Quantitative microarray profiling of DNA-binding molecules

A high-throughput Cognate Site Identity (CSI) microarray platform interrogating all 524 800 10-base pair variable sites is correlated to quantitative DNase I footprinting data of DNA binding pyrrole-imidazole polyamides. An eight-ring hairpin polyamide programmed to target the 5 bp sequence 5'-TACGT-3' within the hypoxia response element (HRE) yielded a CSI microarray-derived sequence motif of 5'-WWACGT-3' (W = A,T). A linear beta-linked polyamide programmed to target a (GAA)3 repeat yielded a CSI microarray-derived sequence motif of 5'-AARAARWWG-3' (R = G,A). Quantitative DNase I footprinting of selected sequences from each microarray experiment enabled quantitative prediction of Ka values across the microarray intensity spectrum.     

Organometallic complexes for nonlinear optics. 41: Syntheses and quadratic NLO properties of 4-{4-(4-nitrophenyl)diazophenyl}ethynylphenylethynyl complexes

The syntheses of [Au(CC-4-C₆H₄CC-4-C₆H₄NN-4-C₆H₄NO₂)(PPh₃)] (3), trans-[Ru(CC-4-C₆H₄-CC-4-C₆H₄NN-4-C₆H₄NO₂)Cl(dppm)₂] (4), [Ru(CC-4-C₆H₄CC-4-C₆H₄NN-4-C₆H₄NO₂)(dppe)(η-C₅Me₅)] (5), and [Ni(CC-4-C₆H₄NN-4-C₆H₄NO₂)(PPh₃)(η-C₅H₅)] (6) are reported, together with a single-crystal X-ray diffraction study of 4. Quadratic nonlinearities for 3–6 and [Ru(CC-4-C₆H₄NO₂)(dppe)(η-C₅Me₅)] (7) have been determined at 1.064 μm and 1.300 μm by the hyper-Rayleigh scattering (HRS) technique, comparison to related complexes revealing that β values increase on introduction of azo group and π-system lengthening.     

Hydroamination of Dihapto-Coordinated Benzene and Diene Complexes of Tungsten: Fundamental Studies and the Synthesis of γ-Lycorane

Reactions are described for complexes of the form WTp(NO)(PMe₃)(η²-arene) and various amines, where the arene is benzene or benzene with an electron-withdrawing substituent (CF₃, SO₂Ph, SO₂Me). The arene complex is first protonated to form an η²-arenium species, which then selectively adds the amine. The resulting η²-5-amino-1,3-cyclohexadiene complexes can then be subjected to the same sequence with a second nucleophile to form 3-aminocyclohexene complexes, where up to three stereocenters originate from the arene carbons. Alternatively, 1,3-cyclohexadiene complexes containing an ester group at the 5 position (also prepared from an arene) can be treated with acid followed by an amine to form trisubstituted 3-aminocyclohexenes. When the amine is primary, ring closure can occur to form a cis-fused bicyclic γ-lactam. Highly functionalized cyclohexenes can be liberated from the tungsten through oxidative decomplexation. The potential utility of this methodology is demonstrated in the synthesis of the alkaloid γ-lycorane. An enantioenriched synthesis of a lactam precursor to γ-lycorane is also described. This compound is prepared from an enantioenriched version of the tungsten benzene complex. Regio- and stereochemical assignments for the reported compounds are supported by detailed 2D-NMR analysis and 13 molecular structure determinations (SC-XRD).     

Incorporation of Phytoremediation Strategies into the Introductory Chemistry Laboratory

An undergraduate laboratory exercise appropriate for introductory chemistry courses at the high school or college level is presented. The objective of the laboratory is to introduce the idea that plants can be used to remove contaminants from the environment–a process called phytoremediation. This laboratory connects the disciplines of chemistry and biology while enabling students to learn the skills of measurement, titration, calculation of molarity of an unknown solution, graphing, and interpretation of data.     

Labdanes: antifungal compounds isolates from the resinous exudate of Madia sativa against Phytophthora cinnamomi Rands

Abstract

In this study, resinous exudate from Madia sativa was analyzed by GC-MS. The major bioactive compounds 13,14,15-trihydroxylabd-7-ene (14) and 3,14,15-trihydroxylabd-8-ene (15) were isolated and their structures were determined by NMR. The antifungal activity of the resinous exudate and the labdanes compounds was evaluated using the inhibitory effects on the mycelial growth of plant pathogen Phytophthora cinnamomi causing root rot of various crops. The evaluation of the resinous exudate showed no inhibition over 50% at 75?mg/L, while compound 15 had the stronger effect on the myceliar growth of P. cinnamomi, with a 94.6% inhibition at 175?mg/L. The same way, the mixture of both compounds in equal parts did not show a synergistic effect but showed similar percentages of mycelial growth inhibition from 25?mg/L with respect to the compounds separately.     

Synthesis and Fungicidal Activity of Hydrated Geranylated Phenols against Botrytis cinerea

Botrytis cinerea is a ubiquitous fungus that affects hundreds of plants, resulting in economic losses to the horticulture and fruit industry. The search for new antifungal agents is a matter of current interest. Thus, in this work a series of geranylated phenols in which the side alkyl chain has been hydrated have been synthesized, and their activity against B. cinerea has been evaluated. The coupling of phenol and geraniol has been accomplished under microwave irradiation obtaining the highest reaction yields in the shortest reaction times. Hydration of the side chain was carried out in dioxane with p-toluenesulfonic acid polymer-bound as the catalyst. All synthesized compounds were tested against B. cinerea using the growth inhibition assay and EC₅₀ values were determined. The results show that activity depends on the number and nature of functional groups in the phenol ring and hydration degree of the geranyl chain. The most active compound is 1,4-dihydroquinone with one hydroxyl group attached at the end of the alkyl chain. Results from a molecular docking study suggest that hydroxyl groups in the phenol ring and alkyl chain are important in the binding of compounds to the active site, and that the experimental antifungal activity correlates with the number of H-bond that can be formed in the binding site.     

Design, synthesis and evaluation of a fluorescent peptidyl sensor for the selective recognition of arsenite

A series of fluorescently labelled phytochelatin-like peptide sequences has been designed and synthesised as molecules with the ability both to bind to arsenite and to report this binding event. The peptides have been evaluated against a panel of biologically significant ions. The results of these initial studies are reported herein, and a structure which displays selectivity for As(III) over As(V) and other anions has been identified.     

Dendrimer influenced supramolecular structure formation of block copolymers: II. Dendrimer concentration dependence

The dendrimer concentration dependence of the supramolecular structure formation of polystyrene-block-poly(acrylic acid) in dioxane/THF was investigated as a function of water content. The distribution as well as the localization of the dendrimer units inside the formed aggregates were determined by comparative studies of turbidity measurements and transmission electron microscopy. The strong and specific interactions present between the amine groups of the dendrimer (PAMAM) and the carboxylic acid residues of PAA in the copolymer have a strong influence on the structure formation. The PAMAM concentration as well as the character of the terminal groups of the dendrimer influence the strength of these interactions and consequently affect the structure formation process. As shown by fluorescence quenching experiments, on all supramolecular hierarchical structure levels, and specifically in vesicles, the dendrimer is coated by the PAA chains of the block copolymer due to the strong interactions; since the PAA blocks are connected to the PS blocks, which form the corona, the dendrimer is surrounded by PS chains and is thus encapsulated into the hydrophobic regions of the block copolymer aggregates. A high-resolution transmission electron microscopy image of a micelle is shown, in which the individual dendrimer cores are seen to be localized in the center of these aggregates, and thus, the structure proposed in the previous publication (Kroeger, A.; Li, X.; Eisenberg, A. Langmuir 2007, 23, 10732) is confirmed. Furthermore, the sizes of the resulting aggregates depend on the relative concentration of dendrimer, expressed as RAm/Ac (the ratio of amine to acid groups). With increasing RAm/Ac values, not only the sizes of the micelles but also the vesicle dimensions, especially vesicle wall thicknesses, increase, and this effect suggests the encapsulation of the dendrimer into the vesicle walls. Thus, the constitution of the vesicle structure is determined precisely. This feature allows the potential incorporation of a wide range of species into the vesicle walls or the center of the micelle cores.     

Dendrimer-influenced supramolecular structure formation of block copolymers

The water content-dependent supramolecular structure formation of polystyrene-block-poly(acrylic acid) (PS-b-PAA) copolymer in the presence of a fourth-generation amine-terminated poly(amido amine) dendrimer (PAMAM) is investigated by dynamic light scattering, turbidity measurements, and transmission electron microscopy. The solvent system for this study is a mixture of dioxane/THF and water. A very complex turbidity profile is observed with increasing water content in the system and is explained by the presence of various aggregated structures based on strong interactions between the amine-containing dendrimers and the poly(acrylic acid) blocks of the polymer. The onset of the self-assembly of single chains of PS-b-PAA (primary structure) into single and multiple dendrimer core inverse micelles (secondary structure) is detected as very low water contents of cw < 2% wt (cwc). These micelles consist of dendrimers coated with PAA blocks, which are connected to the corresponding PS chains that form the corona. Further addition of water leads to an association of these micelles into compound multiple dendrimer core inverse micelles (tertiary structure) in the range of cw = approximately 6 to approximately 10% wt. At still higher water content, some of the acrylic acid chains of the block copolymer move from the vicinity of the dendrimer to the outside of the aggregates, resulting in a decrease in the size of the formed structures and the acquisition of progressively increasing hydrophilic character of the aggregates. Multiple dendrimer core inverse onion micelles are formed, which agglomerate into compound multiple dendrimer core inverse onion micelles at cw = approximately 12 to approximately 18% wt. Above this water content, vesicular structures are formed. The complexity is unusual for block copolymer systems and illustrates the importance of strong interactions in structure formation.