Co-culturing a novel Bacillus strain with Clostridium tyrobutyricum ATCC 25755 to produce butyric acid from sucrose
© Dwidar et al.; licensee BioMed Central Ltd. 2013
Received: 1 January 2013
Accepted: 21 February 2013
Published: 4 March 2013
Currently, the most promising microorganism used for the bio-production of butyric acid is Clostridium tyrobutyricum ATCC 25755T; however, it is unable to use sucrose as a sole carbon source. Consequently, a newly isolated strain, Bacillu s sp. SGP1, that was found to produce a levansucrase enzyme, which hydrolyzes sucrose into fructose and glucose, was used in a co-culture with this strain, permitting C. tyrobutyricum ATCC 25755T to ferment sucrose to butyric acid.
B. sp. SGP1 alone did not show any butyric acid production and the main metabolite produced was lactic acid. This allowed C. tyrobutyricum ATCC 25755T to utilize the monosaccharides resulting from the activity of levansucrase together with the lactic acid produced by B. sp. SGP1 to generate butyric acid, which was the main fermentative product within the co-culture. Furthermore, the final acetic acid concentration in the co-culture was significantly lower when compared with pure C. tyrobutyricum ATCC 25755T cultures grown on glucose. In fed-batch fermentations, the optimum conditions for the production of butyric acid were around pH 5.50 and a temperature of 37°C. Under these conditions, the final butyrate concentration was 34.2±1.8 g/L with yields of 0.35±0.03 g butyrate/g sucrose and maximum productivity of 0.3±0.04 g/L/h.
Using this co-culture, sucrose can be utilized as a carbon source for butyric acid production at a relatively high yield. In addition, this co-culture offers also the benefit of a greater selectivity, with butyric acid constituting 92.8% of the acids when the fermentation was terminated.
KeywordsButyric acid Sucrose Levansucrase Co-culture Clostridium tyrobutyricum ATCC 25755 Bacillu s sp. SGP1
Butyric acid has several potential applications in chemical and pharmaceutical industries and can be useful for fuel production . It is also widely used in foodstuffs and beverage industries . Nowadays, butyric acid is produced mainly for industry from crude oil through petrochemical methods . However, butyric acid obtained from microbial fermentation is more promising due to the growing needs for bio-based natural products especially for food additives, and pharmaceuticals .
Currently, the most promising microorganism used for the bio-production of butyric acid is Clostridium tyrobutyricum ATCC 25755T[4–7]. This strain is capable of producing butyric acid with high selectivity and can tolerate high concentrations. However, it can only ferment monosaccharides like glucose, xylose and fructose, and is currently unable to utilize disaccharides, such as sucrose and lactose [8–10]. Despite the presence of several butyric acid bacteria which can utilize sucrose as a carbon source, such as Clostridium butyricum[11, 12] and some strains of C. tyrobutyricum, such as C. tyrobutyricum ZJU8235 , C. tyrobutyricum ATCC 25755T offers the highest butyric acid yields and final concentrations and so is the preferred strain.
Since the cost of culture media components has a great influence on the overall cost of butyric acid produced by fermentation [2, 10], we wanted to utilize cheaper substrates for butyric acid production. One such substrate, sucrose, is an important and relatively cheap carbon source and is readily available in nature. It forms more than 90% of the total carbohydrates in sugar canes  and sugar beet in which sugars can account for 12% to 20% of the plant's dry weight. Sucrose also constitutes large percentage of the total sugar content in molasses. Consequently, our lab seeks to use sucrose as a carbon source for butyric acid production.
In previous studies, several research groups evaluated the use of co-culturing to address limitation in substrate utilization by individual strains for the eventual production of different fermentation products. For example, Zhang et al. (2009)  discussed the possibility of using Clostridium thermocellum in a co-culture with Clostridium thermobutyricum for butyric acid production from cellulose, while Chang et al. (2008)  reported that the combination of aerobic Bacillus and anaerobic Clostridium may play the key role in the future of biofuel production from biomass. Their rationale was that strains of Bacillus generally have a high growth rate and secrete many saccharification-related extracellular enzymes into the medium, such as amylase, pectinase, protease, cellulose, and hemicellulase. Trana et al. (2010)  have recently shown the potential of co-culturing Bacillus subtilis with Clostridium butylicum for butanol production from starch. However, the Bacillus species used in the above studies are aerobic and, as such, they cannot be stably used in co-cultures for long periods with Clostridia, which are anaerobic. In contrast, Bacillus strains which are facultative anaerobes such as Bacillus licheniformis, will be more appropriate for long term co-culturing with Clostridium strains under anaerobic conditions.
In this study, we characterized the levansucrase activity of a newly isolated strain of Bacillus which was found to be closely related to B.licheniformis ATCC 14580T and Bacillus sonorensis NRRL B-23154T based upon 16S rRNA gene sequencing. To demonstrate its applicability, we next performed co-culture fermentations with this strain and C. tyrobutyricum ATCC 25755T for butyric acid production using sucrose as a carbon source.
Results and discussion
B. sp. SGP1 Hydrolyzes sucrose through levansucrase
B. sp. SGP1 was isolated from a waste water sludge sample obtained from anaerobic digestion tank. Identifying this strain through 16S rRNA gene sequencing revealed that its closest relative was Bacillus licheniformis ATCC 14580T (99.4%, 16S rRNA gene similarity) followed by Bacillus sonorensis NRRL B-23154T (99.3%) and Bacillus aerius 24KT (99.3%). The phylogenetic analysis (Additional file 1: Figure S1) showed that the strain SGP1 formed a monophyletic group with B. licheniformis ATCC 14580T, B. sonorensis NRRL B-23154T and B. aerius 24KT.
Many groups reported previously that several Bacillus strains, and specifically B. licheniformis, are able to produce levansucrase. This enzyme can both hydrolyze sucrose into its constituent glucose and fructose subunits and form the levan polymer from the fructose subunits [17, 18]. Previous studies demonstrated that levansucrase also degrades levan to individual fructose monomers especially when the reducing sugar concentration is low [18–20]. Consequently, we tested for the production of levansucrase by B. sp. SGP1. For colonies grown on agar plates containing sucrose, the production of a polysaccharide was obvious as they showed a slimy mucoid growth. In contrast, when grown on agar plates containing glucose, none of the colonies were mucoid. This polysaccharide was consequently precipitated from liquid cultures of B. sp. SGP1 grown on sucrose and hydrolyzed to its constituent monosaccharides. Analysis of these sugars by HPLC (High-performance liquid chromatography) found fructose monomers, implying that the polysaccharide was levan and that the extracellular enzyme is levansucrase.
Co-culturing B. sp. SGP1 with C. tyrobutyricum ATCC 25755T
Interestingly, it was found that the amount of butyric acid produced by the co-culture in serum bottles using sucrose is actually higher than that produced from C. tyrobutyricum ATCC 25755T when grown alone on the same amount of glucose (Figure 4A). In contrast, the final acetate concentration in the co-culture was significantly lower than that seen from C. tyrobutyricum ATCC 25755T cultured solely on glucose (Figure 4B). These two findings are likely related as the final total acid concentrations within the cultures were similar, 14.6 g/L for the co-culture and 14.8 g/L for C. tyrobutyricum, indicating that the co-culture is capable of utilizing more of the acetate within the media and producing a subsequently higher amount of butyric acid. One possible explanation that can account for the lower acetate levels found in the co-culture is the glucose concentration, which was undetectable (< 0.1 g/L) during the exponential growth phase. Consequently, it would appear that it was consumed immediately by the culture as soon as it was produced from sucrose. Under similar glucose-limited conditions, other groups have found that C. tyrobutyricum ATCC 25755T shifts more carbon to the butyrate pathway instead of acetate production [3, 21].
When lactic acid was added along with glucose, C. tyrobutyricum ATCC 25755T showed an enhanced growth and butyric acid production, which can be in part attributed to the pH buffering effect described above. In confirmation of Figure 4A, the acetate concentration did not increase, as was seen when glucose was added alone, while the lactic acid concentration decreased, suggesting that these two acids were once more being converted into butyric acid.
Lactic acid is converted only into butyric acid not acetic acid
Optimizing pH conditions in the co-culture for butyric acid production
The optimum pH for culturing B. sp. SGP1 was around 7.0 while more acidic conditions led to a decreased growth (Additional file 3: Figure S3). However, for C. tyrobutyricum ATCC 25755T, the optimum pH for growth and butyric acid production is known to be 5.9 to 6.0 [4–6, 23], a value that we used previously to produce more than 50 g/L butyric acid . For this co-culture, we tried fed-batch fermentations at different pH values (5.9, 5.7, 5.5, and 5.3). All fermentations were performed at 37°C as this temperature was found to be the best for the co-culture based upon butyric acid final concentration (Additional file 4: Figure S4).
On the other hand, at the higher pH values tested (5.7, and 5.9), the final butyric acid concentrations were both lower; 26.3 g/L and 16.6 g/L for pHs 5.7 and 5.9 respectively while the acetic acid final concentrations were 1.0 g/L and 1.5 g/L respectively. It is thought that this may be attributed to the enhanced growth of B. sp. SGP1 at these higher pH values, leading to competition for the sugars produced. On the other hand, the final butyrate and acetic acid concentrations with the lowest pH tested, i.e., 5.3 were 20.8 and 10.0 g/L respectively. It was also observed that the glucose concentration was lower than 0.1 g/L throughout the course of fermentation when the pH was 5.5, 5.7, and 5.9 while, at pH 5.3, it was increasing constantly during the course of fermentation to reach 10.0 g/L near the end of the fermentation (Data not shown). It is also worthy to note that, with an optimum pH of 5.5, the sucrose hydrolysis was higher during the early stages of the fermentation than during the latter (>100 h), suggesting that the Bacillus strain was limited in its growth or activity.
The ability of the co-culture to grow in RCM medium without previous purging with an inert gas
Although C. tyrobutyricum ATCC 25755T alone is unable to utilize sucrose, using a co-culture of C. tyrobutyricum ATCC 25755T and B. sp. SGP1, this study demonstrates that sucrose can be utilized as a carbon source for butyric acid production. In addition, this co-culture offers also the benefit of a greater selectivity for butyric acid. Another advantage of this co-culture is its ability to produce butyric acid at a relatively high yield, which is similar to the yield obtained by pure cultures of C. tyrobutyricum ATCC 25755T grown on glucose. One drawback for this proposed co-culture is the low productivity during fed-batch fermentations. This can be improved in future studies by changing the medium composition or the fermentation mode to optimize the growth kinetics of the two strains. Likewise, future work may also include using this novel B. sp. SGP1 strain or other Bacillus strains in similar co-cultures with C. tyrobutyricum ATCC 25755T for production of butyric acid but from other carbon sources, such as starch or cellulose.
Materials and methods
All of the chemicals and reagents used were purchased from the Sigma-Aldrich Co. USA, unless mentioned otherwise. The reagents, when available, were molecular biology grade. All solutions were prepared using these reagents and sterile distilled water.
Bacterial strains and culturing methods
B. sp. SGP1 was isolated from a waste water sludge sample obtained from the Hyum Ki So Hwa Jo anaerobic digestion tank, Seoul, South Korea. This strain was co-cultured with C. tyrobutyricum ATCC 25755T in reinforced clostridial media (RCM). The media was made fresh using the individual components and supplemented with 40.0 g/L of either sucrose for the co-culture tests or B. sp. SGP1 monocultures or glucose for C. tyrobutyricum ATCC 25755T monocultures. The composition of the RCM medium was as follows: beef extract (Difco, USA) 10.0 g/L, peptone (Difco, USA) 5.0 g/L, yeast extract (Difco, USA) 3.0 g/L, tryptone (Difco, USA) 5.0 g/L, starch 1.0 g/L, sodium acetate 3.0 g/L, and NaCl 5.0 g/L. The medium was purged with argon gas and aliquoted into 60 ml serum bottles (20 ml in each), after which it was sterilized by autoclaving at 121°C for 20 minutes. For some experiments, P2 medium was used instead of RCM. The composition of the P2 medium was as follows: yeast extract (Difco, USA) 1.0 g/L, K2HPO4 0.5 g/L, KH2PO4 0.5 g/L, ammonium acetate 2.2 g/L, p-aminobenzoate 0.001 g/L, thiamin 0.001 g/L, biotin 0.00001 g/L, MgSO4.7H2O 0.2 g/L, MnSO4.H2O 0.01 g/L, FeSO4.7H2O 0.01 g/L, and NaCl 0.01 g/L. Unless else is mentioned, incubation and growth of the cultures was done in a shaking incubator at 37°C and 200 rpm.
Quantitative analysis of the volatile fatty acids (acetic and butyric acids) was done using GC (gas chromatography) (6890N, Agilent Technology, USA). Helium was used as the carrier gas. The oven temperature was programmed to increase from 50 to 240°C at a rate of 10°C/min. The temperature of the injection port and FID (Flame Ionization Detector) were 250°C. The concentration of the acids was determined according to a standard calibration curve. For analysis of the sugars and lactic acid, an HPLC (1200 Series, Agilent Technology, USA) with an RID (Refractive Index Detector) was used under the following conditions: mobile phase, 0.01M sulfuric acid; column, Aminex HPX-87H (dimensions - 300*7.8, Biorad, USA); flow rate, 0.5 ml/min; temperature, 40°C. The optical densities of the samples were measured using spectrophotometer (UV-mini 1240, Shimadzu, Japan) at 600 nm. To prove that [1, 2, 3 13C3] lactic acid is converted to butyric acid and not acetic acid by C. tyrobutyricum ATCC 25755T, spent culture broth was analyzed using GC equipped with a Pegasus 2D TOF-MS (LECO, St. Joseph, MI, USA) for detecting the presence of 13C in acetic and butyric acids. The column was HP-INNOWAX Polyethylene glycol (PEG) capillary column (17 m × 0.32 mm internal diameter, 0.25 μm film thickness, Agilent Technology, USA). The oven temperature was programmed to increase from 50°C to 150°C at a rate of 10°C/min. Helium was used as the carrier gas with a flow rate of 3 ml/min. The ionization mode employed was EI (electron impact ionization) with a scan rate of 100 spectra/sec and mass range of 40~500 m/z. The ion source temperature was 230°C .
Identification of the isolated Bacillus strain
The 16S rRNA gene sequence of the strain SGP1 was used as a query against the EzTaxon-e database [25, 26] and the 16S rRNA gene sequence of relatives were retrieved. The construction and evaluation of the phylogenetic trees were performed as described previously . The alignment and phylogenetic analysis were performed using MEGA5 . The 16s rRNA gene sequence of the strain SGP1 was submitted to GenBank (http://www.ncbi.nlm.nih.gov) and is registered under accession number HQ188291.1.
Fed-batch fermentations were done using a 3 L capacity bioreactor (Fermentec Co. Ltd., Korea) with an initial working volume of 1 L. The medium was RCM supplemented with 60.0 g/L sucrose (Sigma-Aldrich Co. USA). After autoclaving, the medium was purged with filtered oxygen-free argon gas. Overnight pre-cultures of the two strains were inoculated into the reactor at a concentration of 5% (v/v) for each strain. All fermentations were performed using agitation (200 rpm) and the pH was adjusted to the required values (5.3 – 5.9) by addition of a 10% ammonia solution, prepared by diluting an ammonium hydroxide solution (Cat # 320145, Sigma-Aldrich Co. USA) using sterile distilled water.
Observing levansucrase enzyme on an SDS-PAGE gel
A one-day (24 h) aerobic culture of B. sp. SGP1 was centrifuged and the supernatant was taken as a source for levansucrase enzyme. Concentration of the supernatant proteins was done through addition of acetone, centrifugation and then re-dissolving the precipitated proteins in phosphate buffer (pH 7.0). SDS-PAGE gel was then carried out as described by Laemmli with a 7% (w/v) acrylamide gel. After migration, the gel was cut into two halves. One half (containing the protein markers) was stained with Coomassie blue. The other half (containing the samples) was stained using periodic acid-Schiff reagent method [29–32] as follows: first, the gel was washed in a washing buffer containing 10 mM phosphate buffer (pH 7), CaCl2 (2 mM), and Tween 80 (10.0 g/L). Then the gel was incubated in the same solution but with 50 g/L sucrose, for 24 h at 37°C. After that, the formed levan was fixed on the gel through immersing in 70% ethanol, then the oxidizing solution (periodic acid o.7% (w/v), acetic acid 5% (w/v)) was added, followed by sodium bisulfate washing, and finally immersing in Schiff’s reagent (Sigma Aldrich, USA, Cat #; 3952016).
Sucrase and levan forming activity assay
The sucrase and levan forming activities at different temperatures and different pH values were determined by adding 50 μl of spent media, i.e. without cells, from a 20 h old B. sp. SGP1 culture to 950 μl of the reaction mixture (0.5 M sucrose solution in phosphate buffer) . To study the effect of the temperature, the pH was first adjusted to 6.6 before incubation at the test temperatures. Likewise, a temperature of 37°C was used when studying the effect of the pH. The incubation was performed for 10 h, after which, the sucrase and the levan forming activities were measured. Sucrase activity was determined by measuring the glucose liberated using glucose kits (Merck, Germany, Cat # 1.16720.0001), while levan formed was measured using the following procedure: 500 μl of the sample was added to 750 μl ethanol (to precipitate levan), and then the mixture was centrifuged. The precipitate was then washed with ethanol again, dried and then boiled with 0.1 N HCl for 30 min. Finally, the liberated fructose was analyzed using HPLC [14, 18].
Reinforced clostridial medium
High-performance liquid chromatography
Flame ionization detector
Refractive index detector
Gas chromatography–mass spectrometry
Electron impact ionization
The authors would like to thank Mr Taewoo Yum (Clean Energy Center, KIST, South Korea) for his help in the isotope analyses. This work was supported by the Advanced Biomass R&D Center (ABC) of the Global Frontier Project and by the National Research Foundation of Korea (Grant no. NRF-2009-C1AAA001-2009-0093499) both of which are funded by the Ministry of Education, Science and Technology. The authors are grateful for their support.
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