- Original article
- Open Access
Construction of a simple biocatalyst using psychrophilic bacterial cells and its application for efficient 3-hydroxypropionaldehyde production from glycerol
© Tajima et al.; licensee Springer. 2013
Received: 15 October 2013
Accepted: 3 December 2013
Published: 5 December 2013
Most whole cell biocatalysts have some problems with yields and productivities because of various metabolites produced as byproducts and limitations of substrate uptake. We propose a psychrophile-based simple biocatalyst for efficient bio-production using mesophilic enzymes expressed in psychrophilic Shewanella livingstonensis Ac10 cells whose basic metabolism was inactivated by heat treatment. The 45°C heat-treated cells expressing lacZ showed maximum beta-galactosidase activity as well as chloroform/SDS-treated cells to increase membrane permeability. The fluorescent dye 5-cyano-2,3-ditolyl-tetrazolium chloride staining indicated that most basic metabolism of Ac10 was lost by heat treatment at 45˚C for 10 min. The simple biocatalyst was applied for 3-HPA production by using Klebsiella pneumoniae dhaB genes. 3-HPA was stoichiometrically produced with the complete consumption of glycerol at a high production rate of 8.85 mmol 3-HPA/g dry cell/h. The amount of 3-HPA production increased by increasing the concentrations of biocatalyst and glycerol. Furthermore, it could convert biodiesel-derived crude glycerol to 3-HPA.
Microorganisms are used as platform cell factories to produce various building block chemicals from renewable resources. The development of efficient microbial strains producing target compounds at high titers, yields, and productivities is required for industrial production. Metabolic engineering combined with systems biology has contributed to the enhanced production of chemicals and materials by redistributing and optimizing metabolic fluxes (Lee et al. 2011); however, this approach is often extremely laborious, costly, and difficult (Hodgman and Jewett 2012; Kwok 2010). On the other hand, thermostable enzymes expressed in Escherichia coli have achieved efficient bio-conversions with nearly 100% yields (Iwamoto et al. 2007; Ye et al. 2012). The process in the preparation of biocatalysts is easy and simple, which is briefly described as follows: thermostable enzymes are expressed in E. coli for designing synthetic pathways of chemicals production; the resulting cells are treated by heat typically at 70 C for 30 min to inactivate the E. coli basic metabolism; finally the in vitro metabolic pathway is constructed to produce target compounds only by the activities of thermostable enzymes in the cells. The biocatalysts have succeeded in the efficient bio-conversions of lactate or malate from glucose with high yields because of the increase of the flux in the bio-conversion pathway and the membrane permeability of substrate by heat treatment. This biocatalyst is called E. coli-based “simple biocatalyst”.
We considered the construction of a simple biocatalyst using psychrophilic bacterial cells (psychrophile-based simple biocatalyst) instead of E. coli cells. This biocatalyst has significant advantages in the use of abundant mesophilic enzymes for designing bio-conversion pathways, in addition to thermostable enzymes because the use of psychrophilic hosts allows the heat treatment temperature for inactivation of basic metabolisms to be lower than that of E. coli based simple biocatalysts. Out of 2075 “completed and published” genome sequences in genome information database GOLD (http://www.genomesonline.org/; June, 7th, 2013), most genome sequences (1799 genomes; 86.7%) belong to mesophilic organisms, while those in “hyperthermophile,” “thermophile,” or “thermotolerant” consist of only 232 genomes (11.2%). Psychrophile-based simple biocatalysts may be able to exploit nearly all enzymes to produce chemicals. Furthermore, decreasing the heat treatment temperature to an ordinary temperature limits concerns about the excess disruption of the cellular structure and thermal decomposition of coenzymes, such as NADP+ and NADPH, which are problems in E. coli-based simple biocatalysts (Ye et al. 2013).
In this study, the psychrophilic bacterium Shewanella livingstonensis Ac10 was selected as a host for the simple biocatalyst. Ac10 isolated from Antarctic sea shows optimum growth at 18˚C but cannot grow above 30˚C (Miyake et al. 2007). A gene expression system using the broad-host-range plasmid RSF1010 and its derivatives are available in Ac10, and proteins expressed at low temperatures have been revealed by proteomics analysis (Kawamoto et al. 2007; Kawamoto et al. 2009). We constructed the innovative psychrophile-based simple biocatalyst for efficient bio-conversion by recombinant mesophilic enzymes expressed in a psychrophilic bacterium S. livingstonensis Ac10 whose basic metabolism was inactivated by heat treatment. We evaluated the activity of recombinant E. coli β-galactosidase expressed in S. livingstonensis Ac10 and basic metabolism of Ac10 when cells were treated by heat, and applied it to the simple biocatalyst for 3-HPA production from glycerol by using Klebsiella pneumoniae dhaB genes. Although the conversion from glycerol to 3-HPA is not multistep enzymatic reaction (pathway) but single step reaction, psychrophile-based simple biocatalyst will be applicable to in vitro metabolic pathway if it succeeds in efficient production.
Materials and methods
Cell strains and growth conditions
Bacterial strains and plasmids used in this study
Strains or plasmids
Source or reference
E. coli strains
Cloning host supE 44 Δlac U169 (Φ 80 lac Z ΔM15) hsdR 17 rec A1 end A1 gyrA 96 thi-1 relA 1
rec A pro hsdR RP4-2-Tc::Mu-Km::Tn7
Simon et al. (1983)
S. livingstonensis strains
Parent strain, rifampin resistant mutant of Ac10
Kawamoto et al. (2007)
Ac10-Rifr harboring pHA10-lacZ
Ac10-Rifr harboring pHA12-dhaB
K. pneumoniae T7
1,3-propanediol producing strain
Ampr, expression vector
Arai et al. (1991)
Ampr, expression vector
Arai et al. (1991)
Ampr, broad-host-range vector
Farinha and Kropinski (1990)
Ampr, pHA10 containing lacZ
Ampr, pHA12 containing K. pneumoniae dhaB
Standard procedures for plasmid DNA preparation, restriction enzyme digestion, ligation, and transformation were used (Sambrook 1989). PCR reactions were performed with KOD plus Neo (Toyobo, Ohtsu, Japan) according to the manufacturer’s recommendations. The E. coli lacZ gene was amplified from pQF50 (Farinha and Kropinski 1990) by using primers lacZ_F (5′-AGAGGGTATTAATAATGAAAGGGAA-3′) and lacZ_R (5′-CCCAAGCTTTGCCCGGTTATTATTATTTTTGA-3′). The PCR product was cloned between the Sma I and Hind III site of broad-host range expression vector pHA10 (Arai et al., 1991). The dhaB1, dhaB2, and dhaB3 genes (accession number AB859215) were amplified with ribosome binding site (GGAGA) from K. pneumoniae T7 genomic DNA using primers dhaB_F (5′-ATGCGAATTCGGAGAGATGAACAATGAAAAGATCAAAACGA-3′) and dhaB_R (5′-ATGCGGTACCTTAGCTTCCTTTACGCAGCT -3′). The PCR fragment was ligated with EcoR I-Kpn I digested pHA12 (Arai et al. 1991) to construct pHA12-dhaB.
For β-galactosidase assays, cells were harvested from aliquots of 1 mL of 24-h cultures of S. livingstonenesis (OD660 = 0.5-1.0) by centrifugation and were washed twice with 0.9% NaCl. Bacterial pellets were resuspended in Z-buffer (36 mM NaH2PO4, 67 mM Na2HPO4, 0.1 mM MgCl2, 2 mM MgSO4, 2.7 mL/l β-mercaptoethanol) before lysis with 20 μL of chloroform and 10 μL of 0.1% SDS by a Pasteur pipet or heat treatment. β-Galactosidase assays were performed at 37°C using the Miller protocol (Miller 1972) with modification. Briefly, 200 μL of 4 mg/mL ONPG (Nacalai tesque, Kyoto, Japan) was added into 500 μL of cell suspension, and the mixtures were incubated at 20°C. After a 10-min incubation, 250 μL of stop buffer (1 M Na2CO3) was added, and the absorbance measured at 420 nm and 550 nm. β-Galactosidase activities [Miller units (nmoles/minute)] were calculated using the following formula (Miller 1972): β-Galactosidase activity (Miller units) = (OD420 -1.75 × OD550)/(t × V × OD660) × (1/0.0045) × 1000, where t = length of incubation (min) and V = volume of culture used in the assay (μL).
CTC staining assay
Cell viability was evaluated by CTC staining assay. A CTC (5-Cyano-2,3-ditolyl tetrazolium chloride) rapid staining kit for microscopy (Dojindo Laboratories, Kumamoto, Japan) was used for cell respiratory detection. CTC working solutions (final conc.: 50 mM) were prepared by dissolving CTC in 750 μL sterilized distilled water. Triplicate 1-mL samples treated with 20 μL of CTC solution and 5 μL enhancing reagent B were incubated for 30 min at 18°C. Stained cells were observed by inverted microscopy (E600 Eclipse, Nikon, Tokyo, Japan) equipped with blue excitation and red emission filters.
Cultivated cells were collected by centrifugation (4°C, 5 min, 3220 × g) and washed twice with 70 mM potassium phosphate buffer (pH 8.0). Reactions were started by the addition of glycerol, vitamin B12 (1.5 μM in final concentration; Sigma-Aldrich Japan, Tokyo, Japan), and 50 mM KCl into the equal parts of the cell suspension. The reactions were carried out at 37°C and stopped by the addition of chloroform. Supernatant was obtained by centrifugation of the reaction mixture.
Quantification of 3-hydroxypropionaldehyde (3-HPA) was based on the modified colorimetric method of Circle et al. (Circle et al. 1945). Briefly, 150 μL of 10 mM tryptophan dissolved in 0.05 N HCl was mixed with 200 μL of sample. After addition of 600 μL of 37% HCl, the mixture was incubated at 37°C for 20 min, and the absorbance was meadured at 560 nm. Acrolein (0–1 mM) was used for obtaining the standard curve. Glycerol was measured by a high performance liquid chromatograph system equipped with a UV detector and an ion exclusion column (RSpak KC-811, 8.0 mm ID × 300 mm L; Shodex, Tokyo, Japan). The column was eluted at 60°C using 0.1% (v/v) phosphate as a mobile phase at a flow rate of 0.7 mL/min.
Heat treatment condition for simple biocatalyst
3-HPA production by simple biocatalyst
Production of 3-HPA from glycerol comparing to resting cell reactions of L. reuteri
Dry cell weight (g/L)
Productivity (mmol/g dry cell/h)
L. reuteri ATCC53608
Doleyres et al. 2005
(4.5 × 1010
L. reuteri CG001
Chen et al. 2011
S. livingstonenesis Ac10-Rifr/pHA12-dhaB
49.3 ± 1.9
82.9 ± 1.0
142 ± 1.7
223 ± 10.3
225 ± 6.5
Finally, we examined the simple biocatalyst for the ability to produce 3-HPA from crude glycerol. The crude glycerol used was waste derived from biodiesel production by an alkaline process in Thailand and consisted of 57.9% (w/w) glycerol, 30.2% methanol, 12.5% fatty acids, and 2.7% ash. In the reaction mixture containing 64.3 mM glycerol derived from a crude glycerol sample, Ac10-Rifr/pHA12-dhaB (45.7 g dry cell/L) could convert this to 63.5 ± 5.96 mM 3-HPA in 1 h.
In this study we constructed a simple biocatalyst for the production of value-added chemicals by using heat-treated psychrophilic cells expressing mesophilic enzymes. The psychrophile-based simple biocatalyst showed that the membrane permeability of the substrate was increased by heat treatment at 45°C and most of the recombinant enzymes remained in the cells. Together with the CTC staining, heat treatment at 45°C for 10 min is adequate to inactivate the basic metabolism of Ac10. Thus, a psychrophilic-based simple biocatalyst can be constructed by using mostly mesophilic enzymes without inactivation by heat treatment. Therefore, we concluded that mesophilic enzymes can be used for a psychrophilic-based simple biocatalyst, and we could apply it to 3-HPA production from glycerol.
3-HPA is a valuable compound used as a precursor for 1,3-propanediol (1,3-PDO), 3-propionic acid, and acrylic acid, which are useful for polymer production. 3-HPA is produced from glycerol by mesophilic bacteria, such as Lactobacullus reuteri, K. pneumoniae, Clostridium butyricum, Enterobacter agglomerans, and Citrobacter freudii (Vollenweider and Lacroix 2004). Some studies have reported the biological production of 3-HPA by extracted enzymes (Slininger et al. 1983) and whole cells of K. pneumoniae (Slininger and Bothast 1985) and E. agglomerans (Barbirato et al. 1996). However, 3-HPA is an intracellular intermediate and quickly reduced to 1,3-PDO by a NADH-linked 1,3-PDO dehydrogenase in most 1,3-PDO native producers except for L. reuteri and some Lactobacillus strains, which are only the isolates shown to accumulate 3-HPA extracellularly. Barbirato et al. (1996) reported that 1,3-PDO native producers, such as K. pneumoniae and E. agglomerans, accumulated 17 to 30 mM of 3-HPA into the cells and the yield of 3-HPA production was very low (<0.04). Enzymatic 3-HPA production by glycerol dehydratase extracted from Lactobacillus sp. produced 95.8 mM 3-HPA with consumption of 97.7 mM glycerol (Slininger et al. 1983) and the yield was much higher (0.98). However, extractions of enzymes were costly and had handling difficulties for industrial applications. The simple biocatalyst is not only easy to be prepared and but also effective for 3-HPA production with high yield (0.99) and high productivity (8.85 mmol/g dry cell/h) (Table 2).
The productivity was still higher than any previously reported in the resting cell reaction of L. reuteri ATCC53608 (Doleyres et al. 2005) and its derivative mutant CG001 acclimatized in 3-HPA-containing medium (Chen et al. 2011) (Table 2), which was the only species shown to sustain large amounts of 3-HPA produced from glycerol (Vollenweider and Lacroix 2004). The titer of 3-HPA by our simple biocatalyst was almost the same as those by L. reuteri. We conducted the simple biocatalyst reaction at a cell density of 46.9 g dry cell/L and 400 mM glycerol, but only 225 mM 3-HPA was produced. It is probably a result of the inhibitory effects of glycerol and 3-HPA on glycerol dehydratase (Doleyres et al. 2005). Glycerol deactivates glycerol dehydratase by the homolysis of the coenzyme upon binding to the apoenzyme (Toraya 2000). It can be overcome by ATP-dependent reactivation factors in 1,3-PDO native producers (Toraya 2000). Although the simple biocatalyst did not have the reactivating system, 3-HPA yields in the reaction from high glycerol concentrations were only slightly lower than those of the L. reuteri strains (Table 2). Another type of DhaB in Clostridium butyricum (Raynaud et al. 2003), which does not require coenzyme vitamin B12 for its activity, may be an alternative for solution of the inhibitory effect by high concentrations of glycerol. Carbohydrazide can scavenge aqueous 3-HPA by forming hydrazone and its use was proposed to overcome the inhibitory effect of 3-HPA and to produce higher amounts of 3-HPA (Krauter et al. 2012). Although very high accumulation of 3-HPA scavenger-adduct (2 M) in the medium was achieved by using a carbohydrazide scavenger, no methods are available now to recover 3-HPA from scavenger adducts. To apply the simple biocatalyst to industrial production of 3-HPA, measures for high cell-density immobilization and protection from toxic 3-HPA should be established.
The result of 3-HPA conversion from crude glycerol suggested that impurities in the crude glycerol sample did not affect the bio-conversion rate of the simple biocatalyst. The inhibitory effects of crude glycerol have been reported on cell growth (Venkataramanan et al. 2012) and cell viability (Gonzalez-Pajuelo et al. 2004), which resulted in decreased production of 1,3-PDO compared with that from pure glycerol. Because S. livingstonensis Ac10 cells are dead after heat treatment, the inhibitory effects of crude glycerol on “cell growth” and “cell viability” should not be of concern in the case of the simple biocatalyst, and it is one of its advantages. Taken together, the psychrophile-based simple biocatalyst is a useful and effective option for bio-production of valuable chemicals. For further improvement, the system for regeneration of cofactors, such as NAD (P) H and ATP, should be developed.
We thank Professor Tatsuo Kurihara in Kyoto University for providing S. livingstonenesis Ac10-Rifr.
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