Anthracene derivatives of benzo[f]quinoline. Synthesis,spectra, and luminescence

By condensation of 9-[N-(2-naphthyl)formimidoyl]anthracene with methyl ketones under conditions of acid catalysis, 1-R-3-(9-anthryl)benzo[f]quinolines have been obtained. The byproducts of the reaction have been identified: 1-R-3-(9-anthyl)-2-propen-1-ones and N-[1-(p-aminophenyl)-3-(9-anthryl)-2-propen-1-ylidene]-2-naphthylamines. The spectral and luminenscence properties of these compounds have been examined critically.Translated from Khimiya Geterotsiklicheskikh Soedinenii, No. 11, pp. 1536–1541, November, 1985.     

Spectral luminescence properties of 1- and 2-alkyl(cycloalkyl) derivatives of benzo[f]quinoline

The absorption and fluorescence spectra of alcohol solutions of 3-aryl-substituted benzo[f]-quinolines were investigated, and the fluorescence quantum yields were measured. It was established that the indicated compounds have intense absorption in the UV region and fluorescence at 350–450 nm. The fluorescence quantum yields range from 5 to 70%, depending on the substituents. The introduction of aromatic substituents in the 1 and 3 positions of benzo-[f]quinoline ring raises the fluorescence quantum yields. A methyl group in the 2 position of the molecule leads to a decrease in the fluorescence quantum yield. Benzo[f]quinoline derivatives that contain a cyclopentene ring in the 1 and 2 positions fluoresce intensely (=40–60%), while cyclohexene and cycloheptene condensed in the same positions cause a decrease in the fluorescence yield to 7–13%; this is associated with the three-dimensional structure of these molecules.Translated from Khimiya Geterotsiklicheskikh Soedinenii, No. 9, pp. 1237–1240, September, 1977.     

Simple reagent for the synthesis of oligonucleotides labeled with 3,3,3′,3′-tetramethyl-2,2′-indodicarbocyanine

Synthesis of a phosphoramidite reagent for the preparation of oligonucleotides labeled at the 5′-end with a fluorescent dye, 3,3,3′,3′-tetramethyl-2,2′-indodicarbocyanine, is described. The efficiency of this reagent is confirmed by the synthesis of several labeled oligonucleotides. Published in Russian in Izvestiya Akademii Nauk. Seriya Khimicheskaya, No. 1, pp. 154–158, January, 2006.     

Oxidation of 4-styryl- 2- phenyl-5, 6-benzoquinoline with potassium permanganate

Oxidation of 4-styryl-2-phenyl-5,6-benzoquinoline with potassium permanganate gave phenyl 2-phenyl-5,6-benzo-4-quinolyl diketone, 2-phenyl-4-formyl-5,6-benzoquinoline, 2-phenyl-5,6-benzocinchoninic acid, and benzoic acid. It is shown that phenyl 2-phenyl-5,6-benzo-4-quinolyl diketone is cleaved under the influence of OH^? ions to the corresponding aldehydes and carboxylic acids; this is explained by the decisive effect of the acidity of the media on the direction of the reaction.     

Synthesis of Pentaerythritol-Based Branching Reagents for Modification of Proteins and Nucleic Acids by [2+3] Dipolar Cycloaddition Reaction

Alkylation of pentaerythritol symmetrically substituted with propylene glycol with propargyl bromide afforded compounds containing two or three alkyne moieties. Amidophosphite reagents and solid supports were prepared for the introduction of two and three acetylene fragments into oligonucleotides at the 3'- and 5'-positions and inside the chain under conditions of automated solid-phase oligonucleotide synthesis. Based on the trialkynyl derivative, an N-hydroxysuccinimide ester was obtained which can be used to modify biomolecules attacking the amino group. Conjugates obtained can be used for multiple modifications by [3+2] dipolar cycloaddition reaction.     

Application of phenylboronic acid modified hydrogel affinity chips for high-throughput mass spectrometric analysis of glycated proteins

The complexity of the human plasma proteome is greatly increased by post-translational modifications. Besides physiological modifications, pathological conditions such as diabetes are responsible for adding to this complexity by producing advanced glycation endproducts (AGEs). When searching for specific biomarkers it is a prerequisite to reduce this complexity prior to analysis. To do this, agarose hydrogel was used to create a high-capacity affinity layer on the modified aluminum surface of MALDI (matrix-assisted laser desorption/ionization) targets. 3-Aminophenylboronic acid was immobilized via cyanogen bromide activation as a ligand for affinity sorption of glycated proteins, followed by their direct detection by MALDI. High protein capacity of prepared MALDI chips, efficient separation and low non-specific protein binding were demonstrated. The results show that phenylboronic acid modified hydrogels are very suitable for creating affinity surfaces for the high-throughput analysis of AGEs.     

Two-dye and one- or two-quencher DNA probes for real-time PCR assay: synthesis and comparison with a TaqMan? probe

A typical TaqMan? real-time PCR probe contains a 5'-fluorescent dye and a 3'-quencher. In the course of the amplification, the probe is degraded starting from the 5'-end, thus releasing fluorescent dye. Some fluorophores (including fluorescein) are known to be prone to self-quenching when located near each other. This work is aimed at studying dye-dye and dye-quencher interactions in multiply modified DNA probes. Twenty-one fluorogenic probes containing one and two fluoresceins (FAM), or a FAM-JOE pair, and one or two BHQ1 quenchers were synthesized using non-nucleoside reagents and "click chemistry" post-modification on solid phase and in solution. The probes were tested in real-time PCR using an ~300-bp-long natural DNA fragment as a template. The structural prerequisites for lowering the probe background fluorescence and increasing the end-plateau fluorescence intensity were evaluated and discussed.     

4',5'-Dichloro-2',7'-dimethoxy-5(6)-carboxyfluorescein (JOE): synthesis and spectral properties of oligonucleotide conjugates

A convenient procedure for the preparation of the fluorescent dye 4',5'-dichloro-2',7'-dimethoxy-5(6)-carboxyfluorescein (JOE) is reported; the overall yield achieved starting from isovanillin is 10 times higher (40% vs 4%) compared to the known procedure. Isomers (5- and 6-) are easily chromatographically separable as pentafluorophenyl esters of 3',6'-O-bis(cyclohexylcarbonyl) derivatives. Four non-nucleoside JOE phosphoramidites based on 5- and 6-isomers and flexible 6-aminohexanol (AH) or rigid 4-trans-aminocyclohexanol (ACH) linkers have been prepared and used for oligonucleotide labeling. Spectral and photophysical properties of 5'-JOE-modified oligonucleotides have been studied. Fluorescence quantum yield of the dye correlates with the nature of the linker (rigid vs flexible) and with the presence of dG nucleosides in close proximity to a JOE residue.