Novel simulation methods for Coulomb and hydrodynamic interactions

This thesis presents new methods to simulate systems with hydrodynamic and electrostatic interactions. Part 1 is devoted to computer simulations of Brownian particles with hydrodynamic interactions. The main influence of the solvent on the dynamics of Brownian particles is that it mediates hydrodynamic interactions. In the method, this is simulated by numerical solution of the Navier--Stokes equation on a lattice. To this end, the Lattice--Boltzmann method is used, namely its D3Q19 version. This model is capable to simulate compressible flow. It gives us the advantage to treat dense systems, in particular away from thermal equilibrium. The Lattice--Boltzmann equation is coupled to the particles via a friction force. In addition to this force, acting on {it point} particles, we construct another coupling force, which comes from the pressure tensor. The coupling is purely local, i.~e. the algorithm scales linearly with the total number of particles. In order to be able to map the physical properties of the Lattice--Boltzmann fluid onto a Molecular Dynamics (MD) fluid, the case of an almost incompressible flow is considered. The Fluctuation--Dissipation theorem for the hybrid coupling is analyzed, and a geometric interpretation of the friction coefficient in terms of a Stokes radius is given. Part 2 is devoted to the simulation of charged particles. We present a novel method for obtaining Coulomb interactions as the potential of mean force between charges which are dynamically coupled to a local electromagnetic field. This algorithm scales linearly, too. We focus on the Molecular Dynamics version of the method and show that it is intimately related to the Car--Parrinello approach, while being equivalent to solving Maxwell's equations with freely adjustable speed of light. The Lagrangian formulation of the coupled particles--fields system is derived. The quasi--Hamiltonian dynamics of the system is studied in great detail. For implementation on the computer, the equations of motion are discretized with respect to both space and time. The discretization of the electromagnetic fields on a lattice, as well as the interpolation of the particle charges on the lattice is given. The algorithm is as local as possible: Only nearest neighbors sites of the lattice are interacting with a charged particle. Unphysical self--energies arise as a result of the lattice interpolation of charges, and are corrected by a subtraction scheme based on the exact lattice Green's function. The method allows easy parallelization using standard domain decomposition. Some benchmarking results of the algorithm are presented and discussed.

Tail bridging vs. patchiness

The subject of this thesis are the interactions between nucleosome core particles (NCPs). NCPs are the primary storage units of DNA in eucaryotic cells. Each NCP consists of a core of eight histone proteins and a strand of DNA, which is wrapped around about two times. Each histone protein has a terminal tail passing over and between the superhelix of the wrapped DNA. Special emphasis was placed on the role of the histone tails, since experimental ndings suggest that the tails have a great in uence on the mutual attraction of the NCPs. In those experiments Mangenot et al. observe a dramatic change in the con guration of the tails, which is accompanied by evidence of mutual attraction between NCPs, when a certain salt concentration is reached. Existing models used in the theoretical approaches and in simulations focus on the description of the histone core and the wrapped DNA, but neglect the histone tails. We introduce the multi chain complex as a new simulation model. Here the histone core and the wrapping DNA are modelled via a charged sphere, while the histone tails are represented by oppositely charged chains grafted on the sphere surface. We start by investigating the parameter space describing a single NCP. The Debye-Huckel potential is used to model the electrostatic interactions and to determine the e ective charge of the NCP core. This value is subsequently used for a study of the pairinteraction of two NCPs via an extensive Molecular Dynamics study. The monomer distribution of the full chain model is investigated. The existence of tail bridges between the cores is demonstrated. Finally, by discriminating between bridging and non-bridging con gurations, we can show that the effect of tail bridging between the spheres does indeed account for the observed attraction. The full chain model can serve as a model to study the acetylation of the histone tails of the nucleosome. The reduction of the charge fraction of the tails, that corresponds to the process of acetylation, leads to a reduction or even the disappearance of the attraction. A recent MC study links this e ect to the unfolding of the chromatin ber in the case of acetylated histone tails. In this case the acetylation of the histone tails leads to the formation of heterochromatin, and one could understand how larger regions of the genetic information could be inactivated through this mechanism.

Strukturbildung doppelthydrophiler Blockcopolymere mit mehrwertigen organischen Gegenionen

Sowohl die Komplexierung von Polyelektrolyten mit anorganischen Salzen, als auch die mit entgegengesetzt geladenen Polymeren wurde von vielen Autoren bereits intensiv untersucht. Doch gerade mit Molekülen die zwischen diesen beiden Extremen liegen, sollte es möglich sein, durch elektrostatische Wechselwirkungen gezielt nanometergroße Teilchen definierter Struktur herzustellen. Ziel dieser Arbeit war es deshalb, die Strukturbildung doppelthydrophiler Blockcopolymere mit mehrwertigen organischen Gegenionen zu untersuchen und insbesondere Parameter für die Bildung supramolekularer Strukturen in wässriger Lösung zu finden. Als Blockcopolymer wurde dabei Polyethylenoxid-b-methacrylsäure mittels anionischer Polymerisation hergestellt und mittels Gelpermeationschromatographie (GPC) und Kernresonanzspektroskopie (NMR)charakterisiert. Die Strukturbildung des Polyelektrolyten mit mehrwertigen organischen Gegenionen wurde in pH = 6- und pH = 7-Pufferlösung mit dynamischer und statischer Lichtstreuung, Kleinwinkelneutronenstreuung und Ultrazentrifugation untersucht. Mit Diaminobenzidin als Gegenion wurden dabei sphärische Komplexe mit einem hydrodynamischen Radius um 100 nm erhalten und mit Ultrazentrifugation der Anteil des Gegenions im Komplex quantifiziert. Die schlechte Löslichkeit des Diaminobenzidins in wässrigem Medium erschwerte allerdings die Interpretation der Ergebnisse. Trotzdem deuten diese darauf hin, dass keine Kolloidbildung des Diaminobenzidins, sondern eine Komplexierung der Einzelmoleküle mit dem Copolymer vorliegt. Um Probleme mit der Löslichkeit zu vermeiden, wurden schliesslich Polyamidoamin-Dendrimere als Gegenionen verwendet. Dabei wurde in pH = 6- und pH = 7-Pufferlösung für Dendrimere der Generation 4 mit steigender Gegenionenkonzentration ein kontinuierlicher Anstieg des hydrodynamischen Radius bis zu einer Größe von 70 nm gefunden. Mit Kleinwinkelneutronenstreuung konnte eine ellipsoidale Struktur dieser Komplexe beobachtet werden. Auch die Größe der Gegenionen spielt für die Bildung supramolekularer Aggregate eine Rolle. So zeigte sich, dass für Polyamidoamin-Dendrimere der Generation 2, analog zu denen der Generation 4, ein Anstieg des hydrodynamischen Radius mit steigender Gegenionenkonzentration zu beobachten ist. Für Generation 0-Dendrimere hingegen wurde ein umgekehrter Verlauf beobachtet, welcher dem für Diaminobenzidin gleicht. Somit kann man annehmen, dass die Aggregation mit kleinen Molekülen zu einer anderen Struktur der Komplexe führt, als die mit größeren Molekülen.

Strukturbildungsverhalten kettensteifer Polyelektrolyte in wässrigen Lösungen am Beispiel von Poly(para-phenylen)sulfonat

An einer Vielzahl biogener Polyelektrolyte, wie z.B. den Nukleinsäuren DNA und RNA sowie Proteinen, ist die Ausbildung von Strukturhierarchien durch Selbstorganisation von Strukturelementen zu beobachten. Dabei wird das Strukturbildungsverhalten durch eine Kopplung von Wechselwirkungen auf verschiedenen Längenskalen, den kurzreichweitigen ausgeschlossenen Volumen und den langreichweitigen elektrostatischen Wechselwirkungen (Coulomb-Wechselwirkungen), die wiederum durch eine Vielzahl mikroskopische Parameter (z.B. Konformation) beeinflusst werden, bestimmt. Durch diese Komplexität ist es nicht möglich, den für die Strukturbildung hochgeladener Systeme bedeutsamen Beitrag der elektrostatischen Wechselwirkungen isoliert zu betrachten. Aus diesem Grund werden zur Aufklärung von Wechselwirkungs- und Strukturbildungsmechanismen vereinfachte Modell-Systeme herangezogen. Eine Möglichkeit besteht in der Verwendung synthetischer, kettensteifer Polyelektrolyte. Im Rahmen dieser Arbeit wurde das Aggregationsverhalten wässriger Lösungen dodecylsubstituierter Poly(para-phenylen)sulfonate (PPPS) sowie die Beeinflussung der Strukturbildung durch verschiedene Parameter charakterisiert. Als Einflussparameter wurden einerseits die Gegenion-Spezies und andererseits die Temperatur- und Konzentrations-Abhängigkeit untersucht. Hierzu wurden wässrige Lösungen der freien Säuren der PPPS mit Molekulargewichten zwischen MW = 18 kg/mol bis 58 kg/mol mittels Licht-, Röntgen- und Neutronenstreuung sowie durch Licht-, Polarisations-, Transmissionselektronen- und Rasterkraftmikroskopie in einem Konzentrationsbereich von 0,0008 < c < 1,1 g/L untersucht.

The collapse of linear polyelectrolyte chains in a poor solvent: When does a collapsing polyelectrolyte collect its counter ions?

The collapse of linear polyelectrolyte chains in a poor solvent: When does a collapsing polyelectrolyte collect its counter ions? The collapse of polyions in a poor solvent is a complex system and is an active research subject in the theoretical polyelectrolyte community. The complexity is due to the subtle interplay between hydrophobic effects, electrostatic interactions, entropy elasticity, intrinsic excluded volume as well as specific counter-ion and co-ion properties. Long range Coulomb forces can obscure single molecule properties. The here presented approach is to use just a small amount of screening salt in combination with a very high sample dilution in order to screen intermolecular interaction whereas keeping intramolecular interaction as much as possible (polyelectrolyte concentration cp ≤ 12 mg/L, salt concentration; Cs = 10^-5 mol/L). This is so far not described in literature. During collapse, the polyion is subject to a drastic change in size along with strong reduction of free counterions in solution. Therefore light scattering was utilized to obtain the size of the polyion whereas a conductivity setup was developed to monitor the proceeding of counterion collection by the polyion. Partially quaternized PVP’s below and above the Manning limit were investigated and compared to the collapse of their uncharged precursor. The collapses were induced by an isorefractive solvent/non-solvent mixture consisting of 1-propanol and 2-pentanone, with nearly constant dielectric constant. The solvent quality for the uncharged polyion could be quantified which, for the first time, allowed the experimental investigation of the effect of electrostatic interaction prior and during polyion collapse. Given that the Manning parameter M for QPVP4.3 is as low as lB / c = 0.6 (lB the Bjerrum length and c the mean contour distance between two charges), no counterion binding should occur. However the Walden product reduces with first addition of non solvent and accelerates when the structural collapse sets in. Since the dielectric constant of the solvent remains virtually constant during the chain collapse, the counterion binding is entirely caused by the reduction in the polyion chain dimension. The collapse is shifted to lower wns with higher degrees of quaternization as the samples QPVP20 and QPVP35 show (M = 2.8 respectively 4.9). The combination of light scattering and conductivity measurement revealed for the first time that polyion chains already collect their counter ions well above the theta-dimension when the dimensions start to shrink. Due to only small amounts of screening salt, strong electrostatic interactions bias dynamic as well as static light scattering measurements. An extended Zimm formula was derived to account for this interaction and to obtain the real chain dimensions. The effective degree of dissociation g could be obtained semi quantitatively using this extrapolated static in combination with conductivity measurements. One can conclude the expansion factor a and the effective degree of ionization of the polyion to be mutually dependent. In the good solvent regime g of QPVP4.3, QPVP20 and QPVP35 exhibited a decreasing value in the order 1 > g4.3 > g20 > g35. The low values of g for QPVP20 and QPVP35 are assumed to be responsible for the prior collapse of the higher quaternized samples. Collapse theory predicts dipole-dipole attraction to increase accordingly and even predicts a collapse in the good solvent regime. This could be exactly observed for the QPVP35 sample. The experimental results were compared to a newly developed theory of uniform spherical collapse induced by concomitant counterion binding developed by M. Muthukumar and A. Kundagrami. The theory agrees qualitatively with the location of the phase boundary as well as the trend of an increasing expansion with an increase of the degree of quaternization. However experimental determined g for the samples QPVP4.3, QPVP20 and QPVP35 decreases linearly with the degree of quaternization whereas this theory predicts an almost constant value.

Structure formation as studied by EPR spectroscopy: From simple solutions to nanoparticles

In this thesis, three nitroxide based ionic systems were used to investigate structure and dynamics of their respective solutions in mixed solvents by means of electron paramagnetic resonance (EPR) and electron nuclear double resonance (ENDOR) spectroscopy at X- and W-band (9.5 and 94.5 GHz, respectively). rnFirst, the solvation of the inorganic radical Fremy’s salt (K2ON(SO3)2) in isotope substituted binary solvent mixtures (methanol/water) was investigated by means of high-field (W-band) pulse ENDOR spectroscopy and molecular dynamics (MD) simulations. From the analysis of orientation-selective 1H and 2H ENDOR spectra the principal components of the hyperfine coupling (hfc) tensor for chemically different protons (alcoholic methyl vs. exchangeable protons) were obtained. The methyl protons of the organic solvent approach with a mean distance of 3.5 Å perpendicular to the approximate plane spanned by ON(S)2 of the probe molecule. Exchangeable protons were found to be distributed isotropically, approaching closest to Fremy’s salt from the hydrogen-bonded network around the sulfonate groups. The distribution of exchangeable and methyl protons as found in MD simulations is in full agreement with the ENDOR results. The solvation was found to be similar for the studied solvent ratios between 1:2.3 and 2.3:1 and dominated by an interplay of H-bond (electrostatic) interactions and steric considerations with the NO group merely involved into H-bonds.rnFurther, the conformation of spin labeled poly(diallyldimethylammonium chloride) (PDADMAC) solutions in aqueous alcohol (methanol, ethanol, n-propanol, ethylene glycol, glycerol) mixtures in dependence of divalent sodium sulfate was investigated with double electron-electron resonance (DEER) spectroscopy. The DEER data was analyzed using the worm-like chain model which suggests that in organic-water solvent mixtures the polymer backbones are preferentially solvated by the organic solvent. We found a less serve impact on conformational changes due to salt than usually predicted in polyelectrolyte theory which stresses the importance of a delicate balance of hydrophobic and electrostatic interactions, in particular in the presence of organic solvents.rnFinally, the structure and dynamics of miniemulsions and polymerdispersions prepared with anionic surfactants, that were partially replaced by a spin labeled fatty acid in presence and absence of a lanthanide beta-diketonate complex was characterized by CW EPR spectroscopy. Such miniemulsions form multilayers with the surfactant head group bound to the lanthanide ion. Beta-diketonates were formerly used as NMR shift reagents and nowadays find application as luminescent materials in OLEDs and LCDs and as contrast agent in MRT. The embedding of the complex into a polymer matrix results in an easy processable material. It was found that the structure formation takes place in miniemulsion and is preserved during polymerization. For surfactants with carboxyl-head group a higher order of the alkyl chains and less lateral diffusion is found than for sulfat-head groups, suggesting a more uniform and stronger coordination to the metal ion. The stability of these bilayers depends on the temperature and the used surfactant which should be considered for the used polymerization temperature if a maximum output of the structured regions is wished.

Molecular dynamics simulations of sheared brush-like systems

Mit Hilfe von Molekulardynamik-Simulationen untersuchen wir bürstenartige Systeme unter guten Lösungsmittelbedingungen. Diese Systeme sind, dank ihren vielfältigen Beschaffenheiten, die von Molekularparametern und äußeren Bedingungen abhängig sind, wichtig für viele industrielle Anwendungen. Man vermutet, dass die Polymerbürsten eine entscheidende Rolle in der Natur wegen ihrer einzigartigen Gleiteigenschaften spielen. Ein vergröbertes Modell wird verwendet, um die strukturellen und dynamischen Eigenschaften zweier hochkomprimierter Polymerbürsten, die eine niedrige Reibung aufweisen, zu untersuchen. Allerdings sind die Lubrikationseigenschaften dieser Systeme, die in vielen biologischen Systemen vorhanden sind, beeinflußt. Wir untersuchen so-genannte "weiche Kolloide", die zwischen den beiden Polymerbürsten eingebettet sind, und wie diese Makroobjekte auf die Polymerbürsten wirken.rnrnNicht-Gleichgewichts-Molekulardynamik-Simulationen werden durchgeführt, in denen die hydrodynamischen Wechselwirkungen durch die Anwendung des DPD-Thermostaten mit expliziten Lösungsmittelmolekülen berücksichtigt werden. Wir zeigen, dass die Kenntnis der Gleichgewichtseigenschaften des Systems erlaubt, dynamische Nichtgleichgewichtsigenschaften der Doppelschicht vorherzusagen.rnrnWir untersuchen, wie die effektive Wechselwirkung zwischen kolloidalen Einschlüßen durch die Anwesenheit der Bürsten (in Abhängigkeit der Weichheit der Kolloide und der Pfropfdichte der Bürsten) beeinflußt wird. Als nächsten Schritt untersuchen wir die rheologische Antwort von solchen komplexen Doppelschichten auf Scherung. Wir entwickeln eine Skalen-Theorie, die die Abhängigkeit der makroskopischen Transporteigenschaften und der lateralen Ausdehnung der verankerten Ketten von der Weissenberg Zahl oberhalb des Bereichs, in dem die lineare Antwort-Theorie gilt, voraussagt. Die Vorhersagen der Theorie stimmen gut mit unseren und früheren numerischen Ergebnissen und neuen Experimenten überein. Unsere Theorie bietet die Möglichkeit, die Relaxationszeit der Doppelschicht zu berechnen. Wenn diese Zeit mit einer charakteristischen Längenskala kombiniert wird, kann auch das ''transiente'' (nicht-stationäre) Verhalten beschrieben werden.rnrnrnWir untersuchen die Antwort des Drucktensors und die Deformation der Bürsten während der Scherinvertierung für grosse Weissenberg Zahlen. Wir entwickeln eine Vorhersage für die charakteristische Zeit, nach der das System wieder den stationären Zustand erreicht.rnrnrnElektrostatik spielt eine bedeutende Rolle in vielen biologischen Prozessen. Die Lubrikationseigenschaften der Polymerbürsten werden durch die Anwesenheit langreichweitiger Wechselwirkungen stark beeinflusst. Für unterschiedliche Stärken der elektrostatischen Wechselwirkungen untersuchen wir rheologische Eigenschaften der Doppelschicht und vergleichen mit neutralen Systemen. Wir studieren den kontinuierlichen Übergang der Systemeigenschaften von neutralen zu stark geladenen Bürsten durch Variation der Bjerrumlänge und der Ladungsdichte.

Topologisch kontrollierte Interpolyelektrolytkomplexe aus kettensteifen Polyelektrolyten

Interpolyelektrolytkomplexe bilden sich spontan bei Mischung von Lösungen entgegengesetzt geladener Polyelektrolyte. Dabei sind die Haupttriebkräfte der Entropiegewinn durch die Freisetzung von niedermolekularen Gegenionen sowie die elektrostatischen Wechselwirkungen. In der letzten Zeit sind sie aufgrund ihrer zahlreichen biologischen und technischen Anwendungen in den Fokus des wissenschaftlichen Interesses gerückt. Vor allem die Anwendung von Komplexen aus DNA und kationischen Polyelektrolyten in der nonviralen Gentherapie wird vielfältig diskutiert. rnIn dieser Arbeit wird eine Polystyrolsulfonat-Bürste mit einer Pfropfdichte von 100 % mit einem kationischen Tensid komplexiert und der Komplex in verschiedenen organischen Lösungsmitteln charakterisiert. Dabei zeigt sich eine signifikante Abhängigkeit des Lösungsverhaltens von der Art und der Konzentration zugesetzter Salze. Dieser Polyelektrolyt-Tensid-Komplex wird anschließend als vereinfachtes Modellsystem für die Komplexierung von DNA verwendet. Als kationische Komponente dient zunächst ein kommerzielles PAMAM-Dendrimer der 5. Generation. Dabei steht die Erhaltung der zylindrischen Topologie der anionischen Polyelektrolytbürste in den gebildeten Komplexen im Vordergrund. Durch Variation des Lösungsmittels und des Protonierungsgleichgewichts werden die experimentellen Bedingungen eingegrenzt, bei denen eine solche topologische Kontrolle möglich ist. Es zeigt sich, dass durch die Verwendung von aprotischen organischen Lösungsmitteln gute Erfolge erzielt werden können. Des Weiteren wird das Komplexierungsverhalten stark durch den Zusatz einer Säure oder einer Base beeinflusst, sodass eine topologische Kontrolle mit einem großen Überschuss einer organischen Base auch in protischen Lösungsmitteln wie Wasser und Methanol möglich wird. Anschließend wird das gleiche Polyanion noch mit einer geschützten Polylysin-Bürste in DMF komplexiert, was zur Bildung von kinetisch kontrollierten Aggregaten führt. Die Bildung dieser Aggregate kann durch den Zusatz eines großen Überschusses an Base verhindert werden und es werden zylindrische Komplexe erhalten, die nur aus einer Polylysin-Bürste bestehen. rn

Dynamic wetting of complex liquids

A simple dependency between contact angle θ and velocity or surface tension has been predicted for the wetting and dewetting behavior of simple liquids. According to the hydrodynamic theory, this dependency was described by Cox and Voinov as θ ∼ Ca^(1/3) (Ca: Capillary number). For more complex liquids like surfactant solutions, this prediction is not directly given.rnHere I present a rotating drum setup for studying wetting/dewetting processes of surfactant solutions on the basis of velocity-dependent contact angle measurements. With this new setup I showed that surfactant solutions do not follow the predicted Cox-Voinov relation, but showed a stronger contact angle dependency on surface tension. All surfactants independent of their charge showed this difference from the prediction so that electrostatic interactions as a reason could be excluded. Instead, I propose the formation of a surface tension gradient close to the three-phase contact line as the main reason for the strong contact angle decrease with increasing surfactant concentration. Surface tension gradients are not only formed locally close to the three-phase contact line, but also globally along the air-liquid interface due to the continuous creation/destruction of the interface by the drum moving out of/into the liquid. By systematically hindering the equilibration routes of the global gradient along the interface and/or through the bulk, I was able to show that the setup geometry is also important for the wetting/dewetting of surfactant solutions. Further, surface properties like roughness or chemical homogeneity of the wetted/dewetted substrate influence the wetting/dewetting behavior of the liquid, i. e. the three-phase contact line is differently pinned on rough/smooth or homogeneous/inhomogeneous surfaces. Altogether I showed that the wetting/dewetting of surfactant solutions did not depend on the surfactant type (anionic, cationic, or non-ionic) but on the surfactant concentration and strength, the setup geometry, and the surface properties.rnSurfactants do not only influence the wetting/dewetting behavior of liquids, but also the impact behavior of drops on free-standing films or solutions. In a further part of this work, I dealt with the stability of the air cushion between drop and film/solution. To allow coalescence between drop and substrate, the air cushion has to vanish. In the presence of surfactants, the vanishing of the air is slowed down due to a change in the boundary condition from slip to no-slip, i. e. coalescence is suppressed or slowed down in the presence of surfactant.

A mesoscopic simulation method for electrolyte solutions

This thesis deals with the development of a novel simulation technique for macromolecules in electrolyte solutions, with the aim of a performance improvement over current molecular-dynamics based simulation methods. In solutions containing charged macromolecules and salt ions, it is the complex interplay of electrostatic interactions and hydrodynamics that determines the equilibrium and non-equilibrium behavior. However, the treatment of the solvent and dissolved ions makes up the major part of the computational effort. Thus an efficient modeling of both components is essential for the performance of a method. With the novel method we approach the solvent in a coarse-grained fashion and replace the explicit-ion description by a dynamic mean-field treatment. Hence we combine particle- and field-based descriptions in a hybrid method and thereby effectively solve the electrokinetic equations. The developed algorithm is tested extensively in terms of accuracy and performance, and suitable parameter sets are determined. As a first application we study charged polymer solutions (polyelectrolytes) in shear flow with focus on their viscoelastic properties. Here we also include semidilute solutions, which are computationally demanding. Secondly we study the electro-osmotic flow on superhydrophobic surfaces, where we perform a detailed comparison to theoretical predictions.

Evaluation of polymeric nanocarriers for RNA delivery

Therapeutic RNAs, especially siRNAs, are a promising approach for treating diseases like cancer, neurodegenerative disorders and viral infections. Their application, however, is limited due to a lack of safe and efficient delivery systems. Nanosized carriers with the ability to either complex or entrap RNA species are a promising option. rn rn rnSuch a carrier has to meet a lot of requirements, some of which are even partly contradictive. Understanding and controlling the interplay between the different demands would advance a strategic design at an early stage of therapeutic development. rn rn This work is centered around a systematic evaluation of polyplexes, such carriers that are able to complex siRNA due to electrostatic interactions. Six structurally and chemically diverse candidates, poly-L-lysine brushes, block copolymers, cationic peptides, cationic lipids, nanohydrogels, and manganese oxide particles, were tested in a simultaneous fashion. The assays, mostly based on fluorescently labeled siRNA, ranged from the evaluation of polyplex formation and stability to in vitro parameters like cellular uptake and knockdown capability. The analysis from several perspectives offered insight into the interplay between the specifications of one polyplex. Assessing the different carriers under exactly the same experimental conditions also allowed conclusions about favourable traits and starting points for further optimization. This comparative approach also revealed weaknesses of some of the conventional protocols, which were therefore contrasted with alternative methods. In addition, in vitro knockdown assays were optimized and the impact of fluorescently labeled siRNA on knockdown efficiency was assessed. rn rn rn A second class of carriers, which share the ability to entrap siRNA inside their matrix, are briefly addressed. Nanocapsules, dextran particles and liposomes were assessed for basic features like siRNA encapsulation and knockdown capability. rn rn rn rn In an approach towards targeted delivery of RNA, liposomes were endowed with mitochondriotropic tags. Despite successful functionalization, no colocalization between the liposomal cargo and mitochondria was so far observed, which makes further optimization necessary.