Unveiling the binding and orientation of the antimicrobial peptide Plantaricin 149 in zwitterionic and negatively charged membranes

Antimicrobial peptides are a large group of natural compounds which present promising properties for the pharmaceutical and food industries, such as broad-spectrum activity, potential for use as natural preservatives, and reduced propensity for development of bacterial resistance. Plantaricin 149 (Pln149), isolated from Lactobacillus plantarum NRIC 149, is an intrinsically disordered peptide with the ability to inhibit bacteria from the Listeria and Staphylococcus genera, and which is capable of promoting inhibition and disruption of yeast cells. In this study, the interactions of Pln149 with model membranes composed of zwitterionic and/or anionic phospholipids were investigated using a range of biophysical techniques, including isothermal titration calorimetry, surface tension measurements, synchrotron radiation circular dichroism spectroscopy, oriented circular dichroism spectroscopy, and optical microscopy, to elucidate these peptides' mode of interactions and provide insight into their functional roles. In anionic model membranes, the binding of Pln149 to lipid bilayers is an endothermic process and induces a helical secondary structure in the peptide. The helices bind parallel to the surfaces of lipid bilayers and can promote vesicle disruption, depending on peptide concentration. Although Pln149 has relatively low affinity for zwitterionic liposomes, it is able to adsorb at their lipid interfaces, disturbing the lipid packing, assuming a similar parallel helix structure with a surface-bound orientation, and promoting an increase in the membrane surface area. Such findings can explain the intriguing inhibitory action of Pln149 in yeast cells whose cell membranes have a significant zwitterionic lipid composition.

A novel dendrimeric peptide with antimicrobial properties: structure-function analysis of SB056

The novel antimicrobial peptide with a dimeric dendrimer scaffold, SB056, was empirically optimized by high-throughput screening. This procedure produced an intriguing primary sequence whose structure-function analysis is described here. The alternating pattern of hydrophilic and hydrophobic amino acids suggests the possibility that SB056 is a membrane-active peptide that forms amphiphilic β-strands in a lipid environment. Circular dichroism confirmed that the cationic SB056 folds as β-sheets in the presence of anionic vesicles. Lipid monolayer surface pressure experiments revealed unusual kinetics of monolayer penetration, which suggest lipid-induced aggregation as a membranolytic mechanism. NMR analyses of the linear monomer and the dendrimeric SB056 in water and in 30% trifluoroethanol, on the other hand, yielded essentially unstructured conformations, supporting the excellent solubility and storage properties of this compound. However, simulated annealing showed that many residues lie in the β-region of the Ramachandran plot, and molecular-dynamics simulations confirmed the propensity of this peptide to fold as a β-type conformation. The excellent solubility in water and the lipid-induced oligomerization characteristics of this peptide thus shed light on its mechanism of antimicrobial action, which may also be relevant for systems that can form toxic β-amyloid fibrils when in contact with cellular membranes. Functionally, SB056 showed high activity against Gram-negative bacteria and some limited activity against Gram-positive bacteria. Its potency against Gram-negative strains was comparable (on a molar basis) to that of colistin and polymyxin B, with an even broader spectrum of activity than numerous other reference compounds.

A critical evaluation of the conformational requirements of fusogenic peptides in membranes

It is generally assumed that fusogenic peptides would require a certain conformation, which triggers or participates in the rate-determining step of membrane fusion. Previous structure analyses of the viral fusion peptide from gp41 of HIV-1 have yielded contradictory results, showing either an alpha-helical or a beta-stranded conformation under different conditions. To find out whether either of these conformations is relevant in the actual fusion process, we have placed sterically demanding substitutions into the fusion peptide FP23 to prevent or partially inhibit folding and self-assembly. A single substitution of either D- or L-CF(3)-phenylglycine was introduced in different positions of the sequence, and the capability of these peptide analogues to fuse large unilamellar vesicles was monitored by lipid mixing and dynamic light scattering. If fusion proceeds via a beta-stranded oligomer, then the D- and L-epimers are expected to differ systematically in their activity, since the D-epimers should be unable to form beta-structures due to sterical hindrance. If an alpha-helical conformation is relevant for fusion, then the D-epimers would be slightly disfavoured compared to the L-forms, hence a small systematic difference in fusion activity should be observed. Interestingly, we find that (1) all D- and L-epimers are fusogenically active, though to different extents compared to the wild type, and--most importantly--(ii) there is no systematic preference for either the D- or L-forms. We therefore suggest that a well-structured alpha-helical peptide conformation or a beta-stranded oligomeric assembly can be excluded as the rate-determining state. Instead, fusion appears to involve conformationally disordered peptides with a pronounced structural plasticity.

Optimized Protocol for Synthesis of Cyclic Gramicidin S: Starting Amino Acid Is Key to High Yield

[structures: see text] A simple and highly efficient Fmoc solid-phase protocol for synthesizing the antimicrobial decapeptide gramicidin S and various labeled analogues is presented. When preparing the linear precursor peptides (1a-e), a systematic permutation of the starting amino acid within the cyclic sequence gave different yields between 51% and 93%. Also the subsequent step of cyclization gave widely diverging yields between 26% and 74%, depending again on the starting amino acid. The ease of cyclization was found to correlate with the tendency of the respective linear precursor peptide to assume a preorganized conformation, as observed by circular dichroism. The overall yield is thus critically dependent on the starting amino acid and can be raised from 20% to 70% using (D)Phe. The choice of coupling agent and its counterion was found to play only a marginal role. Irrespective of being able to assume a preorganized conformation, none of the linear precursor peptides exhibited any antimicrobial or hemolytic activity. Using the optimized protocol, which involves only simple Fmoc-couplings and requires no intermittent purification steps, several gramicidin S analogues (3-8) containing 19F-labeled phenylglycine derivatives and/or 15N-labeled amino acids were synthesized for solid-state NMR structure analysis.

OTDR fiber-optical chemical sensor system for detection and location of hydrocarbon leakage

A distributed sensing system for apolar hydrocarbons is presented which is built from a polymer-clad silica fiber adapted to an optical time domain reflectometer (OTDR) set-up. OTDR measurements allow locating and detecting chemicals by measuring the time delay between short light pulses entering the fiber and discrete changes in the backscatter signals that are caused by local extraction of hydrocarbons into the fiber cladding. The light guiding properties of the fiber are affected by interaction of the extracted chemicals with the evanescent wave light field extending into the fiber cladding. Distributed sensing of pure liquid hydrocarbons (HC) and aqueous HC solutions with a commercially available mini-OTDR adapted to sensing fibers of up to 1km length could be demonstrated. A pulsed laser diode emitting at the 850 nm telecommunication wavelength was applied in the mini-OTDR to locate the HCs by analyzing the step drop (light loss) in the backscatter signal, which is induced by local refractive index (RI) increase in the silicone cladding due to the extracted HC. The prototype instrument can be applied for monitoring hydrocarbon leakage in large technical installations, such as tanks, chemical pipelines or chemical waste disposal containments.

Application of a fiber-optic NIR-EFA sensor system for in situ monitoring of aromatic hydrocarbons in contaminated groundwater

Interaction of analyte molecules with the evanescent wave of light guided in optical fibers is among the most promising novel sensing schemes that can be applied for environmental monitoring and on-line process analysis. By combining this measuring principle with the solid-phase extraction of analyte molecules into the polymer cladding of a fiber, it is possible to perform direct absorption measurements in the cladding, if the fiber is adapted to a conventional spectrometer/photometer. A big advantage of this arrangement is that the measurement is scarcely disturbed by matrix effects (background absorption of water in IR measurements, stray light due to turbidity in the sample). By using near-infrared (NIR) evanescent field absorption (EFA) measurements in quartz glass fibers coated with a hydrophobic silicone membrane it is possible to design and construct sensors for monitoring apolar hydrocarbons (HCs) in aqueous matrices.The paper presents a fiber-optic sensor system for the determination of aromatic HCs in groundwater or industrial wastewater. Generally, this instrument is suitable for quantitative in situ monitoring of pollutants such as aromatic solvents, fuels, mineral oils or chlorinated HCs with relatively low water saturation solubility (typically between 0.01 and 10 g l(-1)). The sensor probe is connected via all-silica fibers to a filter photometer developed at the IFIA, thus, allowing even remote analysis in a monitoring well. This portable instrument provides a total concentration signal of the organic compounds extracted into the fiber cladding by measuring the integral absorption at the 1st C--H overtone bands in the NIR spectral range. In situ measurements with the sensor system were performed in a groundwater circulation well at the VEGAS research facility of the University of Stuttgart (Germany). The NIR-EFA sensor system was tested within the frame of an experiment that was carried through in a tank containing sandy gravel with a groundwater-saturated aquifer, where soil and groundwater were contaminated with technical grade xylene. The goal of this experiment was to model and optimize the groundwater circulation well used for the remediation of the aquifer and soil surrounding the well. The sensor proved to trace reliably the total hydrocarbon concentration in the process water pumped from the well to a stripper column. Measurements were performed continuously over 4 months with C8 HC sum concentrations in the process water between 80 mg l(-1) down to the limit of detection, which is around 200 microg l(-1). It could be demonstrated that the fiber-optic sensor system is a valuable tool for near-real-time control of a remedial action technique and verification and documentation of its success.