Designing of MIP based QCM sensor having thymine recognition sites based on biomimicking DNA approach

Quartz crystal microbalance (QCM) sensors coated with molecular imprinted polymers (MIP) have been developed for the determination of thymine. In this method, methacryloylamidoadenine (MA-Ade) have used as a new monomer and thymine template for inspiration of DNA nucleobases interaction. The thymine can be simultaneously hydrogen binding to MA-Ade and fit into the shape-selective cavities. Thus, the interaction between nucleobases has an effect on the binding ability of the QCM sensors. The binding affinity of the thymine imprinted sensors has investigated by using the Langmuir isotherm. The thymine imprinted QCM electrodes have shown homogeneous binding sites for thymine (K_a: 1.0 × 10⁵ M⁻¹) while heterogeneous binding sites for uracil. On the other hand, recognition selectivity of the QCM sensor based on thymine imprinted polymer toward to uracil, ssDNA and ssRNA has been reported in this work.     

Stoichiometric noncovalent interaction in molecular imprinting

In this review article the function of the binding site monomers in the molecular imprinting procedure is discussed. Especially, new developments towards stoichiometric noncovalent interactions are highlighted. In stoichiometric noncovalent interactions template and binding site monomer in an 1:1 molar ratio are nearly completely bound to each other. This is only possible if the association constants are considerably high (K _ass < 900 M^–1). Using this type of interaction in molecular imprinting no excess of binding sites is necessary and binding sites are only located inside the imprinted cavity. Since all cavities can be reloaded these polymers show high capacity (e.g., for preparative application) and are especially suited for the synthesis of catalytically active imprinted polymers. Discussed are binding site interactions based on amidines (and guanidines), multiple hydrogen bonding, charge-transfer interactions, and host–guest inclusion. The systematic investigation of the underlying binding reaction is described in detail. With low-molecular weight model substances the thermodynamics of the association can be conveniently investigated, e.g., by NMR spectroscopy.     

Fabrication of a surface imprinted hydrogel shell over silica microspheres using bovine serum albumin as a model protein template

Surface imprinting is an effective approach to improve the template transfer efficiency in applications of molecularly imprinted polymers as biosensors and separation materials. In this paper, we tried to fabricate a surface imprinted hydrogel over silica microspheres for selective recognition of bovine serum albumin by covalent immobilization of a water-soluble UV sensitive initiator onto the surface of silica beads. The polymerization was initiated by UV radiation with N-[3-(dimethylamino)propyl]methacrylamide and N-isopropylacrylamide as the functional monomer and assistant monomer, respectively, and a thin coat of stimuli-responsive hydrogel yielded over the silica gels. The surface imprinted hydrogels exhibited specific affinity toward the template protein with an association constant (K_a) of 2.2 × 10⁵ L mol⁻¹ and a maximum binding capacity (Q_max) of 27.3 mg g⁻¹ in Tris–HCl buffer (pH 7.0). The rebinding and desorption kinetics of the surface imprinted hydrogels were determined and proven to be extremely fast (about 1 min compared to 3 h for the previously prepared bulk imprinted hydrogel). Besides, the hydrogel-silica core-shell particles inherit both the stimuli-responsive property of the hydrogel and the good mechanical strength of the silica beads based on the on-line evaluation with high-performance liquid chromatography. The above comprehensive merits of the obtained surface imprinted hydrogel suggest the presented approach an attractive and broadly applicable way of developing biosensors and high-performance protein separation materials.     

Application of Molecularly Imprinted Polymers to Selective Removal of Clofibric Acid from Water

A new molecularly imprinted polymer (MIP) adsorbent for clofibric acid (CA) was prepared by a non-covalent protocol. Characterization of the obtained MIP was achieved by scanning electron microscopy (SEM) and nitrogen sorption. Sorption experimental results showed that the MIP had excellent binding affinity for CA and the adsorption of CA by MIP was well described by pseudo-second-order model. Scatchard plot analysis revealed that two classes of binding sites were formed in the MIP with dissociation constants of 7.52±0.46 mg L⁻¹ and 114±4.2 mg L⁻¹, respectively. The selectivity of MIP demonstrated higher affinity for CA over competitive compound than that of non-imprinted polymers (NIP). The MIP synthesized was used to remove CA from spiked surface water and exhibited significant binding affinity towards CA in the presence of total dissolved solids (TDS). In addition, MIP reusability was demonstrated for at least 12 repeated cycles without significant loss in performance.     

Factors affecting the horizontal patchiness of coastal Antarctic seawater bacteria

Summary Previous Antarctic studies have pointed out the ecological importance of ornithogenic soils. However, few data exist to determine the impact of the bird's manuring on surrounding seawater microbial populations. In order to evaluate the influence of birds manuring, the relationships between the spatial distributions of seawater bacterial microflora and some related biological (chlorophyll pigments) and physicochemical (seston, NH₄ ⁺ & NO₃ ^–) parameters were studied during the Antarctic summer 1988 in the Terre Adelie land area. The clearly decreasing gradient from the shore towards the open sea previously reported for bacterial microflora (from 10⁴ to 1 CFU ml^–1 for heterotrophic bacteria and from 10⁵ to 5.010³ cells ml^–1 for total bacteria) was also observed for organic and mineral nutrients (from 1.09 mg Cl^–1 to 0.1 mg Cl^–1 for POC and from 196 to 17 mole l^–1 for NH ₄ ⁺ ) but not for chlorophyll pigments. The absence of any observable phytoplankton enrichment in the coastal area suggests a direct interaction between the birds manuring and the bacterial seawater microflora.     

Adsorption of Ni2+ on the surface of molecularly imprinted adsorbent from Penicillium chysogenum mycelium

The adsorption capacity for Ni²⁺ on to the surface molecular imprinting adsorbent on Penicillium chysogenum mycelium (the surface-imprinted adsorbent) was 40–45 mg g^–1 (using 200 mg Ni²⁺ l^–1), two times of the mycelium adsorbent. The surface-imprinted adsorbent had good stability at pH 28. The optimal concentration of EDTA for desorption was 0.1 to 0.5 g l^–1. The surface imprinted adsorbent could be reused 15 times without losing its uptake.     

Diffusion of sucrose in xanthan gum solutions

Molecular diffusion of solutes, like sucrose in the xanthan gum fermentation, is important in order to understand the complex behavior of mass transfer mechanisms during the process. This work was focused to determine the diffusion coefficient of sucrose, a carbon source for xanthan production, using similar sucrose and xanthan concentrations to those occurring in a typical fermentation. The diaphragm cell method was used in experimental determinations. The data showed that diffusion coefficient of sucrose significantly decreases when xanthan gum concentration increases. Theoretical and semiempirical models were used to predict sucrose diffusivity in xanthan solutions. Molecular properties and rheological behavior of the system were considered in the modeling. The models tested fitted well the behavior of experimental data and that reported for oxygen in the same system.List of Symbols A constant in eq. (5) - C _pg cm^–3 polymer concentration - D cm² s^–1 diffusivity - D _ABcm² s^–1 diffusivity of A through liquid solvent - D _APcm² s^–1 diffusivity of A in polymer solution - D _AWcm² s^–1 diffusivity of A in water - D _Pcm² s^–1 diffusivity of polymer in liquid solvent - E _D gradient of the activation energy for diffusion - H _P hydratation factor of the polymer in water (g of bound water/g of polymer) - K dyn sⁿ cm^–2 consistency index - K ₁ constant in eq. (5) - K _P overall binding coefficient [g of bound solute/cm³ of solution]/[g of free solute/cm³ of polymer free solution] - n flow behavior index - M _Bg g mol^–1 molucular weight of liquid solvent - M _Pg g mol^–1 molecular weight of the polymer - M _Sg g mol^–1 Molecular weight of polymer solution (= M _BX_B+M_PX_P) - R cm³ atm g mol^–1 K^–1 ideal gas law constant - T K absolute temperature - V _Bcm³ g mol^–1 molar volume of liquid solvent - V _Pcm³ g mol^–1 molar volume of polymer - V _Scm³ g mol^–1 molar volume of polymer solution - X _B solvent molar fraction - X _P polymer molar fraction - polymer blockage shape factor - _P volume fraction of polymer in polymer solution - g cm^–1 s^–1 viscosity - _ag cm^–1 s^–1 apparent viscosity of the polymer solution - _icm³ g^–1 intrinsic viscosity - ₀ g cm^–1 s^–1 solvent viscosity - _Pg cm^–1 s^–1 polymer solution viscosity - _R relative viscosity (= / ₀) - ₌₀ g cm^–1 s^–1 viscosity of polymer solution obtained at zero shear rate - ₀ g cm^–3 water density     

Determination of β-glucosidase aggregating factor (BGAF) binding and polymerization regions on the maize β-glucosidase isozyme Glu1

β-Glucosidases (Glu1 and Glu2) in maize specifically interact with a lectin called β-glucosidase aggregating factor (BGAF). We have shown that the N-terminal (Glu⁵⁰–Val¹⁴⁵) and the C-terminal (Phe⁴⁶⁶–Ala⁵¹²) regions of maize Glu1 are involved in binding to BGAF. Sequence comparison between sorghum β-glucosidases (dhurrinases, which do not bind to BGAF) and maize β-glucosidases, and the 3D-structure of Glu1 suggested that the BGAF-binding site on Glu1 is much smaller than predicted previously. To define more precisely the BGAF-binding site, we constructed additional chimeric β-glucosidases. The results showed that a region spanning 11 amino acids (Ile⁷²–Thr⁸²) on Glu1 is essential and sufficient for BGAF binding, whereas the extreme N-terminal region Ser¹–Thr²⁹, together with C-terminal region Phe⁴⁶⁶–Ala⁵¹², affects the size of Glu1–BGAF complexes. The dissociation constants (K_d) of chimeric β-glucosidase–BGAF interactions also demonstrated that the extreme N-terminal and C-terminal regions are important but not essential for binding. To confirm the importance of Ile⁷²–Thr⁸² on Glu1 for BGAF binding, we constructed a chimeric sorghum β-glucosidase, Dhr2 (C-11, Dhr2 whose Val⁷²–Glu⁸² region was replaced with the Ile⁷²–Thr⁸² region of Glu1). C-11 binds to BGAF, indicating that the Ile⁷²–Thr⁸² region is indeed a major interaction site on Glu1 involved in BGAF binding.     

Aqueous batch rebinding and selectivity studies on sucrose imprinted polymers

Polymers imprinted with sucrose and corresponding non-imprinted polymers are prepared photo-chemically at 3 °C and thermally at 65 °C. The pre-polymerization complex formation in dimethyl sulfoxide between sucrose and methacrylic acid via hydrogen bonding was investigated through ¹H NMR titration. The imprinting effect and the selectivity of the imprinted polymers in water are studied by batch rebinding studies with different mono and disaccharides and fitted to the Freundlich isotherm. Based on the calculated numbers of binding sites and average affinity, it is concluded that sucrose has been successfully imprinted at 3 and 65 °C. The polymer imprinted at 3 °C possesses the best recognition properties. The imprinted polymers are selective towards sucrose in water.     

Phase transitions and thermal expansion coefficients of plant cuticles

The temperature-induced volume expansion of enzymatically isolated cuticular membranes of twelve plant species was measured. All cuticular membranes exhibited distinct second-order phase transitions in the temperature range of about 40 to 50° C. Increases in the volumes of fruit cuticles (Lycopersicon, Cucumis, Capsicum, Solanum and Malus) were fully reversible, while leaf cuticular membranes (Ficus, Hedera, Nerium, Olea, Pyrus, Picea and Citrus) underwent irreversible structural changes. Below the phase-transition temperature, volumetric expansion coefficients ranged from 0.39·10^–6 m³·kg^–1·K^–1 to 0.62·10^–6 m³·kg^–1·K^–1, and above from 0.60·10⁶ m³·kg^–1·K^\-1 to 1.41· 10^–6 m³·kg^–1·K^–1. Densities of cuticles at 25° C ranged from 1020 kg·m^–3 to 1370 kg·m^–3. Expansion coefficients and phase transitions were characteristic properties of the polymer matrix as a composite material, rather than of cutin alone. It is argued that the sudden increase of water permeability above the transition temperature, is caused by an increase of disorder at the interface between the polymer matrix and the soluble cuticular lipids. Possible ecological and physiological consequences of these results for living plants are discussed.Abbreviations CM Cuticular membrane - CU cutin - MX polymer matrix - SCL soluble cuticular lipids (waxes) The authors greatfully acknowledge stimulating discussions with Drs. H. Gruler (Exp. Physik 3, Universität Ulm, FRG) and M. Riederer (Institut für Botanik und Mikrobiologie, Technische Universität München, München, FRG) and financial support by the Deutsche Forschungsgemeinschaft.     

Production of poly-γ-glutamic acid by fed-batch culture of Bacillus licheniformis

Fed-batch cultures of Bacillus licheniformis produced poly--glutamic acid (PGA), a water-soluble biodegradable polymer. PGA reached 35 g l^–1 with a productivity of 1 g l^–1 h^–1 by pulsed-feeding of citric acid (1.44 g h^–1) and l-glutamic acid (2.4 g h^–1) when citric acid was depleted from the culture medium.     

Production of poly-β-hydroxybutyrate by Alcaligenes eutrophus on different carbon sources

Poly--hydroxybutyrate was produced in shake cultures by Alcaligenes eutrophus H16 on fructose, xylose, and fumaric, itaconic, lactic and propionic acids in a three-stage process. The maximum polymer concentration of 6.9 g l^–1 (69% of cell dry matter) was obtained with 20g l^–1 of fructose with a volumetric productivity of about 0.22 g l^–1 h^–1 at 24h. Up to about 3 g l^–1 (about 50% of cell dry matter) of polymer was also produced on lactic and propionic acids as the sole carbon source during the production phase. In multivatiate optimization employing an orthogonal 2³-factorial central composite experimental design with fructose as the substrate in a single-stage process, the optimal initial fructose concentration decreased from 35 g l^–1 to 24 g l^–1 when the incubation time was increased from about 35 h to 96 h. The optimal shaking speed range was 90–113 rpm. Correspondence to: S. Linko     

Chronic and endogenous regulation of insulin receptors by catecholamines in adipocytes from patients with a phaeochromocytoma

Insulin binding in adipocytes from patients with a phaeochromocytoma (PH) approached that of the controls (C) at low and higher concentrations of unlabeled insulin. The apparent receptor affinity was unchanged (ED50: PH 0.50×10^–9M and C0.60×10^–9M). Scatchard analysis of the binding data using the negative cooperative model revealed a 46% decrease in the total number of receptors together with no changes in both K^–e (PH 0.55×10⁹M^–1 and C 0.36×10⁹M^–1) and K^–f (PH 0.13×10⁹ M^–1 and C 0.07×10⁹ M^–1). According to the two site model, an altered proportion in the two classes of insulin binding sites was detected. This was accompanied by a catecholamine-desensitization of the adipocytes to the antilipolytic action of insulin. These events could represent a final situation of a chronic and endogeneous regulation by high levels of catecholamines of insulin receptors in human adipose tissue.     

Extracellular polysaccharides of a copper-sensitive and a copper-resistant Pseudomonas aeruginosa strain: synthesis,chemical nature and copper binding

Extracellular polysaccharides (EPS) of a copper-sensitive (Cu^s) and a copper-resistant (Cu^r) Pseudomonas aeruginosa strain were investigated in terms of their production, chemical nature and response towards copper exposure. The extent of EPS synthesis by the resistant strain (4.78 mg mg^–1 cell dry wt.) was considerably higher over its sensitive counterpart (2.78 mg mg^–1 dry wt.). FTIR-spectroscopy and gas chromatography revealed that both the polymers were acidic in nature, containing alginate as the major component along with various neutral- and amino-sugars. Acid content in the Cu^r EPS (480.54 mg g^–1) was greater than that in the Cu^s EPS (442.0 mg g^–1). Presence of Cu²⁺ in the growth medium caused a dramatic stimulation (approximately 4-fold) in EPS synthesis by the Cu^r strain, while in a similar condition, the Cu^s failed to exhibit such response. The polymer of the resistant strain showed elevated Cu²⁺ binding (320 mg g^–1 EPS) compared to that of the sensitive type (270 mg g^–1). The overall observations show the potential of the Cu^r EPS for its deployment in metal bioremediation.     

Alleviation of Cadmium Toxicity by Naphthenate Treatment

The work is concerned with the effect of low concentrations (10^–7 mol dm^–3) of sodium naphthenate on total content of Cd and its particular forms in the intercellular space and inside cells, as well as on some physiological and biochemical parameters of young soybean plants grown in the presence of 1 mmol dm^–3 solution of cadmium chloride. Presence of naphthenate reduced in average by 40 % content total and intracellular Cd in root, stem and leaves and alleviated the harmful effect of Cd on activity of nitrate reductase and content of photosynthetic pigments.     

[125I]calmodulin binding to synaptic plasma membrane from rat brain: Kinetic and arrhenius analysis

Binding of [¹²⁵I]calmodulin was characterized in highly purified synaptic plasma membrane (SPM) prepared from rat brain. By Scatchard analysis, the Ca²⁺-dependent membrane binding of [¹²⁵I]calmodulin was found to have a B_max of 284 pmol/mg protein and an apparent affinity with a K_d of 131 nM. Kinetic analysis indicates that at 37°C, the dissociation of [¹²⁵I]calmodulinmembrane complexes follows first-order reaction and consists of two components: a dissociation constant (k) of 3.7×10^–1 min^–1 and a half-time (t_1/2) of 1.8 min for the fast component, and a k of 4.8×10^–2 min^–1 and a t_1/2 of 14.5 min for the slow component. At 0°C, substantial dissociation still occurred, with a k of 4.5×10^–2 min^–1 and a t_1/2 of 15.3 min for the fast component, and a k of 5.5×10^–3 min^–1 and a t_1/2 of 125.5 min for the slow component. These data on binding affinity and dissociation kinetics are consistent with the notion that SPM can readily and rapidly associated and dissociate calmodulin. In Arrhenius analysis of temperature effects, [¹²⁵I]calmodulin binding to SPM exhibits a biphasic function, with the transition temperature (T_d) estimated to be 23.8°C, suggesting that binding is influenced by lipid phase transition of the membrane. The binding of [¹²⁵I]calmodulin to the synaptic membrane was found to be increased by corticosterone (10^–7–10^–6 M), a steroid hormone, and decreased by ethanol (50–200 mM), a centrally acting drug. Our data on the characteristics of calmodulin binding to the SPM provide groundwork for future studies on physiological and pharmacological regulation of calmodulin translocation to and from the plasma membrane in synaptic terminals.Abbreviations used CaM calmodulin - SPM synaptic plasma membrane - ATPase adenosine triphosphatase - Tris tris(hydroxymethyl)aminomethane - EGTA ethylene-bis(oxyethylenenitrilo)tetraacetic acid - SDS sodium dodecyl sulfate - TFP trifluoperazine - K_d dissociation constant - B_max maximum binding - k first-order rate constant - t_1/2 half-time - T_d transition temperature     

A novel immobilised design for the production of the heterologous protein lysozyme by a genetically engineered Aspergillus niger strain

Abstract A novel immobilisation design for increasing the final concentration of the heterologous protein lysozyme by a genetically engineered fungus, Aspergillus niger B1, was developed. A central composition design was used to investigate different immobilised polymer types (alginate and pectate), polymer concentration [24% and 4% (w/v)], inoculum support ratios (1:2 and 1:4) and gel-inducing agent concentration [CaCl₂, 2% and 3.5% (w/v)]. Studies of the kinetics of production showed that optimum lysozyme productivity occurred after 10 days. Lysozyme production was significantly affected by polymer type, polymer concentration, and inoculum support ratio. Overall, immobilisation in Ca-pectate resulted in higher lysozyme production compared to that in Ca-alginate. Similar effects were observed when the polymer concentration was reduced. Regardless of polymer type and concentration, increasing the fungal inoculum level increased lysozyme production. A significantly higher lysozyme yield was achieved with Ca-pectate in comparison to Ca-alginate (approximately 20–23 mg l^–1 and 0.5–2 mg l^–1, respectively). The maximum lysozyme yield achieved was about 23 mg l^–1 by immobilisation in Ca-pectate 2% (w/v) with 33% (v/v) mycelium and 3.5% (w/v) gel-inducing agent (CaCl₂). Response surface methodology was used to investigate the effect of pH and water activity (a_w). The best medium pH was 4.5–5.0, and bead a_w for optimum lysozyme yield was 0.94, regardless of polymer type.     

Studies on lithium transport across the red cell membrane

Summary Binding of³H-saxitoxin to Na⁺ channels was studied in subcellular fractions prepared from rat brain homogenates. Saxitoxin binding to synaptosomes was saturable with an apparent dissociation constant of about 1nm; about 1 pmol/mg protein was bound at saturating saxitoxin concentrations. A linear, nonsaturable component of saxitoxin binding accounted for less than 3% of the total binding at 30nm. Saxitoxin binding to synaptosomes was unaffected by depolarization with elevated K⁺ concentrations, or by activation of the Na⁺ channels with batrachotoxin plus a purified polypeptide toxin from the scorpionLeiurus quinquestriatus. A procedure is described for preparing a membrane fraction that contains 70–80% of the total saxitoxin binding activity of the crude homogenate. The specific activity of this fraction was about 4 to 6 pmol/mg protein. About 60–70% of the saxitoxin binding sites were solubilized by incubating these membranes with the nonionic detergent Triton X-100; the detergent-solubilized binding sites eluted at a position corresponding to a mol wt of about 700,000 on gel filtration chromatography. Both membrane-bound and solubilized saxitoxin binding were assayed by a new cation exchange column method. The binding of saxitoxin to both membrane-bound and detergent-solubilized binding sites was saturable with an apparent dissociation constant of about 2nm. Dissociation of the saxitoxin-receptor complex followed a single exponential decay with a rate constant at 0° of 0.1 min^–1 for membrane bound and 0.2 min^–1 for detergent-solubilized binding sites. The measured association rate constant was 6×10⁸ m ^–1 min^–1 at 0° for membrane-bound saxitoxin binding sites.     

Isolation of a highly active H+-ATPase from beef heart mitochondria

The lysolecithin extraction procedure originally described by Sadleret al. (1974) has been modified to yield a H⁺-ATPase with high levels of P_i-ATP exchange activity (400–600 nmol × min^–1 × mg^–1). This activity is further enhanced (1400–1600 nmol × min^–1 × mg^–1) following sucrose density gradient centrifugation in the presence of asolectin. This enhancement results in part from a lipid-dependent activation and in part from removal of inactive complexes. The H⁺ translocating activity of the complex has been determined spectrophotometrically using binding of oxonol VI as an indicator of membrane potential. P_i-ATP exchange, ATP hydrolysis, and oxonol binding are sensitive to energy-transfer inhibitors (oligomycin, rutamycin) and/or uncouplers (DNP, FCCP).     

Factors controlling seasonal variability of benthic ammonium release and oxygen uptake in Alfacs Bay (Ebro Delta,NW Mediterranean)

The seasonal variability of sediment–water ammonium flux andoxygen uptake was studied in an estuarine bay (Alfacs Bay, Ebro Delta, NWMediterranean) influenced by temporal freshwater discharges. Three stationswith different organic loading were sampled. The relationships of benthicfluxes to bottom water (temperature, dissolved oxygen, ammonium, nitrateplus nitrite) and to sediment (porosity, chlorophyll a derivative pigments,organic carbon and nitrogen) variables were examined. Oxygen uptake rangedfrom 0.3 to 2.5 mmol m^–2 h^–1 and ammoniumrelease ranged from 6 to 230 µmol m^–2 h^–1.The lowest value was recorded at the station furthest from the freshwaterinputs, and the highest was at the littoral station nearest the freshwaterdischarge channels (for oxygen uptake) and at the deep station at the saltwedge front (for ammonium flux). Water temperature and the concentration ofchlorophyll a derivative pigments on the surface sediment were revealed asthe main variables to be taken into account to explain the variabilityfound. Changes in fluxes reflecting temperature changes were found at thestation furthest from the freshwater inputs, while at the other, fluxvariability was found to be related to the cycle of functioning offreshwater discharge channels. The different patterns of variability arediscussed in relation to the dynamics of the estuary and to the mainfeatures of benthic nitrogen cycling.