@article{SchwarzeMuellerAstetal.2014,
  author    = {Schwarze, Thomas and M{\"u}ller, Holger and Ast, Sandra and Steinbr{\"u}ck, D{\"o}rte and Eidner, Sascha and Geißler, Felix and Kumke, Michael Uwe and Holdt, Hans-J{\"u}rgen},
  title     = {Fluorescence lifetime-based sensing of sodium by an optode},
  series = {Chemical Communications},
  journal   = {Chemical Communications},
  editor    = {Kumke, Michael Uwe},
  publisher = {The Royal Society Chemistry},
  address   = {Cambridge},
  issn      = {0022-4936},
  pages     = {14167 -- 14170},
  year      = {2014},
  abstract  = {We report a 1,2,3-triazol fluoroionophore for detecting Na+ that shows in vitro enhancement in the Na+-induced fluorescence intensity and decay time. The Na+-selective molecule 1 was incorporated into a hydrogel as a part of a fiber optical sensor. This sensor allows the direct determination of Na+ in the range of 1-10 mM by measuring reversible fluorescence decay time changes.},
  language  = {en}
}
@misc{SchwarzeMuellerAstetal.2014,
  author    = {Schwarze, Thomas and M{\"u}ller, Holger and Ast, Sandra and Steinbr{\"u}ck, D{\"o}rte and Eidner, Sascha and Geißler, Felix and Kumke, Michael Uwe and Holdt, Hans-J{\"u}rgen},
  title     = {Fluorescence lifetime-based sensing of sodium by an optode},
  publisher = {The Royal Society of Chemistry},
  address   = {Cambridge},
  url       = {http://nbn-resolving.de/urn:nbn:de:kobv:517-opus4-76785},
  pages     = {14167 -- 14170},
  year      = {2014},
  abstract  = {We report a 1,2,3-triazol fluoroionophore for detecting Na+ that shows in vitro enhancement in the Na+-induced fluorescence intensity and decay time. The Na+-selective molecule 1 was incorporated into a hydrogel as a part of a fiber optical sensor. This sensor allows the direct determination of Na+ in the range of 1-10 mM by measuring reversible fluorescence decay time changes.},
  language  = {en}
}
@phdthesis{Kluge2021,
  author    = {Kluge, Steven},
  title     = {Integration anorganischer F{\"u}llstoffe in Polysulfonmembranen und Auswirkungen auf die Gastransporteigenschaften},
  doi       = {10.25932/publishup-53270},
  url       = {http://nbn-resolving.de/urn:nbn:de:kobv:517-opus4-532700},
  school      = {Universit{\"a}t Potsdam},
  pages     = {110},
  year      = {2021},
  abstract  = {In der vorliegenden Arbeit wird die Herstellung und Charakterisierung von Mixed-Matrix-Membranen (MMM) f{\"u}r die Gastrennung thematisiert. Dazu wurden verschiedene F{\"u}llstoffe genutzt, um in Verbindung mit dem Membranmaterial Polysulfon MMMs herzustellen. Als F{\"u}llstoffe wurden 3 aktive und 2 passive F{\"u}llstoffe verwendet. Die aktiven F{\"u}llstoffe besaßen Poren{\"o}ffnungen, die in der Lage sind Gase in Abh{\"a}ngigkeit der Molek{\"u}lgr{\"o}ße zu trennen. Daraus folgt ein h{\"o}herer idealer Trennfaktor f{\"u}r bestimmte Gaspaare als in Polysulfon selbst. Aufgrund der durch die Poren gebildeten permanenten Kan{\"a}le in den aktiven F{\"u}llstoffen ergibt sich ein schnellerer Gastransport (Permeabilit{\"a}t) als in Polysulfon. Es handelte sich bei den aktiven F{\"u}llstoffen um den Zeolith SAPO-34 und 2 Chargen eines Zeolitic Imidazolate Framework (ZIF) ZIF-8. Die beiden Chargen ZIF-8 unterschieden sich in ihrer spezifischen Oberfl{\"a}che, was diesen Einfluss speziell in die Untersuchungen zum Gastransport einbeziehen sollte. Bei den passiven F{\"u}llstoffen handelte es sich um ein aminofunktionalisiertes Kieselgel und unpor{\"o}se (dichte) Glask{\"u}gelchen. Das Kieselgel besaß Poren, die zu groß waren, um Gase effektiv zu trennen. Die Glask{\"u}gelchen konnten keine Gastrennung erm{\"o}glichen, da sie keine Poren besaßen. Aus der Literatur ist bekannt, dass die Einbettung von F{\"u}llstoffen oft zu Defekten in MMMs f{\"u}hrt. Ein Ziel dieser Arbeit war es daher die Einbettung zu optimieren. Weiterhin sollte der Gastransport in MMMs dieser Arbeit mit dem in einer unbeladenen Polysulfonmembran verglichen werden. Aufgrund des selektiveren Trennverhaltens der aktiven F{\"u}llstoffe im Vergleich zum Membranmaterial, sollte mit der Einbettung aktiver F{\"u}llstoffe die Trennleistung der MMMs mit steigender F{\"u}llstoffbeladung immer weiter verbessert werden. Um die Eigenschaften der MMMs zu untersuchen, wurden diese mittels Rasterelektronenmikroskop (REM), Gaspermeationsmessungen (GP) und Thermogravimetrischer Analyse gekoppelt mit Massenspektrometrie (TGA-MS) charakterisiert. Untersuchungen am REM konnten eine Verbesserung der Einbettung zeigen, wenn ein polymerer Haftvermittler verwendet wurde. Verglichen wurde die optimierte Einbettung mit der Einbettung ohne Haftvermittler und Ergebnissen aus der Literatur, in der die Verwendung verschiedener Silane als Haftvermittler beschrieben wurde. Trotz der verbesserten Einbettung konnte lediglich bei geringen Beladungen an F{\"u}llstoff (10 und 20 Ma-\% bezogen auf das Membranmaterial) eine geringe Steigerung des idealen Trennfaktors in den MMMs gegen{\"u}ber der unbeladenen Polysulfonmembranen beobachtet werden. Bei h{\"o}heren F{\"u}llstoffbeladungen (30, 40 und 50 Ma-\%) war ein deutlicher Anstieg der Permeabilit{\"a}t bei stark sinkendem idealen Trennfaktor zu beobachten. Mit Hilfe von TGA-MS Messungen konnte dar{\"u}ber hinaus festgestellt werden, dass der verwendete Zeolith SAPO-34 durch Wassermolek{\"u}le blockierte Poren{\"o}ffnungen besaß. Das verhinderte den Gastransport im F{\"u}llstoff, wodurch die Trennleistung des F{\"u}llstoffes nicht ausgenutzt werden konnte. Die F{\"u}llstoffe ZIF-8 (chargenunabh{\"a}ngig) und aminofunktionalisiertes Kieselgel wiesen keine blockierten Poren auf. Dennoch zeigte sich in diesen MMMs keine Verbesserung der Gastrenn- oder Gastransporteigenschaften. MMMs mit dichten Glask{\"u}gelchen als F{\"u}llstoff zeigten dasselbe Gastrenn- und Gastransportverhalten, wie alle MMMs mit den zuvor genannten F{\"u}llstoffen. In dieser Arbeit konnte, trotz optimierter Einbettung anorganischer F{\"u}llstoffe, f{\"u}r MMMs keine Verbesserung der Gastrenn- oder Gastransporteigenschaften nachgewiesen werden. Vielmehr wurde ein Einfluss der F{\"u}llstoffmenge auf die Gastransporteigenschaften in MMMs festgestellt. Die {\"A}nderungen der MMMs gegen{\"u}ber Polysulfon stammen von den Folgen der Einbettung von F{\"u}llstoffen in das Matrixpolymer. Durch die Einbettung werden die Eigenschaften des Matrixpolymers {\"a}ndern, sodass auch der Gastransport beeinflusst wird. Des Weiteren wurde dokumentiert, dass in Abh{\"a}ngigkeit der F{\"u}llstoffbeladung die entstehende Membranstruktur beeinflusst wird. Die Beeinflussung war dabei unabh{\"a}ngig von der F{\"u}llstoffart. Es wurde eine Korrelation zwischen F{\"u}llstoffmenge und ver{\"a}nderter Membranstruktur gefunden.},
  language  = {de}
}
@article{JeonChechkinMetzler2014,
  author    = {Jeon, Jae-Hyung and Chechkin, Aleksei V. and Metzler, Ralf},
  title     = {Scaled Brownian motion: a paradoxical process with a time dependent diffusivity for the description of anomalous diffusion},
  series = {Physical chemistry, chemical physics : PCCP},
  volume    = {30},
  journal   = {Physical chemistry, chemical physics : PCCP},
  number    = {16},
  publisher = {The Royal Society of Chemistry},
  address   = {Cambridge},
  doi       = {10.1039/C4CP02019G},
  pages     = {15811 -- 15817},
  year      = {2014},
  abstract  = {Anomalous diffusion is frequently described by scaled Brownian motion (SBM){,} a Gaussian process with a power-law time dependent diffusion coefficient. Its mean squared displacement is ?x2(t)? [similar{,} equals] 2K(t)t with K(t) [similar{,} equals] t[small alpha]-1 for 0 < [small alpha] < 2. SBM may provide a seemingly adequate description in the case of unbounded diffusion{,} for which its probability density function coincides with that of fractional Brownian motion. Here we show that free SBM is weakly non-ergodic but does not exhibit a significant amplitude scatter of the time averaged mean squared displacement. More severely{,} we demonstrate that under confinement{,} the dynamics encoded by SBM is fundamentally different from both fractional Brownian motion and continuous time random walks. SBM is highly non-stationary and cannot provide a physical description for particles in a thermalised stationary system. Our findings have direct impact on the modelling of single particle tracking experiments{,} in particular{,} under confinement inside cellular compartments or when optical tweezers tracking methods are used.},
  language  = {en}
}
@misc{JeonChechkinMetzler2014,
  author    = {Jeon, Jae-Hyung and Chechkin, Aleksei V. and Metzler, Ralf},
  title     = {Scaled Brownian motion: a paradoxical process with a time dependent diffusivity for the description of anomalous diffusion},
  url       = {http://nbn-resolving.de/urn:nbn:de:kobv:517-opus4-76302},
  pages     = {15811 -- 15817},
  year      = {2014},
  abstract  = {Anomalous diffusion is frequently described by scaled Brownian motion (SBM){,} a Gaussian process with a power-law time dependent diffusion coefficient. Its mean squared displacement is ?x2(t)? [similar{,} equals] 2K(t)t with K(t) [similar{,} equals] t[small alpha]-1 for 0 < [small alpha] < 2. SBM may provide a seemingly adequate description in the case of unbounded diffusion{,} for which its probability density function coincides with that of fractional Brownian motion. Here we show that free SBM is weakly non-ergodic but does not exhibit a significant amplitude scatter of the time averaged mean squared displacement. More severely{,} we demonstrate that under confinement{,} the dynamics encoded by SBM is fundamentally different from both fractional Brownian motion and continuous time random walks. SBM is highly non-stationary and cannot provide a physical description for particles in a thermalised stationary system. Our findings have direct impact on the modelling of single particle tracking experiments{,} in particular{,} under confinement inside cellular compartments or when optical tweezers tracking methods are used.},
  language  = {en}
}
@book{Gutlederer2007,
  author    = {Gutlederer, Erwin Johann},
  title     = {On the morphology of vesicles. - [{\"u}berarb. Diss.]},
  url       = {http://nbn-resolving.de/urn:nbn:de:kobv:517-opus-15065},
  publisher      = {Universit{\"a}t Potsdam},
  year      = {2007},
  abstract  = {This dissertation contains theoretical investigations on the morphology and statistical mechanics of vesicles. The shapes of homogeneous fluid vesicles and inhomogeneous vesicles with fluid and solid membrane domains are calculated. The influence of thermal fluctuations is investigated. The obtained results are valid on mesoscopic length scales and are based on a geometrical membrane model, where the vesicle membrane is described as either a static or a thermal fluctuating surface. The thesis consists of three parts. In the first part, homogeneous vesicles are considered. The focus in this part is on the thermally induced morphological transition between vesicles with prolate and oblate shape. With the help of Monte Carlo simulations, the free energy profile of these vesicles is determined. It can be shown that the shape transformation between prolate and oblate vesicles proceeds continuously and is not hampered by a free energy barrier. The second and third part deal with inhomogeneous vesicles which contain intramembrane domains. These investigations are motivated by experimental results on domain formation in single or multicomponent vesicles, where phase separation occurs and different membrane phases coexist. The resulting domains differ with regard to their membrane structure (solid, fluid). The membrane structure has a distinct effect on the form of the domain and the morphology of the vesicle. In the second part, vesicles with coexisting solid and fluid membrane domains are studied, while the third part addresses vesicles with coexisting fluid domains. The equilibrium morphology of vesicles with simple and complex domain forms, derived through minimisation of the membrane energy, is determined as a function of material parameters. The results are summarised in morphology diagrams. These diagrams show previously unknown morphological transitions between vesicles with different domain shapes. The impact of thermal fluctuations on the vesicle and the form of the domains is investigated by means of Monte Carlo simulations.},
  language  = {en}
}
@article{DaniTauberZhangetal.2017,
  author    = {Dani, Alessandro and Tauber, Karoline and Zhang, Weiyi and Schlaad, Helmut and Yuan, Jiayin},
  title     = {Stable Covalently Photo-Crosslinked Poly(Ionic Liquid) Membrane with Gradient Pore Size},
  series = {Macromolecular rapid communications},
  volume    = {38},
  journal   = {Macromolecular rapid communications},
  publisher = {Wiley-VCH},
  address   = {Weinheim},
  issn      = {1022-1336},
  doi       = {10.1002/marc.201700167},
  pages     = {4},
  year      = {2017},
  abstract  = {Porous polyelectrolyte membranes stable in a highly ionic environment are obtained by covalent crosslinking of an imidazolium-based poly(ionic liquid). The crosslinking reaction involves the UV light-induced thiol-ene (click) chemistry, and the phase separation, occurring during the crosslinking step, generates a fully interconnected porous structure in the membrane. The porosity is on the order of the micrometer scale and the membrane shows a gradient of pore size across the membrane cross-section. The membrane can separate polystyrene latex particles of different size and undergoes actuation in contact with acetone due to the asymmetric porous structure.},
  language  = {en}
}
@article{BapolisiKielbBekiretal.2022,
  author    = {Bapolisi, Alain Murhimalika and Kielb, Patrycja and Bekir, Marek and Lehnen, Anne-Catherine and Radon, Christin and Laroque, Sophie and Wendler, Petra and M{\"u}ller-Werkmeister, Henrike and Hartlieb, Matthias},
  title     = {Antimicrobial polymers of linear and bottlebrush architecture},
  series = {Macromolecular rapid communications : publishing the newsletters of the European Polymer Federation},
  volume    = {43},
  journal   = {Macromolecular rapid communications : publishing the newsletters of the European Polymer Federation},
  number    = {19},
  publisher = {Wiley-VCH},
  address   = {Weinheim},
  issn      = {1521-3927},
  doi       = {10.1002/marc.202200288},
  pages     = {14},
  year      = {2022},
  abstract  = {Polymeric antimicrobial peptide mimics are a promising alternative for the future management of the daunting problems associated with antimicrobial resistance. However, the development of successful antimicrobial polymers (APs) requires careful control of factors such as amphiphilic balance, molecular weight, dispersity, sequence, and architecture. While most of the earlier developed APs focus on random linear copolymers, the development of APs with advanced architectures proves to be more potent. It is recently developed multivalent bottlebrush APs with improved antibacterial and hemocompatibility profiles, outperforming their linear counterparts. Understanding the rationale behind the outstanding biological activity of these newly developed antimicrobials is vital to further improving their performance. This work investigates the physicochemical properties governing the differences in activity between linear and bottlebrush architectures using various spectroscopic and microscopic techniques. Linear copolymers are more solvated, thermo-responsive, and possess facial amphiphilicity resulting in random aggregations when interacting with liposomes mimicking Escheria coli membranes. The bottlebrush copolymers adopt a more stable secondary conformation in aqueous solution in comparison to linear copolymers, conferring rapid and more specific binding mechanism to membranes. The advantageous physicochemical properties of the bottlebrush topology seem to be a determinant factor in the activity of these promising APs.},
  language  = {en}
}
@phdthesis{Banerjee2020,
  author    = {Banerjee, Pallavi},
  title     = {Glycosylphosphatidylinositols (GPIs) and GPI-anchored proteins tethered to lipid bilayers},
  doi       = {10.25932/publishup-48956},
  url       = {http://nbn-resolving.de/urn:nbn:de:kobv:517-opus4-489561},
  school      = {Universit{\"a}t Potsdam},
  pages     = {xv, 141},
  year      = {2020},
  abstract  = {Glycosylphosphatidylinositols (GPIs) are highly complex glycolipids that serve as membrane anchors to a large variety of eukaryotic proteins. These are covalently attached to a group of peripheral proteins called GPI-anchored proteins (GPI-APs) through a post-translational modification in the endoplasmic reticulum. The GPI anchor is a unique structure composed of a glycan, with phospholipid tail at one end and a phosphoethanolamine linker at the other where the protein attaches. The glycan part of the GPI comprises a conserved pseudopentasaccharide core that could branch out to carry additional glycosyl or phosphoethanolamine units. GPI-APs are involved in a diverse range of cellular processes, few of which are signal transduction, protein trafficking, pathogenesis by protozoan parasites like the malaria- causing parasite Plasmodium falciparum. GPIs can also exist freely on the membrane surface without an attached protein such as those found in parasites like Toxoplasma gondii, the causative agent of Toxoplasmosis. These molecules are both structurally and functionally diverse, however, their structure-function relationship is still poorly understood. This is mainly because no clear picture exists regarding how the protein and the glycan arrange with respect to the lipid layer. Direct experimental evidence is rather scarce, due to which inconclusive pictures have emerged, especially regarding the orientation of GPIs and GPI-APs on membrane surfaces and the role of GPIs in membrane organization. It appears that computational modelling through molecular dynamics simulations would be a useful method to make progress. In this thesis, we attempt to explore characteristics of GPI anchors and GPI-APs embedded in lipid bilayers by constructing molecular models at two different resolutions - all-atom and coarse-grained. First, we show how to construct a modular molecular model of GPIs and GPI-anchored proteins that can be readily extended to a broad variety of systems, addressing the micro-heterogeneity of GPIs. We do so by creating a hybrid link to which GPIs of diverse branching and lipid tails of varying saturation with their optimized force fields, GLYCAM06 and Lipid14 respectively, can be attached. Using microsecond simulations, we demonstrate that GPI prefers to "flop-down" on the membrane, thereby, strongly interacting with the lipid heads, over standing upright like a "lollipop". Secondly, we extend the model of the GPI core to carry out a systematic study of the structural aspects of GPIs carrying different side chains (parasitic and human GPI variants) inserted in lipid bilayers. Our results demonstrate the importance of the side branch residues as these are the most accessible, and thereby, recognizable epitopes. This finding qualitatively agrees with experimental observations that highlight the role of the side branches in immunogenicity of GPIs and the specificity thereof. The overall flop-down orientation of the GPIs with respect to the bilayer surface presents the side chain residues to face the solvent. Upon attaching the green fluorescent protein (GFP) to the GPI, it is seen to lie in close proximity to the bilayer, interacting both with the lipid heads and glycan part of the GPI. However the orientation of GFP is sensitive to the type of GPI it is attached to. Finally, we construct a coarse-grained model of the GPI and GPI-anchored GFP using a modified version of the MARTINI force-field, using which the timescale is enhanced by at least an order of magnitude compared to the atomistic system. This study provides a theoretical perspective on the conformational behavior of the GPI core and some of its branched variations in presence of lipid bilayers, as well as draws comparisons with experimental observations. Our modular atomistic model of GPI can be further employed to study GPIs of variable branching, and thereby, aid in designing future experiments especially in the area of vaccines and drug therapies. Our coarse-grained model can be used to study dynamic aspects of GPIs and GPI-APs w.r.t plasma membrane organization. Furthermore, the backmapping technique of converting coarse-grained trajectory back to the atomistic model would enable in-depth structural analysis with ample conformational sampling.},
  language  = {en}
}