SHORT‐TERM TEMPORAL VARIABILITY OF AMMONIUM AND UREA UPTAKE BY ALEXANDRIUM CATENELLA (DINOPHYTA) IN CULTURES1

In batch cultures of four Mediterranean strains (from France, Italy, and Spain) of Alexandrium catenella (Whedon et Kof.) Balech growing on a daily light cycle, ammonium and urea uptake were estimated by the ¹⁵N tracer technique. Ammonium uptake could be described by Michaelis–Menten kinetics along a substrate gradient of 0.1–10 μgat N · L^?1 for the four strains, while two different patterns were observed for urea uptake with Michaelis–Menten kinetics for one strain and linear kinetics for the others. In all cases, an increase in uptake rates with time was noted over the daylight period. This trend led to a net increase in the maximum uptake rate (V_max; for saturable kinetics) and in the initial slope α. For ammonium, V_max increased by a factor of 2–10 depending on the strain, and, for urea, the maximal uptake rates measured increased by a factor of 2–18. Temporal variations of half‐saturation constants (K_s) for both nutrients did not show a clear trend. Increases in V_max and α showed an acclimation of the cells’ uptake system over time to a N pulse, which may be explained by the light periodicity. For two strains, extensive ammonium release was observed during urea assimilation. This mechanism removes urea from the medium, so it is no longer available to other potential competitors, but supplies N back to the medium in the form of ammonium. From a methodological point of view, the phenomenon leads to considerable underestimates of the contribution of urea to phytoplankton growth.     

Theoretical analysis of intrinsic reaction kinetics and the behavior of immobilized enzymes system for steady-state conditions

Mathematical modeling of immobilized enzymes under different kinetics mechanism viz. simple Michaelis–Menten, uncompetitive substrate inhibition, total competitive product inhibition, total non-competitive product inhibition and reversible Michaelis–Menten reaction are discussed. These five kinetic models are based on reaction diffusion equations containing non-linear terms related to Michaelis–Menten kinetics of the enzymatic reaction. Modified Adomian decomposition method is employed to derive the general analytical expressions of substrate and product concentration for all these five mechanisms for all possible values of the parameters Φ_S (Thiele modulus for substrate), Φ_P (Thiele modulus for product) and α (dimensionless inhibition degree). Also we have presented the general analytical expressions for the mean integrated effectiveness factor for all values of parameters. Analytical results are compared with the numerical results and also with the limiting case results, which are found to be good in agreement.     

Occurrence of dead core in catalytic particles containing immobilized enzymes: analysis for the Michaelis–Menten kinetics and assessment of numerical methods

In this article, the occurrence of dead core in catalytic particles containing immobilized enzymes is analyzed for the Michaelis–Menten kinetics. An assessment of numerical methods is performed to solve the boundary value problem generated by the mathematical modeling of diffusion and reaction processes under steady state and isothermal conditions. Two classes of numerical methods were employed: shooting and collocation. The shooting method used the ode function from Scilab software. The collocation methods included: that implemented by the bvode function of Scilab, the orthogonal collocation, and the orthogonal collocation on finite elements. The methods were validated for simplified forms of the Michaelis–Menten equation (zero-order and first-order kinetics), for which analytical solutions are available. Among the methods covered in this article, the orthogonal collocation on finite elements proved to be the most robust and efficient method to solve the boundary value problem concerning Michaelis–Menten kinetics. For this enzyme kinetics, it was found that the dead core can occur when verified certain conditions of diffusion–reaction within the catalytic particle. The application of the concepts and methods presented in this study will allow for a more generalized analysis and more accurate designs of heterogeneous enzymatic reactors.     

COPPER‐UPTAKE KINETICS OF COASTAL AND OCEANIC DIATOMS1

We investigated copper (Cu) acquisition mechanisms and uptake kinetics of the marine diatoms Thalassiosira oceanica Hasle, an oceanic strain, and Thalassiosira pseudonana Hasle et Heimdal, a coastal strain, grown under replete and limiting iron (Fe) and Cu availabilities. The Cu‐uptake kinetics of these two diatoms followed classical Michaelis–Menten kinetics. Biphasic uptake kinetics as a function of Cu concentration were observed, suggesting the presence of both high‐ and low‐affinity Cu‐transport systems. The half‐saturation constants (K_m) and the maximum Cu‐uptake rates (V_max) of the high‐affinity Cu‐transport systems (～7–350 nM and 1.5–17 zmol · μm^?2 · h^?1, respectively) were significantly lower than those of the low‐affinity systems (>800 nM and 30–250 zmol · μm^?2 · h^?1, respectively). The two Cu‐transport systems were controlled differently by low Fe and/or Cu. The high‐affinity Cu‐transport system of both diatoms was down‐regulated under Fe limitation. Under optimal‐Fe and low‐Cu growth conditions, the K_m of the high‐affinity transport system of T. oceanica was lower (7.3 nM) than that of T. pseudonana (373 nM), indicating that T. oceanica had a better ability to acquire Cu at subsaturating concentrations. When Fe was sufficient, the low‐affinity Cu‐transport system of T. oceanica saturated at 2,000 nM Cu, while that of T. pseudonana did not saturate, indicating different Cu‐transport regulation by these two diatoms. Using CuEDTA as a model organic complex, our results also suggest that diatoms might be able to access Cu bound within organic Cu complexes.     

Respiration rate in human primary renal proximal and early distal tubular cells in vitro: considerations for biohybrid renal devices

Background: For biotechnological use of cells in tissue engineered applications, such as biohybrid renal devices, optimal culture conditions are required. Oxygen delivery is one of the most important cell determined system criterion for ex vivo applications. It is involved in the maintenance of highly oxygen‐dependent renal tubular epithelial cells, affecting metabolic state, differentiation, and desired transport functions. The purpose of this study was to examine respiratory patterns such as basal oxygen consumption, solute transport‐related oxygen demand, and oxygen concentration‐dependent oxygen uptake of renal tubular epithelial cells in vitro. Methods: Respiratory patterns of highly purified human primary renal proximal (hPTC) and early distal tubular cells (hTALDC) were analyzed by perfusion respirometry. Spontaneous oxygen consumptions and maximum respirations after carbonyl cyanide m‐chlorophenyl hydrazone (CCCP) uncoupling were measured. Respiration fractions contributing to basolateral Na⁺/K⁺‐ATPase transport activities were assessed via ouabain inhibition and Na⁺‐free medium. Furthermore, we determined oxygen uptake in dependency of oxygen concentration and morphology in various culture conditions (shaken, static). Results: Respiration of solely hPTC strongly depended on oxygen concentration in a Michaelis‐Menten pattern at noncritical oxygen concentrations. Respiration of both cell types was significantly increased by CCCP, whereas average Na⁺/K⁺‐ATPase‐based oxygen uptake fractions differ significantly between the two cell types. Nevertheless, no significant differences were found in spontaneous respiration between hPTC and hTALDC. Conclusions: Our results clearly indicate that cell‐specific oxygen consumption parameters have to be considered in the design of biotechnological devices intended to support kidney function by cell‐supported renal replacement therapy. © 2011 American Institute of Chemical Engineers Biotechnol. Prog., 2011     

Accurate kinetic parameter estimation during progress curve analysis of systems with endogenous substrate production

We have identified an error in the published integral form of the modified Michaelis–Menten equation that accounts for endogenous substrate production. The correct solution is presented and the error in both the substrate concentration, S, and the kinetic parameters V_m, K_m, and R resulting from the incorrect solution was characterized. The incorrect integral form resulted in substrate concentration errors as high as 50% resulting in 7–50% error in kinetic parameter estimates. To better reflect experimental scenarios, noise containing substrate depletion data were analyzed by both the incorrect and correct integral equations. While both equations resulted in identical fits to substrate depletion data, the final estimates of V_m, K_m, and R were different and K_m and R estimates from the incorrect integral equation deviated substantially from the actual values. Another observation was that at R = 0, the incorrect integral equation reduced to the correct form of the Michaelis–Menten equation. We believe this combination of excellent fits to experimental data, albeit with incorrect kinetic parameter estimates, and the reduction to the Michaelis–Menten equation at R = 0 is primarily responsible for the incorrectness to go unnoticed. However, the resulting error in kinetic parameter estimates will lead to incorrect biological interpretation and we urge the use of the correct integral form presented in this study. Biotechnol. Bioeng. 2011;108: 2499–2503. © 2011 Wiley Periodicals, Inc.     

Citric acid production from glucose. I. Growth and excretion kinetics in a stirred fermentor

The growth and citric acid production kinetics of Saccharomycopsis lipolytica on glucose are investigated in an aerated stirred fermentor. Cellular growth first proceeds exponentially until exhaustion of ammonia in the fermentation medium. Cells then continue to grow at a reduced rate with a concomitant decrease in intracellular nitrogen content. Citric and isocitric acid production starts at the end of the growth phase. During about 80 hr excretion proceeds at a constant rate of 0.7 g/liter/hr for citric acid and 0.1 g/liter/hr for isocitric acid. The final citric and isocitric acid concentrations are 95 and 10g/liter, respectively. During acid excretion cellular respiration accounts for 60 and 35% of consumed oxygen and glucose. Both acid and CO₂ production rates follow a Michaelis–Menten-type dependence on oxygen concentration with Michaelis–Menten constants of 0.9 and 0.15 mg/liter for acid and CO₂ productions, respectively.     

Increase of Catalytic Activity of α-Chymotrypsin by Metal Salts for Transesterification of an Amino Acid Ester in Ethanol

α-Chymotrypsin-catalyzed transesterification of n-acetyl-l-tyro-sine methyl ester in ethanol was markedly accelerated by addition of small amounts of divalent metal salts. The reaction rate depended not only on the nature of metal ions but also on the nature of anionic counter ions. Calcium acetate was the most effective among the metal salts used. The reaction followed Michaelis–Menten kinetics, and it was found that the reaction increase is due to the increase in k_cat.     

Error in oxygen measurements in open systems owing to oxygen consumption in unstirred layer

When a steady-state oxygen concentration is measured with a membrane-covered probe in an open system, the oxygen consumption in the unstirred layer gives rise to an error of measurement whose seriousness depends on the kinetics of the oxygen-consuming process. First-order oxygen consumption in the sample causes a proportional reduction in the signal so that the calibration in curve remains linear. A zeroth-order process causes the calibration curve to be offset from the origin, but it remains linear. Oxygen consumption according to the Michaelis–Menten equation causes the calibration curve to become nonlinear with the maximum deviation at the lower end of the scale. The error determines a lower limit for usefulness of membrane-covered probes. Steady-state kinetics at oxygen concentrations in the order of K_M cannot be determined with a membrane-covered probe for enzyes with K_M for oxygen lower than 0.01μM. In a dense culture of respiring microorganisms, no oxygen will reach the probe when the bulk concentration of oxygen is in the order of K_M.     

Kinetics of phosphate limited algal growth

The kinetics of phosphate limited growth of two green algae Chorella pyrenoidosa and Selenastrum capricornutum have been studied in chemostats. Several kinetic models which express the specific growth rate as a function of the intracellular phosphours content have been examined, and one of the models was found to be significantly better than the other models. The principles of this model were described in a recent paper by Nyholm. The kinetics of phosphate uptake have been investigated by adding pulses of phosphate to the chemostats. The uptake by phosphours deficient cells could be described by Michaelis–Menten kinetics for phosphate concentrations below approximately 500 μg P/liter. Further, with the assumption of a discontinuous adjustment of the uptake rate at the onset of phosphours deficiency, a complete kinetic model for growth and phosphate removal is proposed. The mean cell size and the contents of chlorophyll and RNA per unit dry weight have been measured for C. pyrenoidosa as a function of the dilution rate.     

Alternative algebraic rate‐integration approach for progress‐curve analysis of enzyme kinetics

A recent article of Zavrel et al. in this journal (Eng. Life Sci. 2010, 10, 191–200) described a comparison of several computer programs for progress‐curve analysis with respect to different computational approaches for parameter estimation. The authors applied both algebraic and dynamic parameter estimations, although they omitted time‐course analysis through the integrated rate equation. Recently, it was demonstrated that progress‐curve analysis through the integrated rate equation can be considered a simple and useful alternative for enzymes that obey the generalized Michaelis–Menten reaction mechanism. To complete this gap, the time‐dependent solution of the generalized Michaelis–Menten equation is here fitted to the progress curves from the Zavrel et al. reference article. This alternative rate‐integration approach for determining the kinetics parameters of Michaelis–Menten‐type enzymes yields the values with the greatest accuracy, as compared with the results obtained by other (algebraic or dynamic) parameter estimations.     

Effect of aggregate size in cell cultures of Tagetes patula on thiophene production and cell growth

Summary The effect of the size of Tagetes patula (marigolds) cell aggregates on growth and thiophene production in MS-medium was studied. A heterogeneous aggregate suspension was aseptically divided into 7 fractions, each with a defined aggregate diameter range, with subsequent inoculation of the fractions into MS growth medium. Growth occurred in all aggregate fractions and thiophene production increased with increasing aggregate diameter starting at about 3 mm, an effect possibly due to an increasing lack of oxygen in the aggregate centre. Calculations of oxygen concentration profiles in the aggregates showed namely, that the critical aggregate diameter where the oxygen concentration in the aggregate centre becomes very low, is about 3 mm. Aggregates with a diameter exceeding 1.2 cm showed a decreased thiophene production, however, these aggregates were hollow. The thiophenes produced mainly consisted of 5-(4-hydroxy-1-butenyl)1-2,2-bithienyl, which was excreted into the medium.Nomenclature ID _e effective diffusion coefficient (m²s^-1) - c oxygen concentration (mol m^-3) - c _s substrate concentration at surface (mol m^-3) - c _s.exp experimental value of c _s (mol m^-3) - c _eq substrate concentration at equilibrium (mol m^-3) - r _s consumption rate (mol m^-3 s^-1) - d _crit critical aggregate diameter (m) - d _agg aggregate diameter (m) - L length of aggregate (m) - W width of aggregate (m) - t time (s) - r distance from aggregate centre (m) - R radius of aggregate (m) - R(c) oxygen consumption (mol m^-3 s^-1) - V _c convection velocity (m s^-1) - V _m intrinsic maximum consumption rate (mol kg^-1 s^-1) - K _m intrinsic Michaelis Menten constant (mol m^-3) - V _m apparent maximum consumption rate (mol kg^-1 s^-1) - K _m apparent Michaelis Menten constant (mol m^-3) - * multiplication sign     

How do chronic nutrient loading and the duration of nutrient pulses affect nutrient uptake in headwater streams?

Our study aimed to analyze the effects of chronic nutrient loading on the capacity of headwater streams to retain phosphorus and ammonium pulses of different duration. For this purpose, we selected nine headwater streams located across a gradient of increasing agricultural land use and eutrophication. In each stream, we performed sequential plateau additions with increasing nutrient concentrations in summer 2015 and instantaneous slug additions in summer 2016 under similar hydrological conditions. We modelled kinetic uptake curves from the slug additions via the Tracer Additions for Spiraling Curve Characterization method and calculated ambient uptake parameters. Ambient uptake rates generally increased (1.4–20.8 µg m^?2 s^?1 for NH₄–N and 0.3–10.3 µg m^?2 s^?1 for SRP, respectively), while ambient uptake velocities decreased from oligotrophic to polytrophic streams (1.8–14.0 mm min^?1 for NH₄–N and 1.6–9.9 mm min^?1 for SRP, respectively). However, correlations between ambient uptake parameters and background concentrations were weak. Concentration-dependent uptake rates followed either a linear or a Michaelis–Menten saturation model, regardless of the degree of nutrient loading. Uptake rate curves showed counter-clockwise hysteresis in oligotrophic streams and clockwise hysteresis in streams of higher trophic states, indicating a reduced significance of hyporheic uptake with increasing nutrient loading. Comparisons of slug and plateau additions revealed that oligotrophic streams were most efficient in uptake during short nutrient pulses, while eutrophic streams profited from longer pulse duration. The results indicate that nutrient uptake is increasingly transport-controlled in polluted streams where increased biofilm thickness and clogging of sediments restrict nutrient transport to reactive sites.     

The formation,vacuolar localization,and tonoplast transport of salicylic acid glucose conjugates in tobacco cell suspension cultures

The metabolism of salicylic acid (SA) in tobacco (Nicotiana tabacum L. cv. KY 14) cell suspension cultures was examined by adding [7–¹⁴C]SA to the cell cultures for 24 h and identifying the metabolites through high performance liquid chromatography analysis. The three major metabolites of SA were SA 2-O--D-glucose (SAG), methylsalicylate 2-O--D-glucose (MeSAG) and methylsalicylate. Studies on the intracellular localization of the metabolites revealed that all of the SAG associated with tobacco protoplasts was localized in the vacuole. However, the majority of the MeSAG was located outside the vacuole. The tobacco cells contained an SA inducible SA glucosyltransferase (SAGT) enzyme that formed SAG. The SAGT enzyme was not associated with the vacuole and appeared to be a cytoplasmic enzyme. The vacuolar transport of SAG was characterized by measuring the uptake of [¹⁴C]SAG into tonoplast vesicles isolated from tobacco cell cultures. SAG uptake was stimulated eightfold by the addition of MgATP. The ATP-dependent uptake of SAG was inhibited by bafilomycin A₁ (a specific inhibitor of the vacuolar H⁺-ATPase) and dissipation of the transtonoplast H⁺-electrochemical gradient. Vanadate was not an inhibitor of SAG uptake. Several -glucose conjugates were strong inhibitors of SAG uptake, whereas glutathione and glucuronide conjugates were only marginally inhibitory. The SAG uptake exhibited Michaelis–Menten type saturation kinetics with a K_m and V_max value of 11 M and 205 pmol min^–1 mg^–1, respectively, for SAG. Based on the transport characteristics it appears as if the vacuolar uptake of SAG in tobacco cells occurs through an H⁺-antiport-type mechanism.     

New insights into activation and substrate recognition of polyhydroxyalkanoate synthase from Ralstonia eutropha

The polyhydroxyalkanoate synthase of Ralstonia eutropha (PhaC_Re) shows a lag time for the start of its polymerization reaction, which complicates kinetic analysis of PhaC_Re. In this study, we found that the lag can be virtually eliminated by addition of 50 mg/L TritonX-100 detergent into the reaction mixture, as well as addition of 2.5 g/L Hecameg detergent as previously reported by Gerngross and Martin (Proc Natl Sci USA 92: 6279–6283, 1995). TritonX-100 is an effective lag eliminator working at much lower concentration than Hecameg. Kinetic analysis of PhaC_Re was conducted in the presence of TritonX-100, and PhaC_Re obeyed Michaelis–Menten kinetics for (R)-3-hydroxybutyryl-CoA substrate. In inhibitory assays using various compounds such as adenosine derivatives and CoA derivatives, CoA free acid showed competitive inhibition but other compounds including 3′-dephospho CoA had no inhibitory effect. Furthermore, PhaC_Re showed a considerably reduced reaction rate for 3′-dephospho (R)-3-hydroxybutyryl CoA substrate and did not follow typical Michaelis–Menten kinetics. These results suggest that the 3′-phosphate group of CoA plays a critical role in substrate recognition by PhaC_Re.     

Interactions of cell morphology and transport processes in the lovastatin fermentation

The cholesterol lowering drug, Lovastatin (Mevacor), acts as an inhibitor of HMGCoA reductase, and is produced from an Aspergillus terreus fermentation.Pilot scale studies were carried out in 800 liter fermenters to determine the effects of cell morphology on the oxygen transport properties of this fermentation. Specifically, parallel fermentations giving (i) filamentous mycelial cells, and (ii) discrete mycelial pellets, were quantitatively characterized in terms of broth viscosity, availability of dissolved oxygen, oxygen uptake rates and the oxygen transfer coefficient under identical operating conditions.The growth phase of the fermentation, was operated using a cascade control strategy which automatically changed the agitation speed with the goal of maintaining dissolved oxygen at 50% saturation. Subsequently stepwise changes were made in agitation speed and aeration rate to evaluate the response of the mass transfer parameters (DO, OUR, and k _L a). The results of these experiments indicate considerable potential advantages to the pellet morphology from the standpoint of oxygen transport processes.List of Symbols DO % sat. Dissolved oxygen concentration - k _L a h^–1 Gas-liquid mass transfer coefficient - OUR mmol/dm³h Oxygen uptake rate - P/V KW/m³ Agitator power per unit volume - V _s m/s Superficial air velocity - _app cP Apparent viscosity     

Effects of Calcium Ion on the Catalytic Activity of α-Chymotrypsin in Organic Solvents

Addition of small amounts of calcium ion markedly accelerated the transesterification of N-acetyl-l-tyrosine methyl ester to its ethyl ester by the catalysis of α-chymotrypsin in organic solvents. Maximum increase of the reaction rate was about 12-fold in the presence of 25 μm of calcium ion in ethanol. The rate increase was strongly dependent on calcium ion concentration and nature of organic solvents. Esterification of N-acetyl-l-tyrosine and hydrolysis of N-acetyl-l-tyrosine ethyl ester by α-chymotrypsin in organic solvents were also accelerated by calcium ion. The reactions obeyed Michaelis–Menten kinetics, and the acceleration of the reactions was due to the increase in k_cat.     

Mechanistic differences in the uptake of salicylic acid glucose conjugates by vacuolar membrane‐enriched vesicles isolated from Arabidopsis thaliana

Salicylic acid (SA) is a plant hormone involved in a number of physiological responses including both local and systemic resistance of plants to pathogens. In Arabidopsis, SA is glucosylated to form either SA 2‐O‐β‐d ‐glucose (SAG) or SA glucose ester (SGE). In this study, we show that SAG accumulates in the vacuole of Arabidopsis, while the majority of SGE was located outside the vacuole. The uptake of SAG by vacuolar membrane‐enriched vesicles isolated from Arabidopsis was stimulated by the addition of MgATP and was inhibited by both vanadate (ABC transporter inhibitor) and bafilomycin A₁ (vacuolar H⁺‐ATPase inhibitor), suggesting that SAG uptake involves both an ABC transporter and H⁺‐antiporter. Despite its absence in the vacuole, we observed the MgATP‐dependent uptake of SGE by Arabidopsis vacuolar membrane‐enriched vesicles. SGE uptake was not inhibited by vanadate but was inhibited by bafilomycin A₁ and gramicidin D providing evidence that uptake was dependent on an H⁺‐antiporter. The uptake of both SAG and SGE was also inhibited by quercetin and verapamil (two known inhibitors of multidrug efflux pumps) and salicin and arbutin. MgATP‐dependent SAG and SGE uptake exhibited Michaelis–Menten‐type saturation kinetics. The vacuolar enriched‐membrane vesicles had a 46‐fold greater affinity and a 10‐fold greater transport activity with SGE than with SAG. We propose that in Arabidopsis, SAG is transported into the vacuole to serve as a long‐term storage form of SA while SGE, although also transported into the vacuole, is easily hydrolyzed to release the active hormone which can then be remobilized to other cellular locations.     

Uptake of ethanolamine in neuronal and glial cell cultures

The uptake of radioactive ethanolamine has been studied in exclusively neuronal and glial cell cultures from dissociated cerebral hemispheres of chick embryos. Both cell types show saturable kinetics; neurons have an apparentK _m of 6.7 M,V _max 41.4 pmol mg prot.^–1 min^–1 and glial cells aK _m of 119.6 M,V _max 3,917 pmol mg prot^–1 min^–1. The lower affinity of the transport and the 100 fold increase inV _max observed in glial cells correlated with a more important accumulation of free ethanolamine found in glial cells and with a higher degree of phosphorylation of ethanolamine. The uptake appeared to be temperature and Na⁺ ions dependent but was not affected by CN^– or ouabain. Monomethyl-, dimethylethanolamine and choline were effective in inhibiting the uptake. Little or no effect was observed with serine, methionine, carnitine, alanine or glutamate.     

l-Serine transport in growing and maturing mouse oocytes

Serine has roles in cell metabolism besides protein synthesis including providing one-carbon units to the folate cycle. Since growing mouse oocytes undergo a burst of folate accumulation as they near full size, we have investigated whether oocytes transport serine. Substantial serine transport appeared in oocytes near the end of their growth. Serine transport continued when oocytes resumed meiosis but ceased partway through first meiotic metaphase, remaining quiescent in mature eggs in second meiotic metaphase. The serine transporter was sodium dependent and inhibited by alanine, cysteine, leucine, or histidine, and had a Michaelis–Menten constant (K_m) for serine of 200 µM. Unexpectedly, exposing cumulus cell-enclosed oocytes to the physiological mediator of meiotic arrest, natriuretic peptide precursor Type C, substantially stimulated serine transport by the enclosed oocyte. Finally, in addition to transport by the oocyte itself, cumulus cells also supply serine to the enclosed oocyte via gap junctions within intact cumulus–oocyte complexes.