Surface-enhanced Raman study of the interactions between tripodal cationic polyamines and polynucleotides.

Raman and surface-enhanced Raman spectra of new DNA/RNA-binding compounds consisting of three imidazole (Im) and three pyridine (Py) rings connected by tripodal polyaminomethylene linkages were obtained by the near-infrared excitation at 1064 nm. Study of interactions of Im and Py polyamines with single-stranded RNA polynucleotides (poly A, poly G, poly C, poly U), double-stranded DNA polynucleotides (poly dAdT-poly dAdT, poly dGdC-poly dGdC) and calf thymus DNA (ct-DNA) by surface-enhanced Raman spectroscopy (SERS) reveals unambiguous enhancement of the Raman scattering from the small molecules as well as appearance of new bands in spectra associated mainly with nucleobases. The SERS experiments point toward comparable interactions of Im and Py polyamines with single-stranded purine and pyrimidine polynucleotides. Furthermore, SERS experiments with double stranded polynucleotides reveal the base-pair dependent selectivity of Im and Py, whereby interactions within both, major and minor groove are indicated for poly dAdT-poly dAdT, at variance to preferred binding of Im and Py to only major groove of poly dGdC-poly dGdC. SERS spectra of Im and Py with ct-DNA imply that protonated amino groups of these compounds preferentially interact with N7 atoms (adenine, guanine) while nitrogen in aromatic rings of polyamines might be attracted to C6-NH(2) (adenine), all sites being located at the major groove of the DNA helix. Wavenumber downshift of the imidazole (Im) and pyridine (Py) ring vibrations supports aromatic stacking interactions of imidazole and pyridine aromatic moieties with DNA base-pairs.

Surface-enhanced Raman spectra of rhodamine 19 octadecylamide.

Surface-enhanced Raman scattering (SERS) of the cationic and the neutral form of rhodamine 19 octadecylamide (R19OA) has been studied in the silver citrate colloid using NIR excitation at 1064 nm. Cationic molecules readily adsorb onto negatively charged silver nanoparticles through a positively charged xanthene part of the molecules resulting in surface enhancement of Raman scattering. Due to a lack of the positive charge in molecular structure, SERS spectrum of neutral molecules is not observed. Nevertheless, a broad band appearing at 1240 cm(-1) in the spectrum of the cationic form indicates conversion of the cationic into the neutral species occurring close to the silver surface. The observed band most likely arises from a vibration of the ring formed in the molecular structure after conversion, but before complete desorption of the neutral molecules from the metal surface. Upon addition of HCl and NaOH in the silver sol, equilibrium is shifted toward the cationic and the neutral form of R19OA, respectively, followed by corresponding changes in the Raman spectrum. In addition, FT-SERS spectra of two rhodamine dyes, rhodamine 19 (R19) and rhodamine 6G (R6G), that are structurally related to R19OA, have been studied under the same experimental conditions for comparison.

Surface-enhanced Raman scattering on molecular self-assembly in nanoparticle-hydrogel composite.

Surface-enhanced Raman scattering has been applied to study weak intermolecular interactions between small organic gelling molecules involved in the silver nanoparticle-hydrogel composite formation. Assembly and disassembly of the gelator molecules in close vicinity to embedded silver nanoparticles were followed by changes in Raman intensity of the amide II and carboxyl vibrational bands, whereas the strength of the bands related to benzene modes remained constant. This implied that the gelator molecules were strongly attached to the silver particles through the benzene units, while participating in gel structure organization by intermolecular hydrogen bonding between oxalyl amide and carboxyl groups.

Yb3+ as an origin of the strong anti-Stokes luminescence in NIR FT-Raman spectra of some lanthanide sesquioxides.

Strong anti-Stokes bands observed in FT-Raman spectra of Y2O3, Gd2O3 and Lu2O3 are explained by NIR luminescence of Yb3+ impurities present in sesquioxides after the excitation with the 1064 nm line of an Nd:YAG laser. Samples of Y2O3:Yb, Ga2O3:Yb, CeO2:Yb, Gd2O3:Yb and Lu2O3:Yb were prepared by solution combustion synthesis procedure using urea. All materials were investigated by FT-Raman and FT-NIR spectroscopy and characterized by X-ray powder diffraction.

Recognition of homo-polynucleotides containing adenine by a phenanthridinium bis-uracil conjugate in aqueous media.

Among novel bis-nucleobase-phenanthridinium conjugates bis-uracil analogue stabilized significantly more effective poly-dA-poly-dT and poly-AH(+)-poly-AH(+) than adenine analogue and reference compound . For the alternating poly-dAdT-poly-dAdT however, the binding preference is lost, pointing to the importance of specific interactions of uracils of with homopolynucleotides containing consecutive adenines.

Photoinduced gelation by stilbene oxalyl amide compounds.

Oxalyl amide derivatives bearing 4-dodecyloxy-stilbene as a cis-trans photoisomerizing unit were synthesized. The trans derivative acted as a versatile gelator of various organic solvents, whereas the corresponding cis derivative showed a poor gelation ability or none at all. In diluted solution (c = 2.0 x10(-5) mol dm(-3), ethanol), the cis isomer was photochemically converted into the trans isomer within 4 min. Depending on the radiation wavelength, the trans isomer was stable or liable to photodecomposition. When exposed to irradiation, a concentrated solution of the cis isomer (c = 2.0 x 10(-2) mol dm(-3), ethanol) turned into a gel. The FT-Raman, FT-IR, and 1H NMR spectra demonstrated that the gelation process occurred because of a rapid cis --> trans photoisomerization followed by a self-assembly of the trans molecules. Apart from the formation of hydrogen bonding between the oxalyl amide parts of the molecules, confirmed by FT-IR spectroscopy, it was assumed that the pi-pi stacking between the trans-stilbene units of the molecule and a lipophilic interaction between long alkyl chains were the interactions responsible for gelation.