Synthesis of (±)-1-(2,6,6-trimethyl-4-hydroxycyclohexenyl)-1,3-butanedione (1), a marine natural product

A short synthesis of racemic natural product (1) from the known compound (7) is described. A model study, using cyclochexanone as starting material, is also reported.     

SIMQUADNMR: a program for simulation and interpretation of multiple quantum-filtered NMR spectra of quadrupolar nuclei

In this paper, we present a computer program which simulates NMR multiple quantum-filtered spectra of quadrupolar nuclei as a function of physical parameters, of the type of experiment and experimental conditions. The program works by solving relaxation theory equations for the given system, and it can be useful in order to plan the ideal conditions to set up specific experiments or to give a physical interpretation of experimental results. The program allows to independently follow the dependence of individual coherences and relaxation rates as a function of up to 50 parameters regarding the physical properties of the system under investigation, sample conditions and instrumental setup making it an helpful tool also for teaching purposes.     

Side chain homologation of alanyl peptide nucleic acids: pairing selectivity and stacking

Alanyl peptide nucleic acids (alanyl-PNAs) are oligomers based on a regular peptide backbone with alternating configuration of the amino acids. All side chains are modified by covalently linked nucleobases. Alanyl-PNAs form very rigid, well defined, and linear double strands based on hydrogen bonding of complementary strands, stacking, and solvation. Side chain homology was examined by comparing a methylene linker (alanyl-PNA) with an ethylene linker (homoalanyl-PNA), a trimethylene linker (norvalyl-PNA), and PNA sequences with mixed linker length between nucleobase and backbone. Side chain homology in combination with a linear double strand topology turned out to be valuable in order to selectively manipulate pairing selectivity (pairing mode) and base pair stacking.     

Synthesis and evaluation of a new non-fluorescent quencher in fluorogenic oligonucleotide probes for real-time PCR

A non-fluorescent quencher, based on the diaminoanthraquinone Disperse Blue 3, has been incorporated into oligonucleotides at the 5'-end, the 3'-end and internally as a thymidine derivative. Fluorimetry and fluorogenic real-time PCR experiments demonstrate that the quencher is effective with a wide range of fluorescent dyes. The anthraquinone moiety increases the melting temperature of DNA duplexes, thus allowing shorter, more discriminatory probes to be used. The quencher has been used in Scorpion primers and TaqMan probes for human DNA sequence recognition and mutation detection.     

Aggregation behavior of tetrakis(4-sulfonatophenyl)porphyrin in AOT/water/decane microemulsions

AOT/water/decane microemulsions have been used to entrap the water-soluble 5,10,15,20-tetrakis(4-sulfonatophenyl)porphyrin (TPPS4). Quasi-elastic light scattering technique has confirmed the confinement of the porphyrin and its various aggregates into the inner water pool. Various species have been detected as function of the size of the microemulsions, concentration of the porphyrin, pH, and aging of the solutions by using a combination of UV-vis absorption, steady fluorescence emission, fluorescence lifetime measurements, and time-resolved fluorescence anisotropy. Under neutral pH conditions, the porphyrin is present as the free base monomer (S414) in the inner water compartment, and it is free to rotate when the size of the droplet is large enough and the porphyrin concentration is low. On increasing the concentration and/or decreasing the microemulsion size, a H-dimer of the free base (S406) is prevalently formed. Aging both the S414 and S406 species leads to the formation of a new species (S424), which has been postulated as a H-type dimer of the diacid porphyrin. On decreasing the pH, the species S414 and S406 almost instantaneously convert into the diacid porphyrin, which is monomeric (S434). This latter is an intermediate in the eventual formation of J-aggregated TPPS4 (S490). A marked stability has been observed for the S424 species, which do not interconvert on changing the pH of the bulk aqueous phase.     

Electronic-enthalpy functional for finite systems under pressure

We introduce the notion of electronic enthalpy for first-principles structural and dynamical calculations of finite systems under pressure. An external pressure field is allowed to act directly on the electronic structure of the system studied via the ground-state minimization of the functional E+PV(q), where V(q) is the quantum volume enclosed by a charge isosurface. The Hellmann-Feynman theorem applies, and assures that the ionic equations of motion follow an isoenthalpic dynamics. No pressurizing medium is explicitly required, while coatings of environmental ions or ligands can be introduced if chemically relevant. We apply this novel approach to the study of group-IV nanoparticles during a shock wave, highlighting the significant differences in the plastic or elastic response of the diamond cage under load, and their potential use as novel nanostructured impact-absorbing materials.