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Evaluation of a simple model of ethanol drinking to intoxication in C57BL/6J mice.

Because of intrinsic differences between humans and mice, no single mouse model can represent all features of a complex human trait such as alcoholism. It is therefore necessary to develop partial models. One important feature is drinking to the point where blood ethanol concentration (BEC) reaches levels that have measurable affects on physiology and/or behavior (>1.0 mg ethanol/ml blood). Most models currently in use examine relative oral self-administration from a bottle containing alcohol versus one containing water (two-bottle preference drinking), or oral operant self-administration. In these procedures, it is not clear when or if the animals drink to pharmacologically significant levels because the drinking is episodic and often occurs over a 24-h period. The aim of this study was to identify the optimal parameters and evaluate the reliability of a very simple procedure, taking advantage of a mouse genotype (C57BL/6J) that is known to drink large quantities of ethanol. We exchanged for the water bottle a solution containing ethanol in tap water for a limited period, early in the dark cycle, in the home cage. Mice regularly drank sufficient ethanol to achieve BEC>1.0 mg ethanol/ml blood. The concentration of ethanol offered (10%, 20% or 30%) did not affect consumption in g ethanol/kg body weight. The highest average BEC ( approximately 1.6 mg/ml) occurred when the water-to-ethanol switch occurred 3 h into the dark cycle, and when the ethanol was offered for 4 rather than 2 h. Ethanol consumption was consistent within individual mice, and reliably predicted BEC after the period of ethanol access. C57BL/6J mice from three sources provided equivalent data, while DBA/2J mice drank much less than C57BL/6J in this test. We discuss advantages of the model for high-throughput screening assays where the goal is to find other genotypes of mice that drink excessively, or to screen drugs for their efficacy in blocking excessive drinking.

Alcohol Drinking↗

DipTRANS: an improved method for in planta transformation and genome engineering in Nicotiana benthamiana.

Plant transformation remains constrained by labor-intensive tissue culture. Our previous work showed that direct delivery of developmental regulators (DRs) can induce de novo meristems on plants, offering a promising transformation approach. In this resource article, we introduced DipTRANS (Direct in planta Transformation), an optimized, soil-based heritable transformation platform for Nicotiana benthamiana that bypasses sterile culture entirely. DipTRANS is built on DR-induced de novo meristem formation. After optimizing parameters, including regulator combinations, Agrobacterium strain, and infiltration density, DipTRANS yielded transformation efficiencies to 46.7%. Developmental abnormalities associated with regulator expression are resolved through cutting-based propagation and virus-induced transgene excision, enabling recovery of fertile, transgenic progeny. Furthermore, DipTRANS supports tissue culture-free, transgene-free iterative genome modification via virus-induced genome editing. Overall, DipTRANS enables the generation of transgenic plants within 30 days and engineered progeny within 90 days. This methodology provides a rapid, versatile platform and a blueprint for extending direct in planta transformation to other plant species.

DRs↗

Computational identification of beta-barrel outer-membrane proteins in Mycobacterium tuberculosis predicted proteomes as putative vaccine candidates.

Mycobacterial porins and other beta-barrel outer-membrane proteins are represented by the structure of Mycobacterium smegmatis porin MspA. On the basis of existing knowledge of beta-barrel outer-membrane proteins, several state of the art prediction methods, as well as a new in-house program (PROB) were employed for the systematic exploration of Mycobacterium tuberculosis predicted proteomes for potential beta-barrel structures. PROB allowed parameter optimization while functioning with an adaptive algorithm for the detection of outer-membrane beta-barrel proteins in highly divergent proteomes. As a result of the predictions, 114 proteins in total were predicted to be beta-barrel structures; of these, 40 were PE-PPE proteins, 8 Mce proteins, 24 hypothetical, 11 probable membrane proteins, 10 transporters, 4 lipoproteins, and 14 classified as other. The congruence among three of the predictors, PROB, TMB-Hunt, and BOMP, was low with only three proteins (MT0318, MT0356, and MT2423) predicted by the three. Overall, 79 new proteins for which no previous experimental work has been performed are reported. At least 10 of these have high potential of being not only surface-exposed but also served as putative vaccine candidates as determined by in silico predictions of CD4T cell MHC-II restricted epitopes.

Algorithms↗

Process development for the mass production of Ehrlichia ruminantium.

This work describes the optimization of a cost-effective process for the production of an inactivated bacterial vaccine against heartwater and the first attempt to produce the causative agent of this disease, the rickettsia Ehrlichia ruminantium (ER), using stirred tanks. In vitro, it is possible to produce ER using cultures of ruminant endothelial cells. Herein, mass production of these cells was optimized for stirring conditions. The effect of inoculum size, microcarrier type, concentration of serum at inoculation time and agitation rate upon maximum cell concentration were evaluated. Several strategies for the scale-up of cell inoculum were also tested. Afterwards, using the optimized parameters for cell growth, ER production in stirred tanks was validated for two ER strains (Gardel and Welgevonden). Critical parameters related with the infection strategy such as serum concentration at infection time, multiplicity and time of infection, and medium refeed strategy were analyzed. The results indicate that it is possible to produce ER in stirred tank bioreactors, under serum-free culture conditions, reaching a 6.5-fold increase in ER production yields. The suitability of this process was validated up to a 2-l scale and a preliminary cost estimation has shown that the stirred tanks are the least expensive culture method. Overall, these results are crucial to define a scaleable and fully controlled process for the production of a heartwater vaccine and open "new avenues" for the production of vaccines against other ehrlichial species, with emerging impact in human and animal health.

Animals↗

Development of a lymphocyte-transformation-assay for peripheral blood lymphocytes of the harbor porpoise and detection of cytokines using the reverse-transcription polymerase chain reaction.

Impairment of immune function is suggested to play a contributing role for the increasing incidence of infectious diseases in the harbor porpoise (Phocoena phocoena) of the North and Baltic Seas. Both, lymphocyte-transformation-assay of peripheral blood lymphocytes (PBMC) and detection of cytokine expression are important tools for the characterization of the cellular immune response. To evaluate optimal parameters for the lymphocyte-transformation-assay isolated blood lymphocytes from four healthy harbor porpoises were stimulated with different concentrations of concanavalin A (Con A), phytohemagglutinin (PHA) and pokeweed mitogen (PWM). Cell proliferation was measured photometrically after 72 h using 5-bromo-deoxyuridine-assay and stimulation indices were calculated. The expression of pro- and anti-inflammatory cytokines such as interleukin (IL)-2, IL-4, IL-6, IL-10, transforming growth factor (TGF)-beta, and tumor necrosis factor (TNF)-alpha was investigated in control and mitogen-stimulated lymphocytes using reverse-transcription polymerase chain reaction (RT-PCR). Primers for IL-2, IL-4 and IL-6 were selected from published cDNA-sequences of other cetaceans. Established canine and human primers were taken for the detection of TNF-alpha, TGF-beta, IL-10 and the house keeping transcript glyceraldehyde-3-phosphate dehydrogenase (GAPDH), respectively. Specificity of the amplicon was confirmed by DNA sequence analysis and comparison with nucleotide sequences of other marine and terrestrial mammals. Con A and PHA represented the most powerful mitogens for harbor porpoise lymphoid cells at concentrations of 5 and 2 microg/ml, respectively, while PWM induced a comparatively low maximum proliferation at a concentration of 2 microg/ml. GAPDH was amplified in non-stimulated and all mitogen-stimulated cells. With the exception of IL-10 none of the other cytokines were detected in non-stimulated cells. Transcription of IL-4, IL-6, IL-10, TNF-alpha and TGF-beta-mRNA was observed after incubation with all the three phytomitogens, whereas IL-2 was only detected in Con A and PWM treated cells. Lymphocyte-transformation-assay and RT-PCR for detection of cytokines will allow to investigate possible impaired immune function in the harbor porpoise in future studies.

Animals↗

Transfection of adherent and suspended cells by calcium phosphate.

DNA-calcium phosphate coprecipitates have been used for 30 years as an efficient method to introduce genetic material into cells. The method involves simple solutions that can be prepared or purchased by the experimentalist. All the numerous variations of the protocol found in the literature are based on the same principle--a spontaneous precipitation that occurs in supersaturated solutions. When DNA is present during this process, it is readily incorporated into the forming calcium phosphate precipitate. Although a wide range of conditions will lead to precipitates, high transfection efficiencies are only obtained within a narrow range of optimized parameters that assure certain properties of the precipitate. This paper describes several physico-chemical parameters that are critical to adapt the method to a particular cell line and/or cultivation condition. Examples of protocols that were established and tested within the authors' laboratory are presented. The article also emphasizes differences between transfections of adherent and suspended cells.

Animals↗

Evaluation of P wave signal-averaged electrocardiographic filtering and analysis methods.

The purpose of this study was to evaluate the signal processing and analysis methods currently in use for the P wave signal-averaged electrocardiogram and to define optimal parameters for its use. P wave signal-averaged electrocardiograms using the QRS as a trigger for alignment of the analysis window were obtained in 15 subjects with prior atrial fibrillation and 15 controls. Five methods of signal filtering (unidirectional, bidirectional, finite impulse response, least squares fit, and spectral fast-Fourier transform) and three filter frequencies (14, 29, and 60 Hz) were compared with logistic regression analysis. Analysis techniques, including P wave vector duration, individual orthogonal lead duration, and terminal root mean square voltage were also evaluated for the strength of their association with the occurrence of atrial fibrillation. The least-squares fit filter with bandwidth filtering of 29 to 250 Hz produced the strongest association with atrial fibrillation (odds ratio 26). A high correlation (r > 0.92) was noted among the individual orthogonal leads; however, neither individual leads nor total atrial activation determined from individual leads demonstrated a superior association with atrial fibrillation when compared with total vector P wave duration. Terminal P wave RMS volt ages were not significantly different between patients with prior AF and controls.

Aged↗

Tilt, twist, and coiling in beta-barrel membrane proteins: relation to infrared dichroism.

The x-ray coordinates of beta-barrel transmembrane proteins from the porins superfamily and relatives are used to calculate the mean tilt of the beta-strands and their mean local twist and coiling angles. The 13 proteins examined correspond to beta-barrels with 8 to 22 strands, and shear numbers ranging from 8 to 24. The results are compared with predictions from the model of Murzin, Lesk, and Chothia for symmetrical regular barrels. Good agreement is found for the mean strand tilt, but the twist angles are smaller than those for open beta-sheets and beta-barrels with shorter strands. The model is reparameterised to account for the reduced twist characteristic of long-stranded transmembrane beta-barrels. This produces predictions of both twist and coiling angles that are in agreement with the mean values obtained from the x-ray structures. With the optimized parameters, the model can then be used to determine twist and coiling angles of transmembrane beta-barrels from measurements of the amide band infrared dichroism in oriented membranes. Satisfactory agreement is obtained for OmpF. The strand tilt obtained from the x-ray coordinates, or from the reparameterised model, can be combined with infrared dichroism measurements to obtain information on the orientation of the beta-barrel assembly in the membrane.

Bacterial Outer Membrane Proteins↗

Femtosecond pump-probe spectroscopy of bacteriochlorophyll a monomers in solution.

One- and two-color absorption difference profiles were obtained for BChl a in 1-propanol with approximately 50-fs resolution, using a self-mode-locked Ti:sapphire laser system. Time evolution in the BChl a absorption difference spectrum produces nonexponential photobleaching/stimulated emission (PB/SE) decay kinetics in 800-nm one-color experiments. Nonexponential PB/SE rise behavior occurs for some combinations of pump and probe wavelengths in two-color experiments. Optimized parameters from triexponential fits to the absorption difference profiles depend markedly on the fitting time window; they typically include a minor component with lifetime in the hundreds of fs. Much of the latter component is due to vibrational relaxation and/or intramolecular vibrational redistribution, rather than solvent dielectric relaxation. Measurements of the pump-probe anisotropy indicate that the electronic transition moment for the broad Qy excited state absorption band that overlaps the Qy steady-state absorption spectrum makes an angle of at most 20 degrees from that of the ground-->Qy state transition. No coherent oscillations are observed at early times. Our results bear directly on the interpretation of fs pump-probe experiments on BChl a-containing pigment-protein complexes.

Bacteriochlorophylls↗

Head group and chain behavior in biological membranes: a molecular dynamics computer simulation.

A computer-modeled hydrated bilayer model of the lipid 2,3-dimyristoyl-D-glycero-1-phosphorylcholine in the L alpha phase was built. Particular care was taken in building the starting structure with the inclusion of structural detail reported in experiments on the L alpha phase. Molecular dynamics simulations using the molecular dynamics and energy refinement program AMBER 3.1 force field with an optimized parameters for liquid simulation parameter set were run to study the motions and conformations of the lipid molecules and characterize the behavior and structure of the head groups and the hydrocarbon lipid chains. Although the head groups were observed to show great flexibility, certain head-group torsion combinations appeared favored. The observed tilt of the lipid chains is discussed and is consistent with previous experimental findings. Motion of the lipid chains is shown to be correlated with those chains immediately surrounding, but correlation with chains more distant varies with time.

Biophysical Phenomena↗

Modeling and control of the magnetic suspension system.

A fuzzy logic based controller applied to a simple magnetic suspension is presented in this paper. The simple electromagnet-ball system and the contactless optical position measurement system are developed as a physical model of the magnetic suspension. A nonlinear mathematical model is presented and linearized. This model has been used to design a discrete linear PID controller with optimal parameters. The physical real-time model was constructed in order to compare the performance of the linear discrete PID controller and the proposed fuzzy logic based PID controller. The decomposed fuzzy PID controller has proportional, integral, and derivative separate parts which are tuned independently. When testing it becomes clear that the decomposed fuzzy PID controller gives better performance over a typical operational range than a traditional linear PID controller.

Computer Simulation↗

Comparison of high-performance liquid chromatography, supercritical fluid chromatography and capillary zone electrophoresis in drug analysis.

High-performance liquid chromatography (HPLC), supercritical fluid chromatography (SFC) and capillary zone electrophoresis (CZE) are compared with respect to their usefulness in drug analysis. Factors discussed include efficiency, performance, sensitivity, optimization parameters, method development time, sample preparation, technical difficulties, orthogonality of the information obtained and the possible application to various substance groups. It is concluded that HPLC can be applied successfully in virtually all areas of pharmaceutical analysis. CZE has a promising future in the analysis of drugs and in the field of biotechnological analysis, where a high number of plates is required together with a short analysis time. Nevertheless improvements in detection are still necessary for most applications. SFC is particularly suitable for moderately polar compounds or substances for which mass-sensitive detection is required. SFC and CZE can be considered as complementary to HPLC owing to the orthogonality of the acquired data, and as a result more information can be obtained from the analysis.

Chromatography, High Pressure Liquid↗

Retention and separation studies of cholesterol and bile acids using thermostated thin-layer chromatography.

The influence of temperature on retention and separation of cholesterol and bile acids, using reversed-phase thin-layer chromatography, was studied. As mobile phases methanol-water mixtures of various compositions were used. Chromatographic experiments were performed using vapor-saturated chambers at temperatures ranging from 5 to 60 degrees C. A linear relationship between R(M) values and temperature (1/T) as well as mobile phase composition was observed. The elution order of steroids under the conditions investigated was discussed. Each chromatogram was evaluated using simple optimization parameters and the best chromatographic conditions for the separation of multicomponent samples were chosen.

Bile Acids and Salts↗

Electrical stimulation induced sphincter fatigue during voiding.

The stimulation of the sacral nerves to induce voiding is often associated with simultaneous contraction of the striated sphincter rendering micturition difficult or impossible. Rhizotomy of some sacral nerves was found to be necessary to facilitate voiding with stimulation. An main objective in the present experiment was to evaluate the feasibility of achieving the same result using electrical stimulation to fatigue the sphincter. In order to compare the effect of rhizotomy and fatiguing striated sphincter, the bladder outlet resistance was measured. S2 nerves were stimulated with 3 V, 35 Hz and 100 microseconds duration for 5 to 10 sec. Following S2 nerves stimulation the pudendal nerve was stimulated till we obtained sphincteric fatigue. The optimal parameter to induce sphincter fatigue were 3 V, 100-500 Hz and 100 microseconds. for 15-20 sec. The combined pressure-flow studies showed that fatiguing the sphincter via the pudendal nerve using these parameters was as good as cutting it in achieving bladder emptying with stimulation.

Animals↗

Incorporating breastfeeding care into daily newborn rounds and pediatric office practice.

Integrating breastfeeding care into pediatric practice and thought process results in improved breastfeeding outcomes for patients and significant professional satisfaction for pediatricians. Meeting a family's expectation to help them succeed in their desire to breastfeed their infants is rewarding. Current knowledge regarding the appropriate care of the breastfed infant immediately after birth provides an engaging opportunity to reframe ideas regarding good newborn care. Whatever may have previously been thought regarding newborn care, the true objectives are to maintain optimal physiologic parameters and optimize neurophysiologic and behavioral homeostasis in transitional infants. The goal is a thriving, eagerly breastfeeding newborn infant and a comfortable mother with an abundant milk supply within the physiologically anticipated time frame. In the office setting, supporting the ongoing success of the breastfeeding is a natural extension of the preventive health care activities that are the cornerstone of general pediatrics. Facilitating parents' plan to breastfeed their infants by incorporating good breastfeeding care into daily practice routines is professionally satisfying, enhances the well-being of pediatric patients, and enriches the experience of practicing general pediatrics.

Adult↗

Modelling of the ultrasonic field by the angular spectrum method in presence of interface.

We present a numerical modelling of the harmonic sound in two isotropic media, one liquid and the other solid separated by a plane interface. This numerical modelling is carried out by the angular spectrum method. This latter is applied to calculate the displacement potential generated by a rectangular transducer with a Gaussian profile and with an uniform profile. The rigorous modelling of the field needed to find the optimal parameters of the decomposition according to the transducer aperture and the ultrasonic wave frequency.

Journal Article↗

Two approaches to multiple specular echo detection using split spectrum processing: moving bandwidth minimization and mathematical morphology.

A split spectrum processing technique using a novel moving bandwidth minimization (MBM) method was developed to detect multiple specular targets having different spectral characteristics. Mathematical morphology (MM) algorithms were also implemented in order to compare the results. An experimental approach to optimal parameter determination is described. These non-linear filtering methods are applied to medical in vivo imaging to illustrate specular detection and signal to noise ratio (SNR) enhancement.

Algorithms↗

Investigation of catalytic reaction with spectrofluorimetric method.

Numerous derivatives of nicotinic acid hydrazids are suitable for sensitive fluorescence determination of metal ions. The reaction proceeds upon ultraviolet illumination in the presence of an oxidizing agent and catalyst forming a fluorescent product. Therefore, the catalyst metal ion can be quantitatively determined by fluorescence methods. We have studied the reaction of nicotinic acid (di-pyridin-2-yl-methylene)-hydrazide (NADPMH), catalyzed by Mn(II)ion, and determined the optimal parameters of metal ion method.

Catalysis↗