Cleaving DNA with DNA: Cooperative Tuning of Structure and Reactivity Driven by Copper Ions.

A copper-dependent self-cleaving DNA (DNAzyme or deoyxyribozyme) previously isolated by in vitro selection has been analyzed by a combination of Molecular Dynamics (MD) simulations and advanced Electron Paramagnetic Resonance (Electron Spin Resonance) EPR/ESR spectroscopy, providing insights on the structural and mechanistic features of the cleavage reaction. The modeled 46-nucleotide deoxyribozyme in MD simulations forms duplex and triplex sub-structures that flank a highly conserved catalytic core. The DNA self-cleaving construct can also form a bimolecular complex that has a distinct substrate and enzyme domains. The highly dynamic structure combined with an oxidative site-specific cleavage of the substrate are two key-aspects to elucidate. By combining EPR/ESR spectroscopy with selectively isotopically labeled nucleotides it has been possible to overcome the major drawback related to the "metal-soup" scenario, also known as "super-stoichiometric" ratios of cofactors versus substrate, conventionally required for the DNA cleavage reaction within those nucleic acids-based enzymes. The focus on the endogenous paramagnetic center (Cu2+) here described paves the way for analysis on mixtures where several different cofactors are involved. Furthermore, the insertion of cleavage reaction within more complex architectures is now a realistic perspective towards the applicability of EPR/ESR spectroscopic studies.

Synergistic topological and supramolecular control of Diels-Alder reactivity based on a tunable self-complexing host-guest molecular switch.

Compartmentalization and binding-triggered conformational change regulate many metabolic processes in living matter. Here, we have synergistically combined these two biorelevant processes to tune the Diels-Alder (DA) reactivity of a synthetic self-complexing host-guest molecular switch CBPQT4+ -Fu, consisting of an electron-rich furan unit covalently attached to the electron-deficient cyclobis(paraquat-p-phenylene) tetrachloride (CBPQT4+ , 4Cl- ) host. This design allows CBPQT4+ -Fu to efficiently compartmentalize the furan ring inside its host cavity in water, thereby protecting it from the DA reaction with maleimide. Remarkably, the self-complexed CBPQT4+ -Fu can undergo a conformational change through intramolecular decomplexation upon the addition of a stronger binding molecular naphthalene derivative as a competitive guest, triggering the DA reaction upon addition of a chemical regulator. Remarkably, connecting the guest to a thermoresponsive lower critical solution temperature (LCST) copolymer regulator controls the DA reaction on command upon heating and cooling the reaction media beyond and below the cloud point temperature of the copolymer, representing a rare example of decreased reactivity upon increasing temperature. Altogether, this work opens up new avenues towards combined topological and supramolecular control over reactivity in synthetic constructs, enabling control over reactivity through molecular regulators or even mild temperature variations.

Cyclodextrins Initiated Ring-Opening Polymerization of Lactide Using 4-Dimethylaminopyridine (DMAP) as Catalyst: Study of DMAP/ß-CD Inclusion Complex and Access to New Structures.

Cyclodextrins (CDs) are cyclic oligosaccharides used in many fields. Grafting polymers onto CDs enables new structures and applications to be obtained. Polylactide (PLA) is a biobased, biocompatible aliphatic polyester that can be grafted onto CDs by -OH-initiated ring-opening polymerization. Using 4-dimethylaminopyridine (DMAP) as an organocatalyst, a quantitative functionalization is reached on native α-, ß-, γ- and 2,3-dimethyl- ß-cyclodextrins. Narrow molecular weight distributions are obtained with the native CDs (dispersity < 1.1). The DMAP/ß-CD combination is used as a case study, and the formation of an inclusion complex (1/1) is shown for the first time in the literature, which is fully characterized by NMR. The inclusion of DMAP into the cavity occurs via the secondary rim of the ß-CD and the association constant (Ka) is estimated to be 88.2 M-1. Its use as an initiator for ring-opening polymerization leads to a partial functionalization efficiency, and thus a more hydrophilic ß-CD-PLA conjugate than that obtained starting from native ß-CD. Polymerization results including also the use of the adamantane/ß-CD inclusion complex as an initiator suggest that inclusion of the DMAP catalyst into the CD may not occur during polymerization reactions. Rac-lactide does not form an inclusion complex with ß-CD.

Lactide Lactone Chain Shuttling Copolymerization Mediated by an Aminobisphenolate Supported Aluminum Complex and Al(OiPr)3: Access to New Polylactide Based Block Copolymers.

The chain shuttling ring-opening copolymerization of l-lactide with ε-caprolactone has been achieved using two aluminum catalysts presenting different selectivities and benzyl alcohol as chain transfer agent. A newly synthesized aminobisphenolate supported aluminum complex affords the synthesis of lactone rich poly(l-lactide-co-lactone) statistical copolymeric blocks, while Al(OiPr)3 produces semicrystalline poly(l-lactide) rich blocks. Transalkoxylation is shown to operate efficiently. The crystalline ratios and glass transition temperatures of these new classes of polylactide based block copolymers can be tuned by adjusting the catalysts and the comonomers ratio.

Competition between Cation-Solvent and Cation-Anion Interactions in Imidazolium Ionic Liquids with Polar Aprotic Solvents.

The subtle interplay between ion solvation and association was analyzed in mixtures of imidazolium-based ionic liquids (ILs) with polar aprotic solvents. A site-specific pattern of cation-solvent and cation-anion interactions was disclosed by a careful analysis of the 1 H and 13 C NMR chemical shift dependence of the mixture composition. It was established that the less polar but more donating γ-butyrolactone is more prone to establish H-bonds with the imidazolium-ring hydrogen atoms of the IL cations than propylene carbonate, particularly at the H2 site and at high dilutions xIL <0.1. The H2 site was found to be more sensitive to intermolecular interactions compared to H4, 5 in the case of ILs with asymmetric anions like trifluoromethanesulfonate (TfO- ) or bis(trifluoromethylsulfonyl)amide (TFSA- ).

Layer-by-layer coating of textile with two oppositely charged cyclodextrin polyelectrolytes for extended drug delivery.

The coating of a nonwoven textile by polyelectrolyte multilayer film (PEM) issued from cationic and anionic ß-cyclodextrin (ßCD) polyelectrolytes according to the layer-by-layer (LbL) technique was successfully attempted. The tert-butyl benzoic acid (TBBA) was used as drug model to evaluate the loading capacity and sustained release properties of this PEM system. The build-up of the multilayer assembly was monitored in situ by optical waveguide lightmode spectroscopy (OWLS) on the one hand, and was assessed by gravimetry on the other hand when applied onto the textile substrate. In parallel, the complexation study of TBBA with both CD polyelectrolytes was also investigated by nuclear magnetic resonance (NMR) and isothermal titration calorimetry (ITC). The influence of thermal crosslinking of the multilayered coating on its stability and on TBBA release kinetics in phosphate buffered saline (PBS) at 37°C was studied. Finally, biological and microbiological tests were performed to investigate the cytocompatibility and the intrisic antibacterial activity of multilayer assemblies. © 2016 Wiley Periodicals, Inc. J Biomed Mater Res Part A: 104A: 1408-1424, 2016.

Probing structural patterns of ion association and solvation in mixtures of imidazolium ionic liquids with acetonitrile by means of relative (1)H and (13)C NMR chemical shifts.

Mixtures of ionic liquids (ILs) with polar aprotic solvents in different combinations and under different conditions (concentration, temperature etc.) are used widely in electrochemistry. However, little is known about the key intermolecular interactions in such mixtures depending on the nature of the constituents and mixture composition. In order to systematically address the intermolecular interactions, the chemical shift variation of (1)H and (13)C nuclei has been followed in mixtures of imidazolium ILs 1-n-butyl-3-methylimidazolium tetrafluoroborate (BmimBF4), 1-n-butyl-3-methylimidazolium hexafluorophosphate (BmimPF6), 1-n-butyl-3-methylimidazolium trifluoromethanesulfonate (BmimTfO) and 1-n-butyl-3-methylimidazolium bis(trifluoromethylsulfonyl)imide (BmimTFSI) with molecular solvent acetonitrile (AN) over the entire composition range at 300 K. The concept of relative chemical shift variation is proposed to assess the observed effects on a unified and unbiased scale. We have found that hydrogen bonds between the imidazolium ring hydrogen atoms and electronegative atoms of anions are stronger in BmimBF4 and BmimTfO ILs than those in BmimTFSI and BmimPF6. Hydrogen atom at position 2 of the imidazolium ring is substantially more sensitive to interionic hydrogen bonding than those at positions 4-5 in the case of BmimTfO and BmimTFSI ILs. These hydrogen bonds are disrupted upon dilution in AN due to ion dissociation which is more pronounced at high dilutions. Specific solvation interactions between AN molecules and IL cations are poorly manifested.

Bis(phenolate)amine-supported lanthanide borohydride complexes for styrene and trans-1,4-isoprene (co-)polymerisations.

New bis(phenolate)amine-supported neodymium borohydride complexes and their previously reported samarium analogues were tested as catalysts for the polymerisation of styrene and isoprene. Reaction of Na2O2N(L) (L = py, OMe, NMe2) with Nd(BH4)3(THF)3 afforded the borohydride complexes Nd(O2N(L))(BH4)(THF) (L = py (1-Nd), OMe (2-Nd), NMe2 (3-Nd)). Complex 1-Nd has shown a propensity to form phenolate-O-bridged dimer [Nd(µ-O2N(py))(BH4)]2 (1'-Nd) as previously observed with the samarium analogues Sm(O2N(L))(BH4)(THF) (L = py or Pr). X-ray structures of 1'-Nd and 2-Nd were determined and are presented. The neodymium borohydride complexes 1-Nd to 3-Nd and their samarium analogues Sm(O2N(L))(BH4)(THF)x (L = py (1-Sm), OMe (2-Sm), NMe2 (3-Sm), Pr (4-Sm)) were tested as catalysts for the polymerisation of isoprene and styrene in the presence of n-butylethylmagnesium (Mg((n)Bu)(Et)). All complexes were found to be active for the polymerisation of isoprene in these conditions, leading to polyisoprene up to 95.1% trans-1,4 stereoregular. They were also found to be active for the polymerisation of styrene leading to atactic polystyrene in all cases. Interestingly, samarium-based complexes were found to be more active than the neodymium ones toward this latter monomer, in sharp contrast to what is usually observed with rare earth borohydride complexes. The structure of both trans-polyisoprenes and polystyrenes obtained were studied in detail by MALDI-ToF analysis in order to better understand the polymerisation mechanisms. The coordinative chain transfer polymerisation (CCTP) of both monomers was further conducted using Mg((n)Bu)(Et) as transfer agent. Finally, the statistical copolymerisation of isoprene and styrene was examined using these catalytic systems, leading to the formation of poly[(trans-1,4-isoprene)-co-styrene] with up to 39% of styrene moieties inserted in a highly trans-1,4-stereoregular polyisoprene.

Translational diffusion in mixtures of imidazolium ILs with polar aprotic molecular solvents.

Self-diffusion coefficients of cations and solvent molecules were determined with (1)H NMR in mixtures of 1-n-butyl-3-methylimidazolium (Bmim(+)) tetrafluoroborate (BF4(-)), hexafluorophosphate (PF6(-)), trifluoromethanesulfonate (TfO(-)), and bis(trifluoromethylsulfonyl)imide (TFSI(-)) with acetonitrile (AN), γ-butyrolactone (γ-BL), and propylene carbonate (PC) over the entire composition range at 300 K. The relative diffusivities of solvent molecules to cations as a function of concentration were found to depend on the solvent but not on the anion (i.e., IL). In all cases the values exhibit a plateau at low IL content (x(IL) < 0.2) and then increase steeply (AN), moderately (γ-BL), or negligibly (PC) at higher IL concentrations. This behavior was related to the different solvation patterns in the employed solvents. In BmimPF6-based systems, anionic diffusivities were followed via (31)P nuclei and found to be higher than the corresponding cation values in IL-poor systems and lower in the IL-rich region. The inversion point of relative ionic diffusivities was found around equimolar composition and does not depend on the solvent. At this point, a distinct change in the ion-diffusion mechanism appears to take place.

Programmable polymer-based supramolecular temperature sensor with a memory function.

A new class of polymeric thermometers with a memory function is reported that is based on the supramolecular host-guest interactions of poly(N-isopropylacrylamide) (PNIPAM) with side-chain naphthalene guest moieties and the tetracationic macrocycle cyclobis(paraquat-p-phenylene) (CBPQT(4+)) as the host. This supramolecular thermometer exhibits a memory function for the thermal history of the solution, which arises from the large hysteresis of the thermoresponsive LCST phase transition (LCST = lower critical solution temperature). This hysteresis is based on the formation of a metastable soluble state that consists of the PNIPAM-CBPQT(4+) host-guest complex. When heated above the transition temperature, the polymer collapses, and the host-guest interactions are disrupted, making the polymer more hydrophobic and less soluble in water. Aside from providing fundamental insights into the kinetic control of supramolecular assemblies, the developed thermometer with a memory function might find use in applications spanning the physical and biological sciences.

Inhomogeneous distribution in methanol/acetone mixture: vibrational and NMR spectroscopy analysis.

The main aim of this paper is to quantify the inhomogeneous distribution of the components of acetone/methanol mixture and to give detailed insight into the interplay between the dipole-dipole and hydrogen bonding interactions inducing this inhomogeneity. To this end, we used the concept of infrared excess molar absorption of a given vibrational mode as an observable which contains all the information on the collective interactions in the mixture. Indeed, the changes in the infrared excess molar absorption may be associated with the inhomogeneous distribution (clustering, self-association, or high-density domains) of the components and consequently with the interaction between the two components of the mixture. The results show that acetone molecules are not homogeneously distributed in the mixture, particularly in the mole fraction range of acetone between 0.05 and 0.55. The spectral signature of this inhomogeneity is associated with the appearance of a shoulder in the C═O and C-C stretching vibrational profiles of acetone. This inhomogeneity is driven by the prevalence of the dipole-dipole interactions over those of hydrogen bonding between acetone and methanol molecules. The inhomogeneous distribution of methanol molecules is found to occur in the mole fraction range of acetone between 0.55 and 1. In this case, the hydrogen bond interactions between methanol molecules prevail over those between methanol and acetone. However, the extent of this inhomogeneity is small compared with that of acetone in the low mole fraction range. The spectral signature of this inhomogeneity is not visible in the O-H stretching vibrational mode; however, a second peak appears as a shoulder of the C-O stretching vibrational mode in this range of acetone mole fraction.

Elaboration of thermoresponsive supramolecular diblock copolymers in water from complementary CBPQT4+ and TTF end-functionalized polymers.

A well-defined poly(N-isopropyl acrylamide) 1 incorporating at one termini a cyclobis(paraquat-p-phenylene) (CBPQT(4+)) recognition unit is prepared via a RAFT polymerization followed by a copper-catalyzed azide-alkyne cycloaddition (CuAAC). (1)H NMR (1D, DOSY), UV-vis and ITC experiments reveal that polymer 1 is able of forming effective host-guest complexes with tetrathiafulvalene (TTF) end-functionalized polymers in water, thereby leading to the formation of non-covalently-linked double-hydrophilic block copolymers. The effect of the temperature on both the LCST phase transition of 1 and its complexes and on CBPQT(4+)/TTF host-guest interactions is investigated.

Multilayered textile coating based on a ß-cyclodextrin polyelectrolyte for the controlled release of drugs.

The aim of this work was to develop the formation of multilayered coating incorporating a cyclodextrin polyelectrolyte onto a non-woven polyethylene terephthalate (PET) textile support in order to obtain reservoir and sustained release properties towards bioactive molecules. We optimized the multilayer assembly immobilization onto the PET surface according to the layer-by-layer (LbL) deposition process. After a pre-treatment of the textile support aiming to offer a sufficient ionic character to the surface, it was alternatively immersed into two polyelectrolytes aqueous solutions consisting of chitosan (CHT) as polycation on the one hand, and a ß-cyclodextrin polymer (polyCTR-ßCD) as polyanion on the other hand. In a second approach, a TBBA/polyCTR-ßCD complex (4-tert-butylbenzoic acid, TBBA) was used in order to load the system with a drug model whose kinetics of release was assessed. Gravimetry, microscopy, OWLS, colorimetric titration, infrared and zetametry were used as characterization techniques. An effective deposition on the textile surface due to ionic interactions with alternation of up to 10 layers of each of both polyelectrolytes was clearly evidenced. However, we observed that layer formation occurred to a lesser extent when TBBA/polyCTR-ßCD complex was applied instead of polyCTR-ßCD alone. The release study showed that drug reservoir properties and release kinetics could be controlled by the number of layers in the system and that TBBA release was faster than the multilayered coating degradation.

Tuning the catalytic properties of rare earth borohydrides for the polymerisation of isoprene.

Previous results obtained for the cis-polymerisation of isoprene with scandium half-sandwich complex Cp*Sc(BH(4))(2)(THF) 1a were extended to its neodymium analog. The X-ray structure of the already reported neodymium monomer compound Cp*Nd(BH(4))(2)(THF)(2) 1b is presented. Cp*Nd(BH(4))(2)(THF)(2)/[CPh(3)][B(C(6)F(5))(4)]/Al((i)Bu)(3) catalytic system was found to be very active and stereoselective towards isoprene polymerisation, leading to highly 1,4-cis polyisoprene up to 92%. The effect on isoprene polymerisation of the addition of a NHC molecule to Cp*Ln(BH(4))(2)(THF)(n) pre-catalyst (Cp* = η(5)-C(5)Me(5), Ln = Sc, n = 1, 1a; Nd, n = 2, 1b; Sm, n = 2, 1c) or to a trisborohydride Ln(BH(4))(3)(THF)(n) (Ln = Sc, n = 1.5, 2a; Nd, n = 3, 2b; Sm, n = 3, 2c) was also studied. Several NHC ligands were assessed: the classical [1-C{(N(t)BuCH)}(2)] (L(1)) and functional N-heterocyclic carbenes, two amino-tethered HNBu(t)CH(2)CH(2)[1-C{N(CHCH)NR}] (HL(2-R)) (R = (t)Bu, Mes (Mes = 2,4,6-Me(3)-C(6)H(2))) and the hydroxyl-tethered HOCMe(2)CH(2)[1-C{N(CHCH)N(i)Pr}] (HL(3)). Neodymium-based complex (L(2-tBu))Nd(BH(4))(2)(THF)(2) 3 could be isolated and characterized. With some of the catalytic combinations tested, the introduction of the NHC ligand in the coordination sphere of the complex induces a switch of the stereoselectivity of the resulting polymer. Scandium complex 2a, which produces mainly 1,4-cis polyisoprene when associated to a borate activator and aluminum alkyl, leads to 1,4-trans polymer up to 94% regular when HL(2-tBu) carbene is added to the same reaction mixture. This result is the only example of highly trans-polyisoprene synthesized with a scandium based catalyst. Coordination of the carbene moiety to the rare earth centre is confirmed by NMR studies on paramagnetic neodymium pre-catalysts.

LCST: a powerful tool to control complexation between a dialkoxynaphthalene-functionalised poly(N-isopropylacrylamide) and CBPQT(4+) in water.

We describe the application of the LCST of a naphthalene-functionalised polyNIPAM derivative as a convenient, tuneable and reversible method to disrupt complex formation with CBPQT(4+) in water.

Probing the solvent-induced tautomerism of a redox-active ureidopyrimidinone.

A ferrocene-functionalised ureidopyrimidinone has been synthesised that can signal the solvent-induced tautomerism of the dimeric 4[1H]-pyrimidinone form to the monomeric 6[1H]-pyrimidinone form.

A tuneable self-complexing molecular switch.

[reaction: see text] A new self-complexing donor-acceptor system has been synthesized that has the propensity to undergo intramolecular decomplexation under thermal and electrochemical perturbation and upon addition of a competitive guest for the cyclophane's cavity.

Structural investigations of pyridin-4-yl indolizine modified beta-cyclodextrin derivatives as fluorescent chemosensors for organic guest molecules.

In order to investigate the substituent effects on their conformations and spectroscopic properties, a series of pyridin-4-ylindolizine modified beta-cyclodextrin derivatives were studied by 2D NMR (ROESY spectra) in D2O, circular dichroïsm, and fluorescence spectroscopy. It was found that the linked indolizin-beta-cyclodextrin compounds exhibited two types of conformations, as a function of the substituent, in which fluorescent moieties formed either an intramolecular complex or were not included in the hydrophobic cavity of the macrocycle. Under addition of organic guest species in a phosphate buffer at neutral pH, the variation of emission fluorescence intensity showed that these compounds are of significance for detection of volatile organic molecules and adamantane derivatives and might be used as molecular chemosensor.

DNA modification by oxovanadium(IV) complexes of salen derivatives.

Oxovanadium(IV) complexes of hydroxysalen derivatives have been prepared and tested as DNA reactive agents. The nuclease activity has been investigated under oxidative or reducing conditions, on the basis of the various oxidation states of vanadium: V(III), V(IV) and V(V). In the absence of an activating agent, none of the compounds tested was able to induce cleavage of DNA, whereas in the presence of mercaptopropionic acid (MPA) or Oxone the four complexes induced DNA modifications. Under both conditions, the para-hydroxy complex was found to be the most active compound. Reaction of these salen complexes with DNA occurs essentially at guanine residues and is more efficient in the presence of Oxone than under reducing conditions. The extent of Oxone-mediated DNA oxidation by the four vanadyl complexes was clearly superior to VOSO(4) and was observed without piperidine treatment. EPR studies provided information on the reactive metal-oxo species involved under each conditions and a mechanism of reaction with DNA is discussed.

Novel 4,5-diaryl-3-hydroxy-2(5H)-furanones as anti-oxidants and anti-inflammatory agents.

In order to study the effect of phenol moieties on biological activities of ascorbic acid derivatives, we synthesized 13 novel 4,5-diaryl-3-hydroxy-2(5H)-furanones 5a-m with various substitution patterns. Compound 5 g bearing a 2,3-dihydroxy phenyl ring on the 5-position of the heterocycle appeared to be the most powerful anti-oxidant furanone with reducing activity against DPPH (IC(50)=10.3 microM), superoxide anion quenching capacity (IC(50)=0.187 mM) and lipid peroxidation inhibitory effect (IC(50)=0.129 mM). To ascertain determinant molecular features for anti-oxidant activities, structure-activity relationships were studied. Lipophilicity and molecular parameters related to electron distribution and structure (difference in heats of formation between the compound and its radical or its cation radical, energy of the highest occupied molecular orbital, HOMO) were found to correlate with the anti-oxidant action of compounds 5 in the different tests used. Oxygen-derived free radicals are known to contribute to inflammatory disorders; therefore we have investigated effects of compounds 5 in two models of inflammation: phorbol ester-induced ear edema in mice (TPA-test) and carrageenan-induced paw edema in rat. At 100 mg/kg ip in the TPA-test, the anti-inflammatory activity of compounds 5 was potent compared with that of indomethacin and ketorolac and all the results suggested a cyclooxygenase inhibition in the emergence of such properties. The combined pharmacological actions of compounds 5 associated with a favorable therapeutic index prompt with interesting perspectives for their use in heart and brain disorders as well as in inflammatory diseases.