Communication: Experimental proof of symmetry breaking in tilted smectics composed of molecules with axial chirality

For the first time, domains with twisted structures have been established in planar samples of achiral compounds in tilted smectic C phase. This evidences separation of molecular conformers differing in the sense of axial chirality and confirms polar C(2) symmetry of these domains. A simple model considering polar surface anchoring energy and bulk energy of the twist can account for this finding. Conditions for coexistence of twisted and homogeneous domains are discussed.     

Full-range optical pH sensor based on imaging techniques

A new colour-based disposable sensor array for a full pH range (0-14) is described. The pH sensing elements are a set of different pH indicators immobilized in plasticized polymeric membranes working by ion-exchange or co-extraction. The colour changes of the 11 elements of the optical array are obtained from a commercial scanner using the hue or H component of the hue, saturation, value (HSV) colour space, which provides a robust and precise parameter, as the analytical parameter. Three different approaches for pH prediction from the hue H of the array of sensing elements previously equilibrated with an unknown solution were studied: Linear model, Sigmoid competition model and Sigmoid surface model providing mean square errors (MSE) of 0.1115, 0.0751 and 0.2663, respectively, in the full-range studied (0-14). The performance of the optical disposable sensor was tested for pH measurement, validating the results against a potentiometric reference procedure. The proposed method is quick, inexpensive, selective and sensitive and produces results similar to other more complex optical approaches for broad pH sensing.     

Synthetic UDP-furanoses as potent inhibitors of mycobacterial galactan biogenesis

UDP-galactofuranose (UDP-Galf) is a substrate for two types of enzymes, UDP-galactopyranose mutase and galactofuranosyltransferases, which are present in many pathogenic organisms but absent from mammals. In particular, these enzymes are involved in the biosynthesis of cell wall galactan, a polymer essential for the survival of the causative agent of tuberculosis, Mycobacterium tuberculosis. We describe here the synthesis of derivatives of UDP-Galf modified at C-5 and C-6 using a chemoenzymatic route. In cell-free assays, these compounds prevented the formation of mycobacterial galactan, via the production of short "dead-end" intermediates resulting from their incorporation into the growing oligosaccharide chain. Modified UDP-furanoses thus constitute novel probes for the study of the two classes of enzymes involved in mycobacterial galactan assembly, and studies with these compounds may ultimately facilitate the future development of new therapeutic agents against tuberculosis.     

Supercritical fluid extraction as a tool for isolation of monoterpenes from coniferous needles and walnut-tree leaves

Several monoterpenes, i.e., (+)-α-pinene, (−)-camphene, sabinene, (−)-β-pinene, myrcene, R-(+)-limonene, (−)-bornylacetate, (−)-trans-caryophyllene and a-humulene were identified and determined by gas chromatography-mass spectrometry (GC-MS) in needles of Pinaceae (Picea abies, P. omorika, P. pungens, P. Breweriana, Pinus nigra, P. mungo turra, P. black, P. sylvestris, Abies pinsapo, A. holophylla, A. Bronmuelleris, A. alba, Larix Kaempferi L. decidua) and tree-leaves of Juglandaceae (Juglans regia, J. nigra, J. sieboldiana var. Cordiformis) families. Supercritical fluid extraction (SFE) was found to be very useful for their isolation at optimised conditions (needles/leaves: pressure 20/30 MPa, temperature 80/130°C, time of extraction 60/60 min, modifier chloroform/chloroform). Their seasonal distribution, evaluation of differences in concentrations and relative amounts in different trees and their varieties grown in different localities were evaluated.      

Role of the shape of various bacteria in their separation by Microthermal Field-Flow Fractionation

The steady-state movement of the spherical and non-spherical particles, such as prolate or oblate rotational ellipsoids, cylinders, or parallelepipeds, suspended in a liquid and exposed to a unidirectional temperature gradient, is analyzed theoretically. The differences in the ratios of the rotational to translational diffusion coefficients of the non-spherical to spherical particles, the heterogeneity of thermal conductivity of the particle body, and the heterogeneity in surface chemical nature make possible to separate the particles according to differences in shape. Preliminary experimental separations of Gram-positive and Gram-negative, nearly spherical and rod-shaped bacteria performed by Microthermal Field-Flow Fractionation confirmed that the fractionation of the cells according to differences in shape is possible.     

Regioisomeric analysis of triacylglycerols using silver-ion liquid chromatography-atmospheric pressure chemical ionization mass spectrometry: comparison of five different mass analyzers

Silver-ion high-performance liquid chromatography (HPLC) coupled to atmospheric pressure chemical ionization mass spectrometry (APCI-MS) is used for the regioisomeric analysis of triacylglycerols (TGs). Standard mixtures of TG regioisomers are prepared by the randomization reaction from 8 mono-acid TG standards (tripalmitin, tristearin, triarachidin, triolein, trielaidin, trilinolein, trilinolenin and tri-gamma-linolenin). In total, 32 different regioisomeric doublets and 11 triplets are synthesized, separated by silver-ion HPLC using three serial coupled chromatographic columns giving a total length of 75cm. The retention of TGs increases strongly with the double bond (DB) number and slightly for regioisomers having more DBs in sn-1/3 positions. DB positional isomers (linolenic vs. γ-linolenic acids) are also separated and their reverse retention order in two different mobile phases is demonstrated. APCI mass spectra of all separated regioisomers are measured on five different mass spectrometers: single quadrupole LC/MSD (Agilent Technologies), triple quadrupole API 3000 (AB SCIEX), ion trap Esquire 3000 (Bruker Daltonics), quadrupole time-of-flight micrOTOF-Q (Bruker Daltonics) and LTQ Orbitrap XL (Thermo Fisher Scientific). The effect of different types of mass analyzer on the ratio of [M+H-R(i)COOH](+) fragment ions in APCI mass spectra is lower compared to the effect of the number of DBs, their position on the acyl chain and the regiospecific distribution of acyl chains on the glycerol skeleton. Presented data on [M+H-R(i)COOH](+) ratios measured on five different mass analyzers can be used for the direct regioisomeric determination in natural and biological samples.     

Analysis of anthocyanin pigments in Lonicera (Caerulea) extracts using chromatographic fractionation followed by microcolumn liquid chromatography-mass spectrometry

Anthocyanins from the fruit Lonicera caerulea L. var. kamtschatica (blueberry honeysuckle, Caprifoliaceae) were studied via (semi)preparative chromatographic fractionation followed by MS and μLC/MS analysis. The extraction procedure was optimized with respect to analytical purposes as well as its potential use for the preparation of nutraceuticals. The highest yield of anthocyanins was obtained using acidified methanol as the extraction medium. A comparable total anthocyanin content was obtained using a mixture of methanol and acetone. However, when Lonicera anthocyanins were in contact with acetone, a condensation reaction occurred to a large extent and related 5-methylpyranoanthocyanins were found. The effect of other extraction media, including ethanol as a "green" solvent, is also discussed. The potential of two fractionation procedures for extract purification differing in their chromatographic selectivity and scale was studied (i.e. using a Sephadex LH-20 gel column and a reversed phase). Fractions obtained by both procedures were used for a detailed analysis. MS and μLC/MS(2) methods were used for monitoring anthocyanin and 5-methylpyranoderivatives content as well as identifying less common and more complex dyes (dimer of cyanidin-3-hexoside, cyanidin-ethyl-catechin-hexosides, etc.). These more complex dyes are most likely formed during fruit treatment.     

Evaluation of comprehensive two-dimensional gas chromatography coupled to time-of-flight mass spectrometry for the diagnosis of inherited metabolic disorders using an automated data processing strategy

Organic acidurias are a large group of inherited metabolic disorders (IMDs), commonly diagnosed by GC-MS analysis of organic acids in urine after acidic extraction and trimethylsilylation. In this study, a GC×GC-ToF-MS method has been optimized for the analysis of pathological metabolites in urine. An automated data processing strategy based on the use of mass spectra and GC retention times for the target search and quantification of pathological metabolites has been developed. Using this procedure, each unknown sample is automatically examined for the presence of markers of several diseases at the same time. The method has been applied for the analysis of 6 challenging proficiency testing samples from patients with IMDs (thymidine phosphorylase deficiency, mevalonic aciduria, hawkinsinuria, aromatic l-amino acid decarboxylase deficiency, propionic acidemia and medium-chain acyl-CoA dehydrogenase deficiency). Using the GC×GC-ToF-MS method, we were able to determine complete sets of markers for all the IMDs. The quality of the mass spectral matches for the pathological markers was higher than 800 (out of 1000).     

Context-specific acoustic differences between Peruvian and Iberian Spanish vowels

This paper examines four acoustic properties (duration F0, F1, and F2) of the monophthongal vowels of Iberian Spanish (IS) from Madrid and Peruvian Spanish (PS) from Lima in various consonantal contexts (/s/, /f/, /t/, /p/, and /k/) and in various phrasal contexts (in isolated words and sentence-internally). Acoustic measurements on 39 speakers, balanced by dialect and gender, can be generalized to the following differences between the two dialects. The vowel /a/ has a lower first formant in PS than in IS by 6.3%. The vowels /e/ and /o/ have more peripheral second-formant (F2) values in PS than in IS by about 4%. The consonant /s/ causes more centralization of the F2 of neighboring vowels in IS than in PS. No dialectal differences are found for the effect of phrasal context. Next to the between-dialect differences in the vowels, the present study finds that /s/ has a higher spectral center of gravity in PS than in IS by about 10%, that PS speakers speak slower than IS speakers by about 9%, and that Spanish-speaking women speak slower than Spanish-speaking men by about 5% (irrespective of dialect).     

Inference and phase transitions in the detection of modules in sparse networks

We present an asymptotically exact analysis of the problem of detecting communities in sparse random networks generated by stochastic block models. Using the cavity method of statistical physics and its relationship to belief propagation, we unveil a phase transition from a regime where we can infer the correct group assignments of the nodes to one where these groups are undetectable. Our approach yields an optimal inference algorithm for detecting modules, including both assortative and disassortative functional modules, assessing their significance, and learning the parameters of the underlying block model. Our algorithm is scalable and applicable to real-world networks, as long as they are well described by the block model.