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1.
Yeast ; 32(8): 541-57, 2015 Aug.
Artigo em Inglês | MEDLINE | ID: mdl-26059529

RESUMO

With the current quantitative metabolomics techniques, only whole-cell concentrations of NAD and NADH can be quantified. These measurements cannot provide information on the in vivo redox state of the cells, which is determined by the ratio of the free forms only. In this work we quantified free NAD:NADH ratios in yeast under anaerobic conditions, using alcohol dehydrogenase (ADH) and the lumped reaction of glyceraldehyde-3-phosphate dehydrogenase and 3-phosphoglycerate kinase as sensor reactions. We showed that, with an alternative accurate acetaldehyde determination method, based on rapid sampling, instantaneous derivatization with 2,4 diaminophenol hydrazine (DNPH) and quantification with HPLC, the ADH-catalysed oxidation of ethanol to acetaldehyde can be applied as a relatively fast and simple sensor reaction to quantify the free NAD:NADH ratio under anaerobic conditions. We evaluated the applicability of ADH as a sensor reaction in the yeast Saccharomyces cerevisiae, grown in anaerobic glucose-limited chemostats under steady-state and dynamic conditions. The results found in this study showed that the cytosolic redox status (NAD:NADH ratio) of yeast is at least one order of magnitude lower, and is thus much more reduced, under anaerobic conditions compared to aerobic glucose-limited steady-state conditions. The more reduced state of the cytosol under anaerobic conditions has major implications for (central) metabolism. Accurate determination of the free NAD:NADH ratio is therefore of importance for the unravelling of in vivo enzyme kinetics and to judge accurately the thermodynamic reversibility of each redox reaction.


Assuntos
Álcool Desidrogenase/metabolismo , NAD/metabolismo , Proteínas de Saccharomyces cerevisiae/metabolismo , Saccharomyces cerevisiae/metabolismo , Álcool Desidrogenase/química , Anaerobiose , Etanol/metabolismo , Glucose/metabolismo , NAD/análise , Oxirredução , Saccharomyces cerevisiae/química , Saccharomyces cerevisiae/enzimologia , Proteínas de Saccharomyces cerevisiae/química
2.
Biotechnol Bioeng ; 109(7): 1735-44, 2012 Jul.
Artigo em Inglês | MEDLINE | ID: mdl-22359245

RESUMO

This work presents a characterization of the stoichiometry and kinetics of anaerobic batch growth of Saccharomyces cerevisiae at cultivation temperatures between 12 and 30°C. To minimize the influence of the inoculum condition and ensure full adaptation to the cultivation temperature, the experiments were carried out in sequencing batch reactors. It was observed that the growth rate obtained in the first batch performed after each temperature shift was 10-30% different compared with the subsequent batches at the same temperature, which were much more reproducible. This indicates that the sequencing batch approach provides accurate and reproducible growth rate data. Data reconciliation was applied to the measured time patterns of substrate, biomass, carbon dioxide and byproducts with the constraint that the elemental conservation relations were satisfied, allowing to obtain consistent best estimates of all uptake and secretion rates. Subsequently, it was attempted to obtain an appropriate model description of the temperature dependency of these rates. It was found that the Ratkowsky model provided a better description of the temperature dependency of growth, uptake and secretion rates than the Arrhenius law. Most interesting was to find that most of the biomass-specific rates have the same temperature dependency, leading to a near temperature independent batch stoichiometry.


Assuntos
Fermentação , Saccharomyces cerevisiae/crescimento & desenvolvimento , Anaerobiose , Biomassa , Reatores Biológicos , Dióxido de Carbono/metabolismo , Cinética , Modelos Biológicos , Saccharomyces cerevisiae/metabolismo , Temperatura
3.
IET Syst Biol ; 4(2): 157-68, 2010 Mar.
Artigo em Inglês | MEDLINE | ID: mdl-20232995

RESUMO

In this study, the authors investigated how the glycolytic flux was regulated in time upon nitrogen starvation of cells with different growth histories. We have compared cells grown in glucose-limited chemostat cultures under respiratory conditions (low dilution rate of 0.1/h) to cells grown under respirofermentative conditions (high dilution rate of 0.35/h). The fermentative capacity was lower in cells grown under respiratory conditions than in cells grown under respirofermentative conditions, yet more resilient to prolonged nitrogen starvation. The time profiles revealed that the fermentative capacity even increased in cells grown under respiratory conditions during the first hours of nitrogen starvation. In cells grown under respirofermentative conditions the fermentative capacity decreased from the onset of nitrogen starvation. We have applied time-dependent Regulation Analysis to follow the fermentative capacity during nitrogen starvation. In both experiments, diverse categories of regulation were found. However, in the cells grown under respiratory conditions regulation was predominantly metabolic, whereas in the cells grown under respirofermentative conditions hierarchical regulation was dominant. To study the metabolic regulation, concentrations of intracellular metabolites, including allosteric regulators, were measured. The obtained results can explain some aspects of the metabolic regulation, but not all.


Assuntos
Glicólise/fisiologia , Modelos Biológicos , Nitrogênio/metabolismo , Saccharomyces cerevisiae/fisiologia , Biologia de Sistemas/métodos , Fermentação/fisiologia , Saccharomyces cerevisiae/química , Saccharomyces cerevisiae/metabolismo , Fatores de Tempo
4.
FEBS J ; 275(22): 5527-41, 2008 Nov.
Artigo em Inglês | MEDLINE | ID: mdl-18959741

RESUMO

Saccharomyces cerevisiae is known to be able to adapt to the presence of the commonly used food preservative benzoic acid with a large energy expenditure. Some mechanisms for the adaptation process have been suggested, but its quantitative energetic and metabolic aspects have rarely been discussed. This study discusses use of the stimulus response approach to quantitatively study the energetic and metabolic aspects of the transient adaptation of S. cerevisiae to a shift in benzoic acid concentration, from 0 to 0.8 mM. The information obtained also serves as the basis for further utilization of benzoic acid as a tool for targeted perturbation of the energy system, which is important in studying the kinetics and regulation of central carbon metabolism in S. cerevisiae. Using this experimental set-up, we found significant fast-transient (< 3000 s) increases in O(2) consumption and CO(2) production rates, of approximately 50%, which reflect a high energy requirement for the adaptation process. We also found that with a longer exposure time to benzoic acid, S. cerevisiae decreases the cell membrane permeability for this weak acid by a factor of 10 and decreases the cell size to approximately 80% of the initial value. The intracellular metabolite profile in the new steady-state indicates increases in the glycolytic and tricarboxylic acid cycle fluxes, which are in agreement with the observed increases in specific glucose and O(2) uptake rates.


Assuntos
Adaptação Fisiológica , Ácido Benzoico/farmacologia , Saccharomyces cerevisiae/metabolismo , Ácido Benzoico/metabolismo , Dióxido de Carbono , Ciclo do Ácido Cítrico , Metabolismo Energético , Conservantes de Alimentos/metabolismo , Conservantes de Alimentos/farmacologia , Glucose/farmacocinética , Glicólise , Cinética , Metabolismo , Consumo de Oxigênio , Saccharomyces cerevisiae/efeitos dos fármacos
5.
Metab Eng ; 10(1): 39-54, 2008 Jan.
Artigo em Inglês | MEDLINE | ID: mdl-18054509

RESUMO

Considering the effects of pH on many aspects of cell metabolism, such as its role in signaling processes and enzyme kinetics, it is indispensable to include the measurement of the dynamics of the intracellular pH, when studying the fast dynamic response of cells to perturbations. It has been shown previously that the intracellular pH rapidly drops following an increase in external glucose concentration [Kresnowati, M.T.A.P., Suarez-Mendez, C., Groothuizen, M.K., Van Winden, W.A., Heijnen, J.J., 2007. Measurement of fast dynamic intracellular pH in Saccharomyces cerevisiae using benzoic acid pulse. Biotechnol. Bioeng. 97, 86-98; Ramos, S., Balbin, M., Raposo, M., Valle, E., Pardo, L.A., 1989. The mechanism of intracellular acidification induced by glucose in Saccharomyces cerevisiae. J. Gen. Microbiol. 135, 2413-2422; Van Urk, H., Schipper, D., Breedveld, G.J., Mak, P.R., Scheffers, W.A., Van Dijken, J.P., 1989. Localization and kinetics of pyruvate-metabolizing enzymes in relation to aerobic alcoholic fermentation in Saccharomyces cerevisiae CBS 8066 and Candida utilis CBS 621. Biochim. Biophys. Acta 992(1), 78-86]. The mechanism for this fast intracellular acidification, however, has not been elucidated yet. This paper presents a metabolome-based analysis to reveal the physiological phenomena that cause the fast intracellular acidification following either a glucose pulse or an ethanol pulse to carbon-limited chemostat cultures of Saccharomyces cerevisiae. This quantitative study, which includes the determination of intracellular buffering capacity, the calculation of electric charge balance and the quantification of weak organic acid transport shows that none of the previously suggested mechanisms, i.e. increase in glucose phosphorylation and accumulation of CO(2), is sufficient to explain the measured decrease in intracellular pH following a glucose pulse.


Assuntos
Etanol/farmacologia , Glucose/farmacologia , Saccharomyces cerevisiae/efeitos dos fármacos , Saccharomyces cerevisiae/metabolismo , Ácidos/metabolismo , Algoritmos , Soluções Tampão , Dióxido de Carbono/metabolismo , Cromatografia Líquida de Alta Pressão , Meios de Cultura , Citosol/efeitos dos fármacos , Citosol/metabolismo , Fermentação , Concentração de Íons de Hidrogênio , Metabolismo , Oxigênio/farmacologia , Temperatura
6.
Biotechnol Bioeng ; 99(2): 421-41, 2008 Feb 01.
Artigo em Inglês | MEDLINE | ID: mdl-17614335

RESUMO

Although much information is available on in vitro role of ATP in regulation, the in vivo kinetics of reactions in which ATP plays a role are only partly known. In order to study such reactions, it is therefore necessary to study the role of ATP in vivo. This study presents an in vivo, targeted perturbation of the ATP flux in aerobic glucose-limited chemostat cultures of Saccharomyces cerevisiae, which was accomplished by transiently (20 min) changing the extracellular undissociated benzoic acid concentration via the pH of the culture. The performed pH shifts resulted in, within about 20 s, a 40% decrease (pH upshift) or a 23% increase (pH downshift) of the calculated ATP consumption rate while the specific glucose uptake rate did not change because of the glucose-limited condition. The pH upshift resulted in a strong decrease in the glycolytic and TCA cycle fluxes; carbon and energy balances indicated an increased flux toward storage carbohydrates. As expected, the pH downshift leads to the opposite effects. Overall, consistent responses were observed in the metabolic fluxes, the off gas concentrations of O(2) and CO(2) and intracellular metabolite concentrations, except for the concentrations of adenosine nucleotides which unexpectedly only showed minor dynamics. This demonstrates that our knowledge of the regulation of the ATP level, the storage metabolism, and central carbon metabolism of yeast is still incomplete. The new dynamic metabolite datasets obtained in this study will prove of great value in developing kinetic models.


Assuntos
Trifosfato de Adenosina/metabolismo , Benzoatos/metabolismo , Carbono/metabolismo , Saccharomyces cerevisiae/metabolismo , Aerobiose , Fermentação , Biologia de Sistemas
7.
Anal Chem ; 79(15): 5567-73, 2007 Aug 01.
Artigo em Inglês | MEDLINE | ID: mdl-17585833

RESUMO

This paper describes the design, modeling, and experimental characterization of an electrochemical sensor array for on-line monitoring of fermentor conditions in both miniaturized cell assays and in industrial scale fermentations. The viable biomass concentration is determined from impedance spectroscopy. As a miniaturized electrode configuration with high cell constant is applied, the spectral conductivity variation is monitored instead of the permittivity variation. The dissolved oxygen concentration is monitored amperometrically using an ultramicroelectrode array, which is shown to have negligible flow dependence. pH is monitored using an ion-sensitive field effect transistor (ISFET), and a platinum thermistor is included for temperature measurements. All sensors were shown to be sufficiently accurate within the range relevant to yeast fermentations. The sensor array is shown to be very stable and durable and withstands steam-sterilization.


Assuntos
Técnicas Biossensoriais/métodos , Fermentação , Saccharomyces cerevisiae/metabolismo , Biomassa , Técnicas Biossensoriais/instrumentação , Eletroquímica , Desenho de Equipamento , Concentração de Íons de Hidrogênio , Microbiologia Industrial , Microeletrodos , Platina/química , Saccharomyces cerevisiae/citologia , Sensibilidade e Especificidade , Temperatura , Termômetros , Transistores Eletrônicos
8.
Metab Eng ; 8(5): 395-405, 2006 Sep.
Artigo em Inglês | MEDLINE | ID: mdl-16807032

RESUMO

A first study of the in vivo kinetic properties of primary metabolism of Penicillium chrysogenum is presented. Dynamic metabolite data have been generated by rapidly increasing the extracellular glucose concentration of cells cultivated under well-defined conditions in an aerobic glucose-limited chemostat followed by measurement of the fast dynamic response of the primary metabolite levels (glucose pulse experiment). These experiments were carried out directly in the chemostat as well as in a mini plug flow reactor (BioScope) outside the chemostat. The results of the glucose pulse experiments carried out in the chemostat and the Bioscope were highly similar. During the 90 s time window of the pulse experiment, the glucose consumption rate increased to a value twice as high as in the steady state, a much lower increase than observed for the fermenting yeast Saccharomyces cerevisiae under similar conditions. Although the observed metabolite patterns in P. chrysogenum were comparable to S. cerevisiae large differences in the magnitude of the dynamic behavior were observed between both organisms. During the pulse experiment the level of glycolytic and TCA cycle intermediates, and adenine nucleotides changed between two- and five-fold. Furthermore, a highly similar five-fold increase in the cytocolic NADH/NAD ratio could be calculated from two independent equilibrium assumptions (fructose 1,6 bis-phosphate to the pool of 2 and 3PG and oxaloacetate to fumarate with glutamate transaminase). It was also found that the C4 pool (aspartate, fumarate, and malate) became much more reduced due to this increase in NADH/NAD ratio. Equilibrium conditions were confirmed to exist in the hexose-P pool, the glycolysis between F16bP and 2+3PG and in the C4 pool of the TCA cycle (fumarate, malate, oxaloacetate and aspartate).


Assuntos
Reatores Biológicos/microbiologia , Técnicas de Cultura de Células/métodos , Proteínas Fúngicas/metabolismo , Glucose/metabolismo , Modelos Biológicos , Penicillium chrysogenum/metabolismo , Proteoma/metabolismo , Simulação por Computador , Metabolismo Energético/fisiologia , Cinética , Taxa de Depuração Metabólica
9.
Biotechnol Bioeng ; 94(1): 159-66, 2006 May 05.
Artigo em Inglês | MEDLINE | ID: mdl-16508996

RESUMO

An experimental platform has been developed for rapid sampling and quenching of chemostat cultivated Penicillium chrysogenum broth for metabolome analysis in highly dynamic experiments, aimed at the elucidation of the in vivo kinetic properties of metabolism. The sampling and quenching protocol available from Saccharomyces cerevisiae had to be modified for Penicillium chrysogenum mainly because of its filamentous character. Intracellular metabolites of glycolysis, TCA cycle, and adenine nucleotides were measured with isotope dilution mass spectrometry (IDMS) using a U-(13)C-labeled metabolite mix produced from yeast cells as internal standard. By addition of the U-(13)C internal standard mix prior to the metabolite extraction procedure, partial degradation of metabolites as well as non-linearity and drift of the LC-MS/MS could be successfully compensated for. It was found that there is a serious matrix effect on metabolite extraction between different organisms, which is however completely corrected for by the IDMS approach. Intracellular metabolites could be analyzed with standard deviations of around 5%. A comparison of the metabolite levels between Saccharomyces cerevisiae and Penicillium chrysogenum showed both significant similarities and large differences, which seem to be related to the presence of the penicillin pathway.


Assuntos
Nucleotídeos de Adenina/metabolismo , Reatores Biológicos/microbiologia , Ciclo do Ácido Cítrico , Glicólise , Penicillium chrysogenum/metabolismo , Biomassa , Isótopos de Carbono , Cromatografia por Troca Iônica , Meios de Cultura/química , Marcação por Isótopo , Cinética , Penicillium chrysogenum/genética , Penicillium chrysogenum/crescimento & desenvolvimento , Técnica de Diluição de Radioisótopos , Padrões de Referência , Saccharomyces cerevisiae/metabolismo , Espectrometria de Massas por Ionização por Electrospray
10.
Metab Eng ; 6(4): 391-400, 2004 Oct.
Artigo em Inglês | MEDLINE | ID: mdl-15491867

RESUMO

An overview of published approaches for the metabolic flux control analysis of branch points revealed that often not all fundamental constraints on the flux control coefficients have been taken into account. This has led to contradictory statements in literature on the minimum number of large perturbation experiments required to estimate the complete set of flux control coefficients C(J) for a metabolic branch point. An improved calculation procedure, based on approximate Lin-log reaction kinetics, is proposed, providing explicit analytical solutions of steady state fluxes and metabolite concentrations as a function of large changes in enzyme levels. The obtained solutions allow direct calculation of elasticity ratios from experimental data and subsequently all C(J)-values from the unique relation between elasticity ratio's and flux control coefficients. This procedure ensures that the obtained C(J)-values satisfy all fundamental constraints. From these it follows that for a three enzyme branch point only one characterised or two uncharacterised large flux perturbations are sufficient to obtain all C(J)- values. The improved calculation procedure is illustrated with four experimental cases.


Assuntos
Algoritmos , Computação Matemática , Modelos Biológicos , Teoria de Sistemas
11.
Biotechnol Bioeng ; 85(6): 620-8, 2004 Mar 20.
Artigo em Inglês | MEDLINE | ID: mdl-14966803

RESUMO

First, we report the application of stable isotope dilution theory in metabolome characterization of aerobic glucose limited chemostat culture of S. cerevisiae CEN.PK 113-7D using liquid chromatography-electrospray ionization MS/MS (LC-ESI-MS/MS). A glucose-limited chemostat culture of S. cerevisiae was grown to steady state at a specific growth rate (mu)=0.05 h(-1) in a medium containing only naturally labeled (99% U-12C, 1% U-13C) carbon source. Upon reaching steady state, defined as 5 volume changes, the culture medium was switched to chemically identical medium except that the carbon source was replaced with 100% uniformly (U) 13C labeled stable carbon isotope, fed for 4 h, with sampling every hour. We observed that within a period of 1 h approximately 80% of the measured glycolytic metabolites were U-13C-labeled. Surprisingly, during the next 3 h no significant increase of the U-13C-labeled metabolites occurred. Second, we demonstrate for the first time the LC-ESI-MS/MS-based quantification of intracellular metabolite concentrations using U-13C-labeled metabolite extracts from chemostat cultivated S. cerevisiae cells, harvested after 4 h of feeding with 100% U-13C-labeled medium, as internal standard. This method is hereby termed "Mass Isotopomer Ratio Analysis of U-13C Labeled Extracts" (MIRACLE). With this method each metabolite concentration is quantified relative to the concentration of its U-13C-labeled equivalent, thereby eliminating drawbacks of LC-ESI-MS/MS analysis such as nonlinear response and matrix effects and thus leads to a significant reduction of experimental error and work load (i.e., no spiking and standard additions). By coextracting a known amount of U-13C labeled cells with the unlabeled samples, metabolite losses occurring during the sample extraction procedure are corrected for.


Assuntos
Cromatografia Líquida/métodos , Glucose/metabolismo , Saccharomyces cerevisiae/metabolismo , Espectrometria de Massas por Ionização por Electrospray/métodos , Algoritmos , Extratos Celulares/química , Estudos de Viabilidade , Glicólise/fisiologia , Marcação por Isótopo/métodos , Taxa de Depuração Metabólica , Técnica de Diluição de Radioisótopos , Reprodutibilidade dos Testes , Sensibilidade e Especificidade
12.
Biotechnol Bioeng ; 83(4): 395-9, 2003 Aug 20.
Artigo em Inglês | MEDLINE | ID: mdl-12800134

RESUMO

In this paper, three sampling techniques for rapid quenching of cellular metabolism and subsequent separation of cells from fermentation broth are compared: (i) quick freezing of fermentation broth directly in liquid nitrogen; (ii) quenching metabolism by exposing the fermentation broth to stainless steel beads (4-mm diameter) in a filter syringe precooled to -18 degrees C; and (iii) withdrawal of the filtrate through a 0.45 microm filter attached to a syringe and a needle inserted directly into the fermentor. It was concluded that use of liquid nitrogen as a quenching method to rapidly arrest cellular metabolism, for quantitative analysis of extracellular glucose, is not a very reliable method and that the filter syringe steel beads work very well.


Assuntos
Reatores Biológicos/microbiologia , Técnicas de Cultura de Células/métodos , Meios de Cultura/análise , Glucose/análise , Glucose/metabolismo , Saccharomyces/crescimento & desenvolvimento , Saccharomyces/metabolismo , Técnicas de Cultura de Células/instrumentação , Temperatura Baixa , Meios de Cultura/efeitos da radiação , Congelamento , Reprodutibilidade dos Testes , Saccharomyces/química , Saccharomyces/efeitos da radiação , Sensibilidade e Especificidade
13.
Biotechnol Bioeng ; 81(4): 448-58, 2003 Feb 20.
Artigo em Inglês | MEDLINE | ID: mdl-12491530

RESUMO

In vivo kinetics of Saccharomyces cerevisiae are studied, in a time window of 150 s, by analyzing the response of O(2) and CO(2) in the fermentor off-gas after perturbation of chemostat cultures by metabolite pulses. Here, a new mathematical method is presented for the estimation of the in vivo oxygen uptake rate (OUR) and carbon dioxide evolution rate (CER) directly from the off-gas data in such perturbation experiments. The mathematical construction allows effective elimination of delay and distortion in the off-gas measurement signal under highly dynamic conditions. A black box model for the fermentor off-gas system is first obtained by system identification, followed by the construction of an optimal linear filter, based on the identified off-gas model. The method is applied to glucose and ethanol pulses performed on chemostat cultures of S. cerevisiae. The estimated OUR is shown to be consistent with the independent dissolved oxygen measurement. The estimated in vivo OUR and CER provide valuable insights into the complex dynamic behavior of yeast and are essential for the establishment and validation of in vivo kinetic models of primary metabolism.


Assuntos
Reatores Biológicos , Dióxido de Carbono/metabolismo , Modelos Biológicos , Oxigênio/metabolismo , Saccharomyces cerevisiae/metabolismo , Dióxido de Carbono/análise , Técnicas de Cultura de Células/métodos , Simulação por Computador , Meios de Cultura/farmacologia , Desenho de Equipamento , Etanol/administração & dosagem , Glucose/administração & dosagem , Modelos Lineares , Oxigênio/análise , Consumo de Oxigênio , Saccharomyces cerevisiae/efeitos dos fármacos
14.
Biotechnol Bioeng ; 77(1): 61-72, 2002 Jan 05.
Artigo em Inglês | MEDLINE | ID: mdl-11745174

RESUMO

Biomass yields for several null mutants in Saccharomyces cerevisiae were successfully predicted with a metabolic network model. Energetic parameters of the model were obtained from growth data in C-limited aerobic chemostat cultures of the corresponding wild-type strain, which exhibited a P/O ratio of 1.46, a non-growth-related maintenance of 56 mmol ATP/C-mol biomass/h, and a growth-related requirement of 655 mmol ATP/C-mol biomass. Biomass yields and carbon uptake rates were modeled for different mutants incapacitated in their glyoxylate cycle and their gluconeogenesis. Biomass yields were calculated for different feed ratios of glucose to ethanol, and decreases for higher ethanol fractions were correctly predicted for mutants with deletions of the malate synthase, the isocitrate lyase, or the phosphoenolpyruvate carboxykinase. The growth of the fructose- 1,6-bisphosphatase deletion mutant was anticipated less accurate, but the tendency was modeled correctly.


Assuntos
Gluconeogênese/genética , Glioxilatos/metabolismo , Modelos Genéticos , Mutação , Saccharomyces cerevisiae/enzimologia , Saccharomyces cerevisiae/genética , Aerobiose/genética , Biomassa , Carbono/metabolismo , Metabolismo Energético/genética , Etanol/metabolismo , Glucose/metabolismo , Isocitrato Liase/deficiência , Isocitrato Liase/genética , Malato Sintase/deficiência , Malato Sintase/genética , Fosfoenolpiruvato Carboxiquinase (ATP)/deficiência , Fosfoenolpiruvato Carboxiquinase (ATP)/genética , Saccharomyces cerevisiae/crescimento & desenvolvimento
15.
Enzyme Microb Technol ; 28(9-10): 796-805, 2001 Jun 07.
Artigo em Inglês | MEDLINE | ID: mdl-11397461

RESUMO

Continuous culture of plant cell suspensions has been developed during the last 35 years. Starting from rather imperfect set-ups, nowadays much better equipment is used for studies on growth and production kinetics or cell physiology. In this review the development of equipment and theory, as well as the applications are discussed.

16.
Biotechnol Bioeng ; 68(6): 602-18, 2000 Jun 20.
Artigo em Inglês | MEDLINE | ID: mdl-10799985

RESUMO

A detailed stoichiometric model was developed for growth and penicillin-G production in Penicillium chrysogenum. From an a priori metabolic flux analysis using this model it appeared that penicillin production requires significant changes in fluxes through the primary metabolic pathways. This is brought about by the biosynthesis of carbon precursors for the beta-lactan nucleus and an increased demand for NADPH, mainly for sulfate reduction. As a result, significant changes in flux partitioning occur around four principal nodes in primary metabolism. These are located at: (1) glucose-6-phosphate; (2) 3-phosphoglycerate; (3) mitochondrial pyruvate; and (4) mitochondrial isocitrate. These nodes should be regarded as potential bottlenecks for increased productivity. The flexibility of these principal nodes was investigated by experimental manipulation of the fluxes through the central metabolic pathways using a high-producing strain of P. chrysogenum. Metabolic fluxes were manipulated through growth of the cells on different substrates in carbon-limited chemostat culture. Metabolic flux analysis, based on measured input and output fluxes, was used to calculate the fluxes around the principal nodes. It was found that, for growth on glucose, ethanol, and acetate, the flux partitioning around these nodes differed significantly. However, this had hardly any effect on penicillin productivity, showing that primary carbon metabolism is not likely to contain potential bottlenecks. Further experiments were performed to manipulate the total metabolic demand for the cofactor nicotinamide adenine dinucleotide phosphate (NADPH). NADPH demand was increased stepwise by cultivating the cells on glucose or xylose as the carbon source combined with either ammonia or nitrate as the nitrogen source, which resulted in a stepwise decrease of penicillin production. This clearly shows that, in penicillin fermentation, possible limitations in primary metabolism reside in the supply/regeneration of cofactors (NADPH) rather than in the supply of carbon precursors.


Assuntos
Penicilina G/metabolismo , Ácido Acético/metabolismo , Transporte Biológico Ativo , Biotecnologia , Compartimento Celular , Membrana Celular/metabolismo , Meios de Cultura , Cisteína/biossíntese , Citosol/metabolismo , Etanol/metabolismo , Glucose/metabolismo , Cinética , Modelos Biológicos , NADP/metabolismo , Penicillium chrysogenum/crescimento & desenvolvimento , Penicillium chrysogenum/metabolismo
17.
Biotechnol Bioeng ; 51(6): 645-58, 1996 Sep 20.
Artigo em Inglês | MEDLINE | ID: mdl-18629831

RESUMO

This article presents a simple, unstructured mathematical model describing microbial growth in continuous culture limited by a gaseous substrate. The model predicts constant gas conversion rates and a decreasing biomass concentration with increasing dilution rate. It has been found that the parameters influencing growth are primarily the gas transfer rate and the dilution rate. Furthermore, it is shown that, for correct simulation of growth, the influence of gaseous substrate consumption on the effective gas flow through the system has to be taken into account.Continuous cultures of Methanobacterium thermoautotrophicum were performed at three different gassing rates. In addition to the measurement of the rates of biomass production, product formation, and substrate consumption, microbial heat dissipation was assessed using a reaction calorimeter. For the on-line measurement of the concentration of the growth-limiting substrate, H(2), a specially developed probe has been used. Experimental data from continuous cultures were in good agreement with the model simulations. An increase in gassing rate enhanced gaseous substrate consumption and methane production rates. However, the biomass yield as well as the specific conversion rates remained constant, irrespective of the gassing rate. It was found that growth performance in continuous culture limited by a gaseous substrate is substantially different from "classic" continuous culture in which the limiting substrate is provided by the liquid feed. In this report, the differences between both continuous culture systems are discussed.

18.
Biotechnol Prog ; 12(4): 434-48, 1996.
Artigo em Inglês | MEDLINE | ID: mdl-8987472

RESUMO

Setting up a metabolic network model for respiratory growth of Saccharomyces cerevisiae requires the estimation of only two (energetic) stoichiometric parameters: (1) the operational PO ratio and (2) a growth-related maintenance factor k. It is shown, both theoretically and practically, how chemostat cultivations with different mixtures of two substrates allow unique values to be given to these unknowns of the proposed metabolic model. For the yeast and model considered, an effective PO ratio of 1.09 mol of ATP/mol of O (95% confidence interval 1.07-1.11) and a k factor of 0.415 mol of ATP/C-mol of biomass (0.385-0.445) were obtained from biomass substrate yield data on glucose/ethanol mixtures. Symbolic manipulation software proved very valuable in this study as it supported the proof of theoretical identifiability and significantly reduced the necessary computations for parameter estimation. In the transition from 100% glucose to 100% ethanol in the feed, four metabolic regimes occur. Switching between these regimes is determined by cessation of an irreversible reaction and initiation of an alternative reaction. Metabolic network predictions of these metabolic switches compared well with activity measurements of key enzymes. As a second validation of the network, the biomass yield of S. cerevisiae on acetate was also compared to the network prediction. An excellent agreement was found for a network in which acetate transport was modeled with a proton symport, while passive diffusion of acetate gave significantly higher yield predictions.


Assuntos
Saccharomyces cerevisiae/metabolismo , Acetatos/metabolismo , Biomassa , Enzimas/biossíntese , Etanol/metabolismo , Glucose/metabolismo , Modelos Genéticos , Consumo de Oxigênio , Polissacarídeos/biossíntese , RNA/biossíntese , Saccharomyces cerevisiae/enzimologia , Saccharomyces cerevisiae/genética
19.
Biotechnol Bioeng ; 48(6): 681-98, 1995 Dec 20.
Artigo em Inglês | MEDLINE | ID: mdl-18623538

RESUMO

Using available biochemical information, metabolic networks have been constructed to describe the biochemistry of growth of Saccharomyces cerevisiae and Candida utilis on a wide variety of carbon substrates. All networks contained only two fitted parameters, the P/O ratio and a maintenance coefficient. It is shown that with a growth-associated maintenance coefficient, K, of 1.37 mol ATP/ C-mol protein for both yeasts and P/O ratios of 1.20 and 1.53 for S. cerevisiae and C. utilis, respectively, measured biomass yields could be described accurately. A metabolic flux analysis of aerobic growth of S. cerevisiae on glucose/ethanol mixtures predicted five different metabolic flux regimes upon transition from 100% glucose to 100% ethanol. The metabolic network constructed for growth of S. cerevisiae on glucose was applied to perform a theoretical exercise on the overproduction of amino acids. It is shown that theoretical operational product yield values can be substantially lower than calculated maximum product yields. A practical case of lysine production was analyzed with respect to theoretical bottlenecks limiting product formation. Predictions of network-derived irreversibility limits for Y(sp) (mu) functions were compared with literature data. The comparisons show that in real systems such irreversibility constraints may be of relevance. It is concluded that analysis of metabolic network stoichiometry is a useful tool to detect metabolic limits and to guide process intensification studies. (c) 1995 John Wiley & Sons, Inc.

20.
Appl Microbiol Biotechnol ; 39(1): 42-7, 1993 Apr.
Artigo em Inglês | MEDLINE | ID: mdl-7763550

RESUMO

In Catharanthus roseus cell cultures the time courses of four enzyme activities, tryptophan decarboxylase (TDC), strictosidine synthase (SSS), geraniol-10-hydroxylase (G10H) and anthranilate synthase (AS), and alkaloid accumulation were compared under two different culture conditions (low-inoculum density and high-inoculum density on induction medium) and a control on growth medium. In growth medium a transient increase in TDC activity was first observed after which G10H reached its maximum activity; only tryptamine accumulated, no ajmalicine could be detected. Apparently, a concerted induction of enzyme activities is required for ajmalicine formation. Cells inoculated in induction medium showed such a concerted induction of AS, TDC and G10H activities. After 30 days the low-density culture had accumulated six times more ajmalicine (in mumoles/g) than the high-density culture. Thus, increase in biomass concentration (high-density cultures) did not enhance the total alkaloid production. The major differences observed in enzyme levels between high- and low-density cultures were in the AS and TDC activities, which were two to three times higher in the low-density culture, indicating that there is a positive correlation between ajmalicine formation and AS and TDC activities.


Assuntos
Anti-Inflamatórios não Esteroides/metabolismo , Antineoplásicos/metabolismo , Carbono-Nitrogênio Liases , Alcaloides de Triptamina e Secologanina , Ioimbina/análogos & derivados , Monoterpenos Acíclicos , Antranilato Sintase/metabolismo , Descarboxilases de Aminoácido-L-Aromático/metabolismo , Células Cultivadas , Indução Enzimática , Glucose/metabolismo , Hidroxilação , Oxigenases de Função Mista/metabolismo , Plantas Medicinais/metabolismo , Terpenos/metabolismo , Transferases/metabolismo , Triptaminas/metabolismo , Ioimbina/metabolismo
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