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Applied and Environmental Microbiology, July 2003, p . 4076-4086, Vol . 69, No . 7 Effects of Furfural on the Respiratory Metabolism of Saccharomyces cerevisiae in Glucose-Limited ChemostatsIlona Sárvári Horváth,1 Carl Johan Franzén,1 Mohammad J . Taherzadeh,1 Claes Niklasson,1 and Gunnar Lidén2* Department of Chemical Reaction Engineering, Chalmers University of Technology, S-412 96 Göteborg,1 Department of Chemical Engineering, Lund Institute of Technology, Lund University, S-221 00 Lund, Sweden2 Received 4 November 2002/ Accepted 26 March 2003
Taherzadeh et al . (39) compared the levels of conversion of furfural in anaerobic and aerobic batch cultures of S . cerevisiae growing on glucose . It was found that furfural was mainly converted to furfuryl alcohol by exponentially growing cells under both conditions and that the specific conversion rate was 0.6 g/g · h . Almost the same value for the maximum specific conversion rate of furfural was found in a previous study, in which pulse additions of furfural were made to anaerobic glucose-limited continuous cultures of S . cerevisiae (35) . To investigate inhibition effects outside glycolysis, S . cerevisiae was also grown on the nonfermentable carbon sources ethanol and acetic acid (38) . Pulse addition of furfural under these conditions was found to result in strong inhibition of cell growth until complete conversion of furfural occurred . Furthermore, more than 85% of the furfural was converted to furfuryl alcohol, and furoic acid was a minor conversion product when ethanol was used as the carbon and energy source . The objective of the present work was to study the physiological effects of furfural on the yeast S . cerevisiae during respiratory growth on glucose . Complete respiratory sugar metabolism can be achieved only at specific growth rates below a critical value . Therefore, chemostat experiments were performed with a dilution rate of 0.10 h-1 and different concentrations of furfural in the inlet medium . The global effects of furfural on metabolism were analyzed by estimating the steady-state metabolic flux distributions by metabolite balancing . Metabolic flux analysis shows the degrees of participation of various pathways in the overall metabolism . Comparisons of metabolic flux maps obtained under different conditions can provide important information regarding substrate utilization, product formation, and energy metabolism (25, 41) . Results obtained under steady-state conditions in the present work and steady-state results obtained previously under anaerobic conditions (35) provided the basis for a metabolic flux analysis in which the effects of furfural on aerobic metabolism and anaerobic metabolism of the yeast S.cerevisiae were compared . Transient experiments were also performed, in which pulse additions of furfural were made to continuous cultures . In this way, the dynamics of furfural conversion could be studied at high furfural concentrations .
Cultivation conditions. In the steady-state experiments, no furfural was present in the inlet medium at the first steady state . Subsequently, the concentration of furfural in the feed solution was gradually increased until washout occurred . Between different inlet concentrations the system was allowed to reach a steady state . We assumed that steady-state conditions had been reached when the biomass concentration and the specific rates of carbon dioxide production and oxygen consumption remained constant for at least five residence times . All experiments were performed at a dilution rate of 0.10 h-1 . In the pulse addition experiments, different amounts of furfural (resulting in concentrations of 4, 8, and 12 g/liter in the fermentor) were injected directly into steady-state continuous cultures growing on furfural-free medium . These experiments were also performed at a dilution rate of 0.10 h-1 .
Analytical methods . (i) Gas analysis.
(ii) Metabolites and biomass. Cell concentrations were determined from measurements of absorbance at 610 nm after samples were diluted to obtain an optical density of less than 0.5 . In this range, the absorbance values were found to be linearly related to cell dry weight . The optical density was calibrated with dry weight measurements by using duplicate 3-ml samples, which were centrifuged, washed once with distilled water, and dried at 103°C for 24 h . Duplicate samples differed by no more than 2% . The total cellular protein content was determined by a modified biuret method by using bovine serum albumin as the standard (44) . The total cellular RNA content was determined as described by Benthin et al . (6), except that the concentrations of cold perchloric acid were changed . Thus, samples were washed and deproteinized three times with cold 0.2 M perchloric acid, solubilized in 0.3 M KOH at 37°C, and acidified by addition of cold 1.7 M perchloric acid (13) . The precipitate was washed twice with 0.2 M perchloric acid, and after centrifugation the absorbance at 260 nm of the supernatant was determined with 0.2 M perchloric acid as the reference (18) .
(iii) Calculation of specific uptake and production rates.
The respiratory quotient (RQ) was calculated from the measured exhaust gas mole fractions by using the following equation .
where yj,in and yj,out are the mole fractions of j in the inlet and outlet gas, respectively . Specific uptake and production rates were determined based on the biomass concentrations . Volumetric conversion rates were calculated from mass balances in the bioreactor at steady state . Degrees of reduction balance were calculated by the method of Roels (33) .
Stoichiometric network models. The metabolic network used for anaerobic conditions comprised 50 compounds in 44 intracellular reactions . The condition number of the stoichiometric matrix was 89, indicating a numerically well-conditioned system . The anaerobic model is presented and discussed in detail elsewhere (14) . However, some important points are also mentioned here . In order to obtain as good fit as possible with experimental data under anaerobic conditions, it was assumed that in dehydrogenase reactions NADP+ and NADH were used as cofactors in cases in which the cofactor specificity was uncertain (1, 2) . Thus, in the synthesis of amino acids, the homoserine dehydrogenase (Hom6p), D1-pyrroline-5-carboxylate reductase (Pro3p), and saccharopine reductase (Lys9) were assumed to proceed with cytosolic NADH in order to minimize the amount of NADH formed in anabolism (2) . For the same reason, 5-methyl tetrahydrofolate was assumed to be formed via the NADPH-specific methylene tetrahydrofolate reductase (Met13p) (32, 34) . 5-Formyl tetrahydrofolate formation was assumed to proceed via the NADP-specific Ade3p (46) . Glycine formation was assumed to proceed both via the cytosolic serine hydroxymethyltransferase (Shm2p) and via threonine aldolase (Gly1p) (23), in order to balance the formation of 5,10-methylene tetrahydrofolate . Acetyl-coenzyme A (acetyl-CoA) used in the tricarboxylic acid (TCA) cycle was assumed to be formed via pyruvate decarboxylase and a cytosolic NADP+-coupled acetaldehyde dehydrogenase, which was followed by passive transport into the mitochondria (25) . Furthermore, it was assumed that furfuryl alcohol was produced via an NADH-coupled alcohol dehydrogenase . The metabolic network used for aerobic conditions comprised 51 compounds in 45 intracellular reactions . The condition number of the stoichiometric matrix was 88 . Under aerobic conditions, acetyl-CoA used in the TCA cycle was assumed to be formed via pyruvate dehydrogenase, whereas cytosolic acetyl-CoA used in biosynthesis was assumed to be formed via pyruvate decarboxylase and NAD+-coupled acetaldehyde dehydrogenase (25) . It was not possible to include both the pyruvate dehydrogenase (PDH) and the PDH bypass for formation of mitochondrial acetyl-CoA (15) since this led to a dramatic increase in the condition number of the stoichiometric matrix . Furoic acid was assumed to be formed via an NAD+-coupled aldehyde dehydrogenase under aerobic conditions . The P/O ratio was assumed to be 1.1 for both the external and internal NADH dehydrogenases (42) . The amount of ATP used for intracellular pH regulation was estimated on the basis of proton balance by using the plasma membrane H+-translocating ATPase to account for export of excess protons . An ATP balance was used to estimate the amount of ATP consumed in all unknown processes; hence, this was referred to as nonspecific ATP hydrolysis . The amino acid composition of cellular protein was obtained from the study of Albers et al . (1), and the nucleotide composition of RNA was obtained from the study of Oura (26) . The cellular protein and RNA contents were measured as described above . The biomass was assumed to contain 5% lipids under aerobic conditions and 2% lipids under anaerobic conditions (average lipid compositions) (14, 31) . Under anaerobic conditions, unsaturated fatty acids, ergosterol, and inositol were assumed to be taken up from the medium, while under aerobic conditions only inositol was provided in the medium . This was taken into account by modifying the reaction stoichiometry in these cases (see Appendix) . The monomer compositions of proteins, RNA, and lipids were assumed to be constant under all the conditions investigated . The remainder of the biomass was assumed to be ash (5%) and carbohydrates (balance up to 100%) . The unknown intracellular reaction rates were estimated by weighted, constrained optimization as previously described (14) .
Furoic acid was the only furfural-derived product found, and no residual furfural was detected in the bioreactor during the steady states obtained in the presence of 1.14 and 2.25 g of furfural per liter in the feed solution . This is in sharp contrast to fermentative or respirofermentative growth, in which furfuryl alcohol and a recently identified probable acyloin condensation product of furfural and pyruvate, 3-(2-furfuryl)-2-hydroxy-2-methyl-3-oxo-propanoic acid (FHMOPA), were found to be the dominant products (35, 39) . Washout occurred when the furfural concentration in the feed solution was increased to 3.00 g/liter, suggesting that the maximum specific conversion rate of furfural is between 0.054 and 0.072 g/g · h under steady-state conditions at a dilution rate of 0.10 h-1 .
Flux distributions in aerobic and anaerobic continuous cultures.
With furfural present in the medium under aerobic conditions, the specific rates of glycolysis, TCA cycle reactions, and respiration increased by 30, 50, and 50%, respectively, for an inlet furfural concentration of 2.25 g/liter (Fig . 1) . The specific rates of the biosynthetic fluxes changed only slightly due to changes in the cellular macromolecular composition . This resulted in a more-than-threefold increase in the nonspecific ATP utilization . The biomass yield on ATP (YATP) decreased from 16.0 g of biomass/mol of ATP to 10.6 g/mol, and the nonspecific hydrolysis of ATP increased from 0.4 to 1.2 mol of ATP/C-mol of biomass (i.e., the amount of biomass containing 12 g of carbon) when the medium was changed from furfural-free medium to a medium containing 2.25 g of furfural per liter (Table 1) . During respiratory growth the only product of the furfural conversion reaction was furoic acid . In the model this reaction was assumed to proceed with NAD+ as a cofactor . However, the additional NADH produced in this reaction accounted for only 27% of the additional NADH respired, and the rest originated from the increasing rates of the glyceraldehyde dehydrogenase and TCA cycle reactions . During anaerobic growth, glycolysis was highly active as an ATP-producing pathway, and ethanol was the main product; only a small fraction of the glucose was converted in the pentose phosphate pathway (Fig . 2) . Glycerol formation provided additional reoxidation of cytosolic NADH . The Adh3p provided a redox shuttle for mitochondrial NADH (3), and the TCA cycle operated in a forked mode, providing biosynthetic precursors with minimum net NADH formation (25) . Under anaerobic conditions the main product of the furfural conversion reaction was furfuryl alcohol . This compound was assumed to be produced with NADH as a cofactor, possibly by alcohol dehydrogenase I (10, 16, 24) . As a consequence, furfuryl alcohol production led to an almost stoichiometric decrease in the flux to glycerol (Fig . 2) . In the furfural-free medium, 24 mmol of NADH/C-mol of glucose was converted in glycerol synthesis, whereas 26 mmol of NADH/C-mol of glucose was converted via furfural reduction at the highest furfural concentration . In the furfural-free medium there was a split in the TCA cycle into an oxidative branch and a reductive branch (Fig . 2) . When furfural was present in the medium, all the TCA cycle reactions instead appeared to be slightly active in the oxidative direction . This also led to an 85% decrease in the succinate yield . Furthermore, there was an increase in the movement of reducing equivalents out of the mitochondria via the Adh3p shuttle (25) . At intermediate furfural concentrations in the medium, the biomass yield actually increased by 13%, while the specific glycolytic rate decreased by 11% . This resulted in an increase in the YATP from 12.6 to 14.2 g of biomass/mol of ATP and a decrease in the nonspecific ATP consumption from 0.9 to 0.6 mol of ATP/C-mol of biomass (Table 2) . However, at the highest furfural concentration, the YATP dropped to 10.1 g/mol, and the nonspecific ATP consumption increased by 50% (from 0.9 to 1.3 mol of ATP/C-mol of biomass) compared to the nonspecific ATP consumption in the furfural-free medium (Table 2) . This was accompanied by a 12% increase in the specific ethanol production rate (Table 2) and a 9% increase in the ethanol yield (Fig . 2) . The calculated specific rate of ethanol production was about 8% higher than the measured rate, which can be explained by evaporation of ethanol (36) .
Pulse addition of furfural to respiratory continuous cultures.
The residual glucose concentration was not affected by pulse addition of the lowest concentration of furfural (4 g/liter) . However, at higher concentrations of furfural (8 and 12 g/liter), the residual glucose concentration transiently increased during furfural conversion (Fig . 3) . Also, metabolites, such as succinic acid, acetic acid, and pyruvic acid, were affected . Acetate and pyruvate were transiently excreted into the medium, but they were consumed again when growth was restored . Succinate excretion also increased, but succinate was not consumed again (Fig . 3) . The decrease in the concentration of furfural following a pulse addition was due to both dilution and conversion by the cells . In contrast to the conversion of furfural at a steady state, the main conversion products of furfural in this case were furfuryl alcohol, furoic acid, and FHMOPA . The maximum specific rate of conversion of furfural was estimated to be 0.26 ± 0.01 g/g · h by using a Michaelis-Menten-type kinetic model (35) . Most of the furfural was converted to furfuryl alcohol, for which the maximum specific rate of production was 0.19 ± 0.01 g/g · h . The maximum specific rate of production of furoic acid was estimated to 0.040 ± 0.005 g/g · h . The Michaelis-Menten constants for furfural were found to be about 0.1 g/liter for conversion to furfuryl alcohol and almost zero for conversion to furoic acid . This suggests that the affinity for furfural is high, and this suggestion is supported by the fact that the furfural concentrations were below the detection limit under the steady-state conditions .
The maximum rate of conversion of furfural to furoic acid under steady-state conditions was between 0.054 and 0.072 g/g · h (at the latter conversion rate washout occurred) . On the other hand, at high concentrations of furfural (such as the concentration after a pulse addition), a maximum specific rate of conversion of about 0.26 g/g · h was found . In this case, however, predominantly furfuryl alcohol was obtained (Fig . 3) . Consequently, the maximum specific rate of conversion of furfural could be divided into a maximum specific rate of reduction to furfuryl alcohol of 0.19 g/g · h and a maximum specific rate of oxidation to furoic acid of 0.04 g/g · h . The maximum specific rate of furoic acid production was similar to the maximum furfural conversion rate obtained under steady-state conditions during respiratory growth, in which case the only product of the furfural conversion was furoic acid . This may indicate that the oxidation of furfural to furoic acid proceeded at the maximum rate and that, in addition, overflow conversion of furfural to furfuryl alcohol occurred during the pulse addition experiments . Although the maximum value for the aerobic specific rate of conversion of furfural (0.26 g/g · h) is higher than the aerobic chemostat conversion rate, this value is clearly lower than the corresponding maximum conversion rate obtained previously during fermentative metabolism (0.62 g/g · h) both in continuous cultures (35) and in batch cultures (39) of S . cerevisiae . It was found that low concentrations of furfural did not have as strong an effect on cellular metabolism during fermentative growth (Fig . 2) as during respiratory growth (Fig . 1) . The main product of the conversion of furfural is furfuryl alcohol under anaerobic conditions . The reduction of furfural can therefore act as an alternative redox sink, redirecting the NADH pool to furfuryl alcohol formation, which results in a substantial decrease in the glycerol yield and a slight increase in biomass formation (27, 35) . This was also reflected in an increase in the YATP at the intermediate levels of furfural addition (Table 2) . Since glycerol formation is accompanied by net ATP consumption, an externally supplied redox sink (e.g., in the form of furfural) could result in more ATP being available for biomass synthesis . Furfural concentrations that are too high, however, result in inhibition of biosynthesis, and growth stops . A limiting factor for furfuryl alcohol production could be that the high demand for NADH for the reduction of furfural cannot be met during anaerobic growth (35) . The analysis also showed that furfural affects fluxes involved in energy metabolism (Fig . 1) . The flux model showed that there was 50% higher specific respiratory activity, including all the reaction steps involved, together with an almost threefold increase in nonspecific ATP consumption when 2.25 g of furfural per liter was present in the inlet medium . This was also reflected in the lower YATP (Table 1) . The increase in the energy requirement could be a direct effect of the furoic acid formed . In the model used, furoic acid was assumed to be exported via diffusion in its undissociated form . On the other hand, if the dissociated acid is exported via an active anion transporter, additional protons would be liberated both due to the dissociation of the acid and due to the ATP hydrolysis linked to the transport . The export of the anions could tentatively be achieved via the ATP binding cassette transporter Pdr12p, which has been shown to confer resistance to water-soluble, monocarboxylic acids with chains that are one to seven C atoms long, including sorbic acid and benzoic acid (19, 30) . In total, 0.8 mol of ATP/C-mol of furoic acid would be used in conjunction with the formation and expulsion of the furoic acid and liberated protons, assuming a stoichiometry of 1 ATP per furoate exported via the Pdr12p transporter . When this information was included in the model, the level of nonspecific ATP hydrolysis was reduced to 1.0 mol of ATP/C-mol of glucose at the highest inlet furfural concentration, a value which is still 2.5-fold higher than the value obtained in the absence of furfural . Furthermore, the low pKa of furoic acid (pKa 3.17) makes a futile cycle due to rediffusion of the protonated acid across the plasma membrane unlikely (20, 43) . Thus, the increase in the nonspecific energy requirement cannot be explained solely by transport energy requirements . The variation in the preferred conversion products obtained from furfural may be due to differences in enzyme activities and/or intracellular metabolite levels . Reduction of furfural to furfuryl alcohol is most likely catalyzed by an NADH-coupled alcohol dehydrogenase (5, 28, 38, 45) . Assuming that NADPH is a cofactor for furfuryl alcohol production failed to explain the observed metabolite yields and resulted in completely unreasonable metabolic flux distributions . Since the oxidation of furfural to furoic acid is an oxidation of an aldehyde to a carboxylic acid, the reaction is likely to proceed via an aldehyde dehydrogenase . Lower aerobic alcohol dehydrogenase activity, in combination with a lower intracellular NADH level, could well explain the preference for furoic acid formation over furfuryl alcohol formation under aerobic conditions . The cofactor requirement of this reaction has not been determined . However, several facts indicate that NAD+ is the preferred cofactor in the oxidation of furfural to furoic acid . Modig et al . showed that commercially available NAD+-dependent aldehyde dehydrogenase was active in converting furfural to furoic acid (22) . Furthermore, using NAD+ as a cofactor for the aldehyde dehydrogenase reaction in our model resulted in a metabolic flux distribution which agrees better with the distribution described by Gombert et al . (15) . By using 13C labeling methodology, these authors estimated that the flux through the oxidative part of the pentose phosphate pathway is 44.2% on a molar basis . Importantly, this was done without any use of cofactor balances in the study . When we used NAD+ in our stoichiometric model, we obtained a value of 35.4% (Fig . 1), while the use of NADP+ resulted in a much lower value, 28.6% (data not shown) . Furthermore, if NADP+ was used, the pentose phosphate pathway flux decreased dramatically when furfural was present, whereas with NAD+ it decreased only in proportion to the decrease in biomass formation (Fig . 1) . Moreover, the increased respiratory activity obtained when furfural was present indicates that there is an increased rate of NADH turnover in the respiratory chain . As shown in the metabolic flux analysis, the additional NADH accompanying furoic acid production actually explained only 27% of the increase in the respiratory activity . The rest of the NADH was formed due to an increase in TCA cycle activity . Taken together, these observations support the hypothesis that there is an NAD+-coupled reaction mechanism . One possible reason for the lack of a respiratory steady state at an inlet furfural concentration higher than 2.25 g/liter could be a limitation in the oxidative capacity, either in the oxidation of furfural to furoic acid or in the oxidation of NADH to NAD+ . A limitation in the oxidative capacity is in fact suggested by the pulse addition experiments . When the maximum oxidation capacity is reached, ethanol formation is induced, which results in a large decrease in the biomass yield . This in turn results in a decreased overall ability to convert the added furfural . As a consequence, the furfural concentration increases, which leads to inhibition of essential enzymes, most likely including the pyruvate dehydrogenase and aldehyde dehydrogenase enzymes (22) . The final result is rapid washout of the culture . Whether the limitation is in the enzymatic conversion of furfural to furoic acid or in the turnover of the NADH produced could not be deduced from the experiments performed in this study . Based on these observations, we concluded that the ability to survive in the presence of furfural is directly related to the ability to convert furfural to less inhibitory compounds under aerobic conditions, as well as under anaerobic conditions . Under aerobic conditions, a shift to respirofermentative metabolism occurs when the capacity to oxidize furfural is exceeded, which leads to a decrease in the biomass yield . Under anaerobic conditions, the supply of NADH appears to limit the reduction of furfural at conversion rates above rates at which glycerol formation has been totally replaced by furfuryl alcohol production . In both these cases, the result is that the concentration of furfural increases, probably leading to additional direct inhibitory effects on essential enzymatic steps in the central metabolic pathways .
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