Solvent quality changes the structure of G8 PAMAM dendrimer, a disagreement with some experimental interpretations

We have performed approximately 20-40 ns of molecular dynamics (MD) simulations for the generation 8 PAMAM dendrimer in explicit water under varying pH conditions to study the structure of the dendrimer (approximately 156,738 atoms at low pH). This is the first report of such a long MD simulation of a larger generation PAMAM dendrimer including the effect of salt and counterions with explicit water molecules. We find that changing the pH from a high value (approximately 12) to a low value (approximately 3) changes the radius of gyration from Rg = 37.8 to 43.1 A (increasing by 13%). We also find significant back-folding of the primary amines and a large amount of water penetration inside the polymer. The increase in size with decrease in pH is consistent with our earlier studies on G3-G6 and agrees with the Monte Carlo theory by Welch and Muthukumar of G8 (Macromolecules, 1998, 31, 5892) and the experiments on G5 and G8 PAMAM dendrimer by Topp et al. (Macromolecules, 1999, 32, 7232). However, these results disagree dramatically with the interpretations of SANS experiments of G8 PAMAM dendrimers by Nisato et al. (Macromolecules, 2000, 33, 4172) who observe no change in the size of the dendrimer with variations of solution pH and ionic strength. We assume that the disagreement might arise from neglecting nonspherical shape, penetration of water and ions into the core, and aggregation, all of which might depend on pH.     

Molecular dynamics simulations of charged dendrimers: low-to-intermediate half-generation PAMAMs

We have performed atomistic molecular dynamics simulations of PAMAM dendrimers of generations 0.5, 1.5, 2.5, 3.5, and 4.5. The simulated systems comprise the charged dendrimer and its counterions embedded in a dielectric continuum (i.e., without explicit solvent). Structural properties of these dendrimers, like the radius of gyration, the principal moments of inertia, and the segment density profiles, were evaluated from the simulations. The average radius of gyration obtained for the intermediate half-generations 2.5, 3.5, and 4.5 follows the same scaling law that was previously inferred from simulations of full-generation PAMAMs, Rg approximately M1/3, and is characteristic of space-filling objects. The low half-generations 0.5 and 1.5 deviate, however, to greater Rg values. The shape of the smaller dendrimers is approximately that of a prolate ellipsoid, which becomes more spherical for higher generations. The segment density profiles show features identical to those obtained in other simulations of flexible-chain dendrimers, like dendron-backfolding. Two slightly different configurations, in terms of size and shape, were identified for generation 2.5. The radial distributions of counterions extracted from the simulations compare well with the solutions of Poisson-Boltzmann cell model, and the dendrimer's effective charge was estimated using the Bjerrum criterion. The influence of electrostatic interactions in the dendrimer's conformation due to repulsion between the charged end-groups and its relation to counterion effects is discussed for the several generations simulated. The form factors calculated from the simulations are compared with the model of a homogeneous ellipsoid of revolution. The overall results are in agreement with the previously established morphological transition of PAMAM dendrimers toward a more spherical and compact conformation above generations 3 or 4.     

Dendrimer building toolkit: Model building and characterization of various dendrimer architectures

We have developed a graphical user interface based dendrimer builder toolkit (DBT) which can be used to generate the dendrimer configuration of desired generation for various dendrimer architectures. The validation of structures generated by this tool was carried out by studying the structural properties of two well known classes of dendrimers: ethylenediamine cored poly(amidoamine) (PAMAM) dendrimer, diaminobutyl cored poly(propylene imine) (PPI) dendrimer. Using full atomistic molecular dynamics (MD) simulation we have calculated the radius of gyration, shape tensor and monomer density distribution for PAMAM and PPI dendrimer at neutral and high pH. A good agreement between the available simulation and experimental (small angle X‐ray and neutron scattering; SAXS, SANS) results and calculated radius of gyration was observed. With this validation we have used DBT to build another new class of nitrogen cored poly(propyl ether imine) dendrimer and study it's structural features using all atomistic MD simulation. DBT is a versatile tool and can be easily used to generate other dendrimer structures with different chemistry and topology. The use of general amber force field to describe the intra‐molecular interactions allows us to integrate this tool easily with the widely used molecular dynamics software AMBER. This makes our tool a very useful utility which can help to facilitate the study of dendrimer interaction with nucleic acids, protein and lipid bilayer for various biological applications. © 2012 Wiley Periodicals, Inc.     

CE of poly(amidoamine) succinamic acid dendrimers using a poly(vinyl alcohol)-coated capillary

Various generations (G1-G8) of negatively charged poly(amidoamine) (PAMAM) succinamic acid dendrimers (PAMAM-SAH) were analyzed by CE using a poly(vinyl alcohol)-coated capillary. Due to its excellent stability and osmotic flow-shielding effect, highly reproducible migration times were achieved for all generations of dendrimer (e.g., RSD for the migration times of G5 dendrimer was 0.6%). We also observed a reverse trend in migration times for the PAMAM-SAH dendrimers (i.e., higher generations migrated faster than lower generation dendrimers) compared to amine-terminated PAMAM dendrimers reported in the literature. This reversal in migration times was attributed to the difference in counterion binding around these negatively charged dendrimers. This reverse trend allowed a generational separation for lower generation (G1-G3) dendrimers. However, a sufficient resolution for the migration peaks of higher generations (G4-G5) in a mixture could not be achieved. This could be due to their nearly identical charge/mass ratio and dense molecular conformations. In addition, we show that dye-functionalized PAMAM-SAH dendrimers can also be analyzed with high reproducibility using this method.     

芘和蒽作为荧光探针探测树枝形聚合物微环境

分别以芘和(9-蒽基)甲基三甲基溴化铵(An)作为荧光探针研究了一系列羧基为外围末端基团的芳醚树枝形聚合物Gn(n=1-4)的内部微环境极性及包结情况. 芘荧光I1/I3值在1-3代树枝形聚合物钾盐水溶液中变化不大, 而3到4代有一个陡降, 推测1-3代树枝形聚合物处于相对开放的结构, G4为相对密闭的球形结构, 4代树枝形聚合物表现出更好的包结特性. An在树枝形聚合物G2钾盐水溶液中的荧光光谱结果表明, 树枝形聚合物G2可以包结两个以上的An分子, An分子疏水的蒽环部分位于树枝形聚合物内部孔穴中, 而带正电荷的铵离子靠近树枝形聚合物分子的极性末端.     

Effect of the surface functional groups of dendrimer-entrapped gold nanoparticles on the improvement of PCR

PCR has been identified as one of the most important tools in molecular biology and clinical medicine. Improvement of the specificity and efficiency of PCR is often required, and it still remains a great challenge. Here, we introduce the use of dendrimer-entrapped gold nanoparticles (Au DENPs) with different terminal groups prepared using poly(amidoamine) (PAMAM) dendrimers of generation 5 (G5) as a novel class of enhancers to improve the specificity and efficiency of PCR amplification. We show that the optimum concentrations of all the tested Au DENPs are lower than those of the corresponding PAMAM dendrimers without gold nanoparticles (AuNPs). For amine-terminated [(Au(0) )(51.2) -G5.NH(2) ] DENPs, the optimum required concentration is slightly lower than that of G5.NH(2) dendrimers, whereas for glycidol-modified [(Au(0) )(51.2) -G5.NGlyOH] and acetylated [(Au(0) )(51.2) -G5.NHAc] DENPs, the optimum required concentrations are one and three magnitude lower than the corresponding dendrimers, respectively. Our results suggest that the entrapment of AuNPs within the dendrimer interior helps to reserve the 3D spherical morphology of dendrimers, allowing for enhanced interaction with the PCR components. Simultaneously, because of the existence of thermal conductive AuNPs, the enhanced local heat transfer rate may afford decreased chances of mispairing between primers and templates, which is beneficial for enhancing the PCR specificity and efficiency. Therefore, the use of Au DENPs as a novel class of PCR enhancers may enable both improved interaction with the PCR components and the thermal conductivity, which allow them to be used for enhancing different error-prone PCR systems.     

Direct force measurements between adlayers consisting of poly(amidoamine) dendrimers with primary amino groups or quaternary ammonium groups

Adsorption of poly(amidoamine) generation 3 (PAMAM G3) dendrimer with surface amino groups or PAMAM G0 dendrimer with quaternary ammonium groups (C8qbG0) onto glass has been studied by colloidal probe atomic force microscopy. The adlayer-adlayer interactions for these adsorbates are quite different despite the fact that they are almost equal in the hydrodynamic radius. In aqueous PAMAM G3 dendrimer solutions the electrostatic repulsion is predominant. The conformation of the adsorbed layer is flat and the protrusion of the individual dendrimers is negligible. On the other hand, C8qbG0 behaves as a surfactant and the layered structure of C8qbG0 is expected to be a patchy bilayer. Dispersion stability of silica suspensions with the adsorption of these dendrimers can be correlated with the force data obtained.     

Supramolecular complex induced by the binding of sodium dodecyl sulfate to PAMAM dendrimers

Isothermal titration calorimetry (ITC) and dynamic light scattering (DLS) were employed to study the spontaneous supramolecular complexation of amine terminated PAMAM dendrimer (G3[EDA] PAMAM-NH2) induced by the binding of an anionic surfactant, sodium dodecyl sulfate (SDS). At pHor=10, the electrostatic binding ceased because the deprotonated PAMAM dendrimer was uncharged, and hence the surfactant-induced supramolecular assembly could not be formed.     

Low generational polyamidoamine dendrimers to enhance the solubility of folic acid:A‘‘dendritic effect’’investigation

Low generational(G0–G2,G for generation) polyamidoamine(PAMAM) dendrimers were investigated as enhancers to improve the aqueous solubility of folic acid at pH 11 and pH 5.In these two cases,the solubility of folic acid increases with both the dendrimer concentration and generation.However,the solubilization mechanism is different.The electrostatic interaction between the primary amines of dendrimers and the ionized carboxylic groups of folic acid dominates the dissolution process at pH 11 while the increase of the solubility of folic acid at pH 5 is attributed to the hydrophobic encapsulation inside the dendrimer molecules.In addition,for comparison ethylenediamine was used as a small molecule control to examine the ‘‘dendritic effect' in the dendrimer-related solubilization process.Interestingly,PAMAM dendrimers exhibit,at pH 5,a significant superiority over ethylenediamine in enhancing solubility,whereas this ‘‘dendritic effect' cannot be observed under the basic condition.     

The characterization of high generation poly(amidoamine) G9 dendrimers by atomic force microscopy (AFM)

Scanning force microscopy (AFM) has been employed to characterize the generation‐9 (G9) poly(amidoamine) (PAMAM) dendrimer packing on a mica surface under various conditions. Well ordered 2‐D arrays from hexagonally packed particles of PAMAM (G9) dendrimers (11.4nm in diameter) were deposited on the mica surface. This may be one of the smallest regular monolayer arrays ever observed. The mechanism considered to be responsible for this 2‐D array packing is the interaction of forces between the dendrimer and the mica surface and between dendrimer molecules as well. Other factors such as molecular interpenetrating and the rigidity of the branch structure obviously play an important role in the 2‐D array formation.     

Analysis of poly(amidoamine)-succinamic acid dendrimers by slab-gel electrophoresis and capillary zone electrophoresis

Ethylenediamine (EDA)-core poly(amidoamine) (PAMAM) succinamic acid dendrimers (Ex.SAH, where x refers to the generation) were synthesized and analyzed by polyacrylamide gel electrophoresis (PAGE), size-exclusion chromatography (SEC), potentiometric acid-base titration, and capillary zone electrophoresis (CZE). Various generations (E1.SAH-E7.SAH) PAMAMs and a succinamic acid terminated core-shell tecto(dendrimer) (E5(E3.SAH)(n)) were first analyzed by PAGE. PAGE results show that the relative mobilities of generation 2 to generation 7 dendrimers decreased with the increasing number of generations. The molecular mass of a generation 5 core generation 3 shell tecto(dendrimer) (denoted as E5(E3.SAH)(n)) was determined to be between the Mw of E6.SAH and E7.SAH. CZE analysis allowed the evaluation of electrophoretic properties of given-generation dendrimers. The electrophoretic mobilities of individual generations PAMAM polyanions are similar, indicating that the separation mainly depends on their approximately identical charge/mass ratio. The E5(E3.SAH)(n) tectodendrimer had a lower electrophoretic mobility, which was consistent with its lower charge/mass ratio. The combination of PAGE and CZE analysis provides an alternative and effective way to characterize this group of PAMAM-succinamic acid dendrimers.     

Controlled interparticle spacing through self-assembly of Au nanoparticles and poly(amidoamine) dendrimers

Control of particle-particle spacing is a key determinant of optical, electronic, and magnetic properties of nanocomposite materials. We have used poly(amidoamine) (PAMAM) dendrimers to assemble carboxylic acid-functionalized mixed monolayer protected clusters (MMPCs) through acid/base chemistry between the particle and dendrimer. Small angle X-ray scattering was then used to establish average inter-MMPC distances. Five generations of PAMAM dendrimer (0, 1, 2, 4, 6) were investigated, with a monotonic increase in interparticle spacing from 4.1 to 6.1 nm observed with increasing generation.     

Morphological change of gold-dendrimer nanocomposites by laser irradiation

Gold-dendrimer nanocomposites are prepared in aqueous solutions in the presence of poly(amidoamine)dendrimers (PAMAM) (generation 3 and 5) or poly(propyleneimine)dendrimers (PPI) (generation 3 and 4) by wet chemical NaBH(4) method. Thus prepared gold-dendrimer nanocomposites are irradiated by laser at 532 nm. UV-vis absorption spectroscopy and transmission electron microscopy reveal that the gold nanoparticles grow with the laser irradiation time as well as the fluence of the laser; in particular, the gold nanoparticles prepared at lower concentrations of PAMAM dendrimer as well as lower generations of PAMAM grow significantly. On the other hand, in the case of PPI dendrimers, the gold nanoparticles hardly grow by irradiation. In addition, dynamic light-scattering measurements show that the laser irradiation markedly promotes the association of the gold-PAMAM G3 dendrimer nanocomposites compared to that of the gold-PAMAM G5 dendrimer nanocomposites, while the sizes of association for the gold-PPI G3, G4 dendrimer nanocomposites hardly change by laser irradiation.     

Monte Carlo simulation of dendrimers in variable solvent quality

We study via lattice Monte Carlo simulation and Flory theory the properties of g=1-6 dendrimers in variable solvent quality. For all the generations studied, we find that the radius of gyration R(g) collapses significantly (factor of 2) going from athermal to extreme poor solvent conditions, indicating that varying solvent quality is an effective means of controlling dendrimer size. We also find that in athermal, theta, and extreme poor solvent conditions, the radius of gyration of dendrimers scales with the total number of monomers roughly as R(g) approximately N(1/3). However, a more careful analysis shows that in athermal and theta solvents, there is, in fact, a small but systematic deviation of R(g) from R(g) approximately N(1/3) scaling and the simulation data is described better by the Flory theory prediction of R(g) approximately N(1/5)[(g+1)m](2/5) in athermal solvents and R(g) approximately N(1/4)[(g+1)m](1/4) in theta solvents. We also find for our simulation data that stronger deviations from constant density scaling are possible, with scaling behavior as shallow as R(g) approximately N(0.26) possible for solvent conditions in between theta and the completely collapsed state. It is evident therefore that dendrimers do not obey (or even approximately obey) R(g) approximately N(1/3) scaling under all solvent conditions. Under all solvent conditions, we find that the intramolecular density is dense corelike (i.e., the density maximum is in the interior of the dendrimer) and terminal groups are delocalized throughout the dendrimer.     

Preparation of PAMAM- and PPI-metal (silver, platinum, and palladium) nanocomposites and their catalytic activities for reduction of 4-nitrophenol

Dendrimer-metal (silver, platinum, and palladium) nanocomposites are prepared in aqueous solutions containing poly(amidoamine) (PAMAM) dendrimers with surface amino groups (generations 3, 4, and 5) or poly(propyleneimine) (PPI) dendrimers with surface amino groups (generations 2, 3, and 4). The particle sizes of the metal nanoparticles obtained are almost independent of the generation as well as the concentration of the dendrimer for both the PAMAM and the PPI dendrimers; the average sizes of silver, platinum, and palladium nanoparticles are 5.6-7.5, 1.2-1.6, and 1.6-2.0 nm, respectively. It is suggested that the dendrimer-metal nanocomposites are formed by adsorbing the dendrimers on the metal nanoparticles. Studies of the reduction reaction of 4-nitrophenol by these nanocomposites show that the rate constants are very similar between PAMAM and PPI dendrimer-silver nanocomposites, whereas the rate constants for the PPI dendrimer-platinum and -palladium nanocomposites are greater than those for the corresponding PAMAM dendrimer nanocomposites. In addition, it is found that the rate constants for the reduction of 4-nitrophenol involving all the dendrimer-metal nanocomposites decrease with an increase in the dendrimer concentrations, and the catalytic activity of dendrimer-palladium nanocomposites is highest.     

Structural investigation of PAMAM dendrimers in aqueous solutions using small-angle neutron scattering: effect of generation

We investigate a series of poly(amidoamine) starburst dendrimers (PAMAM) of different generations in acidic, aqueous solutions using small-angle neutron scattering (SANS). While the overall molecular size is found to be practically unaffected by a pD change, a strong generational dependence of counterion association is revealed. Upon increasing the dendrimer generation, the effective charge obtained from our SANS experiments only shows a small increase in contrast to the nearly exponential increase predicted by a recent atomic simulation. We also find that with the same degree of molecular protonation the specific counterion association, which is defined as the ratio of bound chloride anions to positively charged amines in solutions, is larger for higher-generation PAMAM dendrimer. The associated counterion density also increases upon increasing generation number.     

Molecular dynamics simulations of PAMAM dendrimer-induced pore formation in DPPC bilayers with a coarse-grained model

We have performed 0.5-micros-long molecular dynamics (MD) simulations of 0%, 50%, and 100% acetylated third- (G3) and fifth-generation (G5) polyamidoamine (PAMAM) dendrimers in dipalmitoylphosphatidylcholine (DPPC) bilayers with explicit water using the coarse-grained (CG) model developed by Marrink et al. (J.Phys. Chem. B 2004, 108, 750-760), but with long-range electrostatic interactions included. Radii of gyration of the CG G5 dendrimers are 1.99-2.32 nm, close to those measured in the experiments by Prosa et al. (J. Polym. Sci. 1997, 35, 2913-2924) and atomistic simulations by Lee et al. (J. Phys. Chem. B 2006, 110, 4014-4019). Starting with the dendrimer initially positioned near the bilayer, we find that positively charged un-acetylated G3 and 50%-acetylated and un-acetylated G5 dendrimers insert themselves into the bilayer, and only un-acetylated G5 dendrimer induces hole formation at 310 K, but not at 277 K, which agrees qualitatively with experimental observations of Hong et al. (Bioconj. Chem. 2004, 15, 774-782) and Mecke et al. (Langmuir 2005, 21, 10348-10354). At higher salt concentration (approximately 500 mM NaCl), un-acetylated G5 dendrimer does not insert into the bilayer. The results suggest that with inclusion of long-range electrostatic interactions into coarse-grained models, realistic MD simulation of membrane-disrupting effects of nanoparticles at the microsecond time scale is now possible.     

Electrochemistry of non-redox-active poly(propylenimine) and poly(amidoamine) dendrimers at liquid-liquid interfaces

The electrochemistry of a series of dendrimers was examined at the interface between two immiscible electrolyte solutions (ITIES), enabling study of non-redox-active dendrimers. Different generations of poly(propylenimine) (DAB-AM-n) and poly(amidoamine) (PAMAM) dendrimers were studied. In their protonated states, the dendrimers were transferred across the ITIES, with the electrochemical behavior observed depending on the dendrimer family, the generation number, and the experimental pH. The electrochemistry of the lower generations studied was characterized by well-defined peaks for both dendrimer families and with small peak-peak separations in the case of the PAMAM family. The voltammetry of the higher generations was more complex, showing distorted voltammograms and instability of the interface. The charges of the transferring dendrimers were calculated by convolution of the voltammetric data and were similar to the theoretical charges for DAB-AM-n. For PAMAM, only the lowest generation exhibited reversible behavior, with higher generations having irreversible behavior. Using cyclic voltammetry, low micromolar concentrations of the dendrimers were detected. The results show that electrochemistry at the ITIES can be a useful method for characterization of ionizable dendrimers and that voltammetry can be a simple method for detection of low concentrations of these multicharged species.     

Palladium(0) deposited on PAMAM dendrimers as a catalyst for C-C cross coupling reactions

PAMAM dendrimers of generations G2-G3 as well as a partially substituted derivative of generation G4 and a low-molecular-weight tricyclic ligand 4 were used to bind Pd(0) nanoparticles. The obtained adducts were tested as catalysts for C-C cross-coupling reactions, such as the Suzuki-Miyaura, Hiyama, Heck and Sonogashira reaction. The highest yields of the coupling product, diphenylacetylene, were obtained with all the catalysts studied in the Sonogashira coupling performed in ethanol with K?CO? as base. Very good results, 85-100%, were also found in the Suzuki-Miyaura cross-coupling, while the efficiency of the Hiyama coupling appeared lower, with 38-52% of 2-methylbiphenyl formed. In all reactions, the G2-Pd(0) catalyst, containing an unmodified dendrimer, afforded the highest yields of the cross-coupling products.     

Comparison of PAMAM-Au and PPI-Au nanocomposites and their catalytic activity for reduction of 4-nitrophenol

Dendrimer-Au nanocomposites are prepared in aqueous solutions using poly(amidoammine)dendrimers (PAMAM) (generation 2, 3, and 5) and poly(propyleneimine)dendrimers (PPI)(generation 2, 3, and 4) by wet chemical NaBH(4) method. The Au nanoparticles thus obtained are 2-4 nm in diameter for both dendrimers and no generation dependence on the particle size is observed, whereas the generations of the dendrimers are increased as stabilization of Au-nanoparticles is achieved with lower dendrimer concentrations. Studies of the reduction reaction of 4-nitrophenol using these nanocomposites show that the rate constants for the PAMAM dendrimers (generations 2 and 3) are higher than those for the PPI dendrimers (generations 2 and 3), while a distinct difference in the rate constants is not seen for the PAMAM dendrimer (generation 5) or the PPI dendrimer (generation 4). In addition, the rate constants for the reduction of 4-nitrophenol involving all the dendrimers decrease with increases in dendrimer concentrations.