Three parallel algorithms for classical molecular dynamics are presented. The first assigns each processor a fixed subset of atoms; the second assigns each a fixed subset of inter-atomic forces to compute; the third assigns each a fixed spatial region. The algorithms are suitable for molecular dynamics models which can be difficult to parallelize efficiently—those with short-range forces where the neighbors of each atom change rapidly. They can be implemented on any distributed-memory parallel machine which allows for message-passing of data between independently executing processors. The algorithms are tested on a standard Lennard-Jones benchmark problem for system sizes ranging from 500 to 100,000,000 atoms on several parallel supercomputers--the nCUBE 2, Intel iPSC/860 and Paragon, and Cray T3D. Comparing the results to the fastest reported vectorized Cray Y-MP and C90 algorithm shows that the current generation of parallel machines is competitive with conventional vector supercomputers even for small problems. For large problems, the spatial algorithm achieves parallel efficiencies of 90% and a 1840-node Intel Paragon performs up to 165 faster than a single Cray C9O processor. Trade-offs between the three algorithms and guidelines for adapting them to more complex molecular dynamics simulations are also discussed.

Fast parallel algorithms for short-range molecular dynamics

Responsive polymer materials can adapt to surrounding environments, regulate transport of ions and molecules, change wettability and adhesion of different species on external stimuli, or convert chemical and biochemical signals into optical, electrical, thermal and mechanical signals, and vice versa. These materials are playing an increasingly important part in a diverse range of applications, such as drug delivery, diagnostics, tissue engineering and 'smart' optical systems, as well as biosensors, microelectromechanical systems, coatings and textiles. We review recent advances and challenges in the developments towards applications of stimuli-responsive polymeric materials that are self-assembled from nanostructured building blocks. We also provide a critical outline of emerging developments.

Emerging applications of stimuli-responsive polymer materials

Equivalent weight (EW) is the number of grams of dry Nafion per mole of sulfonic acid groups when the material is in the acid form. This is an average EW in the sense that the comonomer sequence distribution (that is usually unknown to the investigator and largely unreported) gives a distribution in m in this formula. EW can be ascertained by acid-base titration, by analysis of atomic sulfur, and by FT-IR spectroscopy. The relationship between EW and m is EW ) 100m + 446 so that, for example, the side chains are separated by around 14 CF2 units in a membrane of 1100 EW. Common at the time of this writing are Nafion 117 films. The designation “117” refers to a film having 1100 EW and a nominal thickness of 0.007 in., although 115 and 112 films have also been available. Early-reported studies involved 1200 EW samples as well as special experimental varieties, some being rather thin. The equivalent weight is related to the property more often seen in the field of conventional ion exchange resins, namely the ion exchange capacity (IEC), by the equation IEC ) 1000/EW. The mention of the molecular weight of high equivalent weight (EW > 1000 g‚mol-1) Nafion is almost absent in the literature, although the range 105-106 Da has been mentioned. As this polymer does not form true solutions, the common methods of light scattering and gel permeation chromatography cannot be used to determine molecular weight as well as the size and shape of isolated, truly dissolved molecules. Studies of the structure of this polymer in solvent (albeit not a true solution) will be mentioned in the scattering section of this review. It should be noted that Curtin et al. performed size exclusion chromatography determinations of the molecular weight distribution in Nafion aqueous dispersions after they were heated to high temperatures (230, 250, and 270 °C).1 Before heating, there was a high molecular weight shoulder on a bimodal distribution, due to molecular aggregates, but this shoulder disappeared upon heating, which indicated that the aggregates were disrupted. The peaks for the monomodal distribution for the heated samples were all located at molecular weights slightly higher than 105 g‚mol-1. Also, light scattering experiments revealed that the radius of gyration had a linear dependence on the molar mass of the aggregates, which suggests that the particles are in the form of rods or ribbons, or at least some elongated structure. Nafion ionomers are usually derived from the thermoplastic -SO2F precursor form that can be extruded into sheets of required thickness. Strong interactions between the ionic groups are an obstacle to melt processing. This precursor does not possess the clustered morphology that will be of great concern in this article but does possess Teflon-like crystallinity which persists when the sulfonyl fluoride form is converted to, for example, the K+ form by reacting it with KOH in water and DMSO. Thereafter, the -SO3H form is achieved by soaking the film in a sufficiently concentrated aqueous acid solution. Extrusion of the sulfonyl fluoride precursor can cause microstructural orientation in the machine direction, * Address correspondence to either author. Phone: 601-266-5595/ 4480. Fax: 601-266-5635. E-mail: Kenneth.Mauritz@usm.edu; RBMoore@usm.edu. 4535 Chem. Rev. 2004, 104, 4535−4585

State of Understanding of Nafion

Detection of chemical and biological agents plays a fundamental role in biomedical, forensic and environmental sciences1–4 as well as in anti bioterrorism applications.5–7 The development of highly sensitive, cost effective, miniature sensors is therefore in high demand which requires advanced technology coupled with fundamental knowledge in chemistry, biology and material sciences.8–13

In general, sensors feature two functional components: a recognition element to provide selective/specific binding with the target analytes and a transducer component for signaling the binding event. An efficient sensor relies heavily on these two essential components for the recognition process in terms of response time, signal to noise (S/N) ratio, selectivity and limits of detection (LOD).14,15 Therefore, designing sensors with higher efficacy depends on the development of novel materials to improve both the recognition and transduction processes. Nanomaterials feature unique physicochemical properties that can be of great utility in creating new recognition and transduction processes for chemical and biological sensors15–27 as well as improving the S/N ratio by miniaturization of the sensor elements.28

Gold nanoparticles (AuNPs) possess distinct physical and chemical attributes that make them excellent scaffolds for the fabrication of novel chemical and biological sensors (Figure 1).29–36 First, AuNPs can be synthesized in a straightforward manner and can be made highly stable. Second, they possess unique optoelectronic properties. Third, they provide high surface-to-volume ratio with excellent biocompatibility using appropriate ligands.30 Fourth, these properties of AuNPs can be readily tuned varying their size, shape and the surrounding chemical environment. For example, the binding event between recognition element and the analyte can alter physicochemical properties of transducer AuNPs, such as plasmon resonance absorption, conductivity, redox behavior, etc. that in turn can generate a detectable response signal. Finally, AuNPs offer a suitable platform for multi-functionalization with a wide range of organic or biological ligands for the selective binding and detection of small molecules and biological targets.30–32,36 Each of these attributes of AuNPs has allowed researchers to develop novel sensing strategies with improved sensitivity, stability and selectivity. In the last decade of research, the advent of AuNP as a sensory element provided us a broad spectrum of innovative approaches for the detection of metal ions, small molecules, proteins, nucleic acids, malignant cells, etc. in a rapid and efficient manner.37



Figure 1

Physical properties of AuNPs and schematic illustration of an AuNP-based detection system.



In this current review, we have highlighted the several synthetic routes and properties of AuNPs that make them excellent probes for different sensing strategies. Furthermore, we will discuss various sensing strategies and major advances in the last two decades of research utilizing AuNPs in the detection of variety of target analytes including metal ions, organic molecules, proteins, nucleic acids, and microorganisms.

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Gold nanoparticles in chemical and biological sensing.

About Supramolecular Assemblies of π-Conjugated Systems

Solvent-induced aggregation of regioregular head-to-tail poly(3-alkylthiophene)s (PATs) have been studied by means of AFM and UV−vis spectroscopy. In hexane, which is a good solvent for alkyl side chains but poor for polythiophene backbones, PAT molecules undergo ordered main-chain collapse driven by solvophobic interaction. Well-pronounced concentration-independent red shift of λmax and good resolved fine vibronic structure in the electronic absorption spectra observed upon addition of hexane indicate that planarization occurs on the single-molecule level. A helical conformation of the man chain of PATs with 12 thiophene rings per each helical turn has been proposed. At the higher concentration of PATs the collapsed molecules undergo unexpected one-dimensional aggregation. Length of the particles varies from several nanometers to several hundreds nanometers and can be easily adjusted by the solvent composition or concentration of PATs.

One-Dimensional Aggregation of Regioregular Polyalkylthiophenes

Polymer coatings of brushlike monolayers composed of two different polymers, polystyrene and poly(2-vinylpyridine), are grafted by radical polymerization on the surface of silicon wafers. Thickness, grafting density, molecular weight of grafted chains, and the composition of the coatings were regulated by grafting time, monomer concentration, and additional initiator in solution. A typical dry film thickness is between 10 and 100 nm, and the molecular weights of the components range from 100 to 300 kg/mol. The fabricated coatings turn out to be sensitive to the composition of the environment. For instance after exposition to toluene the layer becomes hydrophobic and the top of the layer is covered by polystyrene. After exposition to HCl the layer becomes hydrophilic with polyvinylpyridine in the upper layer. This reconstruction of the polymer layer was observed with contact angle and X-ray photoelectron spectroscopy measurements. The composition of the top layer in different media is controlled by the com...

Switching of Polymer Brushes

Polymer Surfaces and Interfaces

We report preparation of stimuli-responsive bicomponent polymeric Janus particles and investigation of their switching behavior. The first polymer was immobilized on one side of silica particles using the surface-initiated atom transfer radical polymerization, “grafting from” approach. The second polymer was immobilized using the “grafting to” method by reaction between reactive terminating groups of polymer chains and functional groups on the particle surface. On the example of mixed oppositely charged polyelectrolyte Janus particles decorated with poly(acrylic acid) and poly(2-vinylpyridine) chains, we demonstrate stimuli-responsive aggregation/disaggregation behavior upon pH changes.

Manfred Stamm

Papers

Emerging applications of stimuli-responsive polymer materials

One-Dimensional Aggregation of Regioregular Polyalkylthiophenes

Switching of Polymer Brushes

Polymer Surfaces and Interfaces

Stimuli-Responsive Bicomponent Polymer Janus Particles by Grafting from / Grafting to Approaches