One-electron photooxidation and site-selective strand cleavage at 5-methylcytosine in DNA by sensitization with 2-methyl-1,4-naphthoquinone-tethered oligonucleotides

Photosensitized one-electron oxidation was applied to discriminate a specific base site of 5-methylcytosine (mC) generated in DNA possessing a partial sequence of naturally occurring p53 gene, using a sensitizing 2-methyl-1,4-naphthoquinone (NQ) chromophore tethered to an interior of oligodeoxynucleotide (ODN) strands. Photoirradiation and subsequent hot piperidine treatment of the duplex consisting of mC-containing DNA and NQ-tethered complementary ODN led to oxidative strand cleavage selectively at the mC site, when the NQ chromophore was arranged so as to be in close contact with the target mC. The target mC is most likely to be one-electron oxidized into the radical cation intermediate by the sensitization of NQ. The resulting mC radical cation may undergo rapid deprotonation and subsequent addition of molecular oxygen, thereby leading to its degradation followed by strand cleavage at the target mC site. In contrast to mC-containing ODN, ODN analogs with replacement of normal cytosine, thymine, adenine, or guanine at the mC site underwent less amount of such an oxidative strand cleavage at the target base site, presumably due to occurrence of charge transfer and charge recombination processes between the base radical cation and the NQ radical anion. Furthermore, well designed incorporation of the NQ chromophore into an interior of ODN could suppress a competitive strand cleavage at consecutive guanines, which occurred as a result of positive charge transfer. Thus, photosensitization by an NQ-tethered ODN led to one-electron oxidative strand cleavage exclusively at the target mC site, providing a convenient method of discriminating mC in naturally occurring DNA such as human p53 gene as a positive band on a sequencing gel.     

Synthesis and Characterization of Amphiphilic Biodegradable Copolymer,Poly(aspartic acid‐co‐lactic acid)

An amphiphilic biodegradable polymer, poly(aspartic acid‐co‐lactic acid) (PAL), was synthesized by simply heating a mixture of aspartic acid (Asp) and L ‐lactide without additional catalysts or solvents. The unique branched architecture comprising succinimide units and lactic acid units was confirmed by IR and NMR spectroscopy. A copolymer of sodium aspartate and lactic acid (PALNa) was prepared by reacting PAL with an aqueous sodium hydroxide solution. The PAL was soluble in many organic solvents, while the PALNa was soluble in methanol and water. The hydrolytic degradation behavior of PAL varied with the copolymer composition. A higher Asp content resulted in a faster molecular weight decrease, and introducing glycolic acid units accelerated the degradation rate.

Microphotograph of microsphere of PAL‐1/5.     

Simultaneous ultramicrodetermination of heterogeneous halogens in organic compounds

The simultaneous ultramicrodetermination of heterogeneous halogens in organic compounds was carried out by the potentiometric titration with 0.002 M silver nitrate after the sample was decomposed by the flask combustion method. In examination of the titration, it was found that clear potential break at the end point was obtained by controlling the delivery speed of the titrant at 0.2 ml/min or slower and the temperature of the solution to be titrated at ca. 10 °C when chloride ion is present. The error due to coprecipitation during the titration and the effect of the mole ratio of heterogeneous halide ions in the sample solution was examined and discussed. The analysis of organic halogen compounds resulted in an error of within 0.4% and standard deviation of less than 0.25%.     

Convergent synthesis of polycyclic ethers via the intramolecular allylation of alpha-acetoxy ethers and subsequent ring-closing metathesis

The Lewis acid mediated reaction of alpha-acetoxy ethers 15-22 gave the corresponding cyclized products 23, 25, 27, 29, 31, 32, 34, and 36 in good yields with high stereoselectivities. Those cyclized products were subjected to ring-closing metathesis to afford the polycyclic ethers 38-42, 44, and 45 in good yields. The usefulness of the present methodology was demonstrated by the convergent synthesis of the CDEF ring system of brevetoxin B (1) and the CDEFG ring system of gambierol (2).     

Synthesis of Star-Shaped Polymers via Coordination of Bipyridyl-Terminated Polyoxyethylene with Metal Ions

Abstract

This paper describes the synthesis of various star-shaped polymers by means of complexation of bipyridyl-terminated polyoxyethylene with Ru(II) ion. Three kinds of bipyridyl-terminated polyoxyethylenes of different molecular weights were prepared from the corresponding polyoxyethylene monomethyl ethers with narrow molecular weight distributions. Bipyridyl was found to be introduced quantitatively at the end of the polymers based on the results of UV spectra. The formation of a star-shaped polymer was carried out by the reaction of RuCl₃ with three equivalents of bipyridyl-terminated polyoxyethylene. The UV spectrum of the star-shaped polymer obtained supported the formation of a typical Ru(II) tris(bipyridyl) complex. From the results of GPC, the star-shaped polymer obtained had a higher molecular weight than the pre-polymer and showed a narrow molecular weight distribution. In the case of a Ni(II) or a Co(II) complex, however, the star-shaped polymer was found to be dissociated into three linear prepolymers under the conditions of GPC measurement.     

Counter-current chromatographic separation of nucleic acid constituents with a hydrophilic solvent system

Nucleic acid constituents such as nucleobases, nucleosides and nucleotides were separated by counter-current chromatography using type J coil planet centrifuge. The separation was performed with a hydrophilic solvent system composed of 1-propanol/800 mM potassium phosphate buffer (pH 7.4) (1:1, v/v) by eluting the lower aqueous phase at a flow-rate of 0.5 ml/min. Eight selected nucleic acid constituents (4.0 mg, 0.5 mg of each), uridine monophosphate (UMP), adenosine monophosphate (AMP), deoxyadenosine monophosphate (dAMP), uridine, urasile, deoxy uridine, adenosine and adenine were well resolved within 160 min.     

Structure and ethanol complexation of cyclic tetrasaccharide in aqueous solution studied by NMR and molecular mechanics

The structure and ethanol complexation of a cyclic tetrasaccharide (CTS) in aqueous solution were investigated by proton NMR spectroscopy and molecular mechanics calculations. Two glucose units, A and B, of CTS are alternatively bonded by alpha-1,3 and alpha-1,6 linkages. The overlapped signals of protons A5, A6S, A6R, B3, B6S and B6R were resolved by spectral simulations to determine their chemical shifts and vicinal coupling constants. All vicinal coupling constants except for the A5-A6 spin system are consistent with the dihedral angles in the X-ray crystal structure. Each of protons A5, A6S, and A6R in the two units of A is equivalent with respect to the chemical shift. The vicinal coupling constants of (3)J(5-6S) and (3)J(5-6R) for unit A are close to the average of two rotamers that are present in crystals. The intensities of cross-peaks in the rotating frame nuclear Overhauser effect spectroscopy (ROESY) spectrum were rather well correlated with the effective distances calculated for the X-ray structure and molecular mechanics structures calculated in vacuo and water, although they are slightly better correlated with molecular mechanics structure in vacuo than with the other structures. From the changes of the chemical shifts of several CTS protons with increasing ethanol concentration, it was suggested that adsorption sites of ethanol on the plate structure of CTS are protons B2 and B4 (site B) in the concave face side and protons A1 and A2 (site A) in the convex back side. The binding constants for sites A and B are 0.0061 and 0.0176 M(-1), respectively. These binding constants are much smaller than a value of 4.1 M(-1) for the ethanol-alpha-cyclodextrin complex.     

Structural Elucidation of an Elicitor-Active Oligosaccharide,LN-3, Prepared from Algal Laminaran

Abstract

The primary structure of an elicitor-active oligosaccharide, LN-3, prepared from partially hydrolyzed algal laminaran was determined by means of the analyses of glycosyl-linkage, fragments by acetolysis, and glycosyl-sequence. The elicitor-active oligosaccharide, LN-3, is a pyridylaminated hepta-β-d-glucoside which was shown to have the following linear structure: β-d-Glcp(1→6)-β-d-Glcp(1→3)-β-d-Glcp(1→3)-β-d-Glcp(1→3)-β-d-Glcp(1→6)-β-d-Glcp(1→3)-Glc-PA.     

Phenylselenenyl chloride in acetonitrile-water : A highly convenient reagent for hydroxyselenation of olefins and preparation of cyclic ethers from dienes

The reaction of phenylselenenyl chloride with olefins in aqueous acetonitrile affords β-hydroxyalkyl phenyl selenides in excellent yields, providing the most convenient method for hydroxyselenation of olefins so far reported. When the reaction was applied to conjugated dienes, monohydroxyselenated products were obtained in good to excellent yields. From non-conjugated dienes, on the other hand, cyclic ethers containing two phenylseleno groups were produced in good to excellent yields, the first step of this reaction being the hydroxyselenation of one double bond.