Characterisation of bioenergetic pathways and related regulators by multiple assays in human tumour cells.

BACKGROUND: Alterations in cellular metabolism are considered as hallmarks of cancers, however, to recognize these alterations and understand their mechanisms appropriate techniques are required. Our hypothesis was to determine whether dominant bioenergetic mechanism may be estimated by comparing the substrate utilisation with different methods to detect the labelled carbon incorporation and their application in tumour cells. METHODS: To define the bioenergetic pathways different metabolic tests were applied: (a) measuring CO2 production from [1-(14)C]-glucose and [1-(14)C]-acetate; (b) studying the effect of glucose and acetate on adenylate energy charge; (c) analysing glycolytic and TCA cycle metabolites and the number of incorporated (13)C atoms after [U-(13)C]-glucose/[2-(13)C]-acetate labelling. Based on [1-(14)C]-substrate oxidation two selected cell lines out of seven were analysed in details, in which the highest difference was detected at their substrate utilization. To elucidate the relevance of metabolic characterisation the expression of certain regulatory factors, bioenergetic enzymes, mammalian target of rapamycin (mTOR) complexes (C1/C2) and related targets as important elements at the crossroad of cellular signalling network were also investigated. RESULTS: Both [U-(13)C]-glucose and [1-(14)C]-substrate labelling indicated high glycolytic capacity of tumour cells. However, the ratio of certain (13)C-labelled metabolites showed detailed metabolic differences in the two selected cell lines in further characterisation. The detected differences of GAPDH, ß-F1-ATP-ase expression and adenylate energy charge in HT-1080 and ZR-75.1 tumour cells also confirmed the altered metabolism. Moreover, the highly limited labelling of citrate by [2-(13)C]-acetate-representing a novel functional test in malignant cells-confirmed the defect of TCA cycle of HT-1080 in contrast to ZR-75.1 cells. Noteworthy, the impaired TCA cycle in HT-1080 cells were associated with high mTORC1 activity, negligible protein level and activity of mTORC2, high expression of interleukin-1ß, interleukin-6 and heme oxygenase-1 which may contribute to the compensatory mechanism of TCA deficiency. CONCLUSIONS: The applied methods of energy substrate utilisation and other measurements represent simple assay system using (13)C-acetate and glucose to recognize dominant bioenergetic pathways in tumour cells. These may offer a possibility to characterise metabolic subtypes of human tumours and provide guidelines to find biomarkers for prediction and development of new metabolism related targets in personalized therapy.

Improved proton affinity measurements for proline and modified prolines using triple quadrupole and ion trap mass spectrometers.

Proton affinity (PA) of compounds such as proline, cis-3-methylproline, cis-3-ethylproline, cis-3-isopropylproline and cis-3-isopentanylproline was determined by kinetic method with amines as the reference bases. The effective temperatures determined using ion trap and triple quadrupole mass spectrometers were found to be significantly different. In the case of the triple quadrupole instruments, the effective temperature depends significantly on the collision energy. The influence of the apparent basicity (GBapp) on the effective temperature may be used to estimate the difference in protonation entropy (DeltaDeltaS degrees) between the sample and reference compounds. In case of the ion trap mass spectrometer, the variation of the effective temperature as a function of the excitation amplitude is small, so it is difficult to account for the contribution of the entropy effects to the proton affinity value. A better estimation of the PA and DeltaDeltaS degrees values for the investigated molecules is obtained by combining the GBapp and Teff data pairs that are obtained from both the mass spectrometers.

Liquid chromatographic and mass spectrometric analysis of human serum acid alpha-1-glycoprotein.

Human serum acid alpha-1-glycoprotein (AGP, orosomucoid) content of healthy individuals and cancer patients was measured, isolated and purified using a protocol of fast and biocompatible sample preparation, ion exchange and dye-ligand affinity chromatographic methods. In comparison to the healthy individuals significantly higher serum AGP levels were found in a wide spectrum of cancer patients, indicating its diagnostic value in the malignant disease. Oligosaccharide content of AGP samples was separated following PNGase F enzyme digestion and analysed by RP-HPLC and MALDI-TOF mass spectrometry. RP-HPLC and MALDI-TOF mass spectrometric analysis of sugar constituents of AGP specimen originated from selected cancer patients with high serum AGP levels indicated the appearance of anomal distribution of bi-, tri- and tetra-antennary oligosaccharide structures compared to the healthy controls.

Differentiation of vegetable oils by mass spectrometry combined with statistical analysis.

The main triacylglycerol (TAG) composition of different plant oils (almond, avocado, corn germ, grape seed, linseed, mustard seed, olive, peanut, pumpkin seed, sesame seed, soybean, sunflower, walnut and wheat germ) were analyzed using two different mass spectrometric techniques: HPLC/APCI-MS (high-performance liquid chromatography/atmospheric pressure chemical ionization mass spectrometry) and MALDI-TOFMS (matrix-assisted laser desorption/ionization time-of-flight mass spectrometry).Linear discriminant analysis (LDA) as a multivariate mathematical statistical method was successfully used to distinguish different plant oils based on their relative TAG composition. With LDA analysis of either APCI-MS or MALDI-MS data, the classification among the almond, avocado, grape seed, linseed, mustard seed, olive, sesame seed and soybean oil samples was 100% correct. In both cases only 6 different oil samples from a total of 73 were not classified correctly.

Investigation of atrazine metabolism in river sediment by high-performance liquid chromatography/mass spectrometry.

Microbial degradation processes play an important role in chemical water clearance taking place in river sediments. Bacteria remove not only easily degradable organic species, but various xenobiotics as well, producing clear and xenobiotic free water for bank-filtered wells. Atrazine is a widely used herbicide, and it is one of the most common xenobiotics present in Danube water. In this study the pathway and kinetics of atrazine metabolism of sedimental microbiota were studied. Samples were collected from river sediment and from pure microbial growth cultures. An analytical scheme including sample preparation, chromatography and mass spectrometry was developed and optimised. Solid-phase extraction (SPE) was found to be satisfactory for sample preparation. For qualitative analysis of samples both reversed-phase and normal-phase high-performance liquid chromatography/mass spectrometry (HPLC/MS) methods were developed and used. Selectivity, detection limits and accuracy of the two methods were compared. Using this analytical scheme, the full atrazine metabolism of the organism Comamonas acidovorans was explored. Altogether, 12 metabolites were identified from the original compound to the urea end product. Detection limits in the range of 50 ng L(-1)-1 microg L(-1) were obtained for different metabolites.

Mass spectrometry and mass-selective detection in chromatography.

An overview of chromatography-mass spectrometry coupling is presented here, focussing mainly on possibilities offered by this detection technique. GC-MS and HPLC-MS are the two most often used variants, which have quite different characteristics. Various mass-spectrometric possibilities are briefly discussed: ionization techniques, determination of elemental formulas, structural information and the question of sensitivity and selectivity. Options for mass-spectrometric instrumentation and applications of tandem mass spectrometry are also mentioned.

Field desorption mass spectrometry of large multiply branched saturated hydrocarbons.

Large multiply branched saturated hydrocarbons containing 67-103 carbon atoms (molecular masses 941.8-1446.8 Da) were analyzed by field desorption mass spectrometry (FD-MS) with a double-focusing mass spectrometer. FD-MS was found to have detection limits in the 100 fmol range. The FD mass spectra exhibited molecular ions of astonishingly low abundance. However, the fragment ions formed were closely related to the proposed molecular structure, allowing us to set up rules for straightforward structure elucidation of unknowns. In detail, (i) dehydrogenation, (ii) alkyl losses from molecular ions and (iii) subsequent alkene losses were observed. The influence of the electric field strength on dehydrogenation and C-C cleavages was examined by variation of the emitter potential. Additionally, ion dissociations in the ion source and in the first and second field-free regions, respectively, were compared to study the relative importance of field-induced and thermally induced processes.

Qualitative and quantitative determination of poloxamer surfactants by mass spectrometry.

Poloxamers are polyethylene-polypropylene glycol linear co-polymers. A simple matrix-assisted laser desorption/ionization mass spectrometry (MALDI-MS) method has been developed for the determination of the average molecular weight of poloxamers. The molecular mass of five standard poloxamers determined by MALDI closely corresponds to that specified by the manufacturers, and no mass distribution effects were observed. Quantitation of distributions based on the molecular mass envelope using electrospray (ES) ionization was unsuccessful. To overcome this problem, quantitation was based on fragment ions (m/z 45 and 59) which gave reproducible signals using a very high orifice voltage ( approximately 200 eV). Poloxamer concentrations were determined accurately with a good linear response using the standard addition method. We believe that the use of very small fragment ions for quantitation of polymers may become a widely applicable general technique.

MassKinetics: a theoretical model of mass spectra incorporating physical processes, reaction kinetics and mathematical descriptions.

A theoretical framework and an accompanying computer program (MassKinetics, www.chemres.hu/ms/ masskinetics) is developed for describing reaction kinetics under statistical, but non-equilibrium, conditions, i.e. those applying to mass spectrometry. In this model all the important physical processes influencing product distributions are considered: reactions, including the effects of acceleration, collisions and photon exchange. These processes occur simultaneously and are taken into account by the master equation approach. The system is described by (independent) product, kinetic energy and internal energy distributions, and the time development of these distributions is studied using transition probability functions. The product distribution at the end of the experiment corresponds to the mass spectrum. Individual elements in this scheme are mostly well known: internal energy-dependent reaction rates are calculated by transition state theory (RRK or RRKM formalisms). In the course of collisions, energy transfer and other processes may occur (the latter usually resulting in the 'loss' of ion signal). Collisions are characterized by their probability and by energy transfer in a single collision. To describe single collisions, three collision models are used: long-lived collision complexes, partially inelastic collisions and partially inelastic collisions with cooling. The latter type has been developed here, and is capable of accounting for cooling effects occurring in collision cascades. Descriptions of photon absorption and emission are well known in principle, and these are also taken into account, in addition to changes in kinetic energy due to external (electric) fields. These changes in the system occur simultaneously, and are described by master equations (a set of differential equations). The usual form of the master equation (taking into account reactions and collisional excitation) was extended to consider also radiative energy transfer, kinetic energy changes, energy partitioning and ion loss collisions. Initial results show that close to experimental accuracy can be obtained with MassKinetics, using few or no adjustable parameters. The model/program can be used to model almost all types of mass spectrometric experiments (e.g. MIKE, CID, SORI and resonant excitation). Note that it was designed for mass spectrometric applications, but can also be used to study reaction kinetics in other non-equilibrium systems.

Formation of a2+ ions of protonated peptides. An ab initio study.

The mechanism of the formation of a2+ ions from b2+ ions occurring during fragmentation of protonated peptides is investigated using quantum chemical methods. The geometries of the stationary structures involved in two possible mechanisms, namely, a two-step mechanism via an open-chain acylium ion and a concerted pathway involving rupture of two covalent bonds of the cyclic isomer of the b2+ ion, as well as the energetics of the reactions, were calculated at the MP2 and B3LYP levels, both combined with the 6-31G(d,p) as well as the 6-31++G(d,p) basis sets for the simplest analog of the b2+ ion. The energetically favored path is the direct expulsion of the CO molecule from the cyclic b2+ ion. The ZPE-corrected barrier height for this reaction is 26.2 kcal mol(-1) at the MP2/6-31G(d,p) level, while the highest barrier along the two step path is 31.4 kcal mol(-1). The barrier height for the reverse reaction is 3.8 kcal mol(-1), significantly smaller than the average kinetic energy release (KER) measured for larger b2+ ions. The barrier height for the reverse reactions of the MeCO-NH-CHMeCO+, NH2-iBuCH-CO-NH-CH2CO+, and NH2-CH2-CO-NH-CH(i-Bu)CO+ b2+ ions was found to be 11.3, 9.6, and 18.4 kcal mol(-1), in reasonable agreement with the measured KER for these reactions, indicating that the simplest model compound has unique properties in this respect. Based on comparisons with G2-MP2 calculations, comments are made on the applicability of various levels of theory for the description of the reaction.

Thermal energy distribution observed in electrospray ionization

A new method was developed which fits a thermal internal energy distribution to ions formed by electrospray ionization. The molecular ion survival yield was measured and determined by RRKM calculations as a function of temperature. The ('characteristic') temperature was determined when the calculated and measured molecular ion survival yields were equal. The 'characteristic' temperatures were very similar (average RSD errors were 8%) for a set of analogous compounds (benzylpyridine salts), and the resulting thermal internal energy distributions were close to those determined by De Pauw's method. The validity of the method was also checked performing blackbody infrared radiation and on-resonance excitation experiments on a Fourier transform ion cyclotron resonance instrument with benzylpyridine salts and leucine enkephalin. The results strongly suggest that internal energy distributions in electrospray ionization are very close to thermal distributions. It was found that the characteristic temperature increases linearly with the cone voltage. It is suggested that the characteristic temperature can be used as a quantitative measure to control and standardize conditions in electrospray ionization. Copyright 1999 John Wiley & Sons, Ltd.

Proteinase inhibitors from desert locust, Schistocerca gregaria: engineering of both P(1) and P(1)' residues converts a potent chymotrypsin inhibitor to a potent trypsin inhibitor.

Two peptides, SGCI and SGTI, that inhibited chymotrypsin and trypsin, respectively, were isolated from the haemolymph of Schistocerca gregaria. Their primary structures were found to be identical with SGP-2 and SGP-1, two of a series of peptides isolated from ovaries of the same species (A. Hamdaoui et al., FEBS Lett. 422 (1998) 74-78). All these peptides are composed of 35-36 amino acid residues and contain three homologous disulfide bridges. The residues imparting specificity to SGCI and SGTI were identified as Leu-30 and Arg-29, respectively. The peptides were synthesised by solid-phase peptide synthesis, and the synthetic ones displayed the same inhibition as the natural forms: SGCI is a strong inhibitor of chymotrypsin (K(i) = 6.2 x 10(-12) M), and SGTI is a rather weak inhibitor of trypsin (K(i) = 2.1 x 10(-7) M). The replacement of P(1) then P(1)' residues of SGCI with trypsin-specific residues increased affinity towards trypsin 3600- and 1100-fold, respectively, thus SGCI was converted to a strong trypsin inhibitor (K(i) = 5.0 x 10(-12) M) that retained some inhibitory affinity towards chymotrypsin (K(i) = 3.5 x 10(-8) M). The documented role of both P(1) and P(1)' highlights the importance of S(1)'P(1)' interactions in enzyme-inhibitor complexes.

Application of overpressured layer chromatography combined with digital autoradiography and mass spectrometry in the study of deramciclane metabolism.

Overpressured layer chromatography was combined with the highly sensitive and rapid digital autoradiography (DAR) and mass spectrometry to separate, detect, and identify 3H- and 14C-labeled deramciclane metabolites in different biological matrixes. Several minor and major metabolites were separated from plasma and urine samples. The radioactive metabolites localized by DAR were scraped from the thin-layer chromatographic plate and transferred to a mass spectrometer for structure identification. Several metabolites were isolated and characterized, including hydroxy-N-desmethyl deramciclane, which is described in detail. The combination of techniques is efficient and has good sensitivity: about 2 micrograms metabolite from a biological matrix was isolated and identified this way.

[Mass spectrometry in the verification of pyrimethamine poisoning]. / Pyrimethamin intoxikáció tömegspektrometriás igazolása.

A 17 years old male patient with Pyrimethamin therapy was released from our department by emphasising the necessity of continuous control. A month later the patient was accepted again with serious anaemia. Since the patient did not follow the instructions Pyrimethamin intoxication was presumed, but it had to be proved. At last the drug in the plasma was identified and quantified by mass spectrometry. The plasma concentration of Pyrimethamin was five times higher than the therapeutic level. The rapid analysis (4 hours after taking of blood) and adequate treatment resulted in rapid improvement with the concomitant decrease of plasma Pyrimethamin concentration. During clinical treatment the level of Pyrimethamin in the plasma was followed by mass spectrometry.

Microheterogeneity characterization of a paracelsin mixture from Trichoderma reesei using high-energy collision-induced dissociation tandem mass spectrometry.

The microheterogeneity of the paracelsin mixture broth of Trichoderma reesei was analysed using mass spectrometric methods, in particular high-energy collision-induced dissociation (CID) tandem mass spectrometry (MS/MS). Based on the liquid secondary ion mass spectrum of the mixture, there are three main components, with molecular masses M and (M +/- 14), together with two minor components of molecular weight (M +/- 28). The high-energy CID tandem mass spectra of both the protonated and sodiated molecules yielded abundant and characteristic fragment ions, but of very different types. It was found that a paracelsin peptaibol in a mixture could be successfully sequenced based on the tandem mass spectra of its protonated and sodiated molecules or, alternatively, on the tandem mass spectra of its y7 and b13 fragment ions. A terminology for indicating these sequential peptide fragments is proposed. To determine the sequence of new analogues, tandem mass spectra of the y7, (y7 +/- 14), b13, (b13 +/- 14) and (MH +/- 14) positive ions were also taken. Based on these experiments, four new paracelsin components (PA-F, PA-G, PA-H and PA-I) were sequenced successfully. The microheterogeneity of the mixture was found to be more pronounced than had been assumed previously. In these new analogues, besides positions 6 and 9, position 17 is also involved in the exchange. MS/MS studies on minor fragment ions, such as (b13-28) and (b8-14) show further microheterogeneity at positions 3, 5, 10 and 12, which increase the number of possible minor components.

Distinction of amino Acid enantiomers based on the basicity of their dimers.

Mixtures of several amino acid pairs, in all four chiral combinations, were studied. The protonated trimers (A(2)BH(+)) fragment, forming ABH(+) and A(2)H(+) dimers. Abundance ratios of these fragments were measured in the mass-analyzed ion kinetic energy spectra of the trimers. These were found to depend on the stereochemistry (homo- or heterochiral form) of the ABH(+) dimer. The results were evaluated using the kinetic method, and the chiral discrimination was related to a difference in gas-phase basicity (GB) between the homo- and the heterochiral dimers. Four amino acid pairs (proline-tryptophan, phenylalanine-alanine, phenylalanine-proline, and phenylalanine-valine) were studied. Chiral discriminations were observed in all cases, relating to 0.4-4 kJ/mol differences in GB. The technique described here can generally be used to study enantiomers by mass spectrometry and is capable of reliably distinguishing energy differences as small as 0.2 kJ/mol in cluster ions.

Antibiotics A21459 A and B, new inhibitors of bacterial protein synthesis. II. Structure elucidation.

The structures of the antibiotics, active against a few Gram-negative bacteria and Clostridium difficile, were determined on the basis of physicochemical analyses on the intact molecules and on the acid hydrolysate of A21459 A. FAB-MS and 1H and 13C NMR investigations identified the amino acid units and determined their sequence. Antibiotics A21459 A and B are homodetic cyclic peptides constituted by eight amino acid units. They are glycine, methoxytryptophan, tryptophan, cysteine, alanine, sarcosine, dehydroalanine, and alpha-aminobutyric acid for A21459 A (alanine for A21459 B). Cysteine and alanine condensed to form a thiazole moiety, according to the biosynthesis of thiazole containing antibiotics.

Average activation energies of low-energy fragmentation processes of protonated peptides determined by a new approach.

An attempt was made to estimate the average activation energies of low-energy fragmentation processes of protonated oligopeptides by combining RRKM theory and the results of electrospray ionization/surface induced dissociation (ESI/SID). The average internal energy was assumed to be deposited by three processes: thermal energy gained in the heated capillary of the electrospray source, energy gain in the capillary-skimmer region of the electrospray source, and energy deposition by collision with the surface. The latter fraction was calculated based on the position of the ESI/SID fragmentation of efficiency curves and the ratio of kinetic to internal energy conversion in SID. Using the average internal energy estimated from the experimental results, the average activation energies were evaluated by applying RRKM theory. The application of this approach for protonated leucine enkephalin resulted in an average activation energy of 36 +/- 5 kcal/mol for the lowest energy decompositions. The approach has also been applied to several other peptides in the mass range of 200-1200 Da, yielding average activation energies in the range of 35-47 kcal/mol.