Development of a novel method for screening of estrogenic compounds using nano-sized bacterial magnetic particles displaying estrogen receptor

In this study, nano-sized bacterial magnetic particles (BMPs) displaying human estrogen receptor ligand binding domain (ERLBD) on the surface was successfully produced by the magnetic bacterium, Magnetospirillum magneticum AMB-1. Furthermore, a non-isotopic binding assay for estrogenic compounds using the BMPs displaying ERLBD was developed. A BMP membrane-specific protein, Mms16, was used as an anchor molecule to localize ERLBD on the surface of BMPs. ERLBD-BMP complexes were simply extracted by magnetic separation from ruptured AMB-1 transformants and used for the assay based on the competitive binding of alkaline phosphatase conjugated 17β-estradiol (ALP-E2) as a tracer. Dissociation constant of the receptor was 2.3 nM. Inhibition curves were evaluated by the decrease in luminescence intensity resulting from the enzymatic reaction of alkaline phosphatase. The overall simplicity of this receptor binding assay results in a method that can be easily adapted to a high throughput format. Moreover, this method can be integrated into a fully-automated ligand screening system using magnetic separation.     

Two-dimensional analysis of proteins specific to the bacterial magnetic particle membrane from Magnetospirillum sp. AMB-1

We report the identification of five proteins expressed specifically on the bacterial magnetic particle (BMP) membrane of Magnetospirillum sp. AMB-1. These proteins are major components of the BMP membrane. The molecular weights were determined to be 12.0, 16.0, 24.8, 35.6, and 66.2 kDa by sodium dodecyl sulfate polyacrylamide gel electrophoresis. Of these five, the 16.0-kDa protein was the most abundant in the BMP membrane. Furthermore, the 16.0-kDa protein consisted of two components each of differing pI. The 35.6-kDa protein was the second most abundant protein of the five detected.

     

A Method for Preparing Oligodeoxynucleotides Containing an Apurinic Site

In three steps, 2-deoxy-D -ribose has been converted into a phosphoramidite building block bearing a (t-Bu)Me₂Si protecting group at the OH function of the anomeric centre of the furanose ring. This building block was subsequently incorporated into DNA oligomers of various base sequences using the standard phosphoramidite protocol for automated DNA synthesis. The resulting silyl-oligomers have been purified by HPLC and selectively desilylated to the corresponding free apurinic DNA sequences. The hexamer d (A-A-A-A-X-A) (X representing the apurinic site) which was prepared in this way was characterized by ¹H- and ³¹P-NMR spectroscopy. The other sequences as well as their fragments, which formed upon treatment with alkali base, were analyzed by polyacrylamide gel electrophoresis.     

Prokaryotic Expression, Purification and Characterization of Aspergillus sulphureus β-Mannanase and Site-Directed Mutagenesis of the Catalytic Residues

Wild type (WT) DNA sequence, which encoded a mature β-mannanase of Aspergillus sulphureus, composed of 1,152 nucleotides (nt), was amplified from pUCm-T-mann by polymerase chain reaction (PCR). Based on this DNA fragment, mutants designated as E²⁰⁶G and E³¹⁴G were constructed by overextension PCR (OE-PCR). Glutamic acids of the 206th and 314th sites in the amino acid sequence of β-mannanase were separately replaced by glycine in these two mutants. The WT and mutant genes were ligated into prokaryotic vector pET-28a (+) and transformed into the Escherichia coli BL21 strain, respectively. The recombinant enzyme proteins were expressed by IPTG induction and detected by Western blot. The recombinant proteins purified with Ni-NTA column were dialyzed to correctly refold. The WT recombinant β-mannanase showed optimal activity at 50 °C and pH 2.4. The kinetic parameters of K _m and V _max for purified β-mannanase were 1.38 mg/ml and 72.99 U/mg, respectively. However, the mutant proteins did not show any activity. It was demonstrated that E²⁰⁶ and E³¹⁴ were the catalytic residues of β-mannanase.     

Synthesis of Deoxynucleoside Triphosphates that Include Proline,Urea, or Sulfonamide Groups and Their Polymerase Incorporation into DNA

To expand the chemical array available for DNA sequences in the context of in vitro selection, I present herein the synthesis of five nucleoside triphosphate analogues containing side chains capable of organocatalysis. The synthesis involved the coupling of L ‐proline‐containing residues (dU^tPTP and dU^cPTP), a dipeptide (dU^FPTP), a urea derivative (dU^BpuTP), and a sulfamide residue (dU^BsTP) to a suitably protected common intermediate, followed by triphosphorylation. These modified dNTPs were shown to be excellent substrates for the Vent (exo^?) and Pwo DNA polymerases, as well as the Klenow fragment of E. coli DNA polymerase I, although they were only acceptable substrates for the 9°N_m polymerase. All of the modified dNTPs, with the exception of dU^BpuTP, were readily incorporated into DNA by the polymerase chain reaction (PCR). Modified oligonucleotides efficiently served as templates for PCR for the regeneration of unmodified DNA. Thermal denaturation experiments showed that these modifications are tolerated in the major groove. Overall, these heavily modified dNTPs are excellent candidates for SELEX.     

Reactions of cyclic enehydrazino ketones with arylidenemalononitriles. Synthesis of 11-aryl-1-oxo-2,3,4,5,10b,11-hexahydro-1H-indolo[2,3-b]quinoline-10b-carbonitriles

A general and convenient method for the synthesis of 11-aryl-1-oxo-2,3,4,5,10b,11-hexahydro-1H-indolo[2,3-b]quinoline-10b-carbonitriles was elaborated. The method is based on the novel stereoselective rearrangement of fused N-arylamino-substituted 1,4-dihydropyridines. The structures of the synthesized compounds were studied using ¹H NMR spectroscopy and X-ray diffraction analysis.     

Warum Pentose- und nicht Hexose-Nucleinsäuren??. Teil II. Oligonucleotide aus 2′,3′-Dideoxy-β-D-glucopyranosyl-Bausteinen (‘Homo-DNS’): Herstellung.

Why Pentose and Not Hexose Nucleic Acids? Part II . Preparation of Oligonucleotides Containing 2′,3′-Dideoxy-β-D -glucopyranosyl Building Blocks⁽⁷⁾ This paper describes the preparation of the 2′,3′-dideoxy-β-D -glucopyranosyl-( = 2′,3′-dideoxy-β-D -erythro-hexopyranosyl)-derived nucleosides of the five bases adenine, cytosine, guanine, thymine, and uracil ( = ‘homo-de-oxyribonucleosides’) as well as the synthesis of oligonucleotides derived from them. The methods used for both nucleoside and oligonucleotide synthesis closely follow the known methods of synthesis in the corresponding series of natural 2′-deoxyribonucleosides and oligonucleotides. The efficient methods of automated DNA synthesis proved to be fully applicable to the synthesis of homo-DNA oligonucleotides, the only change necessary for achieving satisfactory coupling yields being a slight lengthening of the coupling time. Homo-DNA oligonucleotides with chain lengths of up to twelve nucleoside units were assembled on solid support either manually or on a commercial DNA synthesizer in scales of 0.4 μmol to as much as 200 μmol and were purified by either reversed-phase or ion-exchange HPLC to single-peak purity according to both chromatographic systems (estimated purity > 95%). The choice of the specific base sequences to be synthesized was determined primarily by the constitutional problems of base pairing that emerged from experimental observations made in the course of systematic studies of the pairing properties of homo-DNA oligonucleotides. About 100 homo-DNA sequences were prepared for this purpose. Their pairing properties will be described in Part III of this series; the present paper is restricted to the characterization of the purity and constitutional integrity of a few selected (single-stranded) oligonucleotides by ¹H-, ³¹P-, and ¹³C-NMR spectroscopy as well as by FAB and time-of-flight mass spectroscopy. The English Footnotes to Schemes 1–9, Fig. 1–12, and Table 1 provide an extension of this summary.     

LARGE MUTAGENIC LESIONS ARE INDUCED BY PHOTODYNAMIC THERAPY IN MURINE L5178Y LYMPHOBLASTS*

Abstract— Mutagenic lesions at the thymidine kinase locus (tk) in mouse lymphoma L5178Y (LY) cells treated with red light and either Photofrin (PF) or chloroaluminurn phthalocyanine (AIPc) as the photosensitizer were compared in the relatively photodynamic therapy (PDT)-sensitive strain LY-R16 and the relatively resistant strains LY-S1 and LY-SR1. Southern blot analysis revealed that 92% (36/39) of the PDT-induced thymidine kinase (TK ^?/-) mutants of strains LY-R16 and LY-SR1 lost the entire active tk allele. (Strain LY-S1 lacks a known tk polymorphism and has not been analyzed for loss of the active tk allele.) A decrease in galactokinase (GK) activity in the TK^?/- mutants has been taken as an indication that the mutagenic lesion extends from the tk gene to the closely linked galactokinase gene (gk). Using PF as the photosensitizer, GK activity was decreased in 45% of the LY-R16 mutants and in 22% of the LY-S1 and LY-SR1 mutants. With photoactivated AIPc, 59% of the TK ^?/- mutants of strains LY-S1 and LY-SR1 showed GK inactivation. (LY-R16 mutants were not analyzed because of the low LY-R16 mutant frequency induced by PDT with AlPc.) Thus, many of the TK^?/- mutants of LY cells induced by PDT with either PF or AlPc harbor multilocus lesions.     

DNA sensor by using electrochemiluminescence of acridinium ester initiated by tripropylamine

It was found that tripropylamine (TPA) could be used as a coreactant to initiate the electrochemiluminescence (ECL) of acridinium NHS ester (AE NHS) labels attached to DNA. The radicals generated in the electro-oxidation process of TPA reacted with AE NHS to form the excited N-methylacridone, giving rise to light emission. The AE/TPA ECL system was for the first time used as the detection system for developing an ECL-based DNA sensor. In the protocol, streptavidin-modified gold nanoparticles were firstly immobilized onto a thiol-treated gold electrode. The streptavidin could specifically interact with the biontinylated capture DNA. Afterwards, the target DNA and the AE-labeled report DNA were conjugated onto the electrode step by step due to the hybridization reactions, and a sandwich-type sensor was fabricated. The ECL signals of the sensor were obtained under pulse potential condition in alkaline solution containing 50.0 mmol L⁻¹ TPA. Under optimized experimental conditions, the linear range of the DNA sensor for the determination of the target DNA was from 5.0 × 10⁻¹⁵ to 5.0 × 10⁻¹² mol L⁻¹. The detection limit (S/N = 3) was 3.0 × 10⁻¹⁵ mol L⁻¹. Moreover, the sensor could specifically recognize the target DNA against one base-pair mismatched sequences, two base-pair mismatched sequences, and the noncomplementary sequences. It is of great application potential in clinic analysis.     

Stability of crown-ether complexes with alkali-metal ions in ionic liquid-water mixed solvents

Stability constants of sodium and cesium ion complexes with 18-crown-6 (18C6) and dibenzo-18-crown-6 (DB18C6) in N-butyl-4-methyl-pyridinium tetrafluoroborate [BMP][BF₄] aqueous solutions were measured using the ²³Na and ¹³³Cs NMR technique at 23 °C. To the best of our knowledge, the estimated values of stability constants reported in this study are the first such values given for ionic liquid solutions. The cationic exchange between the free and complexed species is rapid, and only formation of the 1:1 complexes [M(18C6)]⁺ and [M(DB18C6)]⁺ (M = Na⁺, Cs⁺) were observed. The complex formation constants demonstrated a strong dependence on the [BMP][BF₄] concentration. For [M(18C6)]⁺, in solutions with a 0.33–0.70 mole fraction of water in [BMP][BF₄], lg K values are found to be more than one unit higher than the lg K values measured in pure aqueous solutions, although no information concerning the influence of [BMP][BF₄] on the complex formation selectivity could be observed. DB18C6 complexes revealed significantly lower stability under the same conditions. An extrapolation to zero water content gave the lg K = 2.42 for [Cs(18C6)]⁺ in [BMP][BF₄]. It was discovered that when added to water, [BMP][BF₄] increases the solubility of crown ethers and decreases the solubility of alkali metal nitrates. Complex formation with crown ethers enhances the solubility of alkali metal salts in [BMP][BF₄].     

Citric acid production from raw glycerol by acetate mutants of Yarrowia lipolytica

Three acetate mutants of the yeast species Yarrowia lipolytica were screened using batch cultivation. The strain Y. lipolytica 1.31 was found to be the most suitable for citric acid production from raw glycerol, a by-product of biodiesel production from rapeseed oil. At the initial concentration of glycerol of 200 g dm⁻³, the citric acid production of 124.5 g dm⁻³, yield of 0.62 g g⁻¹, and productivity of 0.88 g dm⁻³ h⁻¹ were achieved. Presented at the 33rd International Conference of the Slovak Society of Chemical Engineering, Tatranské Matliare, 22–26 May 2006.     

Biomagnetic nanoparticle formation and application

Magnetospirillum sp. AMB-1 is a bacterium that synthesizes intracellular particles of magnetite (Fe₃O₄). A magA gene required for the synthesis of bacterial magnetic particles (BMPs) was isolated from this strain and its gene product (MagA protein) was characterized as an iron transport protein. Intracellular localization analysis of the MagA protein using magA–Luc fusion proteins showed that MagA protein is localized on the surface of the lipid bilayer covering the BMPs. One particular BMP-associated protein, designated MpsA, was also purified from this strain and characterized. By the fusion-protein method using mpsA-luc genes, it was demonstrated that Mps-protein is preferentially partitioned onto the BMP membrane. Furthermore, application of BMPs to immunoassay is also described.     

Development of microsatellite markers in<Emphasis Type="Italic"> Cannabis sativa</Emphasis> for DNA typing and genetic relatedness analyses

Microsatellite markers were developed for Cannabis sativa L. (marijuana) to be used for DNA typing (genotype identification) and to measure the genetic relationships between the different plants. Twelve different oligonucleotide probes were used to screen an enriched microsatellite library of Cannabis sativa in which 49% of the clones contained microsatellite sequences. Characterization of microsatellite loci in Cannabis revealed that GA/CT was the most abundant class of the isolated microsatellites representing 50% overall followed by GTT/CAA, AAG/TTC, and GAT/CTA representing 16%, 15%, and 10%, respectively. Eleven polymorphic STR markers were developed, three derived from dinucleotide motifs and eight from trinucleotide motifs. A total of 52 alleles were detected averaging 4.7 alleles/locus. The expected heterozygosity of the eleven loci ranged between 0.368 and 0.710 and the common probability of identical genotypes was 1.8×10^–7. The loci identified 27 unique profiles of the 41 Cannabis samples. The 11 microsatellite markers developed in this study were found to be useful for DNA typing and for assessing genetic relatedness in Cannabis.     

Asymmetric Synthesis of （R）- and （S）-Moprolol

A simple and effective procedure for the enantioselective synthesis of （R）- and （S）-moprolol was described. The key step was the asymmetric synthesis of enantiopure （R）- and （S）-guaifenesin, which were synthesized from enantioenriched （R）-3-chloro-l,2-propanediol and （S）-epichlorohydrin via kinetics of hydrolysis resolution of racemic epichlorohydrin by chiral Salen-Co^Ⅲ complex. The e.e. values of both the optical compounds were above 98%, and the chemical structures of the target compounds were confirmed by ^1H NMR, ^13C NMR, IR, and MS.     

Effect of copper and manganese ions on activities of laccase and peroxidases in three Pleurotus species grown on agricultural wastes

Copper (Cu²⁺) and manganese (Mn²⁺) ions influenced laccase (Lac) and peroxidase production in Pleurotus eryngii, Pleurotus ostreatus, and Pleurotus pulmonarius. In P. eryngii, the optimum Cu²⁺ concentration for Lac production was 1 mM and for peroxidases 10mM, and Mn²⁺ concentration of 5mM led to peaks of Lac and peroxidase activity. In P. ostreatus HAI 493, the highest level of Lac activity was at Cu²⁺ concentrations of 1 and 10 mM and Mn²⁺ concentration of 1mM, respectively. The absence of Cu²⁺ and Mn²⁺ caused the highest levels of peroxidase production. In P. ostreatus HAI 494, the highest level of Lac activity was at a Cu²⁺ concentration of 5 mM and at Mn²⁺ concentration of 1 mM, respectively. High levels of peroxidase activity were found in the medium without and with 1mM Cu²⁺, and at 1 and 5 mM Mn²⁺, respectively. In P. pulmonarius, the highest Lac activity was found in the presence of 5 mM Cu²⁺ and 5 mM Mn²⁺, respectively. The absence of Cu²⁺ and Mn²⁺ as well as their presence at a concentration of 1 mM led to the peaks of peroxidase activities.     

CYTOTOXIC AND MUTAGENIC EFFECTS OF THE PHOTODYNAMIC ACTION OF CHLOROALUMINUM PHTHALOCYANINE AND VISIBLE LIGHT IN L5178Y CELLS

Abstract The cytotoxic and mutagenic effects of chloroaluminum phthalocyanine (CAPC) plus red light have been measured in strains of L5178Y mouse lymphoma cells which differ in their DNA repair capacities. Strain LY-R, deficient in the excision repair of UV-induced dimers, was found to be relatively more sensitive to the cytotoxic effects of CAPC plus light, whereas strain LY-S, deficienl in the repair of DNA double-strand breaks, was more sensitive than strain LY-R to the mutagenic effects of the treatment. Mutation frequencies were measured in LY-S and LY-R sub-strains which were heterozygous or hemizygous at the thymidine kinase (tk) locus. The mutation frequency at the tk locus induced in the heterozygous strain LY-SI by CAPC plus light was lower than that induced by an equitoxic dose of ionizing radiation but similar to that induced by an equitoxic dose of UVC radiation: The mutation frequency at the F., dose of CAPC plus light was approximately 1100 per 10⁶ surviving cells. The induced frequency in strain LY-S1 was much higher than in either tk+l-heterozygous or ik+10 hemizygous strains of LY-R. The rate and extent of incorporation of CAPC by the LY-R strains was somewhat greater than for strain LY-S1 at early times after CAPC addition, but by the time the cells were irradiated (18 h after CAPC addition) the difference was not great enough to account for the difference in cytotoxicity. It is possible that the cytotoxic and mutagenic lesions differ and that either the quantities of the respective lesions induced or the efficiencies of repair of the respective lesions differ inversely in the two strains. light have been measured in strains of L5178Y mouse lymphoma cells which differ in their DNA repair capacities. Strain LY-R, deficient in the excision repair of UV-induced dimers, was found to be relatively more sensitive to the cytotoxic effects of CAPC plus light, whereas strain LY-S, deficienl in the repair of DNA double-strand breaks, was more sensitive than strain LY-R to the mutagenic effects of the treatment. Mutation frequencies were measured in LY-S and LY-R sub-strains which were heterozygous or hemizygous at the thymidine kinase (tk) locus. The mutation frequency at the tk locus induced in the heterozygous strain LY-SI by CAPC plus light was lower than that induced by an equitoxic dose of ionizing radiation but similar to that induced by an equitoxic dose of UVC radiation: The mutation frequency at the F., dose of CAPC plus light was approximately 1100 per 10⁶ surviving cells. The induced frequency in strain LY-S1 was much higher than in either tk+l-heterozygous or ik+10 hemizygous strains of LY-R. The rate and extent of incorporation of CAPC by the LY-R strains was somewhat greater than for strain LY-S1 at early times after CAPC addition, but by the time the cells were irradiated (18 h after CAPC addition) the difference was not great enough to account for the difference in cytotoxicity. It is possible that the cytotoxic and mutagenic lesions differ and that either the quantities of the respective lesions induced or the efficiencies of repair of the respective lesions differ inversely in the two strains.     

Polyfluorophore Labels on DNA: Dramatic Sequence Dependence of Quenching

We describe studies carried out in the DNA context to test how a common fluorescence quencher, dabcyl, interacts with oligodeoxynucleoside fluorophores (ODFs)—a system of stacked, electronically interacting fluorophores built on a DNA scaffold. We tested twenty different tetrameric ODF sequences containing varied combinations and orderings of pyrene (Y), benzopyrene (B), perylene (E), dimethylaminostilbene (D), and spacer (S) monomers conjugated to the 3′ end of a DNA oligomer. Hybridization of this probe sequence to a dabcyl‐labeled complementary strand resulted in strong quenching of fluorescence in 85 % of the twenty ODF sequences. The high efficiency of quenching was also established by their large Stern–Volmer constants (K_SV) of between 2.1×10⁴ and 4.3×10⁵ M ^?1, measured with a free dabcyl quencher. Interestingly, quenching of ODFs displayed strong sequence dependence. This was particularly evident in anagrams of ODF sequences; for example, the sequence BYDS had a K_SV that was approximately two orders of magnitude greater than that of BSDY, which has the same dye composition. Other anagrams, for example EDSY and ESYD, also displayed different responses upon quenching by dabcyl. Analysis of spectra showed that apparent excimer and exciplex emission bands were quenched with much greater efficiency compared to monomer emission bands by at least an order of magnitude. This suggests an important role played by delocalized excited states of the π stack of fluorophores in the amplified quenching of fluorescence.     

HPLC monitored synthesis of R2NCH2 substituted benzene derivatives used as (C,N)-ligands for organometallic compounds

2-(Diethylaminomethyl)phenyl bromide and 1,3-bis(dimethylaminomethyl)-benzene, useful ligands for the synthesis of hypervalent organometallic compounds, were prepared and characterized by NMR (¹H, ¹³C, 2D experiments) spectroscopy. Their synthesis was monitored by the HPLC method. The compounds were eluted on a Nucleosil 120 Si column (5 μm, 25×0.4 cm) with n-hexane at room temperature using a 1.0 ml/min flow-rate. The maximum values of absorbance for the studied compounds, excepting the diethylamine, were located in a narrow range around 212 nm, the wavelength used for their UV detection. The diethylamine was detected at 190 nm. The calibration curves are straight lines with correlation factors r>0.995. The HPLC data are in good agreement with those provided by NMR spectroscopy.     

聚四氟乙烯片基上寡核苷酸原位的合成及金标银染检测

Poly（tetrafluoroethylene） （PTFE） was treated with plasma in a mixture of nitrogen and hydrogen （1 ： 2 in volume）. X-ray photoelectron spectroscopy （XPS） demonstrated the success of amino group grafting. The as-treated PTFE slices were successively applied to the in situ synthesis of oligonucleotides. With the detection of gold-label-silver-stain, the hybridization signals were recorded with a gel document and analysis system. A target DNA concentration as low as 10 pmol/L could be detected. The complementary and mismatched sequences were distinguished clearly, and the ratio of background-subtracted gray scale values for perfect match ： 1 base mismatch ： 2 base mismatch ： 3 base mismatch was 72 ： 44.4 ： 22.5 ： 11.4. The sensitivity of in situ synthesis system was 1 order of magnitude higher than that of spotting system, and the signal of the former was about 1.5 times stronger than that of the latter under the same target DNA concentration. These plasma modified PTFE slices might open novel prospects for the in situ synthesis of DNA micro-arrays.