physiology involves RNS signaling, a correlation between clinical effectiveness and the activity of plasma‐derived RNS seems evident. To investigate the type and reactivity of plasma‐derived RNS in aqueous systems, a model with tyrosine as a tracer was utilized. By high‐resolution mass spectrometry, 26 different tyrosine derivatives including the physiologic nitrotyrosine were identified. The product pattern was distinctive in terms of plasma parameters, especially gas phase composition. By scavenger experiments and isotopic labelling, gaseous nitric dioxide radicals and liquid phase peroxynitrite ions were determined as dominant RNS. The presence of water molecules in the active plasma favored the generation of peroxynitrite. A pilot study, identifying RNS driven post‐translational modifications of proteins in healing human wounds after the treatment with cold plasma (kINPen), demonstrated the presence of in vitro determined chemical pathways. The plasma‐driven nitration and nitrosylation of tyrosine allows the conclusion that covalent modification of biomolecules by RNS contributes to the clinically observed impact of cold plasmas. © 2020 by the authors. Licensee MDPI, Basel, Switzerland.
- ItemGlycerylphytate as an ionic crosslinker for 3D printing of multi-layered scaffolds with improved shape fidelity and biological features(London : Royal Society of Chemistry, 2020) Mora-Boza, A.; Włodarczyk-Biegun, M.K.; Del Campo, A.; Vázquez-Lasa, B.; Román, J.S.The fabrication of intricate and long-term stable 3D polymeric scaffolds by a 3D printing technique is still a challenge. In the biomedical field, hydrogel materials are very frequently used because of their excellent biocompatibility and biodegradability, however the improvement of their processability and mechanical properties is still required. This paper reports the fabrication of dual crosslinked 3D scaffolds using a low concentrated (<10 wt%) ink of gelatin methacryloyl (GelMA)/chitosan and a novel crosslinking agent, glycerylphytate (G1Phy) to overcome the current limitations in the 3D printing field using hydrogels. The applied methodology consisted of a first ultraviolet light (UV) photopolymerization followed by a post-printing ionic crosslinking treatment with G1Phy. This crosslinker provides a robust framework and avoids the necessity of neutralization with strong bases. The blend ink showed shear-thinning behavior and excellent printability in the form of a straight and homogeneous filament. UV curing was undertaken simultaneously to 3D deposition, which enhanced precision and shape fidelity (resolution ≈150 μm), and prevented the collapse of the subsequent printed layers (up to 28 layers). In the second step, the novel G1Phy ionic crosslinker agent provided swelling and long term stability properties to the 3D scaffolds. The multi-layered printed scaffolds were mechanically stable under physiological conditions for at least one month. Preliminary in vitro assays using L929 fibroblasts showed very promising results in terms of adhesion, spreading, and proliferation in comparison to other phosphate-based traditional crosslinkers (i.e. TPP). We envision that the proposed combination of the blend ink and 3D printing approach can have widespread applications in the regeneration of soft tissues.
- ItemCharacterization of immune cell migration using microfabrication(Berlin ; Heidelberg : Springer, 2021) Vesperini, Doriane; Montalvo, Galia; Qu, Bin; Lautenschläger, FranziskaThe immune system provides our defense against pathogens and aberrant cells, including tumorigenic and infected cells. Motility is one of the fundamental characteristics that enable immune cells to find invading pathogens, control tissue damage, and eliminate primary developing tumors, even in the absence of external treatments. These processes are termed “immune surveillance.” Migration disorders of immune cells are related to autoimmune diseases, chronic inflammation, and tumor evasion. It is therefore essential to characterize immune cell motility in different physiologically and pathologically relevant scenarios to understand the regulatory mechanisms of functionality of immune responses. This review is focused on immune cell migration, to define the underlying mechanisms and the corresponding investigative approaches. We highlight the challenges that immune cells encounter in vivo, and the microfabrication methods to mimic particular aspects of their microenvironment. We discuss the advantages and disadvantages of the proposed tools, and provide information on how to access them. Furthermore, we summarize the directional cues that regulate individual immune cell migration, and discuss the behavior of immune cells in a complex environment composed of multiple directional cues.
- ItemNonenzymatic post-translational modifications in peptides by cold plasma-derived reactive oxygen and nitrogen species(Melville, NY : AIP, 2020) Wenske, Sebastian; Lackmann, Jan-Wilm; Bekeschus, Sander; Weltmann, Klaus-Dieter; Von Woedtke, Thomas; Wende, KristianCold physical plasmas are emerging tools for wound care and cancer control that deliver reactive oxygen species (ROS) and nitrogen species (RNS). Alongside direct effects on cellular signaling processes, covalent modification of biomolecules may contribute to the observed physiological consequences. The potential of ROS/RNS generated by two different plasma sources (kINPen and COST-Jet) to introduce post-translational modifications (PTMs) in the peptides angiotensin and bradykinin was explored. While the peptide backbone was kept intact, a significant introduction of oxidative PTMs was observed. The modifications cluster at aromatic (tyrosine, histidine, and phenylalanine) and neutral amino acids (isoleucine and proline) with the introduction of one, two, or three oxygen atoms, ring cleavages of histidine and tryptophan, and nitration/nitrosylation predominantly observed. Alkaline and acidic amino acid (arginine and aspartic acid) residues showed a high resilience, indicating that local charges and the chemical environment at large modulate the attack of the electron-rich ROS/RNS. Previously published simulations, which include only OH radicals as ROS, do not match the experimental results in full, suggesting the contribution of other short-lived species, i.e., atomic oxygen, singlet oxygen, and peroxynitrite. The observed PTMs are relevant for the biological activity of peptides and proteins, changing polarity, folding, and function. In conclusion, it can be assumed that an introduction of covalent oxidative modifications at the amino acid chain level occurs during a plasma treatment. The introduced changes, in part, mimic naturally occurring patterns that can be interpreted by the cell, and subsequently, these PTMs allow for prolonged secondary effects on cell physiology. © 2020 Author(s).