@phdthesis{Vranic2019, author = {Vranic, Marija}, title = {3D Structure of the biomarker hepcidin-25 in its native state}, doi = {10.25932/publishup-45929}, url = {http://nbn-resolving.de/urn:nbn:de:kobv:517-opus4-459295}, school = {Universit{\"a}t Potsdam}, pages = {xii, 135}, year = {2019}, abstract = {Hepcidin-25 (Hep-25) plays a crucial role in the control of iron homeostasis. Since the dysfunction of the hepcidin pathway leads to multiple diseases as a result of iron imbalance, hepcidin represents a potential target for the diagnosis and treatment of disorders of iron metabolism. Despite intense research in the last decade targeted at developing a selective immunoassay for iron disorder diagnosis and treatment and better understanding the ferroportin-hepcidin interaction, questions remain. The key to resolving these underlying questions is acquiring exact knowledge of the 3D structure of native Hep-25. Since it was determined that the N-terminus, which is responsible for the bioactivity of Hep-25, contains a small Cu(II)-binding site known as the ATCUN motif, it was assumed that the Hep-25-Cu(II) complex is the native, bioactive form of the hepcidin. This structure has thus far not been elucidated in detail. Owing to the lack of structural information on metal-bound Hep-25, little is known about its possible biological role in iron metabolism. Therefore, this work is focused on structurally characterizing the metal-bound Hep-25 by NMR spectroscopy and molecular dynamics simulations. For the present work, a protocol was developed to prepare and purify properly folded Hep-25 in high quantities. In order to overcome the low solubility of Hep-25 at neutral pH, we introduced the C-terminal DEDEDE solubility tag. The metal binding was investigated through a series of NMR spectroscopic experiments to identify the most affected amino acids that mediate metal coordination. Based on the obtained NMR data, a structural calculation was performed in order to generate a model structure of the Hep-25-Ni(II) complex. The DEDEDE tag was excluded from the structural calculation due to a lack of NMR restraints. The dynamic nature and fast exchange of some of the amide protons with solvent reduced the overall number of NMR restraints needed for a high-quality structure. The NMR data revealed that the 20 Cterminal Hep-25 amino acids experienced no significant conformational changes, compared to published results, as a result of a pH change from pH 3 to pH 7 and metal binding. A 3D model of the Hep-25-Ni(II) complex was constructed from NMR data recorded for the hexapeptideNi(II) complex and Hep-25-DEDEDE-Ni(II) complex in combination with the fixed conformation of 19 C-terminal amino acids. The NMR data of the Hep-25-DEDEDE-Ni(II) complex indicates that the ATCUN motif moves independently from the rest of the structure. The 3D model structure of the metal-bound Hep-25 allows for future works to elucidate hepcidin's interaction with its receptor ferroportin and should serve as a starting point for the development of antibodies with improved selectivity.}, language = {en} } @phdthesis{SanchezBarriga2010, author = {S{\´a}nchez-Barriga, Jaime}, title = {A photoemission study of quasiparticle excitations, electron-correlation effects and magnetization dynamics in thin magnetic systems}, url = {http://nbn-resolving.de/urn:nbn:de:kobv:517-opus-48499}, school = {Universit{\"a}t Potsdam}, year = {2010}, abstract = {This thesis is focused on the electronic, spin-dependent and dynamical properties of thin magnetic systems. Photoemission-related techniques are combined with synchrotron radiation to study the spin-dependent properties of these systems in the energy and time domains. In the first part of this thesis, the strength of electron correlation effects in the spin-dependent electronic structure of ferromagnetic bcc Fe(110) and hcp Co(0001) is investigated by means of spin- and angle-resolved photoemission spectroscopy. The experimental results are compared to theoretical calculations within the three-body scattering approximation and within the dynamical mean-field theory, together with one-step model calculations of the photoemission process. From this comparison it is demonstrated that the present state of the art many-body calculations, although improving the description of correlation effects in Fe and Co, give too small mass renormalizations and scattering rates thus demanding more refined many-body theories including nonlocal fluctuations. In the second part, it is shown in detail monitoring by photoelectron spectroscopy how graphene can be grown by chemical vapour deposition on the transition-metal surfaces Ni(111) and Co(0001) and intercalated by a monoatomic layer of Au. For both systems, a linear E(k) dispersion of massless Dirac fermions is observed in the graphene pi-band in the vicinity of the Fermi energy. Spin-resolved photoemission from the graphene pi-band shows that the ferromagnetic polarization of graphene/Ni(111) and graphene/Co(0001) is negligible and that graphene on Ni(111) is after intercalation of Au spin-orbit split by the Rashba effect. In the last part, a time-resolved x-ray magnetic circular dichroic-photoelectron emission microscopy study of a permalloy platelet comprising three cross-tie domain walls is presented. It is shown how a fast picosecond magnetic response in the precessional motion of the magnetization can be induced by means of a laser-excited photoswitch. From a comparision to micromagnetic calculations it is demonstrated that the relatively high precessional frequency observed in the experiments is directly linked to the nature of the vortex/antivortex dynamics and its response to the magnetic perturbation. This includes the time-dependent reversal of the vortex core polarization, a process which is beyond the limit of detection in the present experiments.}, language = {en} } @article{SelleKnorrLischeid2019, author = {Selle, Benny and Knorr, Klaus-Holger and Lischeid, Gunnar}, title = {Mobilisation and transport of dissolved organic carbon and iron in peat catchments-Insights from the Lehstenbach stream in Germany using generalised additive models}, series = {Hydrological processes}, volume = {33}, journal = {Hydrological processes}, number = {25}, publisher = {Wiley}, address = {Hoboken}, issn = {0885-6087}, doi = {10.1002/hyp.13552}, pages = {3213 -- 3225}, year = {2019}, abstract = {During the last decades, increasing exports of both dissolved organic carbon (DOC) and iron were observed from peat catchments in North America and Europe with potential consequences for water quality of streamwater and carbon storages of soils. As mobilisation and transport processes of DOC and iron in peat catchments are only partly understood, the purpose of this study was to elucidate these processes in an intensively monitored and studied system. Specifically, it was hypothesised that dissimilatory iron reduction in riparian peatland soils mobilises DOC initially adsorbed to iron minerals. During stormflow conditions, both DOC and iron will be transported into the stream network. Ferrous iron may be reoxidised at redox interfaces on its way to the stream, and subsequently, ferric iron could be transported together with DOC as complexes. To test these hypotheses, generalised additive models (GAMs) were applied to 14 years of weekly time series of discharge and concentrations of selected solutes measured in a German headwater stream called Lehstenbach. This stream drains a 4.19-km(2) forested mountain catchment; one third of which is covered by riparian peatland soils. We interpreted results of different types of GAM in the way that (a) iron reduction drove the mobilisation of DOC from peatland soils and that (b) both iron and DOC were transported as complexes after their joint mobilisation to and within the steam. It was speculated that low nitrate availability in the uppermost wetland soil layer, particularly during the growing season, promoted iron reduction and thus the mobilisation of DOC. However, the influence of nitrate on the DOC mobilisation remains relatively uncertain. This influence could be further investigated using methods similar to the GAM analysis conducted here for other catchments with long-term data as well as detailed measurements of the relevant species in riparian wetland soils and the adjacent stream network.}, language = {en} } @article{SchwarzLossowKoppetal.2019, author = {Schwarz, Maria and Lossow, Kristina and Kopp, Johannes Florian and Schwerdtle, Tanja and Kipp, Anna Patricia}, title = {Crosstalk of Nrf2 with the Trace Elements Selenium, Iron, Zinc, and Copper}, series = {Nutrients}, volume = {11}, journal = {Nutrients}, number = {9}, publisher = {MDPI}, address = {Basel}, issn = {2072-6643}, doi = {10.3390/nu11092112}, pages = {18}, year = {2019}, abstract = {Trace elements, like Cu, Zn, Fe, or Se, are important for the proper functioning of antioxidant enzymes. However, in excessive amounts, they can also act as pro-oxidants. Accordingly, trace elements influence redox-modulated signaling pathways, such as the Nrf2 pathway. Vice versa, Nrf2 target genes belong to the group of transport and metal binding proteins. In order to investigate whether Nrf2 directly regulates the systemic trace element status, we used mice to study the effect of a constitutive, whole-body Nrf2 knockout on the systemic status of Cu, Zn, Fe, and Se. As the loss of selenoproteins under Se-deprived conditions has been described to further enhance Nrf2 activity, we additionally analyzed the combination of Nrf2 knockout with feeding diets that provide either suboptimal, adequate, or supplemented amounts of Se. Experiments revealed that the Nrf2 knockout partially affected the trace element concentrations of Cu, Zn, Fe, or Se in the intestine, liver, and/or plasma. However, aside from Fe, the other three trace elements were only marginally modulated in an Nrf2-dependent manner. Selenium deficiency mainly resulted in increased plasma Zn levels. One putative mediator could be the metal regulatory transcription factor 1, which was up-regulated with an increasing Se supply and downregulated in Se-supplemented Nrf2 knockout mice.}, language = {en} } @misc{SchwarzLossowKoppetal.2019, author = {Schwarz, Maria and Lossow, Kristina and Kopp, Johannes F. and Schwerdtle, Tanja and Kipp, Anna Patricia}, title = {Crosstalk of Nrf2 with the Trace Elements Selenium, Iron, Zinc, and Copper}, series = {Postprints der Universit{\"a}t Potsdam : Mathematisch-Naturwissenschaftliche Reihe}, journal = {Postprints der Universit{\"a}t Potsdam : Mathematisch-Naturwissenschaftliche Reihe}, number = {1081}, issn = {1866-8372}, doi = {10.25932/publishup-47287}, url = {http://nbn-resolving.de/urn:nbn:de:kobv:517-opus4-472873}, pages = {20}, year = {2019}, abstract = {Trace elements, like Cu, Zn, Fe, or Se, are important for the proper functioning of antioxidant enzymes. However, in excessive amounts, they can also act as pro-oxidants. Accordingly, trace elements influence redox-modulated signaling pathways, such as the Nrf2 pathway. Vice versa, Nrf2 target genes belong to the group of transport and metal binding proteins. In order to investigate whether Nrf2 directly regulates the systemic trace element status, we used mice to study the effect of a constitutive, whole-body Nrf2 knockout on the systemic status of Cu, Zn, Fe, and Se. As the loss of selenoproteins under Se-deprived conditions has been described to further enhance Nrf2 activity, we additionally analyzed the combination of Nrf2 knockout with feeding diets that provide either suboptimal, adequate, or supplemented amounts of Se. Experiments revealed that the Nrf2 knockout partially affected the trace element concentrations of Cu, Zn, Fe, or Se in the intestine, liver, and/or plasma. However, aside from Fe, the other three trace elements were only marginally modulated in an Nrf2-dependent manner. Selenium deficiency mainly resulted in increased plasma Zn levels. One putative mediator could be the metal regulatory transcription factor 1, which was up-regulated with an increasing Se supply and downregulated in Se-supplemented Nrf2 knockout mice.}, language = {en} } @article{SchifferleLobanov2022, author = {Schifferle, Lukas and Lobanov, Sergey S.}, title = {Evolution of chemical bonding and spin-pairing energy in ferropericlase across Its spin transition}, series = {ACS Earth and Space Chemistry}, volume = {6}, journal = {ACS Earth and Space Chemistry}, number = {3}, publisher = {American Chemical Society}, address = {Washington}, issn = {2472-3452}, doi = {10.1021/acsearthspacechem.2c00014}, pages = {788 -- 799}, year = {2022}, abstract = {The evolution of chemical bonding in ferropericlase, (Mg,Fe)O, with pressure may affect the physical and chemical properties of the Earth's lower mantle. Here, we report high-pressure optical absorption spectra of single-crystalline ferropericlase ((Mg0.87Fe0.13)O) up to 135 GPa. Combined with a re-evaluation of published partial fluorescence yield X-ray absorption spectroscopy data, we show that the covalency of the Fe-O bond increases with pressure, but the iron spin transition at 57-76.5 GPa reverses this trend. The qualitative crossover in chemical bonding suggests that the spin-pairing transition weakens the Fe-O bond in ferropericlase. We find, that the spin transition in ferropericlase is caused by both the increase of the ligand field-splitting energy and the decrease in the spin-pairing energy of high-spin Fe2+.}, language = {en} } @article{NaolouLendleinNeffe2019, author = {Naolou, Toufik and Lendlein, Andreas and Neffe, Axel T.}, title = {Amides as non-polymerizable catalytic adjuncts enable the ring-opening polymerization of lactide with ferrous acetate under mild conditions}, series = {Frontiers in Chemistry}, volume = {7}, journal = {Frontiers in Chemistry}, publisher = {Frontiers Research Foundation}, address = {Lausanne}, issn = {2296-2646}, doi = {10.3389/fchem.2019.00346}, pages = {12}, year = {2019}, abstract = {Sn-based catalysts are effective in the ring-opening polymerization (ROP) but are toxic. Fe(OAc)(2) used as an alternative catalyst is suitable for the ROP of lactide only at higher temperatures (>170 degrees C), associated with racemization. In the ROP of ester and amide group containing morpholinediones with Fe(OAc)(2) to polydepsipeptides at 135 degrees C, ester bonds were selectively opened. Here, it was hypothesized that ROP of lactones is possible with Fe(OAc)(2) when amides are present in the reactions mixture as Fe-ligands could increase the solubility and activity of the metal catalytic center. The ROP of lactide in the melt with Fe(OAc)(2) is possible at temperatures as low as 105 degrees C, in the presence of N-ethylacetamide or N-rnethylbenzamide as non-polymerizable catalytic adjuncts (NPCA), with high conversion (up to 99 mol\%) and yield (up to 88 mol\%). Polydispersities of polylactide decreased with decreasing reaction temperature to <= 1.1. NMR as well as polarimetric studies showed that no racemization occurred at reaction temperatures <= 145 degrees C. A kinetic study demonstrated a living chain-growth mechanism. MALDI analysis revealed that no side reactions (e.g., cyclization) occurred, though transesterification took place.}, language = {en} } @article{MendelHercherZupoketal.2020, author = {Mendel, Ralf R. and Hercher, Thomas W. and Zupok, Arkadiusz and Hasnat, Muhammad Abrar and Leimk{\"u}hler, Silke}, title = {The requirement of inorganic Fe-S clusters for the biosynthesis of the organometallic molybdenum cofactor}, series = {Inorganics : open access journal}, volume = {8}, journal = {Inorganics : open access journal}, number = {7}, publisher = {MDPI}, address = {Basel}, issn = {2304-6740}, doi = {10.3390/inorganics8070043}, pages = {23}, year = {2020}, abstract = {Iron-sulfur (Fe-S) clusters are essential protein cofactors. In enzymes, they are present either in the rhombic [2Fe-2S] or the cubic [4Fe-4S] form, where they are involved in catalysis and electron transfer and in the biosynthesis of metal-containing prosthetic groups like the molybdenum cofactor (Moco). Here, we give an overview of the assembly of Fe-S clusters in bacteria and humans and present their connection to the Moco biosynthesis pathway. In all organisms, Fe-S cluster assembly starts with the abstraction of sulfur froml-cysteine and its transfer to a scaffold protein. After formation, Fe-S clusters are transferred to carrier proteins that insert them into recipient apo-proteins. In eukaryotes like humans and plants, Fe-S cluster assembly takes place both in mitochondria and in the cytosol. Both Moco biosynthesis and Fe-S cluster assembly are highly conserved among all kingdoms of life. Moco is a tricyclic pterin compound with molybdenum coordinated through its unique dithiolene group. Moco biosynthesis begins in the mitochondria in a Fe-S cluster dependent step involving radical/S-adenosylmethionine (SAM) chemistry. An intermediate is transferred to the cytosol where the dithiolene group is formed, to which molybdenum is finally added. Further connections between Fe-S cluster assembly and Moco biosynthesis are discussed in detail.}, language = {en} } @phdthesis{Leiser2021, author = {Leiser, Rico}, title = {Biogeochemical processes governing microplastic transport in freshwater reservoirs}, doi = {10.25932/publishup-52024}, url = {http://nbn-resolving.de/urn:nbn:de:kobv:517-opus4-520240}, school = {Universit{\"a}t Potsdam}, pages = {ix, 143}, year = {2021}, abstract = {The presented study investigated the influence of microbial and biogeochemical processes on the physical transport related properties and the fate of microplastics in freshwater reservoirs. The overarching goal was to elucidate the mechanisms leading to sedimentation and deposition of microplastics in such environments. This is of importance, as large amounts of initially buoyant microplastics are found in reservoir sediments worldwide. However, the transport processes which lead to microplastics accumulation in sediments, were up to now understudied. The impact of biofilm formation on the density and subsequent sedimentation of microplastics was investigated in the eutrophic Bautzen reservoirs (Chapter 2). Biofilms are complex microbial communities fixed to submerged surfaces through a slimy organic film. The mineral calcite was detected in the biofilms, which led to the sinking of the overgrown microplastic particles. The calcite was of biogenic origin, most likely precipitated by sessile cyanobacteria within the biofilms. Biofilm formation was also studied in the mesotrophic Malter reservoir. Unlike in Bautzen reservoir, biofilm formation did not govern the sedimentation of different microplastics in Malter reservoir (Chapter 3). Instead autumnal lake mixing led to the formation of sinking aggregates of microplastics and iron colloids. Such colloids form when anoxic, iron-rich water from the hypolimnion mixes with the oxygenated epilimnetic waters. The colloids bind organic material from the lake water, which leads to the formation of large and sinking iron-organo flocs. Hence, iron-organo floc formation and their influence on the buoyancy or burial of microplastics into sediments of Bautzen reservoir was studied in laboratory experiments (Chapter 4). Microplastics of different shapes (fiber, fragment, sphere) and sizes were readily incorporated into sinking iron-organo flocs. By this initially buoyant polyethylene microplastics were transported on top of sediments from Bautzen reservoir. Shortly after deposition, the microplastic bearing flocs started to subside and transported the pollutants into deeper sediment layers. The microplastics were not released from the sediments within two months of laboratory incubation. The stability of floc microplastic deposition was further investigated employing experiments with the iron reducing model organism Shewanella oneidensis (Chapter 5). It was shown, that reduction or re-mineralization of the iron minerals did not affect the integrity of the iron-organo flocs. The organic matrix was stable under iron reducing conditions. Hence, no incorporated microplastics were released from the flocs. As similar processes are likely to take place in natural sediments, this might explain the previous described low microplastic release from the sediments. This thesis introduced different mechanisms leading to the sedimentation of initially buoyant microplastics and to their subsequent deposition in freshwater reservoirs. Novel processes such as the aggregation with iron-organo flocs were identified and the understudied issue of biofilm densification through biogenic mineral formation was further investigated. The findings might have implications for the fate of microplastics within the river-reservoir system and outline the role of freshwater reservoirs as important accumulation zone for microplastics. Microplastics deposited in the sediments of reservoirs might not be transported further by through flowing river. Hence the study might contribute to better risk assessment and transport balances of these anthropogenic contaminants.}, language = {en} } @phdthesis{Kraupner2011, author = {Kraupner, Alexander}, title = {Neuartige Synthese magnetischer Nanostrukturen: Metallcarbide und Metallnitride der {\"U}bergangsmetalle Fe/Co/Ni}, url = {http://nbn-resolving.de/urn:nbn:de:kobv:517-opus-52314}, school = {Universit{\"a}t Potsdam}, year = {2011}, abstract = {Magnetische Nanopartikel bieten ein großes Potential, da sie einerseits die Eigenschaften ihrer Bulk-Materialien besitzen und anderseits, auf Grund ihrer Gr{\"o}ße, {\"u}ber komplett unterschiedliche magnetische Eigenschaften verf{\"u}gen k{\"o}nnen; Superparamagnetismus ist eine dieser Eigenschaften. Die meisten etablierten Anwendungen magnetischer Nanopartikel basieren heutzutage auf Eisenoxiden. Diese bieten gute magnetische Eigenschaften, sind chemisch relativ stabil, ungiftig und lassen sich auf vielen Synthesewegen relativ einfach herstellen. Die magnetischen Eigenschaften der Eisenoxide sind materialabh{\"a}ngig aber begrenzt, weshalb nach anderen Verbindungen mit besseren Eigenschaften gesucht werden muss. Eisencarbid (Fe3C) kann eine dieser Verbindungen sein. Dieses besitzt vergleichbare positive Eigenschaften wie Eisenoxid, jedoch viel bessere magnetische Eigenschaften, speziell eine h{\"o}here S{\"a}ttigungsmagnetisierung. Bis jetzt wurde Fe3C haupts{\"a}chlich in Gasphasenabscheidungsprozessen synthetisiert oder als Nebenprodukt bei der Synthese von Kohlenstoffstrukturen gefunden. Eine Methode, mit der gezielt Fe3C-Nanopartikel und andere Metallcarbide synthetisiert werden k{\"o}nnen, ist die „Harnstoff-Glas-Route". Neben den Metallcarbiden k{\"o}nnen mit dieser Methode auch die entsprechenden Metallnitride synthetisiert werden, was die breite Anwendbarkeit der Methode unterstreicht. Die „Harnstoff-Glas-Route" ist eine Kombination eines Sol-Gel-Prozesses mit einer anschließenden carbothermalen Reduktion/Nitridierung bei h{\"o}heren Temperaturen. Sie bietet den Vorteil einer einfachen und schnellen Synthese verschiedener Metallcarbide/nitride. Der Schwerpunkt in dieser Arbeit lag auf der Synthese von Eisencarbiden/nitriden, aber auch Nickel und Kobalt wurden betrachtet. Durch die Variation der Syntheseparameter konnten verschiedene Eisencarbid/nitrid Nanostrukturen synthetisiert werden. Fe3C-Nanopartikel im Gr{\"o}ßenbereich von d = 5 - 10 nm konnten, durch die Verwendung von Eisenchlorid, hergestellt werden. Die Nanopartikel weisen durch ihre geringe Gr{\"o}ße superparamagnetische Eigenschaften auf und besitzen, im Vergleich zu Eisenoxid Nanopartikeln im gleichen Gr{\"o}ßenbereich, eine h{\"o}here S{\"a}ttigungsmagnetisierung. Diese konnten in fortf{\"u}hrenden Experimenten erfolgreich in ionischen Fl{\"u}ssigkeiten und durch ein Polymer-Coating, im w{\"a}ssrigen Medium, dispergiert werden. Desweiteren wurde durch ein Templatieren mit kolloidalem Silika eine mesopor{\"o}se Fe3C-Nanostruktur hergestellt. Diese konnte erfolgreich in der katalytischen Spaltung von Ammoniak getestet werden. Mit der Verwendung von Eisenacetylacetonat konnten neben Fe3C-Nanopartikeln, nur durch Variation der Reaktionsparameter, auch Fe7C3- und Fe3N-Nanopartikel synthetisiert werden. Speziell f{\"u}r die Fe3C-Nanopartikel konnte die S{\"a}ttigungsmagnetisierung, im Vergleich zu den mit Eisenchlorid synthetisierten Nanopartikeln, nochmals erh{\"o}ht werden. Versuche mit Nickelacetat f{\"u}hrten zu Nickelnitrid (Ni3N) Nanokristallen. Eine zus{\"a}tzliche metallische Nickelphase f{\"u}hrte zu einer Selbstorganisation der Partikel in Scheiben-{\"a}hnliche {\"U}berstrukturen. Mittels Kobaltacetat konnten, in Sph{\"a}ren aggregierte, metallische Kobalt Nanopartikel synthetisiert werden. Kobaltcarbid/nitrid war mit den gegebenen Syntheseparametern nicht zug{\"a}nglich.}, language = {de} }