RNA catalysis in model protocell vesicles

We are engaged in a long-term effort to synthesize chemical systems capable of Darwinian evolution, based on the encapsulation of self-replicating nucleic acids in self-replicating membrane vesicles. Here, we address the issue of the compatibility of these two replicating systems. Fatty acids form vesicles that are able to grow and divide, but vesicles composed solely of fatty acids are incompatible with the folding and activity of most ribozymes, because low concentrations of divalent cations (e.g., Mg(2+)) cause fatty acids to precipitate. Furthermore, vesicles that grow and divide must be permeable to the cations and substrates required for internal metabolism. We used a mixture of myristoleic acid and its glycerol monoester to construct vesicles that were Mg(2+)-tolerant and found that Mg(2+) cations can permeate the membrane and equilibrate within a few minutes. In vesicles encapsulating a hammerhead ribozyme, the addition of external Mg(2+) led to the activation and self-cleavage of the ribozyme molecules. Vesicles composed of these amphiphiles grew spontaneously through osmotically driven competition between vesicles, and further modification of the membrane composition allowed growth following mixed micelle addition. Our results show that membranes made from simple amphiphiles can form vesicles that are stable enough to retain encapsulated RNAs in the presence of divalent cations, yet dynamic enough to grow spontaneously and allow the passage of Mg(2+) and mononucleotides without specific macromolecular transporters. This combination of stability and dynamics is critical for building model protocells in the laboratory and may have been important for early cellular evolution.     

Enzyme-triggered model self-assembly in surfactant-cyclodextrin systems

We present here a host-guest approach to construct enzyme-triggered assembly systems on the basis of surfactant-cyclodextrin complexes and α-amylase. We realized enzyme-responsive model self-assembly systems including monolayers, micelles, and vesicles. The host-guest approach is expected to be extended to more complicated assembly systems with widespread applications.     

Re-entrant phase behavior for systems with competition between phase separation and self-assembly

In patchy particle systems where there is a competition between the self-assembly of finite clusters and liquid-vapor phase separation, re-entrant phase behavior can be observed, with the system passing from a monomeric vapor phase to a region of liquid-vapor phase coexistence and then to a vapor phase of clusters as the temperature is decreased at constant density. Here, we present a classical statistical mechanical approach to the determination of the complete phase diagram of such a system. We model the system as a van der Waals fluid, but one where the monomers can assemble into monodisperse clusters that have no attractive interactions with any of the other species. The resulting phase diagrams show a clear region of re-entrance. However, for the most physically reasonable parameter values of the model, this behavior is restricted to a certain range of density, with phase separation still persisting at high densities.     

Signal control by self-assembly of fluorophores in a molecular beacon--a model study

Pyrene excimer fluorescence is efficiently regulated through formation of π-stacked aggregates between dialkynylpyrene (Y) and perylenediimide (E) residues located in the stem region of a molecular beacon (MB). The building blocks form organized, multichromophoric complexes in the native form. Hybridization to the target results in a conformational reorganization of the chromophores. The nature of the aggregates was investigated by changing the number of chromophores and natural base pairs in the beacon stem. The formation of different types of complexes (EYEY→YEY→EY) is revealed by characteristic spectroscopic changes. The data show that signal control is an intrinsic property of the interacting chromophores. The directed assembly of non-nucleosidic chromophores can be used for the generation of an on/off switch of a fluorescence signal. The concept may find applications in various types of light-based input/output systems.     

Volume and heat capacity of model non-aqueous self-assembly systems

Blends of immiscible polymers are often stabilized by block copolymers which can form non-aqueous micelles and microemulsions in the liquid polymers. The phase diagrans, apparent volumes and apparent heat capacities of model non-aqueous binary and ternary systems were studied in order to investigate the conditions under which such self-assembly systems could form. 1,2-Hexanediol, which can cosolubilize hexane and ethyleneglycol, forms inverse micelles in hexane and weak microaggregates in ethyleneglycol. Genapol X-060, a commercial alcoholic surfactant containing on the average an aliphatic chain of 13 carbons and 6 oxyethylenes (C₁₃E₆), forms microaggregates in poly(ethyleneglycol) 400. These self-assembly systems are strengthen in the presence of a third component which has an affinity for the inner phase.Presented at the Symposium, 76^th CSC Congress, Sherbrooke, Quebec, May 30–June 3, 1993, honoring Professor Donald Patterson on the occasion of his 65^th birthday.     

Casein structure,self-assembly and gelation

The literature on recent studies of casein structure and function is reviewed. Where appropriate, we try to reconcile conflicting views on the issue of secondary structure in these proteins, steering a middle course where possible. A suggestion is put forward that a coarser view, treating the caseins as block copolymers may be sufficient to rationalise much of the behaviour of these proteins in self-association, adsorption and micellar assembly.     

Impact of model perfumes on surfactant and mixed surfactant self-assembly

The impact of some model perfumes on surfactant self-assembly has been investigated, using small-angle neutron scattering. A range of different model perfumes, with differing degrees of hydrophilicity/hydrophobicity, have been explored, and in order of increasing hydrophobicity include phenyl ethanol (PE), rose oxide (RO), limonene (LM), linalool (LL), and dihydrogen mercenol (DHM). The effect of their solubilization on the nonionic surfactant micelles of dodecaethylene monododecyl ether (C12EO12) and on the mixed surfactant aggregates of C12EO12 and the cationic dialkyl chain surfactant dihexadecyl dimethyl ammonium bromide (DHDAB) has been quantified. For PE and LL the effect of their solubilization on the micelle, mixed micelle/lamellar and lamellar regimes of the C12EO12/DHDAB mixtures, has also been determined. For the C12EO12 and mixed DHDAB/C12EO12 micelles PE is solubilized predominantly at the hydrophilic/hydrophobic interface, whereas the more hydrophobic perfumes, from RO to DHM, are solubilized predominantly in the hydrophobic core of the micelles. For the C12EO12 micelles, with increasing perfume concentration, the more hydrophobic perfumes (RO to DHM) promote micellar growth. Relatively modest growth is observed for RO and LM, whereas substantial growth is observed for LL and DHM. In contrast, for the addition of PE the C12EO12 micelles remain as relatively small globular micelles, with no significant growth. For the C12EO12/DHDAB mixed micelles, the pattern of behavior with the addition of perfume is broadly similar, except that the micellar growth with increasing perfume concentration for the more hydrophobic perfumes is less pronounced. In the Lbeta (Lv) region of the DHDAB-rich C12EO12/DHDAB phase diagram, the addition of PE results in a less structured (less rigid) lamellar phase, and ultimately a shift toward a structure more consistent with a sponge or bicontinuous phase. In the mixed L1/Lbeta region of the phase diagram PE induces a slight shift in the coexistence from Lbeta toward L1. The addition of LL to the Lbeta (Lv) region of the DHDAB-rich C12EO12/DHDAB phase diagram also results in a reduction in the lamellar structure (less rigid lamellae), and a shift toward a structure more consistent with a sponge or bicontinuous phase, or a coexisting phase of small vesicles. For the mixed L1/Lbeta region of the phase diagram LL induces a shift toward a greater L beta component.     

Coordination-driven self-assembly in a single pot

New multinuclear discrete heteroleptic complexes have been synthesized by mixing Pd(II), 2,2′-bipyridine and N,N′-(1,2-phenylene)diisonicotinamide in a single pot as a new approach. A dimeric molecular rhombus and a trimer in equilibrium are obtained where the dimer is the major product. Similar equilibrium is also observed when classical method is employed for the synthesis. The equilibrium is shifted exclusively in favour of the dimer upon addition of benzene. The complexes are characterized by NMR and ESI-MS methods. Crystal structure of the benzene encapsulated rhombus is presented.     

Synthesis, electrochemical properties and self-assembly of a proton-conducting core-shell macromolecule

Let the protons flow: The synthesis of a core-shell macromolecule bearing phosphonic acids is presented. The rigid central core serves as a scaffold to stabilize the flexible polymer shells. Pronounced proton conductivity is obtained under humidified conditions. The self-assembly of such dendritic macromolecules by electrostatic interactions on a modified gold substrate is investigated and characterized.     

Synthesis,self-assembly,and photomechanical actuator performance of a sequence-defined polyviologen crosslinker

ABSTRACT

Although it is well known that viologen radical cations can self-assemble into stacks or complexes on account of radical-radical pairing interactions, it has only recently been demonstrated that reduction of main-chain polyviologens integrated into hydrogel networks can trigger actuation. In these earlier examples, hydrogels comprising oligoethylene glycol-based polyviologens and poly(ethylene glycol) were functionalized with terminal azide groups to prepare ‘click’-based gels. Here, we report a new structural design for the functional polyviologen that consists of main-chain viologen subunits separated by hexamethylene groups instead of glycols and is capped at each end with styrene groups. Activation of this viologen-based macrocrosslinker was achieved using chemical- and photoreduction methods and its ability to undergo intramolecular chain-folding was monitored by absorption spectroscopy. Acrylate-based organogels and hydrogels were also prepared and a comparison was carried out to assess the actuator performance in each gel in terms of the rate of contraction and changes in stiffness.     

Quasi-chemical model of self-assembly and the formation of kinetically controlled structures

A quasi-chemical model of self-assembly among identical objects is proposed. The model rests on two main premises: (a) larger ensembles are more stable and (b) have slower rates of transformation, growth, and decomposition. These statements result from all paired interactions in the considered ensemble. This formulation of self-assembly is shown to be conducive to the formation of large ensembles with sizes distributed normally in a fairly narrow range, and with the concentrations of smaller ensembles being negligible. The existence of two critical points follows from the model. One is a critical concentration that initiates self-assembly in the system when exceeded. The other is a critical ensemble size that sets a threshold for the self-driven growth of ensembles in the system. The growth of ensembles nearly ceases at a point far from equilibrium, and the mean ensemble size and the ensemble’s size distribution are under kinetic control. Stable structures of this kind (with kinetic control of their organization) can serve as models for many natural self-organized systems.     

Chiral symmetry breaking in a microscopic model with asymmetric autocatalysis and inhibition

Asymmetric autocatalysis and inhibition have been proposed as key processes in the spontaneous emergence of chiral symmetry breaking in a prebiotic world. An elementary lattice model is formulated to simulate the kinetics of chiral symmetry breaking via autocatalysis and inhibition in a mixture of prochiral reactants, chiral products, and inert solvent. Starting from a chirally unbiased initial state, spontaneous symmetry breaking occurs in spite of equal a priori probability for creating either product enantiomer, and the coupled reaction-diffusion processes subsequently amplify the random early-stage symmetry breaking. The processes of reaction and diffusion are kinetically intertwined in a way leading to competition in the appearance of enantiomeric excess. An effective transition temperature can be identified below which spontaneous symmetry breaking appears. In the absence of inhibition, reactions are predominantly autocatalytic under both reaction control (fast diffusion, slow reaction) or diffusion control (fast reaction, slow diffusion) conditions. In the presence of inhibition, simulations with different system sizes converge to the same transition temperature under reaction control conditions, and in this limit the reactions are predominantly nonautocatalytic.     

Nanocrystal-micelle: synthesis, self-assembly and application

Nanocrystals (NCs) are one of the important building blocks for fabrication of nanostructured arrays for wide range of optical, electronic, magnetic, catalytic and biosensing applications. Here, our recent advances in the synthesis, self-assembly and application of NC-micelles are highlighted. The NCs are encapsulated inside the core of surfactant micelles in a rapid, interfacially driven micro-emulsion process. The flexible surface chemistry of the NC-micelles causes them to be water-soluble and allows further self-assembly into two- and three-dimensional ordered arrays. The NC-micelles are biocompatible, of interest for bio-labeling. Finally, integration of the ordered arrays and charge transport property are discussed.     

Thermotropic behaviour,self-assembly and photophysical properties of a series of squaraines

A series of squaraine dyes, based on 2,4-bis[4-(N,N-di-n-alkylamino)-2-hydroxyphenyl] squaraine including ethyl, propyl, butyl, pentyl, hexyl and heptyl derivatives, were synthesised by condensation of the corresponding 4-(N,N-di-n-alkylamino)-2-hydroxyphenol with squaric acid. The thermal behaviour of the series was recorded using both thermogravimetic analysis and differential scanning calorimetry while their crystalline structures were elucidated via single-crystal X-ray diffraction. The length of the alkyl chain proved to have a significant effect on both the thermotropic behaviour and the crystalline structure of the squaraine series. Two derivatives, butyl and heptyl, revealed the presence of liquid crystalline mesophases, smectic and nematic, respectively, which were confirmed and characterised via polarised light microscopy and X-ray diffraction. Several of the derivatives formed H- and/or J-aggregates upon thin film formation via spin coating before and after the thermal annealing treatment as indicated by UV–vis spectroscopy. The molecular and crystal structure, aggregation and thermal behaviour provide insight into the supramolecular assembly of this important class of materials. Photophysical measurements revealed large molar absorptivity, reasonably high fluorescence quantum yields and significant fluorescence anisotropy by making these derivatives suitable candidates for a number of electro-optic and photonics applications.     

Developments in synthesis,characterization, and self-assembly of polycarbodiimide systems

Described herein is a comprehensive survey on the most recent advancements in polycarbodiimide synthetic methodologies, structure determination, property design, and self-assembly. In particular, the ¹⁵N-isotopic enrichment of polycarbodiimides is detailed along with the use of ¹⁵N NMR to identify the regioregularity and mechanism of chiroptical switching in polycarbodiimides. Furthermore, the new Ni(II) mediated “living” polymerization is explained along with its utilization in the incorporation of polycarbodiimides into block copolymers, graft copolymers, and star polymers. Finally, we review the recent discoveries focusing on the highly tunable self-assembly behaviors of polycarbodiimide homopolymers and copolymers. © 2017 Wiley Periodicals, Inc. J. Polym. Sci., Part A: Polym. Chem. 2017 , 55, 2915–2934     

Chlorophyll a self-assembly in polar solvent-water mixtures

The conversion of chlorophyll a (Chl a) monomers into large aggregates in six polar solvents upon addition of water has been studied by means of absorption, fluorescence spectroscopy and fluorescence lifetime measurements for the purpose of elucidating the various environmental factors promoting Chl a self-assembly and determining the type of its organization. Two empirical solvent parameter scales were used for quantitative characterization of the different solvation properties of the solvents and their mixtures with water. The mole fractions of water f1/2 giving rise to the midpoint values of the relative fluorescence quantum yield were determined for each solvent, and then various solvent-water mixture parameters for the f1/2 values were compared. On the basis of their comparison, it is concluded that the hydrogen-bonding ability and the dipole-dipole interactions (function of the dielectric constant) of the solvent-water mixtures are those that promote Chl a self-assembly. The influence of the different nature of the non-aqueous solvents on the Chl aggregation is manifested by both the different water contents required to induce Chl monomer-->aggregate transition and the formation of two types of aggregates at the completion of the transition: species absorbing at 740-760 nm (in methanol, ethanol, acetonitrile, acetone) and at 667-670 nm (in pyridine and tetrahydrofuran). It is concluded that the type of Chl organization depends on the coordination ability and the polarizability (function of the index of refraction) of the organic solvent. The ordering of the solvents with respect to the f1/2 values--methanol < ethanol < acetonitrile < acetone < pyridine < tetrahydrofuran--yielded a typical lyotropic (Hofmeister) series. On the basis of this solvent ordering and the disparate effects of the two groups of solvents on the Chl a aggregate organization, it is pointed out that the mechanism of Chl a self-assembly in aqueous media can be considered a manifestation of the Hofmeister effect, as displayed in the lipid-phase behavior (Koynova et al., Eur. J. Biophys. 25, 261-274, 1997). It relates to the solvent ability to modify the bulk structure and to distribute unevenly between the Chl-water interface and bulk liquid.     

Hydrogen-bonding-induced planar, rigid, and zigzag oligoanthranilamides. Synthesis, characterization, and self-assembly of a metallocyclophane

Four oligoanthranilamides 1-4, which are incorporated with three, five, seven, or nine benzene units, respectively, have been synthesized and characterized. X-ray analysis, 1D and 2D (1)H NMR, and IR experiments reveal that all the new oligoamides adopt rigid, planar and zigzagged conformations in both solution and solid state, which are stabilized by intramolecular three-center hydrogen bonding. A 5-mer oligomer 22, which is incorporated with two acetylene groups at the ends, has also been synthesized and utilized for the self-assembly of a rigid hydrogen-bonded metallocyclophane. The new rigid oligoanthranilamides represent useful building blocks for the construction of supramolecular architectures.