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Applied and Environmental Microbiology, August 2006, p. 5204-5210, Vol. 72, No. 8
0099-2240/06/$08.00+0 doi:10.1128/AEM.00146-06
Copyright © 2006, American Society for Microbiology. All Rights Reserved.
Research Group of Industrial Microbiology and Food Biotechnology (IMDO), Department of Applied Biological Sciences and Engineering, Vrije Universiteit Brussel, Pleinlaan 2, B-1050 Brussels, Belgium
Received 19 January 2006/ Accepted 21 May 2006
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Bifidobacteria are gram-positive, nonsporulating, nonmotile, saccharoclastic, and usually catalase-negative rods with various shapes (35). They can dominate the intestinal microbiota of babies, but the amounts decrease over time and the bifidobacteria usually account for approximately 3% of the human colon microbiota of adults (10, 14, 18, 22). Bifidobacteria are considered key commensals in human-microbe interactions and contribute to the degradation of undigested polysaccharides in the human colon (1, 37). Because of their ability to break down and metabolize a variety of substrates, different polysaccharides can be used as prebiotics to specifically stimulate bifidobacteria in the human colon; this is the so-called bifidogenic effect (12). Of all the candidate prebiotics tested to date, inulin-type fructans are the most promising, and consequently, the consumption of fructans by bifidobacteria has been studied in detail both in vitro and in vivo (13, 15, 24, 31, 33, 39-41).
Bifidobacteria are nutritionally less fastidious than lactobacilli (32, 38). Carbohydrates are degraded exclusively and characteristically by the fructose-6-phosphate shunt, and acetic acid and lactic acid are major metabolites (6, 36, 44). Some researchers have proposed a theoretical molar ratio of acetic acid to lactic acid of 1.5, although other workers have proven that this ratio is not always obtained (1, 5, 19, 26, 29, 31, 34, 39). The variation is explained by the production of other sugar metabolites, such as formic acid and ethanol (5). This limits the production of lactic acid, which results in an increase in the theoretical ratio of acetic acid to lactic acid. Moreover, degradation of inulin-type fructans increases acetic acid production at the cost of lactic acid (39, 40). Detailed knowledge about the metabolism of bifidobacteria is very important because of the widespread use of these microorganisms as probiotics or as target organisms for prebiotic substrates.
Bifidobacteria are also able to produce small amounts of succinic acid, although this has never been studied in detail (35). Lauer and Kandler (19) have shown that small amounts of succinic acid are probably produced through a CO2 fixation reaction. However, Chiappini (4) showed that although external CO2 can be fixed by bifidobacteria and seems to stimulate growth, it is not incorporated during the conversion of phosphoenolpyruvate (PEP) to oxaloacetate. An examination of the genomes of Bifidobacterium longum NCC2705 (16, 37) (GenBank accession no. NC_004307) and B. longum DJO10A (GenBank accession no. NZ_AABM00000000) revealed that several genes that encode enzymes that may be involved in the production of succinic acid from carbohydrates, such as PEP carboxylase and fumarate reductase, are present. Although this metabolic trait has been known for a long time, qualitative or quantitative data are scarce (19, 44).
The aim of this study was to obtain detailed information about the production of succinic acid by bifidobacteria. An effort was made to quantify the succinic acid production by different species of Bifidobacterium. Moreover, the effects of different energy sources on the metabolism and production of succinic acid were examined with two strains in an effort to elucidate the function of succinic acid production in the general sugar metabolism of bifidobacteria.
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Fermentations were performed in MCB (medium for colon bacteria), which supported the growth of different members of the human colon microbiota (40) and contained (per liter) 6.5 g bacteriological peptone (Oxoid), 5.0 g soy peptone (Oxoid), 2.5 g tryptone (Oxoid), 3.0 g yeast extract (VWR International, Darmstadt, Germany), 2.0 g KCl, 0.2 g NaHCO3, 4.5 g NaCl, 0.5 g MgSO4 · 7H2O, 0.45 g CaCl2 · 2H2O, 0.2 g MnSO4 · H2O, 0.005 g FeSO4 · 7H2O, 0.005 g ZnSO4 · 7H2O, 0.4 g cysteine-HCl, 0.005 g hemin, and 0.005 g menadione. The medium also contained 0.5 ml liter1 H3PO4 and 2 ml liter1 Tween 80. For small-scale fermentations (100 ml), glucose was used as the sole added energy source at a concentration of 15 g liter1, and the pH of the medium was adjusted to 6.50 before sterilization (210 kPa, 121°C, 20 min). For large-scale fermentations (1.5 liters), glucose, fructose, lactose, and oligofructose were used as the sole added energy sources at a concentration of 15 g liter1. Glucose, fructose, and lactose were sterilized (210 kPa, 121°C, 20 min) separately and added aseptically to the growth medium.
Oligofructose (RaftiloseP95) was kindly provided by ORAFTI N.V. (Tienen, Belgium). RaftiloseP95 is a commercial powder produced by enzymatic hydrolysis of chicory inulin. This powder contains oligofructose (
93.2% [wt/wt]) and small amounts of glucose, fructose, and sucrose. The degree of polymerization of the oligofructose chains varies from 2 to 8, and the average degree of polymerization is 4. Oligofructose was filter sterilized using Sartolab P-20 filters (Sartorius AG, Goettingen, Germany) and was added aseptically to the growth medium.
Solid media were prepared by adding 1.5% (wt/vol) agar (Oxoid) to MCB with the appropriate energy source (MCB agar).
Fermentation experiments.
The metabolism of all 10 Bifidobacterium strains was first examined using small-scale fermentations (100 ml) in MCB with glucose as the sole added energy source and without pH control. Initially, the strains were transferred from storage at80°C to de Man-Rogosa-Sharpe medium and incubated anaerobically at 37°C in a modular atmosphere-controlled system (MG anaerobic work station; Don Withley Scientific, West Yorkshire, United Kingdom) that was continuously sparged with a mixture of 80% N2, 10% CO2, and 10% H2 (Air Liquide, Paris, France). After this, the strains were propagated twice in MCB with glucose as the sole added energy source and finally added (5% [vol/vol]) to 100 ml of MCB with glucose as the sole added energy source. After 24 h of anaerobic incubation at 37°C, colony counts were obtained by plating the strains on MCB agar with glucose, and the final pH of the medium was determined. Samples were also removed for further analysis.
B. longum BB536 and B. animalis subsp. lactis Bb 12 were used for a detailed kinetic analysis. This analysis was performed by using 1.5-liter fermentations in a Biostat B-DCU fermentor (Sartorius AG). The inoculum build-up was the same as that described above (transfer volume, 5% [vol/vol]), using the same added energy source that was used later during the fermentation (glucose, fructose, lactose, or oligofructose). All fermentations were carried out anaerobically by sparging the medium with a mixture of 90% N2 and 10% CO2 (Air Liquide) at 37°C for 48 h. During fermentation, a linear pH profile, starting at pH 5.80 and ending at pH 6.80 after 48 h, was used to simulate the pH change during transit through the colon. The pH was controlled by automatic addition of 1.5 M NaOH. Gentle stirring (100 rpm) was used to keep the medium homogeneous. The temperature, pH, and agitation speed were controlled online (MFCS/win 2.1; Sartorius AG). Samples were removed at regular times for analysis.
All fermentations were carried out in duplicate. The results presented below are representative of both fermentations.
Analysis of growth.
Colony counts (CFU per milliliter) were obtained by plating preparations on MCB agar with the appropriate energy source. The plates were incubated anaerobically (modular atmosphere-controlled system) at 37°C for 48 h. The biomass, expressed as cell dry mass (CDM), was determined by membrane filtration of a fixed volume of sample. The filters (0.45-µm cellulose nitrate filters; Sartorius AG) were dried at 105°C for 24 h and weighed.
Analysis of metabolites.
The amounts of glucose, fructose, lactose, lactic acid, acetic acid, ethanol, and formic acid were determined by high-performance liquid chromatography with a Waters chromatograph (Waters Corp., Milford, MA) equipped with a 2414 differential refractometer, a 600S controller, a column oven, and a 717plus autosampler. An ICSep ICE ORH-801 column (Interchim, Montluçon, France) was used with 10 mN H2SO4 as the mobile phase at a flow rate of 0.4 ml min1. The column temperature was kept at 35°C. Samples were centrifuged (16,060 x g for 15 min), and an equal volume of 20% (vol/vol) trichloroacetic acid was added to remove proteins. After centrifugation (16,060 x g for 15 min) the supernatant was filtered (0.2-µm Minisart RC4 filters; Sartorius AG) before injection.
The amounts of mannitol, glycerol, and erythritol were determined by high-performance anion-exchange chromatography with pulsed amperometric detection (Dionex, Sunnyvale, CA) using a CarboPac PA-10 column. The mobile phase (flow rate, 1.0 ml min1) consisted of ultrapure water (0.015 µS cm1) (eluent A) and 250 mM NaOH (eluent B), with the following gradient: zero time, 85% (vol/vol) eluent A and 15% (vol/vol) eluent B; 10.0 min, 85% (vol/vol) eluent A and 15% (vol/vol) eluent B; 20.0 min, 75% (vol/vol) eluent A and 25% (vol/vol) eluent B; 30.0 min, 65% (vol/vol) eluent A and 35% (vol/vol) eluent B; 50.0 min, 65% (vol/vol) eluent A and 35% (vol/vol) eluent B; 51.0 min, 100% (vol/vol) eluent B; 56.0 min, 100% (vol/vol) eluent B; 57.0 min, 85% (vol/vol) eluent A and 15% (vol/vol) eluent B; and 75.0 min, 85% (vol/vol) eluent A and 15% (vol/vol) eluent B. The supernatant was treated with trichloroacetic acid as described above. The samples were filtered (0.2-µm Minisart RC4) prior to injection.
The amount of succinic acid was determined using a Waters 2695 high-performance liquid chromatograph (Waters) coupled to a Quattro Micro mass spectrometer (Waters). The column (Atlantis; Waters) was kept at 35°C. The mobile phase (flow rate, 0.2 ml min1) was composed of ultrapure water (eluent A), acetonitrile (eluent B), and 10 mM ammonium acetate (pH 6.5) (eluent C). The gradient used was as follows: zero time, 85% (vol/vol) eluent A, 5% (vol/vol) eluent B, and 10% (vol/vol) eluent C; 15.0 min, 40% (vol/vol) eluent A, 50% (vol/vol) eluent B, and 10%(vol/vol) eluent C; 15.1 min, 10%(vol/vol) eluent A, 80% (vol/vol) eluent B, and 10% (vol/vol) eluent C; 23.0 min, 10% (vol/vol) eluent A, 80% (vol/vol) eluent B, and 10% (vol/vol) eluent C; 23.1 min, 85% (vol/vol) eluent A, 5% (vol/vol) eluent B, and 10% (vol/vol) eluent C; and 30.0 min, 85% (vol/vol) eluent A, 5% (vol/vol) eluent B, and 10%(vol/vol) eluent C. Samples were centrifuged (16,060 x g for 15 min), and 100 µl of an internal standard (3,4-dihydroxybenzoic acid) was added to 500 µl of supernatant. After this 600 µl of acetonitrile was added, and the samples were centrifuged again (16,060 x g for 15 min). The supernatant was filtered (0.2-µm Minisart RC4) and injected.
The amounts of short-chain fatty acids (SCFA) (acetic acid, propionic acid, butyric acid, valeric acid, and capronic acid) were determined by gas chromatography with an Agilent 6890 gas chromatograph (Agilent Technologies, Palo Alto, CA) coupled to an Agilent 5973N mass spectrometer (Agilent Technologies). A capillary column (DB-WAXetr; Agilent Technologies) was used together with the following oven temperature program: zero time, 90°C; 5.0 min, 90°C; 7.3 min, 125°C; 12.3 min, 125°C; 16.0 min, 180°C; 31.3 min, 180°C; 34.3 min, 230°C; and 47.3 min, 230°C. Helium (Air Liquide) was used as the carrier gas at a flow rate of 1.1 ml min1. The samples were centrifuged (16,060 x g for 15 min), and 100 µl of an internal standard (2,6-dimethylphenol) and 50 µl of H2SO4 were added to 500 µl of supernatant. After mixing for 15 s, 750 µl of diethyl ether was added to the sample and mixed thoroughly (30 min). After this, the organic phase was transferred into a vial. The extraction procedure with diethyl ether was performed twice, after which the samples were injected.
The amount of ethanol was also determined using the gas chromatography-mass spectrometry apparatus described above. The same column was used with the following temperature program: zero time, 40°C; 5.0 min, 40°C; 9.29 min, 100°C; 10.37 min, 230°C; and 15 min, 230°C. The procedure used for sample preparation was similar to the procedure used for SCFA, except that no H2SO4 was added, chloroform was used as the organic phase instead of diethyl ether, and methanol (0.5% [wt/vol] in ultrapure water) was used as the internal standard.
All samples were analyzed in triplicate, and the means ± standard deviations are given below. The level of carbon recovery (expressed as a percentage) was calculated by dividing the total amount of carbon recovered in the sugar metabolites by the total amount of carbon present in the added energy source. The amounts of acetic acid produced by conversion of acetyl-coenzyme A (acetyl-CoA) were calculated by subtracting the amount of acetic acid produced in the upper part of the metabolic pathway (3 mol of acetic acid are produced for every 2 mol of hexose consumed) from the total amount of acetic acid produced. NAD+ recovery was calculated by taking into account the fact that 1 mol of NADH + H+ was produced per mol of hexose consumed and the fact that 1 mol of NAD+ was regenerated per mol of lactic acid, while 2 mol of NAD+ was regenerated per mol of ethanol or succinic acid. The amount of acetyl-CoA converted was assumed to be equal to the sum of the amount of ethanol and the amount of acetic acid produced in the lower part of the pathway (1 mol of acetyl-CoA can be converted to 1 mol of ethanol or 1 mol of acetic acid). The specific sugar consumption rate was calculated by dividing the amount of hexose equivalents consumed by the time needed to consume this amount of sugar and by the biomass.
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TABLE 1. Growth of and metabolite production by 10 Bifidobacterium strains grown in MCB at 37°C for 24 h
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TABLE 2. Specific sugar consumption rates and metabolite production for B. longum BB536 after growth in MCB containing different energy sources
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FIG. 1. B. longum BB536 fermentation in MCB with 15 g liter1 glucose (A) or 15 g liter1 lactose (B). The left axis indicates the glucose concentration (mM) (A) or the lactose concentration (mM) (B) (), the acetic acid concentration (mM) ( ), the lactic acid concentration (mM) ( ), the ethanol concentration (mM) ( ), and the formic acid concentration (mM) ( ). The right axis indicates the concentration of the organism (log CFU ml1) ( ) and the succinic acid concentration (mM) ( ). The data for fructose or oligofructose (RaftiloseP95) as the sole added energy source are from reference 40.
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TABLE 3. Specific sugar consumption rate and metabolite production for B. animalis subsp. lactis Bb 12 after growth in MCB containing different energy sources
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FIG. 2. B. animalis subsp. lactis Bb 12 fermentation in MCB with 15 g liter1 glucose (A), 15 g liter1 lactose (B), or 15 g liter1 oligofructose (RaftiloseP95) (C). The left axis indicates the glucose concentration (mM) (A), lactose concentration (mM) (B), or oligofructose concentration (expressed as mM fructose) (C) (), acetic acid concentration (mM) ( ), lactic acid concentration (mM) ( ), ethanol concentration (mM) ( ), and formic acid concentration (mM) ( ). The right axis indicates the concentration of the organism (log CFU ml1) ( ) and the succinic acid concentration (mM) ( ).
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FIG. 3. (A) Relationship between the specific sugar consumption rate and the yields of acetic acid ( ), lactic acid ( ), formic acid ( ), and ethanol ( ) for B. longum BB536 and B. animalis subsp. lactis Bb 12. (B) Relationship between the specific sugar consumption rate and the yield of succinic acid for B. longum BB536 ( ) and B. animalis subsp. lactis Bb 12 ( ). The yields are expressed in mol produced per mol of hexose equivalents consumed. The correlation coefficients (R2) are indicated.
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FIG. 4. Schematic diagram of bifidobacterial sugar metabolism. 1, Enzymes of the bifidobacterial fructose-6-phosphate shunt; 2, pyruvate kinase (pyk); 3, lactate dehydrogenase (ldh); 4, pyruvate formate lyase (pfl); 5, phosphotransacetylase (pta) and acetate kinase (ack); 6, acetaldehyde dehydrogenase (adh) and alcohol dehydrogenase (adh); 7, phosphoenolpyruvate carboxylase (ppc); 8, malate dehydrogenase (coding sequence not found in either B. longum genome); 9, fumarase (coding sequence not found in either B. longum genome); 10, succinate dehydrogenase (sdh). The values in boxes are the percentages of conversion of acetyl-CoA.
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The production of succinic acid by Bifidobacterium strains was observed by Lauer and Kandler (19) and Wolin et al. (44). All 10 Bifidobacterium strains tested in our study, which belonged to different species, produced small amounts of succinic acid (<1 mM during pH free fermentations). The two Bifidobacterium strains that were studied in more detail produced succinic acid during growth on all carbohydrate sources tested, and we observed that the production of succinic acid was growth associated and stopped when the energy source was depleted. The production of succinic acid probably occurred through the conversion of PEP into oxaloacetate with the incorporation of CO2, due to the action of a PEP carboxylase. The gene coding for PEP carboxylase has recently been found in the genomes of two B. longum strains (37) (GenBank accession no. NC_004307 and NZ_AABM00000000). However, external CO2 is not incorporated during the conversion of PEP into oxaloacetate, as has been observed by Chiappini (4). Indeed, we found no differences in succinic acid production between fermentations that were sparged with external CO2 and fermentations that were not sparged with external CO2. When we examined the genome information, only fumarate reductase, which is responsible for the conversion of fumarate into succinate, was found, but both malate dehydrogenase and fumarase, which are responsible for the conversion of oxaloacetate into fumarate, were not found. However, minor activity of the malate dehydrogenase enzyme in bifidobacteria was found (data not shown), as reported previously (4). Furthermore, similarity-based tools may not successfully annotate many genes, thereby creating gaps in certain metabolic pathways (28). Thus, it is possible that these genes are indeed present but are not detected due to low degrees of homology with known genes. Sequencing more Bifidobacterium genomes or a search on the molecular level for these enzymes may provide an answer to this question.
The reason why small amounts of succinic acid are produced is still unclear. As the conversion of PEP into oxaloacetate is mediated through the PEP carboxylase, as it is in Escherichia coli (25), the energy conserved in PEP is dissipated when the molecule is converted into succinic acid. In this way, energy is lost, which may explain why only small amounts of succinic acid are produced. Bacteria that produce large amounts of succinic acid (e.g., the colon bacterium Bacteroides) use a PEP carboxykinase which conserves the energy of PEP through production of ATP during conversion of PEP into oxaloacetate (21). Nevertheless, succinic acid is always produced by bifidobacteria, which was clear from our study. The metabolic route shown in Fig. 4 indicates that 2 mol of NAD+ is regenerated when PEP is converted into succinic acid. When theoretically calculating the NADH + H+/NAD+ balance, we noticed that a small percentage of NAD+ recuperation occurs through this pathway, which may explain why succinic acid is produced. However, the question is why not all NAD+ is regenerated through the production of ethanol, since this pathway involves the conversion of PEP into pyruvate, enabling the production of ATP, which is not the case during the conversion of PEP into oxaloacetate in bifidobacteria. A clear relationship between the yield of succinic acid and the specific sugar consumption rate could not be detected, since it was observed that in B. longum strain BB536 higher yields of succinic acid corresponded with a higher specific sugar consumption rate, whereas the opposite was observed for B. animalis subsp. lactis Bb 12 strain. Detailed kinetic analysis of more Bifidobacterium strains may reveal a possible relationship.
The low specific rate of sugar consumption during growth of the Bifidobacterium strains on the prebiotic oligofructose may indicate that mainly acetic acid and to a lesser extent formic acid, ethanol, and lactic acid are produced upon degradation of this prebiotic in vivo. Moreover, we have previously shown that bifidobacteria preferentially use the short fractions of oligofructose rapidly, resulting in production of acetic acid and lactic acid during growth on these shorter fractions (39, 40). Therefore, acetic acid and lactic acid are the main metabolites produced by bifidobacteria upon prebiotic stimulation with oligofructose, because bifidobacteria probably profit from the degradation of the longer oligofructose fractions by other colon bacteria (40). In this way, ingestion of oligofructose may indirectly stimulate the production of butyric acid in the colon through cross-feeding of other colon bacteria on the bifidobacterial metabolites (2, 7, 8).
In conclusion, we found that the changes in end product formation in strains of Bifidobacterium can be related to the specific rate of sugar consumption. When the latter increased, relatively more lactic acid and less acetic acid, formic acid, and ethanol were produced, and vice versa. Furthermore, we found that succinic acid production occurs in all Bifidobacterium strains tested and that this production is growth associated. In general, the concentrations of succinic acid produced were low, usually 1 mM to a few millimolar. Although only small amounts of succinic acid were produced, succinic acid production contributed to the regeneration of NAD+, which in Bifidobacterium strains occurs mainly through the production of lactic acid or ethanol.
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