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Industrial bioprocesses are commonly based on empiricism rather than scientific process understanding. In this review, we summarize current strategies for science-based bioprocess design and control for filamentous fungi aiming at reducing development times and increasing process economics. We discuss recent developments and trends regarding three crucial aspects throughout the bioprocess life cycle of filamentous fungi, namely (i) strain and inoculum characterization, (ii) morphology, and (iii) rheology, as well as their effects on process performance. Complex interconnections between strain, inoculum, morphology, rheology, and process design are outlined and discussed. Only combining different hard type sensors with soft sensor technology and the development of simplified mechanistic models can enable science-based bioprocess design for filamentous fungi., (Copyright © 2012 Elsevier Ltd. All rights reserved.)

The enzyme horseradish peroxidase (HRP), which is frequently applied in industry and medicine, is primarily isolated from plant. This purification procedure is costly and the obtainable amount of HRP from the horseradish root is low. However, recombinant HRP (rHRP) produced in yeast is hyperglycosylated rendering the subsequent purification cumbersome and the recombinant production of HRP in yeast not competitive. In this study, we screened different common techniques to develop a fast and efficient purification strategy for hyperglycosylated rHRP expressed in Pichia pastoris. We demonstrated that the extensive glycosylation pattern on the surface of rHRP masked its physico-chemical properties, which is why standard purification strategies were rather unsuccessful. Only switching the strategies to a flowthrough mode gave satisfactory results. After determining the optimal operation conditions in a multivariate Design of Experiments approach, we present a simple 2-step strategy for the purification of hyperglycosylated rHRP. Combining a hydrophobic charge induction chromatography operated in flowthrough mode and a size-exclusion chromatography, we were able to purify rHRP more than 12-fold from a specific activity of 80U/mg to more than 1000U/mg., (Copyright © 2012 Elsevier Inc. All rights reserved.)

A multivariate study was performed aiming at the optimization of a recombinant rhamnose inducible E. coli induction system with alkaline phosphatase as target product. The effects of typical factors with impact on post- as well as pre-induction feeding rates were investigated with respect to the space-time yield of the target product. The goal was increased understanding as well as quantitative characterization of these factors with respect to their physiological impact on the model system. The optical density (OD) at which the culture was induced had a strong positive effect on the space-time yield. Pre-induction growth rate (k) had a second-order effect, while induction feed rate drop (J), a factor defining the linear post-induction feed rate, was interacting with (k). However, explanation of the observed effects to acquire more understanding regarding their effect on cell metabolism was not straight forward. Hence, the original process parameters were transformed into physiological more meaningful parameters and served as the basis for a multivariate data analysis. The observed variance with respect to observed volumetric activity was fully explained by the specific substrate uptake rate (q (s)) and induction OD, merging the process parameters pre-induction growth rate (k) and feed rate drop (J) into the physiological parameter specific substrate uptake rate (q (s)). After transformation of the response volumetric activity (U/ml) into the biomass specific activity (U/g(biomass)), the observed variance was fully explained solely by the specific substrate uptake rate (q (s)). Due to physiological multivariate data analysis, the interpretation of the results was facilitated and factors were reduced. On the basis of the obtained results, it was concluded that the physiological parameter q (s) rather than process parameters (k, J, induction OD) should be used for process optimization with respect to the feeding profile.

Recent initiatives summarized under the term quality by design (QbD) urge for science and risk-based pharmaceutical bioprocess development strategies. One of the most accepted concepts communicated by the regulatory authorities is the concept of design space-a multidimensional combination of critical process parameter (CPP) ranges where the quality acceptance criteria (critical quality attributes, CQAs) are fulfilled. Current design space development along QbD principles focuses on the investigation of statistical CPP/CQA interactions, while the biological mechanistic of this interaction is hardly considered. Furthermore, the plethora of available online and offline data gathered within design space development is typically not used for the demonstration of process understanding. Here we present a methodology about how typical recorded process data can be processed and used to gather mechanistic process knowledge within upstream design space development, without the need for further experiments or additional analytical procedures. Data derived from online and offline measurements (off gas quantification, air flows, substrate flows, biomass dry cell weight measurements) were processed into scale-independent information in the form of specific rates and yield coefficients (data processing). Subsequently, the obtained information was regressed with the investigated process parameters aiming at the investigation of mechanistic interactions (information processing). The power of the presented approach was demonstrated on a multivariate study involving two process parameters (induction phase temperature and induction phase feeding strategy) aiming at the production of recombinant product in an Escherichia coli K12 strain. The knowledge successfully extracted indicated a time dependency of the metabolic load posed on the system, a possible down regulation of the promoter at reduced temperatures, and reduced cell lysis at higher specific feeding regimes. The presented data and information processing methodology for mechanistic process knowledge extraction is fully complementary to the task of design space development for QbD submissions and can serve as the basis of mechanistic modeling., Lay Abstract: Manufacturing of pharmaceuticals intended for human use is under tight control of government authorities. To further improve product quality and allow more manufacturing flexibility, government agencies started to encourage manufactures to investigate and understand their manufacturing processes scientifically. This should lead to quality by design (QbD), hence a manufacturing that is so well understood that final product quality can be guaranteed by the manufacturing process itself.

The reaction of [L(tBu)Ni(OEt(2))] (where L(tBu) = [HC(C(t)BuNC(6)H(3)((i)Pr)(2))(2)](-)) with phenylhydrazine leads to the phenylhydrazido(1-) complex [L(tBu)Ni(η(2)-NPhNH(2))] (1) with concomitant formation of H(2). Treatment of 1 with potassium graphite in the presence of crown ether again leads to H(2) evolution and affords the heterobimetallic complex [L(tBu)Ni(μ-η(2):η(2)-NPhNH)]K(18-crown-6) containing the doubly deprotonated phenylhydrazido(2-) ligand. 1 can be converted into a phenyldiazenido complex [L(tBu)Ni(η(1)-NNPh)] in the course of a dehydrogenation reaction employing 1,2-diisopropylazo dicarboxylate (DIAD) as the oxidant.

This paper shows the ease of application and usefulness of mid-IR measurements for the investigation of orthogonal cell states on the example of the analysis of Pichia pastoris cells. A rapid method for the discrimination of entire yeast cells grown under carbon and nitrogen-limited conditions based on the direct acquisition of mid-IR spectra and partial least squares discriminant analysis (PLS-DA) is described. The obtained PLS-DA model was extensively validated employing two different validation strategies: (i) statistical validation employing a method based on permutation testing and (ii) external validation splitting the available data into two independent sub-sets. The Variable Importance in Projection scores of the PLS-DA model provided deeper insight into the differences between the two investigated states. Hence, we demonstrate the feasibility of a method which uses IR spectra from intact cells that may be employed in a second step as an in-line tool in process development and process control along Quality by Design principles., (Copyright © 2012 Elsevier B.V. All rights reserved.)

Biohydrogen production (BHP) can be achieved by direct or indirect biophotolysis, photo-fermentation and dark fermentation, whereof only the latter does not require the input of light energy. Our motivation to compile this review was to quantify and comprehensively report strains and process performance of dark fermentative BHP. This review summarizes the work done on pure and defined co-culture dark fermentative BHP since the year 1901. Qualitative growth characteristics and quantitative normalized results of H2 production for more than 2000 conditions are presented in a normalized and therefore comparable format to the scientific community.Statistically based evidence shows that thermophilic strains comprise high substrate conversion efficiency, but mesophilic strains achieve high volumetric productivity. Moreover, microbes of Thermoanaerobacterales (Family III) have to be preferred when aiming to achieve high substrate conversion efficiency in comparison to the families Clostridiaceae and Enterobacteriaceae. The limited number of results available on dark fermentative BHP from fed-batch cultivations indicates the yet underestimated potential of this bioprocessing application. A Design of Experiments strategy should be preferred for efficient bioprocess development and optimization of BHP aiming at improving medium, cultivation conditions and revealing inhibitory effects. This will enable comparing and optimizing strains and processes independent of initial conditions and scale.

Reaction of a nickel(0) carbonyl complex, K(2)[L(tBu)NiCO](2), with N(2)O generates a cyclic carbonate compound composed of six [Ni(II)(CO(3))K](+) units. The same product can also be obtained using O(2) as the oxidant in a solid-state/gas reaction. These conversions represent unique examples of a nickel-bound CO oxidation by N(2)O and O(2), respectively.

(1)H NMR exchange spectroscopy of a reaction mixture of [Cp*Ir(H)(4)] (1; Cp*=1,2,3,4,5-pentamethylcyclopentadienyl) and ammonia suggests an exchange of hydrogen atoms between the hydrido ligands and ammonia. Treatment of 1 with ND(3) led to an H/D exchange between ND(3) and the hydrido ligands of 1. Subsequent studies showed that photolysis of 1 isolated in frozen argon matrices leads to the formation of the iridium compounds [Cp*Ir(H)(2)] (2) and [Cp*Ir(H)(3)] (4), as it was confirmed by IR spectroscopy. In the presence of water the aqua complex [Cp*Ir(H)(2)(OH(2))] (3) was generated simultaneously. Accordingly, photolysis of 1 in an argon matrix doped with ammonia gave rise to the ammine complex [Cp*Ir(H)(2)(NH(3))] (5). IR assignments were supported by calculations of the gas-phase IR spectra of 1-5 by DFT methods., (Copyright © 2012 WILEY-VCH Verlag GmbH & Co. KGaA, Weinheim.)

Along with productivity and physiology, morphological growth behavior is the key parameter in bioprocess design for filamentous fungi. Despite complex interactions between fungal morphology, broth viscosity, mixing kinetics, transport characteristics and process productivity, morphology is still commonly tackled only by empirical trial-and-error techniques during strain selection and process development procedures. In fact, morphological growth characteristics are investigated by computational analysis of only a limited number of pre-selected microscopic images or via manual evaluation of images, which causes biased results and does not allow any automation or high-throughput quantification. To overcome the lack of tools for fast, reliable and quantitative morphological analysis, this work introduces a method enabling statistically verified quantification of fungal morphology in accordance with Quality by Design principles. The novel, high-throughput method presented here interlinks fully automated recording of microscopic images with a newly developed evaluation approach reducing the need for manual intervention to a minimum. Validity of results is ensured by concomitantly testing the acquired sample for representativeness by statistical inference via bootstrap analysis. The novel approach for statistical verification can be equally applied as control logic to automatically proceed with morphological analysis of a consecutive sample once user defined acceptance criteria are met. Hence, analysis time can be reduced to an absolute minimum. The quantitative potential of the developed methodology is demonstrated by characterizing the morphological growth behavior of two industrial Penicillium chrysogenum production strains in batch cultivation., (Copyright © 2012 Elsevier Inc. All rights reserved.)

Background: Filamentous fungi are versatile cell factories and widely used for the production of antibiotics, organic acids, enzymes and other industrially relevant compounds at large scale. As a fact, industrial production processes employing filamentous fungi are commonly based on complex raw materials. However, considerable lot-to-lot variability of complex media ingredients not only demands for exhaustive incoming components inspection and quality control, but unavoidably affects process stability and performance. Thus, switching bioprocesses from complex to defined media is highly desirable., Results: This study presents a strategy for strain characterization of filamentous fungi on partly complex media using redundant mass balancing techniques. Applying the suggested method, interdependencies between specific biomass and side-product formation rates, production of fructooligosaccharides, specific complex media component uptake rates and fungal strains were revealed. A 2-fold increase of the overall penicillin space time yield and a 3-fold increase in the maximum specific penicillin formation rate were reached in defined media compared to complex media., Conclusions: The newly developed methodology enabled fast characterization of two different industrial Penicillium chrysogenum candidate strains on complex media based on specific complex media component uptake kinetics and identification of the most promising strain for switching the process from complex to defined conditions. Characterization at different complex/defined media ratios using only a limited number of analytical methods allowed maximizing the overall industrial objectives of increasing both, method throughput and the generation of scientific process understanding.

Noble metals meet a heavyweight: A pincer ligand brings together bismuth with gold and platinum, so that metallophilic interactions are established. According to DFT calculations, these interactions contain dominant metal→bismuth contributions., (Copyright © 2012 WILEY-VCH Verlag GmbH & Co. KGaA, Weinheim.)

Mixed substrate feeding strategies are frequently investigated to enhance the productivity of recombinant Pichia pastoris processes. For this purpose, numerous fed batch experiments or time-consuming continuous cultivations are required to optimize control parameters such as the substrate mixing ratio and the applied methanol concentration. In this study, we decoupled the feeding of methanol and glycerol in a mixed substrate fed batch environment to gain process understanding for a recombinant P. pastoris Muts strain producing the model enzyme horseradish peroxidase. Specific substrate uptake rates (qs) were controlled separately, and a stepwise increased qGly-control scheme was applied to investigate the effect of various substrate fluxes on the culture. The qs-controlled strategy allowed a parallel characterization of the metabolism and the recombinant protein expression in a fed batch environment. A critical-specific glycerol uptake rate was determined, where a decline of the specific productivity occurred, and a time-dependent acceleration of protein expression was characterized with the dynamic fed batch approach. Based on the observations on recombinant protein expression, propositions for an optimal feeding design to target maximal productivities were stated. Thus, the dynamic fed batch strategy was found to be a valuable tool for both process understanding and optimization of product formation for P. pastoris in a mixed substrate environment., (Copyright © 2012 American Institute of Chemical Engineers (AIChE).)

Unlabelled: ΒACKGROUND: The methylotrophic yeast Pichia pastoris has become an important host organism for recombinant protein production and is able to use methanol as a sole carbon source. The methanol utilization pathway describes all the catalytic reactions, which happen during methanol metabolism. Despite the importance of certain key enzymes in this pathway, so far very little is known about possible effects of overexpressing either of these key enzymes on the overall energetic behavior, the productivity and the substrate uptake rate in P. pastoris strains., Results: A fast and easy-to-do approach based on batch cultivations with methanol pulses was used to characterize different P. pastoris strains. A strain with MutS phenotype was found to be superior over a strain with Mut+ phenotype in both the volumetric productivity and the efficiency in expressing recombinant horseradish peroxidase C1A. Consequently, either of the enzymes dihydroxyacetone synthase, transketolase or formaldehyde dehydrogenase, which play key roles in the methanol utilization pathway, was co-overexpressed in MutS strains harboring either of the reporter enzymes horseradish peroxidase or Candida antarctica lipase B. Although the co-overexpression of these enzymes did not change the stoichiometric yields of the recombinant MutS strains, significant changes in the specific growth rate, the specific substrate uptake rate and the specific productivity were observed. Co-overexpression of dihydroxyacetone synthase yielded a 2- to 3-fold more efficient conversion of the substrate methanol into product, but also resulted in a reduced volumetric productivity. Co-overexpression of formaldehyde dehydrogenase resulted in a 2-fold more efficient conversion of the substrate into product and at least similar volumetric productivities compared to strains without an engineered methanol utilization pathway, and thus turned out to be a valuable strategy to improve recombinant protein production., Conclusions: Co-overexpressing enzymes of the methanol utilization pathway significantly affected the specific growth rate, the methanol uptake and the specific productivity of recombinant P. pastoris MutS strains. A recently developed methodology to determine strain specific parameters based on dynamic batch cultivations proved to be a valuable tool for fast strain characterization and thus early process development.

Quality by design (QbD) is a current structured approach to design processes yielding a quality product. Knowledge and process understanding cannot be achieved without proper experimental data; hence requirements for measurement error and frequency of measurement of bioprocess variables have to be defined. In this contribution, a model-based approach is used to investigate impact factors on calculated rates to predict the obtainable information from real-time measurements (= signal quality). Measurement error, biological activity, and averaging window (= period of observation) were identified as biggest impact factors on signal quality. Moreover, signal quality has been set in context with a quantifiable measure using statistical error testing, which can be used as a benchmark for process analytics and exploitation of data. Results have been validated with data from an E. coli batch process. This approach is useful to get an idea which process dynamics can be observed with a given bioprocess setup and sampling strategy beforehand., (Copyright © 2011 American Institute of Chemical Engineers (AIChE).)

When three become one: Within one nickel-based model system, the three reactants CO, MeI, and PhSH have been assembled to yield an acetyl thioester. The reactivity is of relevance for the functioning of the acetyl coenzyme A synthase active site and provides insights into possible binding sequences., (Copyright © 2011 WILEY-VCH Verlag GmbH & Co. KGaA, Weinheim.)

Microorganisms are exposed to fast changes in microenvironment in large scale bioreactors. Because of their fast response to the changes, overall performance of biological system in small scale differs from large scale. Hence the variations in the environment that microorganisms are living in are mimicked in small scale. For this purpose one way is to feed substrate into the bioreactor in an oscillatory profile. In this work two different types of triangular oscillatory feeding profiles were applied as the post induction feeding strategy in intracellular recombinant alkaline phosphatase production expressed in Escherichia coli to find out if this biological system behaves in inhomogeneous environment differently. On line and offline measurements provide evaluation of product quality and quantity. Then the results of the experiments were compared with those of the control run at which constant feeding rate was executed. The results showed that oscillatory feeding at which cells were not starved led to higher yield of protein per substrate (0.027C-mol/C-mol) and higher activity per protein (0.79U/mg) when compared to a constant feeding rate (0.011C-mol/C-mol and 0.11U/mg)., (Copyright © 2011 The Society for Biotechnology, Japan. Published by Elsevier B.V. All rights reserved.)

Background: The microorganism Pichia pastoris is a commonly used microbial host for the expression of recombinant proteins in biotechnology and biopharmaceutical industry. To speed up process development, a fast methodology to determine strain characteristic parameters, which are needed to subsequently set up fed batch feeding profiles, is required., Results: Here, we show the general applicability of a novel approach to quantify a certain minimal set of bioprocess-relevant parameters, i.e. the adaptation time of the culture to methanol, the specific substrate uptake rate during the adaptation phase and the maximum specific substrate uptake rate, based on fast and easy-to-do batch cultivations with repeated methanol pulses in a batch culture. A detailed analysis of the adaptation of different P. pastoris strains to methanol was conducted and revealed that each strain showed very different characteristics during adaptation, illustrating the need of individual screenings for an optimal parameter definition during this phase. Based on the results obtained in batch cultivations, dynamic feeding profiles based on the specific substrate uptake rate were employed for different P. pastoris strains. In these experiments the maximum specific substrate uptake rate, which had been defined in batch experiments, also represented the upper limit of methanol uptake, underlining the validity of the determined process-relevant parameters and the overall experimental strategy., Conclusion: In this study, we show that a fast approach to determine a minimal set of strain characteristic parameters based on easy-to-do batch cultivations with methanol pulses is generally applicable for different P. pastoris strains and that dynamic fed batch strategies can be designed on the specific substrate uptake rate without running the risk of methanol accumulation.

Investigations concerning the system β-diketiminato-Cu(I)/O(2) have revealed valuable insights that may be discussed in terms of the behavior of mononuclear oxygenases containing copper. On the other hand nature also employs dinuclear Cu enzymes for the activation of O(2). With this background the ligand system [(Me(2))(C(6)H(3))Xanthdim](2-) containing two parallel β-diiminato binding sites linked by a xanthene backbone with 2,3-dimethylphenyl residues at the diiminato units was investigated with respect to its copper coordination chemistry. The diimine [(Me(2))(C(6)H(3))Xanthdim]H(2) was treated with CuOtBu in the presence of acetonitrile, PPh(3), and PMe(3) to yield the corresponding complexes [(Me(2))(C(6)H(3))Xanthdim](Cu(L))(2) (L = CH(3)CN, 1, PPh(3), 2, and PMe(3), 3) that proved to be stable and were fully characterized. Single crystal X-ray diffraction analyses performed for the three complexes showed that considerable steric crowding within the binding pockets of 2 leads to a very long Cu-Cu distance while the structures of 1 and 3 are relaxed. Compounds 2 and 3 are relatively robust toward air, whereas 1 is very sensitive and quantitatively reacts with O(2) at room temperature (r.t.) within less than 2 min to give intractable compounds. At low temperatures the formation of a green intermediate was observed that was identified as a Cu(II)-O-Cu(II) species spectroscopically and chemically. This finding is of relevance also in the context of the results obtained testing 1 as a catalyst for phenol oxidation using O(2): 1 efficiently catalyzes phenol coupling, while there was no evidence for any oxygenation reactions occurring.

Background: Pichia pastoris is one of the most important host organisms for the recombinant production of proteins in industrial biotechnology. To date, strain specific parameters, which are needed to set up feeding profiles for fed batch cultivations, are determined by time-consuming continuous cultures or consecutive fed batch cultivations, operated at different parameter sets., Results: Here, we developed a novel approach based on fast and easy to do batch cultivations with methanol pulses enabling a more rapid determination of the strain specific parameters specific substrate uptake rate qs, specific productivity qp and the adaption time (Δtimeadapt) of the culture to methanol. Based on qs, an innovative feeding strategy to increase the productivity of a recombinant Pichia pastoris strain was developed. Higher specific substrate uptake rates resulted in increased specific productivity, which also showed a time dependent trajectory. A dynamic feeding strategy, where the setpoints for qs were increased stepwise until a qs max of 2.0 mmol·g-1·h-1 resulted in the highest specific productivity of 11 U·g-1·h-1., Conclusions: Our strategy describes a novel and fast approach to determine strain specific parameters of a recombinant Pichia pastoris strain to set up feeding profiles solely based on the specific substrate uptake rate. This approach is generic and will allow application to other products and other hosts.

An investigation concerning the stepwise reduction of the β-diketiminato nickel(II) hydride dimer [LNi(μ-H)(2)NiL], 1 (L = [HC(CMeNC(6)H(3)(iPr)(2))(2)](-)), has been carried out. While the reaction with one equivalent of potassium graphite, KC(8), led to the mixed valent Ni(I)/Ni(II) complex K[LNi(μ-H)(2)NiL], 3, treatment of 1 with two equivalents of KC(8) surprisingly yielded in the trinuclear complex K(2)[LNi(μ-H)(2)Ni(μ-H)(2)NiL], 4, in good yields. The Ni(3)H(4) core contains one Ni(II) and two Ni(I) centers, which are antiferromagnetically coupled so that a singlet ground state results. 4 represents the first structurally characterized molecular compound with three nickel atoms bridged by hydride ligands, and it shows a very interesting chemical behavior: Single-electron oxidation yields in the Ni(II)(2)Ni(I) compound K[LNi(μ-H)(2)Ni(μ-H)(2)NiL], 5, and treatment with CO leads to the elimination of H(2) with formation of the carbonyl complex K(2)[LNi(CO)](2), 6. Beyond that, it could be shown that 4 undergoes H/D exchange with deuterated solvents and the deuteride-compound 4-D(4) reacts with H(2) to give back 4. The crystal structures of the novel compounds 3-6 have been determined, and their electronic structures have been investigated by EPR and NMR spectroscopy, magnetic measurements, and DFT calculations.

Electron by electron: Beta-diketiminato nickel(I) complex fragments are capable of activating N(2) through coordination. The resulting complex can be reduced in two single-electron steps, which further activates the N-N bond. The picture shows the structure of the singly reduced complex with mu-eta(1):eta(1)-bound N(2).

V4O10 can be considered as a molecular model for oxovanadium clusters deposited on the surfaces of corresponding heterogeneous catalysts, and here its generation, matrix isolation, and comprehensive characterization by IR, Raman, and UV/vis spectroscopy are described.

This contribution analyzes the position of biochemical engineering in general and bioprocess engineering particularly in the force fields between fundamental science and applications, and between academia and industry. By using culture technology as an example, it can be shown that bioprocess engineering has moved slowly but steadily from an empirical art concerned with mainly know-how to a science elucidating the know-why of culture behavior. Highly powerful monitoring tools enable biochemical engineers to understand and explain quantitatively the activity of cellular culture on a metabolic basis. Among these monitoring tools are not just semi-online analyses of culture broth by HPLC, GC and FIA, but, increasingly, also noninvasive methods such as midrange IR, Raman and capacitance spectroscopy, as well as online calorimetry. The detailed and quantitative insight into the metabolome and the fluxome that bioprocess engineers are establishing offers an unprecedented opportunity for building bridges between molecular biology and engineering biosciences. Thus, one of the major tasks of biochemical engineering sciences is not developing new know-how for industrial applications, but elucidating the know-why in biochemical engineering by conducting research on the underlying scientific fundamentals.

In many microorganisms, flux limitations in oxidative metabolism lead to the formation of overflow metabolites even under fully aerobic conditions. This can be avoided if the specific growth rate is controlled at a low enough value. This is usually accomplished by controlling the substrate feeding profile in a fed-batch process. The present work proposes a control concept which is based on the on-line detection of metabolic state by on-line calculation of mass and elemental balances. The advantages of this method are: 1) the check of measurement consistency based on all of the available measurements, 2) the minimum requirement of a priori knowledge of metabolism, and 3) the exclusive use of simple and established on-line techniques which do not require direct measurement of the metabolite in question. The control concept has been linked to a simple adaptive controller and applied to fed-batch cultures of S. cerevisiae and E. coli, organisms which express different overflow metabolites, ethanol and acetic acid, respectively. Oxidative and oxidoreductive states of S. cerevisiae and E. coli cultures were detected with high precision. As demonstrated by the formation of acetic acid in E. coli cultures, metabolic states could be correctly distinguished for systems for which traditional methods, such as respiratory quotient (RQ), are insensitive. Hence, it could be shown that the control concept allowed avoidance of overflow metabolite formation and operation at maximum oxidative biomass productivity and oxidative conversion of substrate into biomass. Based on mass and elemental balances, the proposed method additionally provides a richness of additional information, such as yield coefficients and estimation of concentrations and specific conversion rates. These data certainly help the operator to additionally evaluate the state of the process on-line., (Copyright 2003 Wiley Periodicals, Inc. Biotechnol Bioeng 82: 627-639, 2003.)

A multitude of metabolic regulations occur in yeast, particularly under dynamic process conditions, such as under sudden glucose excess. However, quantification of regulations and classification of yeast strains under these conditions have yet to be elucidated, which requires high-frequency and consistent quantification of the metabolic response. The present study aimed at quantifying the dynamic regulation of the central metabolism of strains Saccharomyces cerevisiae, S. kluyveri, and Kluyveromyces lactis upon sudden glucose excess, accomplished by a shift-up in dilution rate inside of the oxidative region using a small metabolic flux model. It was found that, under transient growth conditions, S. kluyveri behaved like K. lactis, while classification using steady-state conditions would position S. kluyveri close to S. cerevisiae. For transient conditions and based on the observation whether excess glucose is initially used for catabolism (energy) or anabolism (carbon), we propose to classify strains into energy-driven, such as S. cerevisiae, and carbon-driven, such as S. kluyveri and K. lactis, strains. Furthermore, it was found that the delayed onset of fermentative catabolism in carbon-driven strains is a consequence of low catabolic flux and the initial shunt of glucose in non-nitrogen-containing biomass constituents. The MFA model suggests that energy limitation forced the cell to ultimately increase catabolic flux, while the capacity of oxidative catabolism is not sufficient to process this flux oxidatively. The combination of transient experiments and its exploitation with reconciled intrinsic rates using a small metabolic model could corroborate earlier findings of metabolic regulations, such as tight glucose control in carbon-driven strains and transient changes in biomass composition, as well as explore new regulations, such as assimilation of ethanol before glucose. The benefit from using small metabolic flux models is the richness of information and the enhanced insight into intrinsic metabolic pathways without a priori knowledge of adaptation kinetics. Used in an online context, this approach serves as an efficient tool for strain characterization and physiological studies., (Copyright 2003 Wiley Periodicals. Biotechnol Bioeng 81: 837-847, 2003.)

A method for the on-line calculation of conversion rates and yield coefficients under dynamic process conditions was developed. The method is based on cumulated mass balances using a moving average method. Elemental balances were used to test the measured cumulated quantities for gross errors and inappropriate stoichiometry definition followed by data reconciliation and estimation of non-measured conversion rates, using a bioprocess set-up including multiple on-line analysis techniques. The quantitative potential of the proposed method is demonstrated by executing transient experiments in aerobic cultures of Saccharomyces cerevisiae on glucose. Rates and yield coefficients could be consistently quantified in shift-up, shift-down, and accelerostat experiments. The method shows the capability to describe quantitatively transient changes in metabolism including uncoupling of catabolism and anabolism, also for the case when multiple components of metabolism are not measured. The validity of the experiment can be evaluated on-line. Additionally, the method detects with high sensitivity inappropriate stoichiometry definition, such as a change in state of metabolism. It was shown that concentration values can be misleading for the identification of the metabolic state. In contrast, the proposed method provides a clear picture of the metabolic state and new physiological regulations could be revealed. Hence, the novelty of the proposed method is the on-line availability of consistent stoichiometric coefficients allowing a significant speed up in strain characterization and bioprocess development using minimal knowledge of the metabolism. Additionally, it opens up the use of transient experiments for physiological studies., (Copyright 2001 John Wiley & Sons, Inc.)

In Saccharomyces cerevisiae, the expression of invertase, which is the hydrolyzing enzyme of sucrose, is controlled by the presence of monosaccharides, such as glucose and fructose, and referred to as carbon catabolite repression. To date, efforts have been made to identify the mechanism by which cells sense extracellular monosaccharide concentrations and trigger the genes involved in the repression pathway. The aim of the present work was to quantitatively investigate the cellular regulation of invertase expression in the wild-type strain S. cerevisiae CEN.PK113-7D during batch growth containing mixed sugar substrates under different initial conditions. Because of the high frequency and accurate online analysis of multiple components, a tight control of invertase expression could be observed, and threshold concentrations of the monosaccharides for derepression could be determined to 0.5 gl(-1) for glucose and 2 gl(-1) for fructose. Also, the existence of a hitherto undescribed regulatory state, in which cells regulate invertase expression very precisely and operate over long periods at monosaccharide concentrations lower than the above thresholds, could be demonstrated. All experimental observations could be summarized in a formulation of the cellular regulation scheme of invertase expression. A simple kinetic model could show that the regulation scheme explains the observed behavior very well. Additionally, the model was able to explain consequences of the regulation on the global metabolism., (Copyright 2001 John Wiley & Sons, Inc.)