Intense laser alignment in dissipative media as a route to solvent dynamics

We extend the concept of alignment by short intense pulses to dissipative environments within a density matrix formalism and illustrate the application of this method as a probe of the dissipative properties of dense media. In particular, we propose a means of disentangling rotational population relaxation from decoherence effects via strong laser alignment. We illustrate also the possibility of suppressing rotational relaxation to prolong the alignment lifetime through choice of the field parameters. Implications to several disciplines and a number of potential applications are proposed.     

Encoding and Processing of Alphanumeric Information by Chemical Mixtures

A novel infochemical device that is based on ¹H NMR readout of chemical information is presented. This chemical encoding system utilizes two measurable parameters of homogeneous mixtures, chemical shift and peak integration, for three different applications: 1) a text‐encoding device that is based on spectral representation of a sequence of symbols, 2) encoding of 21‐digit binary numbers, each represented by an NMR spectrum, and their algebraic manipulations, such as addition and subtraction, and 3) encoding of 21‐digit decimal numbers. The first application enables molecular information storage and encryption. The relative concentration of each component, as measured by the relevant peak integration, can represent a symbol. The second application of this system, in addition to its obvious memory capability, enables mathematical operations. The NMR spectrum of a given mixture represents a 21‐digit binary number where each of the peaks encodes for a specific digit. In any of the input mixtures (numbers) each compound is either present or absent, representing either 1 or 0, respectively. We used the various binary numbers to carry out addition operations by combining two or more solutions (numbers). Subtraction operations were also preformed by digital processing of the information. The third application is the representation of decimal numbers. As before, each of the peaks encodes for a specific digit. In any of the input mixtures each compound is present in one of 10 different relative concentrations, representing the 10 digits of a decimal number.     

Fidelity discrimination in DNA polymerase beta: differing closing profiles for a mismatched (G:A) versus matched (G:C) base pair

Understanding fidelity-the faithful replication or repair of DNA by polymerases-requires tracking of the structural and energetic changes involved, including the elusive transient intermediates, for nucleotide incorporation at the template/primer DNA junction. We report, using path sampling simulations and a reaction network model, strikingly different transition states in DNA polymerase beta's conformational closing for correct dCTP versus incorrect dATP incoming nucleotide opposite a template G. The cascade of transition states leads to differing active-site assembly processes toward the "two-metal-ion catalysis" geometry. We demonstrate that these context-specific pathways imply different selection processes: while active-site assembly occurs more rapidly with the correct nucleotide and leads to primer extension, the enzyme remains open longer, has a more transient closed state, and forms product more slowly when an incorrect nucleotide is present. Our results also suggest that the rate-limiting step in pol beta's conformational closing is not identical to that for overall nucleotide insertion and that the rate-limiting step in the overall nucleotide incorporation process for matched as well as mismatched systems occurs after the closing conformational change.     

Relative Semi-abelian Categories

We define a relative semi-abelian category as a pair (C,E), where C is a pointed category with finite limits, and E is a class of regular epimorphisms in C satisfying certain conditions, stronger than those defining a relative homological category. Some results on the equivalence of the so-called old-style and new-style axioms for the semi-abelian categories are extended to the relative case. Partially supported by the University of Cape Town Research Associateship and Georgia National Science Foundation (GNSF/ST06/3-004).     

Ionic liquids as amphiphile self-assembly media

In recent years, the number of non-aqueous solvents which mediate hydrocarbon-solvent interactions and promote the self-assembly of amphiphiles has been markedly increased by the reporting of over 30 ionic liquids which possess this previously unusual solvent characteristic. This new situation allows a different exploration of the molecular "solvophobic effect" and tests the current understanding of amphiphile self-assembly. Interestingly, both protic and aprotic ionic liquids support amphiphile self-assembly, indicating that it is not required for the solvents to be able to form a hydrogen bonded network. Here, the use of ionic liquids as amphiphile self-assembly media is reviewed, including micelle and liquid crystalline mesophase formation, their use as a solvent phase in microemulsions and emulsions, and the emerging field of nanostructured inorganic materials synthesis. Surfactants, lipids and block co-polymers are the focus amphiphile classes in this critical review (174 references).     

Deposition of Au and Ag nanoparticles on PEDOT

The deposition of Au and Ag, locally and from bulk solution, on poly(3,4-ethylenedioxythiophene) (PEDOT) was studied. Specifically, PEDOT was electrochemically polymerized onto a glassy carbon (GC) electrode and used for bulk deposition of Au and Ag from their respective ions dissolved in the solution as well as for the local deposition of these metals using scanning electrochemical microscopy (SECM). These two sets of experiments were utilized to investigate the difference between Au and Ag electrochemical deposition on PEDOT. In particular, SECM experiments, which were conducted by the controlled anodic dissolution of Au and Ag microelectrodes close to GC/PEDOT, probed the effect of different PEDOT oxidation states on local deposition. The current-time transients recorded during the deposition, combined with scanning electron microscopy and EDX analysis provided insight into the reduction processes. AuCl(4)(-) and Ag(+) ions were electrochemically reduced at a potential equal to and more negative than the ions redox potentials (0.4 and 0.2 V, respectively) and more positive than -0.7 V, where the PEDOT starts transforming into the reduced, i.e. insulating, state. We found that the electroreduction of Ag(+) ions was diffusion-controlled and the PEDOT film served as a simple conductor. On the other hand, the reduction of AuCl(4)(-) ions was enhanced on GC/PEDOT as compared with bare GC, indicating that PEDOT catalyzes the reduction of AuCl(4)(-) to Au.     

Calorimetric and spectrophotometric investigation of PLGA nanoparticles and their complex with DNA

The calorimetric investigation of non-coated and chitosan-coated PLGA nanoparticles (NP) shows that at initial temperatures of heating particle swelling takes place what results in an internal architectural change at lower than physiological temperature. It has shown that the temperature of NP tightness perturbing depends on solvent polarity: as more polar is the solvent more stable are particles. The break of existing bonds in NP shell is accompanied with heat absorption peak which undergoes significant changes depending on heating rate. In the wide pH 2–8 interval in transition temperature no changes occurred. The obtained results show that such NP could be used in acidic area for drug transfer, which gives possibility to take medicine orally. It was shown that DNA attaches only to chitosan-coated NP. The optimal ratio for DNA loading onto the NP was found to be 7:1 (W_NP/W_DNA).