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The controlled dosage of substances from a device to its environment, such as a tissue or an organ in medical applications or a reactor, room, machinery or ecosystem in technical, should ideally match the requirements of the applications, e.g. in terms of the time point at which the cargo is released. On-demand dosage systems may enable such a desired release pattern, if the device contain suitable features that can translate external signals into a release function. This study is motivated by the opportunities arising from microsystems capable of an on-demand release and the contributions that geometrical design may have in realizing such features. The goals of this work included the design, fabrication, characterization and experimental proof-of-concept of geometry-assisted triggerable dosing effect (a) with a sequential dosing release and (b) in a self-sufficient dosage system. Structure-function relationships were addressed on the molecular, morphological and, with a particular attention, the device design level, which is on the micrometer scale. Models and/or computational tools were used to screen the parameter space and provide guidance for experiments.
Eukaryotic cells can be regarded as complex microreactors capable of performing various biochemical reactions in parallel which are necessary to sustain life. An essential prerequisite for these complex metabolic reactions to occur is the evolution of lipid membrane-bound organelles enabling compartmental- ization of reactions and biomolecules. This allows for a spatiotemporal control over the metabolic reactions within the cellular system. Intracellular organi- zation arising due to compartmentalization is a key feature of all living cells and has inspired synthetic biologists to engineer such systems with bottom-up approaches.
Artificial cells provide an ideal platform to isolate and study specific re- actions without the interference from the complex network of biomolecules present in biological cells. To mimic the hierarchical architecture of eukaryotic cells, multi-compartment assemblies with nested liposomal structures also re- ferred to as multi-vesicular vesicles (MVVs) have been widely adopted. Most of the previously reported multi-compartment systems adopt bulk method- ologies which suffer from low yield and poor control over size. Microfluidic strategies help circumvent these issues and facilitate a high-throughput and robust technique to assemble MVVs of uniform size distribution.
In this thesis, firstly, the bulk methodologies are explored to build MVVs and implement a synthetic signalling cascade. Next, a polydimethylsiloxane (PDMS)-based microfluidic platform is introduced to build MVVs and the significance of PEGylated lipids for the successful encapsulation of inner com- partments to generate stable multi-compartment systems is highlighted.
Next, a novel two-inlet channel PDMS-based microfluidic device to create MVVs encompassing a three-step enzymatic reaction cascade is presented. A directed reaction pathway comprising of the enzymes α-glucosidase (α-Glc), glucose oxidase (GOx), and horseradish peroxidase (HRP) spanning across three compartments via reconstitution of size-selective membrane proteins is described. Furthermore, owing to the monodispersity of our MVVs due to microfluidic strategies, this platform is employed to study the effect of com- partmentalization on reaction kinetics.
Further integration of cell-free expression module into the MVVs would allow for gene-mediated signal transduction within artificial eukaryotic cells. Therefore, the chemically inducible cell-free expression of a membrane protein alpha-hemolysin and its further reconstitution into liposomes is carried out.
In conclusion, the present thesis aims to build artificial eukaryotic cells to achieve size-selective chemical communication that also show potential for applications as micro reactors and as vehicles for drug delivery.
Ionizing radiation is used in cancer radiation therapy to effectively damage the DNA of tumors leading to cell death and reduction of the tumor tissue. The main damage is due to generation of highly reactive secondary species such as low-energy electrons (LEE) with the most probable energy around 10 eV through ionization of water molecules in the cells. A simulation of the dose distribution in the patient is required to optimize the irradiation modality in cancer radiation therapy, which must be based on the fundamental physical processes of high-energy radiation with the tissue. In the present work the accurate quantification of DNA radiation damage in the form of absolute cross sections for LEE-induced DNA strand breaks (SBs) between 5 and 20 eV is done by using the DNA origami technique. This method is based on the analysis of well-defined DNA target sequences attached to DNA origami triangles with atomic force microscopy (AFM) on the single molecule level. The present work focuses on poly-adenine sequences (5'-d(A4), 5'-d(A8), 5'-d(A12), 5'-d(A16), and 5'- d(A20)) irradiated with 5.0, 7.0, 8.4, and 10 eV electrons. Independent of the DNA length, the strand break cross section shows a maximum around 7.0 eV electron energy for all investigated oligonucleotides confirming that strand breakage occurs through the initial formation of negative ion resonances. Additionally, DNA double strand breaks from a DNA hairpin 5'-d(CAC)4T(Bt-dT)T2(GTG)4 are examined for the first time and are compared with those of DNA single strands 5'-d(CAC)4 and 5'- d(GTG)4. The irradiation is made in the most likely energy range of 5 to 20 eV with an anionic resonance maximum around 10 eV independently of the DNA sequence. There is a clear difference between σSSB and σDSB of DNA single and double strands, where the strand break for ssDNA are always higher in all electron energies compared to dsDNA by the factor 3. A further part of this work deals with the characterization and analysis of new types of radiosensitizers used in chemoradiotherapy, which selectively increases the DNA damage upon radiation. Fluorinated DNA sequences with 2'-fluoro-2'-deoxycytidine (dFC) show an increased sensitivity at 7 and 10 eV compared to the unmodified DNA sequences by an enhancement factor between 2.1 and 2.5. In addition, light-induced oxidative damage of 5'-d(GTG)4 and 5'-d((CAC)4T(Bt-dT)T2(GTG)4) modified DNA origami triangles by singlet oxygen 1O2 generated from three photoexcited DNA groove binders [ANT994], [ANT1083] and [Cr(ddpd)2][BF4]3 illuminated in different experiments with UV-Vis light at 430, 435 and 530 nm wavelength is demonstrated. The singlet oxygen induced generation of DNA damage could be detected in both aqueous and dry environments for [ANT1083] and [Cr(ddpd)2][BF4]3.
The optical properties of chromophores, especially organic dyes and optically active inorganic molecules, are determined by their chemical structures, surrounding media, and excited state behaviors. The classical optical go-to techniques for spectroscopic investigations are absorption and luminescence spectroscopy. While both techniques are powerful and easy to apply spectroscopic methods, the limited time resolution of luminescence spectroscopy and its reliance on luminescent properties can make its application, in certain cases, complex, or even impossible. This can be the case when the investigated molecules do not luminesce anymore due to quenching effects, or when they were never luminescent in the first place. In those cases, transient absorption spectroscopy is an excellent and much more sophisticated technique to investigate such systems. This pump-probe laser-spectroscopic method is excellent for mechanistic investigations of luminescence quenching phenomena and photoreactions. This is due to its extremely high time resolution in the femto- and picosecond ranges, where many intermediate or transient species of a reaction can be identified and their kinetic evolution can be observed. Furthermore, it does not rely on the samples being luminescent, due to the active sample probing after excitation. In this work it is shown, that with transient absorption spectroscopy it was possible to identify the luminescence quenching mechanisms and thus luminescence quantum yield losses of the organic dye classes O4-DBD, S4-DBD, and pyridylanthracenes. Hence, the population of their triplet states could be identified as the competitive mechanism to their luminescence. While the good luminophores O4-DBD showed minor losses, the S4-DBD dye luminescence was almost entirely quenched by this process. However, for pyridylanthracenes, this phenomenon is present in both the protonated and unprotonated forms and moderately effects the luminescence quantum yield. Also, the majority of the quenching losses in the protonated forms are caused by additional non-radiative processes introduced by the protonation of the pyridyl rings. Furthermore, transient absorption spectroscopy can be applied to investigate the quenching mechanisms of uranyl(VI) luminescence by chloride and bromide. The reduction of the halides by excited uranyl(VI) leads to the formation of dihalide radicals X^(·−2). This excited state redox process is thus identified as the quenching mechanism for both halides, and this process, being diffusion-limited, can be suppressed by cryogenically freezing the samples or by observing these interactions in media with a lower dielectric constant, such as ACN and acetone.
The self-assembly of amphiphilic polymers in aqueous systems is important for a plethora of applications, in particular in the field of cosmetics and detergents. When introducing thermoresponsive blocks, the aggregation behavior of these polymers can be controlled by changing the temperature. While confined to simple diblock copolymer systems for long, the complexity - and thus the versatility - of such smart systems can be strongly enlarged, once designed monomers, specific block sizes, different architectures, or additional functional groups such as hydrophobic stickers are implemented. In this work, the structure-property relationship of such thermoresponsive amphiphilic block copolymers was investigated by varying their structure systematically. The block copolymers were generally composed of a permanently hydrophobic sticker group, a permanently hydrophilic block, and a thermoresponsive block exhibiting a Lower Critical Solution Temperature (LCST) behavior. While the hydrophilic block consisted of N,N dimethylacrylamide (DMAm), different monomers were used for the thermoresponsive block, such as N n propylacrylamide (NPAm), N iso propylacrylamide (NiPAm), N,N diethylacrylamide (DEAm), N,N bis(2 methoxyethyl)acrylamide (bMOEAm), or N acryloylpyrrolidine (NAP) with different reported LCSTs of 25, 32, 33, 42 and 56 °C, respectively. The block copolymers were synthesized by successive reversible addition fragmentation chain transfer (RAFT) polymerization. For the polymers with the basic linear, the twinned hydrophobic and the symmetrical quasi miktoarm architectures, the results were well defined block sizes and end groups as well as narrow molar mass distributions (Ɖ ≤ 1.3). More complex architectures, such as the twinned thermoresponsive and the non-symmetrical quasi miktoarm one, were achieved by combining RAFT polymerization with a second technique, namely atom transfer radical polymerization (ATRP) or single unit monomer insertion (SUMI), respectively. The obtained block copolymers showed well defined block sizes, but due to the complexity of these reaction paths, the dispersities were generally higher (Ɖ ≤ 1.8) and some end groups were lost.
The thermoresponsive behavior of the block copolymers was investigated by turbidimetry and dynamic light scattering (DLS). Below the phase transition temperature, the polymers were soluble in water and small micellar structures were visible. However, above the phase transition temperature, the aggregation behavior was strongly dependent on the architecture and the chemical structure of the thermoresponsive block. Thermoresponsive blocks comprising PNAP and PbMOEAm with DPn = 40 showed no cloud point (CP), since their already high LCSTs were further increased by the attached hydrophilic block. Depending on the architecture as well as on the block size, block copolymers with PNiPAm, PDEAm and PNPAm showed different CP’s. Large aggregates were visible for block copolymers with PNiPAm and PDEAm above their CP. For PNPAm containing block copolymers, the phase transition was very sensitive towards the architecture resulting in either small or large aggregates.
In addition, fluorescence studies were performed using PDMAm and PNiPAm homo and block copolymers with linear architecture, functionalized with complementary fluorescence dyes introduced at the opposite chain ends. The thermoresponsive behavior was studied in pure aqueous solution as well as in an oil in water (o/w) microemulsion. The findings indicate that the block copolymer behaves as polymeric surfactant at low temperatures, with one relatively small hydrophobic end group and an extended hydrophilic chain forming ‘hairy micelles’ similar as the other synthesized architectures. Above the phase transition temperature of the PNiPAm block, however, the copolymer behaves as associative telechelic polymer with two non-symmetrical hydrophobic end groups, which do not mix. Thus, instead of a network of bridged ‘flower micelles’, large dynamic aggregates are formed. These are connected alternatingly by the original micellar cores as well as by clusters of the collapsed PNiPAm blocks. This type of bridged micelles is even more favored in the o/w microemulsion than in pure aqueous solution.
Soft actuators have drawn significant attention due to their relevance for applications, such as artificial muscles in devices developed for medicine and robotics. Tuning their performance and expanding their functionality are frequently done by means of chemical modification. The introduction of structural elements rendering non-synthetic modification of the performance possible, as well as control over physical appearance and facilitating their recycling is a subject of a great interest in the field of smart materials. The primary aim of this thesis was to create a shape-memory polymeric actuator, where the capability for non-synthetic tuning of the actuation performance is combined with reprocessability. Physically cross-linked polymeric matrices provide a solid material platform, where the in situ processing methods can be employed for modification of the composition and morphology, resulting in the fine tuning of the related mechanical properties and shape-memory actuation capability.
The morphological features, required for shape-memory polymeric actuators, namely two crystallisable domains and anchoring points for physical cross-links, were embedded into a multiblock copolymer with poly(ε-caprolactone) and poly(L-lactide) segments (PLLA-PCL). Here, the melting transition of PCL was bisected into the actuating and skeleton-forming units, while the cross-linking was introduced via PLA stereocomplexation in blends with oligomeric poly(D-lactide) (ODLA). PLLA segment number average length of 12-15 repeating units was experimentally defined to be capable of the PLA stereocomplexes formation, but not sufficient for the isotactic crystallisation. Multiblock structure and phase dilution broaden the PCL melting transition, facilitating its separation into two conditionally independent crystalline domains. Low molar mass of the PLA stereocomplex components and a multiblock structure enables processing and reprocessing of the PLLA-PCL / ODLA blends with common non-destructive techniques. The modularity of the PLLA-PCL structure and synthetic approach allows for independent tuning of the properties of its components. The designed material establishes a solid platform for non-synthetic tuning of thermomechanical and structural properties of thermoplastic elastomers.
To evaluate the thermomechanical stability of the formed physical network, three criteria were appraised. As physical cross-links, PLA stereocomplexes have to be evenly distributed within the material matrix, their melting temperature shall not overlap with the thermal transitions of the PCL domains and they have to maintain the structural integrity within the strain ε ranges further applied in the shape-memory actuation experiments. Assigning PCL the function of the skeleton-forming and actuating units, and PLA stereocomplexes the role of physical netpoints, shape-memory actuation was realised in the PLLA-PCL / ODLA blends. Reversible strain of shape-memory actuation was found to be a function of PLA stereocomplex crystallinity, i.e. physical cross-linking density, with a maximum of 13.4 ± 1.5% at PLA stereocomplex content of 3.1 ± 0.3 wt%. In this way, shape-memory actuation can be tuned via adjusting the composition of the PLLA-PCL / ODLA blend. This makes the developed material a valuable asset in the production of cost-effective tunable soft polymeric actuators for the applications in medicine and soft robotics.
Membrane contact sites are of particular interest in the field of synthetic biology and biophysics. They are involved in a great variety of cellular functions. They form in between two cellular organelles or an organelle and the plasma membrane in order to establish a communication path for molecule transport or signal transmission.
The development of an artificial membrane system which can mimic membrane contact sites using bottom up synthetic biology was the goal of this research study. For this, a multi - compartmentalised giant unilamellar vesicle (GUV) system was created with the membrane of the outer vesicle mimicking the plasma membrane and the inner GUVs posing as cellular organelles.
In the following steps, three different strategies were used to achieve an internal membrane - membrane adhesion.
The development and optimization of carbonaceous materials is of great interest for several applications including gas sorption, electrochemical storage and conversion, or heterogeneous catalysis. In this thesis, the exploration and optimization of nitrogen containing carbonaceous materials by direct condensation of smart chosen, molecular precursors will be presented. As suggested with the concept of noble carbons, the choice of a stable, nitrogen-containing precursor will lead to an even more stable, nitrogen doped carbonaceous material with a controlled structure and electronic properties. Molecules fulfilling this requirement are for example nucleobases. The direct condensation of nucleobases leads to highly nitrogen containing carbonaceous materials without any further post or pretreatment. By using salt melt templating, pore structure adjustment is possible without the use of hazardous or toxic reagents and the template can be reused.
Using these simple tools, the synergetic effect of the pore structure and nitrogen content of the materials can be explored. Within this thesis, the influence of the condensation parameters will be correlated to the structure and performance of the materials. First, the influence of the condensation temperature to the porosity and nitrogen content of guanine will be discussed and the exploration of highly CO2 selective structural pores in C1N1 materials will be shown. Further tuning the pore structure of the materials by salt melt templating will be then explored, the potential of the prepared materials as heterogeneous catalysts and their basic catalytic strength will be correlated to their nitrogen content and pore morphology. A similar approach is used to explore the water sorption behavior of uric acid derived carbonaceous materials as potential sorbents for heat transformation applications. Changes in maximum water uptake and hydrophilicity of the prepared materials will be correlated to the nitrogen content and pore architecture. Due to the high thermal stability, porosity, and nitrogen content of ionic liquid derived nitrogen doped carbonaceous materials, a simple impregnation and calcination route can be conducted to obtain copper nano cluster decorated nitrogen-doped carbonaceous materials. The activity as catalyst for the oxygen reduction reaction of the obtained materials will be shown and structure performance relations are discussed.
In conclusion, the versatility of nitrogen doped carbonaceous materials with a nitrogen to carbon ratio of up to one will be shown. The possibility to tune the pore structure as well as the nitrogen content by using a simple procedure including salt melt templating as well as the use of molecular precursors and their effect on the performance will be discussed.
Natural products have proved to be a major resource in the discovery and development of many pharmaceuticals that are in use today. There is a wide variety of biologically active natural products that contain conjugated polyenes or benzofuran structures. Therefore, new synthetic methods for the construction of such building blocks are of great interest to synthetic chemists. The recently developed one-pot tethered ring-closing metathesis approach allows for the formation of Z,E-dienoates in high stereoselectivity. The extension of this method with a Julia-Kocienski olefination protocol would allow for the formation of conjugated trienes in a stereoselective manner. This strategy was applied in the total synthesis of conjugated triene containing (+)-bretonin B. Additionally, investigations of cross metathesis using methyl substituted olefins were pursued. This methodology was applied, as a one-pot cross metathesis/ring-closing metathesis sequence, in the total synthesis of benzofuran containing 7-methoxywutaifuranal. Finally, the design and synthesis of a catalyst for stereoretentive metathesis in aqueous media was investigated.
The incorporation of proteins in artificial materials such as membranes offers great opportunities to avail oneself the miscellaneous qualities of proteins and enzymes perfected by nature over millions of years. One possibility to leverage proteins is the modification with artificial polymers. To obtain such protein-polymer conjugates, either a polymer can be grown from the protein surface (grafting-from) or a pre-synthesized polymer attached to the protein (grafting-to). Both techniques were used to synthesize conjugates of different proteins with thermo-responsive polymers in this thesis.
First, conjugates were analyzed by protein NMR spectroscopy. Typical characterization techniques for conjugates can verify the successful conjugation and give hints on the secondary structure of the protein. However, the 3-dimensional structure, being highly important for the protein function, cannot be probed by standard techniques. NMR spectroscopy is a unique method allowing to follow even small alterations in the protein structure. A mutant of the carbohydrate binding module 3b (CBM3bN126W) was used as model protein and functionalized with poly(N-isopropylacrylamide). Analysis of conjugates prepared by grafting-to or grafting-from revealed a strong impact of conjugation type on protein folding. Whereas conjugates prepared by grafting a pre-formed polymer to the protein resulted in complete preservation of protein folding, grafting the polymer from the protein surface led to (partial) disruption of the protein structure.
Next, conjugates of bovine serum albumin (BSA) as cheap and easily accessible protein were synthesized with PNIPAm and different oligoethylene glycol (meth)acrylates. The obtained protein-polymer conjugates were analyzed by an in-line combination of size exclusion chromatography and multi-angle laser light scattering (SEC-MALS). This technique is particular advantageous to determine molar masses, as no external calibration of the system is needed. Different SEC column materials and operation conditions were tested to evaluate the applicability of this system to determine absolute molar masses and hydrodynamic properties of heterogeneous conjugates prepared by grafting-from and grafting-to. Hydrophobic and non-covalent interactions of conjugates lead to error-prone values not in accordance to expected molar masses based on conversions and extents of modifications.
As alternative to this method, conjugates were analyzed by sedimentation velocity analytical ultracentrifugation (SV-AUC) to gain insights in the hydrodynamic properties and how they change after conjugation. Within a centrifugal field, a sample moves and fractionates according to the mass, density, and shape of its individual components. Conjugates of BSA with PNIPAm were analyzed below and above the cloud point temperature of the thermo-responsive polymer component. It was identified that the polymer characteristics were transferred to the conjugate molecule which than showed a decreased ideality – defined as increased deviation from a perfect sphere model – below and increased ideality above the cloud point temperature. This effect can be attributed to an arrangement of the polymer chain pointing towards the solvent (expanded state) or snuggling around the protein surface depending on the applied temperature.
The last project dealt with the synthesis of ferric hydroxamate uptake protein component A (FhuA)-polymer conjugates as building blocks for novel membrane materials. The shape of FhuA can be described as barrel and removal of a cork domain inside the protein results in a passive channel aimed to be utilized as pores in the membrane system. The polymer matrix surrounding the membrane protein is composed of a thermo-responsive and a UV-crosslinkable part. Therefore, an external trigger for covalent immobilization of these building blocks in the membrane and switchability of the membrane between different states was incorporated. The overall performance of membranes prepared by a drying-mediated self-assembly approach was evaluated by permeability and size exclusion experiments. The obtained membranes displayed an insufficiency in interchain crosslinking and therefore a lack in performance. Furthermore, the aimed switch between a hydrophilic and hydrophobic state of the polymer matrix did not occur. Correspondingly, size exclusion experiments did not result in a retention of analytes larger than the pores defined by the dimension of the used FhuA variant.
Overall, different paths to generate protein-polymer conjugates by either grafting-from or grafting-to the protein surface were presented paving the way to the generation of new hybrid materials. Different analytical methods were utilized to describe the folding and hydrodynamic properties of conjugates providing a deeper insight in the overall characteristics of these seminal building blocks.