@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{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}
}
@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}
}
@article{JayEckertVazdaCruzetal.2019,
  author    = {Jay, Raphael Martin and Eckert, Sebastian and Vaz da Cruz, Vinicius and Fondell, Mattis and Mitzner, Rolf and F{\"o}hlisch, Alexander},
  title     = {Covalency-driven preservation of local charge densities in a metal-to-ligand charge-transfer excited iron photosensitizer},
  series = {Angewandte Chemie : a journal of the Gesellschaft Deutscher Chemiker ; International edition},
  volume    = {58},
  journal   = {Angewandte Chemie : a journal of the Gesellschaft Deutscher Chemiker ; International edition},
  number    = {31},
  publisher = {Wiley-VCH},
  address   = {Weinheim},
  issn      = {1433-7851},
  doi       = {10.1002/anie.201904761},
  pages     = {10742 -- 10746},
  year      = {2019},
  abstract  = {Charge-density rearrangements after metal-to-ligand charge-transfer excitation in an iron photosensitizer are investigated by R. M Jay, A. Fohlisch et al. in their Communication (DOI: 10.1002/anie.201904761). By using time-resolved X-ray absorption spectroscopy, surprising covalency-effects are revealed that inhibit charge-separation at the intra-molecular level. Furthermore, the underlying mechanism is proposed to be generally in effect for all commonly used photosensitizers in light-harvesting applications, which challenges the common perception of electronic charge-transfer.},
  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{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}
}
@article{MichaelisAengenheisterTuchtenhagenetal.2022,
  author    = {Michaelis, Vivien and Aengenheister, Leonie and Tuchtenhagen, Max and Rinklebe, J{\"o}rg and Ebert, Franziska and Schwerdtle, Tanja and Buerki-Thurnherr, Tina and Bornhorst, Julia},
  title     = {Differences and interactions in placental manganese and iron transfer across an in vitro model of human villous trophoblasts},
  series = {International journal of molecular sciences},
  volume    = {23},
  journal   = {International journal of molecular sciences},
  number    = {6},
  publisher = {MDPI},
  address   = {Basel},
  issn      = {1422-0067},
  doi       = {10.3390/ijms23063296},
  pages     = {18},
  year      = {2022},
  abstract  = {Manganese (Mn) as well as iron (Fe) are essential trace elements (TE) important for the maintenance of physiological functions including fetal development. However, in the case of Mn, evidence suggests that excess levels of intrauterine Mn are associated with adverse pregnancy outcomes. Although Mn is known to cross the placenta, the fundamentals of Mn transfer kinetics and mechanisms are largely unknown. Moreover, exposure to combinations of TEs should be considered in mechanistic transfer studies, in particular for TEs expected to share similar transfer pathways. Here, we performed a mechanistic in vitro study on the placental transfer of Mn across a BeWo b30 trophoblast layer. Our data revealed distinct differences in the placental transfer of Mn and Fe. While placental permeability to Fe showed a clear inverse dose-dependency, Mn transfer was largely independent of the applied doses. Concurrent exposure of Mn and Fe revealed transfer interactions of Fe and Mn, indicating that they share common transfer mechanisms. In general, mRNA and protein expression of discussed transporters like DMT1, TfR, or FPN were only marginally altered in BeWo cells despite the different exposure scenarios highlighting that Mn transfer across the trophoblast layer likely involves a combination of active and passive transport processes.},
  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}
}
@phdthesis{CerdaDonate2020,
  author    = {Cerd{\´a} Do{\~n}ate, Elisa},
  title     = {Microfluidics for the study of magnetotactic bacteria towards single-cell analysis},
  school      = {Universit{\"a}t Potsdam},
  pages     = {X, 92},
  year      = {2020},
  abstract  = {Magnetotactic bacteria comprise a heterogeneous group of Gram negative bacteria which share the ability to synthesise intracellular magnetic nanoparticles surrounded by a lipid bilayer, known as magnetosomes, which are arranged in linear chains. The bacteria exert a unique level of control onto the biomineralization of these nanoparticles, which is seen in the controlled size and shape they have. These characteristics have attracted great attention on understanding the process by which the bacteria synthesise the magnetosomes. Moreover, the magnetosome chain impart the bacteria with a net magnetic dipole which makes them susceptible to interact with magnetic fields and thus orient with the Earth's magnetic field. This feature has attracted as well much interest to understand how the swimming motility of these microorganisms is affected by the presence of magnetic fields. Most of the studies performed in these bacteria so far have been conducted in the traditional manner using large populations of cells. Such studies have the disadvantage of averaging many different individuals with heterogeneous behaviours and fail to consider individual variations. In addition, in large populations each bacterium will be subjected to a different microenvironment that will influence the bacterial behaviour, but which cannot be defined using these traditional methods. In this thesis, different microfluidic platforms are proposed to overcome these limitations and to offer the possibility to study magnetotactic bacteria in defined environments and down to a single-cell resolution. First, a sediment-like microfluidic platform is presented with the purpose of mimicking the porous environment they bacteria naturally dwell in. The platform allows to observe via transmitted light microscopy that bacterial navigation in crowded environments is enhanced by the Earth's magnetic field strengths (B = 50 μT) rather than by null (B = 0 μT) or higher magnetic fields (B = 500 μT). Second, a microfluidic system to confine single-bacterial cells in physically defined environments is presented. The system allows to study via transmitted light microscopy the interplay between wall curvature, magnetic fields and bacterial speed affect the motion of a confined bacterium, and shows how bacterial trajectories depend on those three parameters. Third, a microfluidic platform to conduct semi in vivo magnetosome nucleation with a single-cell resolution via X-ray fluorescence is fabricated. It is shown that signal arising from magnetosome full chains can be observed individually in each bacterium. Finally, the iron uptake kinetics of a single bacterium are studied via a fluorescent reporter through confocal microscopy. Two different approaches are used for this: one of the previously mentioned platforms, as well as giant lipid vesicles. It is observed how iron uptake rates vary between cells, as well as how these rates are consistent with magnetosome formation taking place within some hours. The present thesis shows therefore how microfluidic technologies can be implemented for the study of magnetotactic bacteria at different degrees, and the level of resolution that can be attained by going into the single- cell scale.
},
  language  = {en}
}