Oligonucleotides surfaces

Electrostatically-controlled pre-association interactions have an important effect on rates for [Pd(dien)Cl]+ reacting with thione-containing nucleosides, nucleotides and oligonucleotides, as is often the case for reactions between metal complexes and this type of biological ligand. Interaction between the charged complex and the polyanionic oligonucleotide surface leads to an increase in both enthalpy and entropy of activation in the DNA or model environment (252). 

Solid-phase chemistry is an efficient synthetic tool that, compared with solution-phase chemistry, simplifies the work-up of the reaction, allows the process to be driven to completion by using excess of reagents, and can be automatized [2a]. In recent years, many studies have been devoted to developing both surface-mediated and resin-supported synthesis. Today the solid-phase approach is not limited to peptides and oligonucleotides but is also used to synthesize molecules of lower molecular weight. 

Silica or porous glass is usually used as the solid phase in oligonucleotide synthesis. The support is functionalized through an amino group attached to the silica surface. There is a secondary linkage through a succinate ester to the terminal 3 -OH group. 

Smith and co-workers (194) have used this chemistry to prepare carboxyl-modified Si(lll) surfaces at which polylysine-tethered DNA is electrostatically adsorbed (Fig. 60). An alternative approach involved covalent attachment of a pre-synthesized oligonucleotide bearing a terminal carboxyl group to an amine-modified Si(001) surface (195). 

Sykora, D., Svec, F., and Frechet, J. M. J., Separation of oligonucleotides on novel monolithic columns with ion-exchange functional surfaces, /. Chromatogr. A, 852, 297, 1999. 

Luderer F, Walschus U (2005) Immobilization of Oligonucleotides for Biochemical Sensing by Self-Assembled Monolayers Thiol-Organic Bonding on Gold and Silanization on Silica Surfaces. 260 37-56... 

Nicolau DV, Sawant PD (2005) Scanning Probe Microscopy Studies of Surface-Immobilised DNA/Oligonucleotide Molecules. 260 113-160 Niessen HG, Woelk K (2007) Investigations in Supercritical Fluids. 276 69-110 Nilsson P, Olofsson K, Larhed M (2006) Microwave-Assisted and Metal-Catalyzed Coupling Reactions. 266 103-144... 

The surface of each layer has two types of single stranded arms (e.g. one 3 — 5 and one 5 — 3 strand) which can bind to other monomers to render 1st-and 2nd-generation dendrimers 25 and 26. Therefore the molecular scaffold grows exponentially with each sequential layer of hybridization. If an oligonucleotide contains a sequence complementary to those at the surface of these networks it should be hybridized. The remaining free sequences from the other type of arms then bind in a standard nucleic acid blot (after they are bound to... 

Fluorescence studies and the binding interaction of Quartz/APES/RB with single- and double-stranded oligonucleotides (ssDNA and dsDNA) in Tris-HCl buffer solution of pH 7.4 were carried out. Quartz/APES/RB exhibited emission at 576 nm, whereas Quartz/APES without BB where nonfluorescent, suggesting that RB successfully assembled on the surface of quartz wafers. By comparison with Aem of 5 x 10 5 M RB solution, which was 588 nm, a hypsochromic shift was found. Considering the fluorescence microscopical image of Quartz/APES/RB, it... 

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