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1.
Front Mol Biosci ; 4: 8, 2017.
Article in English | MEDLINE | ID: mdl-28321398

ABSTRACT

Rhabdomyolysis is a disorder characterized by acute damage of the sarcolemma of the skeletal muscle leading to release of potentially toxic muscle cell components into the circulation, most notably creatine phosphokinase (CK) and myoglobulin, and is frequently accompanied by myoglobinuria. In the present work, we evaluated the toxicity of p-phenylenediamine (PPD), a main component of hair dyes which is reported to induce rhabdomyolysis. We studied the metabolic effect of this compound in vivo with Wistar rats and in vitro with C2C12 muscle cells. To this aim we have combined multi-omic experimental measurements with computational approaches using model-driven methods. The integrative study presented here has unveiled the metabolic disorders associated to PPD exposure that may underlay the aberrant metabolism observed in rhabdomyolys disease. Animals treated with lower doses of PPD (10 and 20 mg/kg) showed depressed activity and myoglobinuria after 10 h of treatment. We measured the serum levels of aspartate aminotransferase (AST), alanine aminotransferase (ALT), and creatine kinase (CK) in rats after 24, 48, and 72 h of PPD exposure. At all times, treatment with PPD at higher doses (40 and 60 mg/kg) showed an increase of AST and ALT, and also an increase of lactate dehydrogenase (LDH) and CK after 24 h. Blood packed cell volume and hemoglobin levels, as well as organs weight at 48 and 72 h, were also measured. No significant differences were observed in these parameters under any condition. PPD induce cell cycle arrest in S phase and apoptosis (40% or early apoptotic cells) on mus musculus mouse C2C12 cells after 24 h of treatment. Incubation of mus musculus mouse C2C12 cells with [1,2-13C2]-glucose during 24 h, subsequent quantification of 13C isotopologues distribution in key metabolites of glucose metabolic network and a computational fluxomic analysis using in-house developed software (Isodyn) showed that PPD is inhibiting glycolysis, non-oxidative pentose phosphate pathway, glycogen turnover, and ATPAse reaction leading to a reduction in ATP synthesis. These findings unveil the glucose metabolism collapse, which is consistent with a decrease in cell viability observed in PPD-treated C2C12 cells and with the myoglubinuria and other effects observed in Wistar Rats treated with PPD. These findings shed new light on muscle dysfunction associated to PPD exposure, opening new avenues for cost-effective therapies in Rhabdomyolysis disease.

2.
BMC Bioinformatics ; 18(1): 88, 2017 Feb 03.
Article in English | MEDLINE | ID: mdl-28158972

ABSTRACT

BACKGROUND: Tracing stable isotopes, such as 13C using various mass spectrometry (MS) methods provides a valuable information necessary for the study of biochemical processes in cells. However, extracting such information requires special care, such as a correction for naturally occurring isotopes, or overlapping mass spectra of various components of the cell culture medium. Developing a method for a correction of overlapping peaks is the primary objective of this study. RESULTS: Our computer program-MIDcor (free at https://github.com/seliv55/mid_correct) written in the R programming language, corrects the raw MS spectra both for the naturally occurring isotopes and for the overlapping of peaks corresponding to various substances. To this end, the mass spectra of unlabeled metabolites measured in two media are necessary: in a minimal medium containing only derivatized metabolites and chemicals for derivatization, and in a complete cell incubated medium. The MIDcor program calculates the difference (D) between the theoretical and experimentally measured spectra of metabolites containing only the naturally occurring isotopes. The result of comparison of D in the two media determines a way of deciphering the true spectra. (1) If D in the complete medium is greater than that in the minimal medium in at least one peak, then unchanged D is subtracted from the raw spectra of the labeled metabolite. (2) If D does not depend on the medium, then the spectrum probably overlaps with a derivatized fragment of the same metabolite, and D is modified proportionally to the metabolite labeling. The program automatically reaches a decision regarding the way of correction. For some metabolites/fragments in the case (2) D was found to decrease when the tested substance was 13C labeled, and this isotopic effect also can be corrected automatically, if the user provides a measured spectrum of the substance in which the 13C labeling is known a priori. CONCLUSION: Using the developed program improves the reliability of stable isotope tracer data analysis.


Subject(s)
Gas Chromatography-Mass Spectrometry , Metabolome , User-Computer Interface , Carbon Isotopes/chemistry , Cell Line , Culture Media/analysis , Humans , Internet , Isotope Labeling
3.
Stem Cells ; 34(5): 1163-76, 2016 05.
Article in English | MEDLINE | ID: mdl-27146024

ABSTRACT

In solid tumors, cancer stem cells (CSCs) can arise independently of epithelial-mesenchymal transition (EMT). In spite of recent efforts, the metabolic reprogramming associated with CSC phenotypes uncoupled from EMT is poorly understood. Here, by using metabolomic and fluxomic approaches, we identify major metabolic profiles that differentiate metastatic prostate epithelial CSCs (e-CSCs) from non-CSCs expressing a stable EMT. We have found that the e-CSC program in our cellular model is characterized by a high plasticity in energy substrate metabolism, including an enhanced Warburg effect, a greater carbon and energy source flexibility driven by fatty acids and amino acid metabolism and an essential reliance on the proton buffering capacity conferred by glutamine metabolism. An analysis of transcriptomic data yielded a metabolic gene signature for our e-CSCs consistent with the metabolomics and fluxomics analyses that correlated with tumor progression and metastasis in prostate cancer and in 11 additional cancer types. Interestingly, an integrated metabolomics, fluxomics, and transcriptomics analysis allowed us to identify key metabolic players regulated at the post-transcriptional level, suggesting potential biomarkers and therapeutic targets to effectively forestall metastasis. Stem Cells 2016;34:1163-1176.


Subject(s)
Epithelial Cells/metabolism , Epithelial Cells/pathology , Epithelial-Mesenchymal Transition , Metabolomics , Neoplastic Stem Cells/metabolism , Neoplastic Stem Cells/pathology , Amino Acids/metabolism , Cell Line, Tumor , Cell Proliferation/drug effects , Cell Proliferation/genetics , Citric Acid Cycle/drug effects , Citric Acid Cycle/genetics , Disease Progression , Epithelial Cells/drug effects , Epithelial-Mesenchymal Transition/drug effects , Epithelial-Mesenchymal Transition/genetics , Fatty Acids/biosynthesis , Gene Expression Profiling , Genes, Neoplasm , Glucose/metabolism , Glycolysis/drug effects , Glycolysis/genetics , Humans , Hydrogen-Ion Concentration , Mesoderm/pathology , Mitochondria/drug effects , Mitochondria/metabolism , NADP/metabolism , Neoplastic Stem Cells/drug effects , Oxidative Stress/drug effects , Pyruvate Dehydrogenase Complex/metabolism , Spheroids, Cellular/drug effects , Spheroids, Cellular/metabolism , Spheroids, Cellular/pathology , Transcription, Genetic/drug effects
4.
J Transl Med ; 12 Suppl 2: S11, 2014 Nov 28.
Article in English | MEDLINE | ID: mdl-25472654

ABSTRACT

The article addresses the strategic role of workforce preparation in the process of adoption of Systems Medicine as a driver of biomedical research in the new health paradigm. It reports on relevant initiatives, like CASyM, fostering Systems Medicine at EU level. The chapter focuses on the BioHealth Computing Program as a reference for multidisciplinary training of future systems-oriented researchers describing the productive interactions with the Synergy-COPD project.


Subject(s)
Education, Graduate , Medical Informatics/education , Pulmonary Disease, Chronic Obstructive/physiopathology , Algorithms , Biomarkers , Chronic Disease/therapy , Communication , Computer Simulation , European Union , Medical Informatics/trends , Molecular Biology/trends , Program Development , Software
5.
BMC Syst Biol ; 8: 109, 2014 Sep 14.
Article in English | MEDLINE | ID: mdl-25217974

ABSTRACT

BACKGROUND: It has been suggested that the adipokine resistin links obesity and insulin resistance, although how resistin acts on muscle metabolism is controversial. We aimed to quantitatively analyse the effects of resistin on the glucose metabolic flux profile and on insulin response in L6E9 myotubes at the metabolic level using a tracer-based metabolomic approach and our in-house developed software, Isodyn. RESULTS: Resistin significantly increased glucose uptake and glycolysis, altering pyruvate utilisation by the cell. In the presence of resistin, insulin only slightly increased glucose uptake and glycolysis, and did not alter the flux profile around pyruvate induced by resistin. Resistin prevented the increase in gene expression in pyruvate dehydrogenase-E1 and the sharp decrease in gene expression in cytosolic phosphoenolpyruvate carboxykinase-1 induced by insulin. CONCLUSIONS: These data suggest that resistin impairs the metabolic activation of insulin. This impairment cannot be explained by the activity of a single enzyme, but instead due to reorganisation of the whole metabolic flux distribution.


Subject(s)
Carbon Isotopes/metabolism , Glucose/metabolism , Insulin/metabolism , Metabolic Flux Analysis/methods , Muscle Fibers, Skeletal/metabolism , Resistin/metabolism , Software , Animals , Computational Biology , Phosphoenolpyruvate Carboxykinase (ATP)/metabolism , Pyruvate Dehydrogenase (Lipoamide)/metabolism , Rats
6.
PLoS One ; 9(1): e80018, 2014.
Article in English | MEDLINE | ID: mdl-24489641

ABSTRACT

The effects of pre-incubation with mercury (Hg(2+)) and cadmium (Cd(2+)) on the activities of individual glycolytic enzymes, on the flux and on internal metabolite concentrations of the upper part of glycolysis were investigated in mouse muscle extracts. In the range of metal concentrations analysed we found that only hexokinase and phosphofructokinase, the enzymes that shared the control of the flux, were inhibited by Hg(2+) and Cd(2+). The concentrations of the internal metabolites glucose-6-phosphate and fructose-6-phosphate did not change significantly when Hg(2+) and Cd(2+) were added. A mathematical model was constructed to explore the mechanisms of inhibition of Hg(2+) and Cd(2+) on hexokinase and phosphofructokinase. Equations derived from detailed mechanistic models for each inhibition were fitted to the experimental data. In a concentration-dependent manner these equations describe the observed inhibition of enzyme activity. Under the conditions analysed, the integral model showed that the simultaneous inhibition of hexokinase and phosphofructokinase explains the observation that the concentrations of glucose-6-phosphate and fructose-6-phosphate did not change as the heavy metals decreased the glycolytic flux.


Subject(s)
Cadmium/toxicity , Glycolysis/drug effects , Mercury/toxicity , Muscle, Skeletal/drug effects , Muscle, Skeletal/metabolism , Animals , Fructosephosphates/metabolism , Glucose/metabolism , Glucose-6-Phosphate/metabolism , Hexokinase/metabolism , In Vitro Techniques , Mice , Mice, Inbred C57BL , Phosphofructokinase-1/metabolism , Phosphofructokinases/metabolism
7.
Future Med Chem ; 6(16): 1791-810, 2014.
Article in English | MEDLINE | ID: mdl-25574531

ABSTRACT

Metabolic processes are altered in cancer cells, which obtain advantages from this metabolic reprogramming in terms of energy production and synthesis of biomolecules that sustain their uncontrolled proliferation. Due to the conceptual progresses in the last decade, metabolic reprogramming was recently included as one of the new hallmarks of cancer. The advent of high-throughput technologies to amass an abundance of omic data, together with the development of new computational methods that allow the integration and analysis of omic data by using genome-scale reconstructions of human metabolism, have increased and accelerated the discovery and development of anticancer drugs and tumor-specific metabolic biomarkers. Here we review and discuss the latest advances in the context of metabolic reprogramming and the future in cancer research.


Subject(s)
Antineoplastic Agents/pharmacology , Drug Design , Neoplasms/drug therapy , Neoplasms/metabolism , Antineoplastic Agents/chemistry , Antineoplastic Agents/therapeutic use , Biomarkers, Tumor/metabolism , Computational Biology , High-Throughput Screening Assays , Humans , Neoplasms/pathology
8.
ISRN Oncol ; 2012: 139268, 2012.
Article in English | MEDLINE | ID: mdl-23209942

ABSTRACT

Colorectal cancer (CRC) is one of the main causes of death. Cancer is initiated by several DNA damages, affecting proto-oncogenes, tumour suppressor genes, and DNA repairing genes. The molecular origins of CRC are chromosome instability (CIN), microsatellite instability (MSI), and CpG island methylator phenotype (CIMP). A brief description of types of CRC cancer is presented, including sporadic CRC, hereditary nonpolyposis colorectal cancer (HNPCC) or Lynch syndromes, familiar adenomatous polyposis (FAP), MYH-associated polyposis (MAP), Peutz-Jeghers syndrome (PJS), and juvenile polyposis syndrome (JPS). Some signalling systems for CRC are also described, including Wnt-ß-catenin pathway, tyrosine kinase receptors pathway, TGF-ß pathway, and Hedgehog pathway. Finally, this paper describes also some CRC treatments.

9.
Toxicology ; 264(3): 192-7, 2009 Oct 29.
Article in English | MEDLINE | ID: mdl-19686795

ABSTRACT

Several studies have been performed reporting antitumoral activity of different mushroom extracts. The current study reports the antiproliferative activity of flavomannin-6,6'-dimethylether obtained from a very common edible mushroom: Tricholoma equestre(L.)P.Kumm, and the characterization of its effects at molecular level. Concentrations causing 50% and 80% growth inhibition on human adenocarcinoma colorectal Caco-2 cells were determined (in microg/mL: IC(50)=96+/-3 after 24 h and 78+/-7 after 48 h, IC(80)=112+/-4 after 24 h and 90+/-3 after 48 h) by using MTT method. It was demonstrated that flavomannin-6,6'-dimethylether induced an arrest in G0/G1 phase of the cell cycle by flow cytometry analysis and an increase of p27 protein level by Western blot. Furthermore, this compound did not induce apoptosis by flow cytometry or DNA fragmentation by gel electrophoresis. Thus, it could be a promising agent due to its cytostatic effect against Caco-2 tumoral cells, and the absence of a genotoxic effect.


Subject(s)
Adenocarcinoma/pathology , Anthracenes/pharmacology , Antineoplastic Agents/chemistry , Cell Proliferation/drug effects , Colorectal Neoplasms/pathology , Tricholoma/chemistry , Adenocarcinoma/metabolism , Anthracenes/isolation & purification , Antineoplastic Agents/isolation & purification , Apoptosis/drug effects , Caco-2 Cells , Cell Cycle/drug effects , Colorectal Neoplasms/metabolism , Cyclin-Dependent Kinase Inhibitor p27 , DNA Fragmentation , Dose-Response Relationship, Drug , Humans , Inhibitory Concentration 50 , Intracellular Signaling Peptides and Proteins/metabolism , Time Factors
10.
J Agric Food Chem ; 56(24): 11675-82, 2008 Dec 24.
Article in English | MEDLINE | ID: mdl-19035659

ABSTRACT

Witch hazel (Hamamelis virginia) extracts are used in traditional medicine. They are particularly rich in gallate esters included in proanthocyanidins, hydrolyzable tannins (galloylated sugars), and methyl gallate. This study examines the response of human colon cancer cells to treatment with fractions obtained from a witch hazel polyphenolic extract. The results are compared with those obtained previously with homologous fractions from grape (less galloylated) and pine (nongalloylated). Witch hazel fractions were the most efficient in inhibiting cell proliferation in HT29 and HCT116 human colon cancer cell lines, which clearly shows that the more galloylated the fractions, the more effective they were at inhibiting proliferation of colon cancer cells. Witch hazel fractions were, in addition, more potent in arresting the cell cycle at the S phase and inducing apoptosis; they also induced a significant percentage of necrosis. Interestingly, the apoptosis and cell cycle arrest effects induced were proportional to their galloylation. Moreover, witch hazel fractions with a high degree of galloylation were also the most effective as scavengers of both hydroxyl and superoxide radicals and in protecting against DNA damage triggered by the hydroxyl radical system. These findings provide a better understanding of the structure-bioactivity relationships of polyphenolics, which should be of assistance in choosing an appropriate source and preparing a rational design for formulations of plant polyphenols in nutritional supplements.


Subject(s)
Antineoplastic Agents/chemistry , Antineoplastic Agents/pharmacology , Colonic Neoplasms/drug therapy , Gallic Acid/chemistry , Hamamelis/chemistry , Plant Extracts/chemistry , Plant Extracts/pharmacology , Apoptosis/drug effects , Cell Cycle/drug effects , Cell Line, Tumor , Cell Proliferation/drug effects , Flavonoids/chemistry , Flavonoids/pharmacology , Gallic Acid/analogs & derivatives , Humans , Phenols/chemistry , Phenols/pharmacology , Polyphenols , Structure-Activity Relationship
11.
Anal Chem ; 79(13): 5000-5, 2007 Jul 01.
Article in English | MEDLINE | ID: mdl-17523595

ABSTRACT

The quantitative understanding of the role of sugar phosphates in regulating tumor energetic metabolism at the proteomic and genomic level is a prerequisite for an efficient rational design in combined drug chemotherapy. Therefore, it is necessary to determine accurately the concentration of the main sugar phosphate pools at the lower concentrations present in the often-limited volume of tumor cell samples. Taking as an example the human adenocarcinoma cell line HT29, we here report a fast and reliable quantitative method based on the use of liquid nitrogen, a weak acid extraction, and liquid chromatography-electrospray ionization tandem mass spectrometry to quantify simultaneously the intracellular concentration of sugar phosphate pools. The method was set up using standard addition curves. Thus, it is possible to identify and quantify hexose phosphate, pentose phosphate, and triose phosphate pools up to 0.02-0.10 ng x microL(-1), depending on the analyte. The method developed was here used for the quantitative study of changes in phosphorylated carbohydrates of central carbon metabolism when high or low glucose concentration conditions are induced in vitro in the HT29 human colon adenocarcinoma cell line.


Subject(s)
Adenocarcinoma/metabolism , Chromatography, Liquid/methods , Colonic Neoplasms/metabolism , Spectrometry, Mass, Electrospray Ionization/methods , Sugar Phosphates/analysis , Adenocarcinoma/pathology , Cell Line , Cells, Cultured , Colonic Neoplasms/pathology , Glucose/analysis , Glucose/metabolism , Glucose-6-Phosphate/analysis , Glucose-6-Phosphate/metabolism , HT29 Cells , Humans , Pentose Phosphate Pathway , Reference Standards , Reproducibility of Results , Sensitivity and Specificity , Sugar Phosphates/metabolism , Time Factors
12.
BMC Neurosci ; 7 Suppl 1: S7, 2006 Oct 30.
Article in English | MEDLINE | ID: mdl-17118161

ABSTRACT

A current trend in neuroscience research is the use of stable isotope tracers in order to address metabolic processes in vivo. The tracers produce a huge number of metabolite forms that differ according to the number and position of labeled isotopes in the carbon skeleton (isotopomers) and such a large variety makes the analysis of isotopomer data highly complex. On the other hand, this multiplicity of forms does provide sufficient information to address cell operation in vivo. By the end of last millennium, a number of tools have been developed for estimation of metabolic flux profile from any possible isotopomer distribution data. However, although well elaborated, these tools were limited to steady state analysis, and the obtained set of fluxes remained disconnected from their biochemical context. In this review we focus on a new numerical analytical approach that integrates kinetic and metabolic flux analysis. The related computational algorithm estimates the dynamic flux based on the time-dependent distribution of all possible isotopomers of metabolic pathway intermediates that are generated from a labeled substrate. The new algorithm connects specific tracer data with enzyme kinetic characteristics, thereby extending the amount of data available for analysis: it uses enzyme kinetic data to estimate the flux profile, and vice versa, for the kinetic analysis it uses in vivo tracer data to reveal the biochemical basis of the estimated metabolic fluxes.


Subject(s)
Cells/enzymology , Isotopes/pharmacokinetics , Models, Biological , Algorithms , Animals , Isotope Labeling/methods , Isotopes/metabolism , Tissue Distribution
13.
FEBS Lett ; 580(27): 6302-10, 2006 Nov 27.
Article in English | MEDLINE | ID: mdl-17083937

ABSTRACT

Triterpenoids are known to induce apoptosis and to be anti-tumoural. Maslinic acid, a pentacyclic triterpene, is present in high concentrations in olive pomace. This study examines the response of HT29 and Caco-2 colon-cancer cell lines to maslinic-acid treatment. At concentrations inhibiting cell growth by 50-80% (IC50HT29=61+/-1 microM, IC80HT29=76+/-1 microM and IC50Caco-2=85+/-5 microM, IC80Caco-2=116+/-5 microM), maslinic acid induced strong G0/G1 cell-cycle arrest and DNA fragmentation, and increased caspase-3 activity. However, maslinic acid did not alter the cell cycle or induce apoptosis in the non-tumoural intestine cell lines IEC-6 and IEC-18. Moreover, maslinic acid induced cell differentiation in colon adenocarcinoma cells. These findings support a role for maslinic acid as a tumour suppressant and as a possible new therapeutic tool for aberrant cell proliferation in the colon. In this report, we demonstrate for the first time that, in tumoural cancer cells, maslinic acid exerts a significant anti-proliferation effect by inducing an apoptotic process characterized by caspase-3 activation by a p53-independent mechanism, which occurs via mitochondrial disturbances and cytochrome c release.


Subject(s)
Adenocarcinoma/metabolism , Antineoplastic Agents/pharmacology , Apoptosis/drug effects , Caspase 3/metabolism , Colonic Neoplasms/metabolism , Triterpenes/pharmacology , Adenocarcinoma/drug therapy , Antineoplastic Agents/therapeutic use , Cell Cycle/drug effects , Cell Differentiation/drug effects , Cell Line, Tumor , Colonic Neoplasms/drug therapy , Cytochromes c/metabolism , Dose-Response Relationship, Drug , Enzyme Activation/drug effects , Humans , Mitochondria/metabolism , Olea/chemistry , Triterpenes/chemistry , Triterpenes/therapeutic use , Tumor Suppressor Protein p53/metabolism
14.
Int J Cancer ; 119(12): 2733-41, 2006 Dec 15.
Article in English | MEDLINE | ID: mdl-17019714

ABSTRACT

The metabolic network of cancer cells confers adaptive mechanisms against many chemotherapeutic agents, but also presents critical constraints that make the cells vulnerable to perturbation of the network due to drug therapy. To identify these fragilities, combination therapies based on targeting the nucleic acid synthesis metabolic network at multiple points were tested. Results showed that cancer cells overcome single hit strategies through different metabolic network adaptations, demonstrating the robustness of cancer cell metabolism. Analysis of these adaptations also identified the maintenance of pentose phosphate cycle oxidative and nonoxidative balance to be critical for cancer cell survival and vulnerable to chemotherapeutic intervention. The vulnerability of cancer cells to the imbalance on pentose phosphate cycle was demonstrated by phenotypic phase plane analysis.


Subject(s)
Antineoplastic Combined Chemotherapy Protocols/therapeutic use , Carcinoma, Ehrlich Tumor/drug therapy , Drug Resistance, Neoplasm/drug effects , Pentose Phosphate Pathway/drug effects , Animals , Carcinoma, Ehrlich Tumor/pathology , Carcinoma, Ehrlich Tumor/physiopathology , Cell Line, Tumor , Cell Proliferation/drug effects , Cell Survival/drug effects , Dehydroepiandrosterone/administration & dosage , Dehydroepiandrosterone/pharmacology , Dose-Response Relationship, Drug , Drug Synergism , Growth Inhibitors/administration & dosage , Growth Inhibitors/pharmacology , HT29 Cells , Humans , Methotrexate/administration & dosage , Methotrexate/pharmacology , Mice , Mice, Inbred BALB C , Nucleic Acid Synthesis Inhibitors/administration & dosage , Nucleic Acid Synthesis Inhibitors/pharmacology , Oxidation-Reduction/drug effects , Oxythiamine/administration & dosage , Oxythiamine/pharmacology , Ribosemonophosphates/antagonists & inhibitors , Ribosemonophosphates/metabolism
15.
FEBS J ; 273(11): 2475-86, 2006 Jun.
Article in English | MEDLINE | ID: mdl-16704421

ABSTRACT

Galloylated and nongalloylated catechin conjugates with cysteine derivatives have been synthesized and evaluated for their capacity to scavenge free radicals and to influence crucial functions (cell cycle, apoptosis) in HT29 colon carcinoma cells. We show that the nonphenolic part of the molecule modified the capacity of catechins to donate hydrogen atoms and to transfer electrons to free radicals. Nongalloylated derivatives did not significantly influence either the cell cycle or apoptosis. Among the galloylated species, 4beta-[S-(O-ethyl-cysteinyl)]epicatechin 3-O-gallate, which showed a high electron-transfer capacity (5 e- per molecule), arrested the cell cycle and induced apoptosis as expected for galloylated catechins such as tea (-)-epigallocatechin 3-O-gallate. 4beta-[S-(N-Acetyl-O-methyl-cysteinyl)]epicatechin 3-O-gallate, which showed the highest hydrogen-donating capacity (10 H per molecule) while keeping the electron-transfer capacity low (2.9 e- per molecule), did not trigger any significant apoptosis. The gallate moiety did not appear to be sufficient for the pro-apoptotic effect of the catechin derivatives in HT29 cells. Instead, a high electron-transfer capacity is more likely to be behind this effect. The use of stable radicals sensitive exclusively to electron transfer may help to design molecules with either preventive scavenging action (high hydrogen donation, low electron transfer) or therapeutic pro-apoptotic activity (high electron transfer).


Subject(s)
Apoptosis/physiology , Catechin/physiology , Cell Cycle/physiology , Catechin/chemistry , Cell Line , Cell Line, Tumor , Cell Survival , Colonic Neoplasms , Electron Spin Resonance Spectroscopy , Electron Transport , Humans , Kidney , Oxidation-Reduction
16.
J Histochem Cytochem ; 54(2): 191-9, 2006 Feb.
Article in English | MEDLINE | ID: mdl-16116031

ABSTRACT

Metabolic mapping of enzyme activities (enzyme histochemistry) is an important tool to understand (patho)physiological functions of enzymes. A new enzyme histochemical method has been developed to detect transketolase activity in situ in various rat tissues and its ultrastructural localization in individual cells. In situ detection of transketolase is important because this multifunctional enzyme has been related with diseases such as cancer, diabetes, Alzheimer's disease, and Wernicke-Korsakoff's syndrome. The proposed method is based on the tetrazolium salt method applied to unfixed cryostat sections in the presence of polyvinyl alcohol. The method appeared to be specific for transketolase activity when the proper control reaction is performed and showed a linear increase of the amount of final reaction product with incubation time. Transketolase activity was studied in liver, small intestine, trachea, tongue, kidney, adrenal gland, and eye. Activity was found in liver parenchyma, epithelium of small intestine, trachea, tongue, proximal tubules of kidney and cornea, and ganglion cells in medulla of adrenal gland. To demonstrate transketolase activity ultrastructurally in liver parenchymal cells, the cupper iron method was used. It was shown that transketolase activity was present in peroxisomes and at membranes of granular endoplasmic reticulum. This ultrastructural localization is similar to that of glucose-6-phosphate dehydrogenase activity, suggesting activity of the pentose phosphate pathway at these sites. It is concluded that the method developed for in situ localization of transketolase activity for light and electron microscopy is specific and allows further investigation of the role of transketolase in (proliferation of) cancer cells and other pathophysiological processes.


Subject(s)
Epithelial Cells/enzymology , Liver/enzymology , Transketolase/metabolism , Animals , Cornea/enzymology , Endoplasmic Reticulum/enzymology , Endoplasmic Reticulum/ultrastructure , Intestine, Small/enzymology , Intracellular Membranes/enzymology , Kidney Tubules, Proximal/enzymology , Liver/ultrastructure , Male , Neurons/metabolism , Organ Specificity , Peroxisomes/enzymology , Rats , Rats, Wistar , Tongue/enzymology , Trachea/enzymology
17.
Eur J Biochem ; 271(19): 3877-87, 2004 Oct.
Article in English | MEDLINE | ID: mdl-15373833

ABSTRACT

In view of the increasing number of reported concentration oscillations in living cells, methods are needed that can identify the causes of these oscillations. These causes always derive from the influences that concentrations have on reaction rates. The influences reach over many molecular reaction steps and are defined by the detailed molecular topology of the network. So-called 'autoinfluence paths', which quantify the influence of one molecular species upon itself through a particular path through the network, can have positive or negative values. The former bring a tendency towards instability. In this molecular context a new graphical approach is presented that enables the classification of network topologies into oscillophoretic and nonoscillophoretic, i.e. into ones that can and ones that cannot induce concentration oscillations. The network topologies are formulated in terms of a set of uni-molecular and bi-molecular reactions, organized into branched cycles of directed reactions, and presented as graphs. Subgraphs of the network topologies are then classified as negative ones (which can) and positive ones (which cannot) give rise to oscillations. A subgraph is oscillophoretic (negative) when it contains more positive than negative autoinfluence paths. Whether the former generates oscillations depends on the values of the other subgraphs, which again depend on the kinetic parameters. An example shows how this can be established. By following the rules of our new approach, various oscillatory kinetic models can be constructed and analyzed, starting from the classified simplest topologies and then working towards desirable complications. Realistic biochemical examples are analyzed with the new method, illustrating two new main classes of oscillophore topologies.


Subject(s)
Cell Physiological Phenomena , Computer Simulation , Feedback, Physiological/physiology , Gene Expression Regulation/physiology , Models, Biological , Signal Transduction/physiology , Algorithms , Animals , Homeostasis , Humans , Numerical Analysis, Computer-Assisted
18.
Bioinformatics ; 20(18): 3387-97, 2004 Dec 12.
Article in English | MEDLINE | ID: mdl-15256408

ABSTRACT

MOTIVATION: Analysis of the conversion of (13)C glucose within the metabolic network allows the evaluation of the biochemical fluxes in interconnecting metabolic pathways. Such analyses require solving hundreds of equations with respect to individual isotopomer concentrations, and this assumes applying special software even for constructing the equations. The algorithm, proposed by others could be improved. METHOD: A C-code linked to the program written in Mathematica (Wolfram Research Inc.), constructs and solves differential equations for all isotopomer concentrations, using the general enzyme characteristics (K(m), equilibrium constant, etc.). This code uses innovative algorithm of determination for the isotopomers-products, thus essentially decreasing the computation time. Feasible metabolic fluxes are provided by the parameters of enzyme kinetics found from the data fitting. RESULTS: The software effectively evaluates metabolic fluxes based on the measured isotopomer distribution, as was illustrated by the analysis of glycolysis and pentose phosphate cycle. The mechanism of transketolase and transaldolase catalysis was shown to induce a specific kind of isotopomer re-distribution, which, despite the significance of its effect, usually is not taken into account. AVAILABILITY: The software could be freely downloaded from the site: http://bq.ub.es/bioqint/label_distribution/.


Subject(s)
Algorithms , Energy Metabolism/physiology , Glucose/metabolism , Models, Biological , Radioisotope Dilution Technique , Signal Transduction/physiology , Software , Computer Simulation , Kinetics , Metabolic Clearance Rate , Multienzyme Complexes/metabolism
19.
Biochem J ; 381(Pt 1): 287-94, 2004 Jul 01.
Article in English | MEDLINE | ID: mdl-15032751

ABSTRACT

Recent studies in metabolic profiling have underscored the importance of the concept of a metabolic network of pathways with special functional characteristics that differ from those of simple reaction sequences. The characterization of metabolic functions requires the simultaneous measurement of substrate fluxes of interconnecting pathways. Here we present a novel stable isotope method by which the forward and reverse fluxes of the futile cycles of the hepatic glucose metabolic network are simultaneously determined. Unlike previous radio-isotope methods, a single tracer [1,2-13C2]D-glucose and mass isotopomer analysis is used. Changes in fluxes of substrate cycles, in response to several gluconeogenic substrates, in isolated fasted hepatocytes from male Wistar rats were measured simultaneously. Incubation with these substrates resulted in a change in glucose-6-phosphatase/glucokinase and glycolytic/gluconeogenic flux ratios. Different net redistributions of intermediates in the glucose network were observed, resulting in distinct metabolic phenotypes of the fasted hepatocytes in response to each substrate condition. Our experimental observations show that the constraints of concentrations of shared intermediates, and enzyme kinetics of intersecting pathways of the metabolic network determine substrate redistribution throughout the network when it is perturbed. These results support the systems-biology notion that network analysis provides an integrated view of the physiological state. Interaction between metabolic intermediates and glycolytic/gluconeogenic pathways is a basic element of cross-talk in hepatocytes, and may explain some of the difficulties in genotype and phenotype correlation.


Subject(s)
Fasting/physiology , Glucose/metabolism , Hepatocytes/chemistry , Hepatocytes/metabolism , Animals , Carbon Isotopes/metabolism , Citric Acid Cycle/genetics , Citric Acid Cycle/physiology , Gas Chromatography-Mass Spectrometry/methods , Gas Chromatography-Mass Spectrometry/statistics & numerical data , Genotype , Glucokinase/metabolism , Gluconeogenesis/genetics , Gluconeogenesis/physiology , Glucose/chemistry , Glucose-6-Phosphatase/metabolism , Glycogen/biosynthesis , Glycogen/chemistry , Glycolysis/genetics , Glycolysis/physiology , Hepatocytes/enzymology , Lactic Acid/biosynthesis , Lactic Acid/chemistry , Male , Phenotype , Rats , Rats, Wistar , Substrate Cycling/genetics , Substrate Cycling/physiology
20.
Eur J Nutr ; 42(1): 43-9, 2003 Jan.
Article in English | MEDLINE | ID: mdl-12594540

ABSTRACT

BACKGROUND: Grapes and wine contain high concentrations of polyphenolic compounds. Although their cancer protective effect has been well documented, their activity as anticarcinogens should be cautiously considered since the molecular bases of action and their applicability to human cancer prevention are still unclear. AIM OF THE STUDY: We studied the antioxidant/antiradical activity and the antiproliferative effect in vitro of different polyphenolic mixtures, extracted from grapes and fractionated through RP-HPLC. METHODS: The polyphenolic fractions were chemically characterized and their antioxidant/antiradical activity was determined by the DPPH assay. Mouse hepatoma Hepa-1c1c7 cells were used to study the cell growth inhibition capacity of these fractions by MTT assay. Their capacity of altering cell cycle and possible induction of apoptosis was examined using FACS analysis. RESULTS: The original polyphenolic fraction OW, which contained gallic acid (GA), (+)-catechin (Cat), (-)-epicatechin (Ec), glycosylated flavonols (F) and procyanidin oligomers was fractionated into fraction I, composed of monomers and small oligomers, and fraction II that included flavonols and procyanidin oligomers of higher molecular weight. The three polyphenolic fractions tested showed quite similar antiradical activity, although fraction I was the most potent antiradical agent (lowest ED(50) value: 9 microg). Fraction II was the least potent cell growth inhibitor (highest IC(50) value: 100 microg/ml) but showed the strongest effect on the cell cycle of Hepa-1c1c7, inducing apoptosis in those cells. The original fraction OW was demonstrated to have the most potent cell growth inhibition effect (lowest IC(50) value: 43 microg/ml). However, it only appeared to alter cell cycle of Hepa-1c1c7 at concentrations higher than its IC(50) and did not induce apoptosis in those cells. A similar effect on cell cycle and apoptosis was encountered for fraction I. CONCLUSIONS: The polyphenolic fractions tested in this study were potent antiradical agents and exerted an antiproliferative effect in mouse hepatoma Hepa-1c1c7 cells; the fraction with the highest degree of polimerization and galloylation (fraction II) had the most influence on the cell cycle and induction of apoptosis on Hepa-1c1c7.


Subject(s)
Antioxidants/pharmacology , Cell Cycle/drug effects , Flavonoids , Liver Neoplasms, Experimental/prevention & control , Phenols/pharmacology , Polymers/pharmacology , Vitis/chemistry , Animals , Antioxidants/analysis , Apoptosis/drug effects , Cell Division/drug effects , Chromatography, High Pressure Liquid/methods , Liver Neoplasms, Experimental/drug therapy , Mice , Molecular Weight , Phenols/analysis , Polymers/analysis , Polyphenols , Tumor Cells, Cultured
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