- Open Access
A novel esterase from a marine mud metagenomic library for biocatalytic synthesis of short-chain flavor esters
© Gao et al. 2016
- Received: 11 November 2015
- Accepted: 1 February 2016
- Published: 18 February 2016
Marine mud is an abundant and largely unexplored source of enzymes with unique properties that may be useful for industrial and biotechnological purposes. However, since most microbes cannot be cultured in the laboratory, a cultivation-independent metagenomic approach would be advantageous for the identification of novel enzymes. Therefore, with the objective of screening novel lipolytic enzymes, a metagenomic library was constructed using the total genomic DNA extracted from marine mud.
Based on functional heterologous expression, 34 clones that showed lipolytic activity were isolated. The five clones with the largest halos were identified, and the corresponding genes were successfully overexpressed in Escherichia coli. Molecular analysis revealed that these encoded proteins showed 48–79 % similarity with other proteins in the GenBank database. Multiple sequence alignment and phylogenetic tree analysis classified these five protein sequences as new members of known families of bacterial lipolytic enzymes. Among them, EST4, which has 316 amino acids with a predicted molecular weight of 33.8 kDa, was further studied in detail due to its strong hydrolytic activity. Characterization of EST4 indicated that it is an alkaline esterase that exhibits highest hydrolytic activity towards p-nitrophenyl butyrate (specific activity: 1389 U mg−1) at 45 °C and pH 8.0. The half-life of EST4 is 55 and 46 h at 40 and 45 °C, respectively, indicating a relatively high thermostability. EST4 also showed remarkable stability in organic solvents, retaining 90 % of its initial activity when incubated for 12 h in the presence of hydrophobic alkanes. Furthermore, EST4 was used as an efficient whole-cell biocatalyst for the synthesis of short-chain flavor esters, showing high conversion rate and good tolerance for high substrate concentrations (up to 3.0 M). These results demonstrate a promising potential for industrial scaling-up to produce short-chain flavor esters at high substrate concentrations in non-aqueous media.
This manuscript reports unprecedented alcohol tolerance and conversion of an esterase biocatalyst identified from a marine mud metagenomic library. The high organic solvent tolerance and thermostability of EST4 suggest that it has great potential as a biocatalyst.
- Metagenomic library
- Functional screening
- Short-chain flavor esters
- High substrate loading
Lipolytic enzymes, including esterases and lipases, belong to the general class of carboxylic ester hydrolases (EC 3.1.1) that catalyze both the hydrolysis and formation of ester bonds. While carboxylesterases (EC 22.214.171.124) hydrolyze water-soluble or emulsified esters with short-chain carboxylic acids (˂10 carbon atoms), lipases (EC 126.96.36.199) prefer long-chain fatty acids (≥10 carbon atoms), even though the characteristic α/β hydrolase fold is found in the three-dimensional structure of both the enzymes [1, 2]. These biocatalysts generally do not require cofactors and are remarkably stable in organic solvents. In addition, the broad substrate specificity, high stereoselectivity, and high positional selectivity of these biocatalysts make them useful for the production of enantiopure secondary alcohols and the resolution of primary alcohols and carboxylic acids [3–5].
There is an increasing demand for novel biocatalysts in modern industry, which has prompted the development of novel approaches to isolate biocatalyst-encoding genes. However, the identification of novel biocatalysts from microorganisms is limited by the fact that only 1 % of microorganisms can be cultured using conventional laboratory methods . Fortunately, metagenomics, which is a cultivation-independent method, can be used to avoid this inherent loss of diversity and is regarded as one of the most powerful approaches to investigate the potential of particular microorganisms without the need for culturing . Indeed, the metagenomic approach was useful in retrieving various enzymes of biotechnological importance, such as amidase, amylase, protease, and alcohol oxidoreductase . In addition, numerous lipolytic enzymes have been successfully identified from the metagenomic libraries of different environmental samples, such as deep-sea sediment , hot spring sediment , intertidal flat sediment , forest soil , activated sludge [12–14], compost , and pond water . Therefore, there is great interest in further metagenomic-based searches for novel enzymes from different sources and with greater industrial applicability.
Though metagenomic technology is efficient to discover novel enzymes, there are still some limitations. Insufficient purification of soil DNA might lead to interference with cloning because of the coextracted humic acids, while higher purification levels may incur losses of genetic information. The expression system of heterologous genes is hampered by inefficient transcription of target genes as well as improper assembly of the corresponding enzymes. Furthermore, it is difficult to establish the high-throughput screening for identify millions of positive clones in a metagenomic library in a short time, because it depends on the nature of target protein .
Short-chain fatty acid esters are commonly used in the food, beverage, cosmetic, and pharmaceutical industries as flavorings or fragrances due to their typical fruity smells and high volatilities . Traditionally, most flavor compounds are obtained by chemical synthesis or extraction from natural sources [19, 20]. Whereas natural flavor esters extracted from plant materials are often too scarce or expensive for industrial use. On the other hand, chemical synthesis often involves environmentally harmful production processes and lacks substrate selectivity, which may produce racemic mixtures with undesired side products that reduce synthesis efficiency and increase downstream costs . In addition, the products cannot legally be labeled as natural. The disadvantages of these methods and the high demand for natural flavor esters have led industries to seek new strategies for the production of flavor compounds. Esterification and transesterification by lipolytic enzymes are among the most effective alternatives to the chemical synthesis of short-chain flavor esters. Nevertheless, lower substrate concentrations and conversion rates have constrained the commercial scale-up of enzyme-mediated catalysis.
In this study, we constructed a fosmid metagenomic library from marine mud for large-scale functional screening of lipolytic genes. Five clones with lipolytic activity were detected, and a novel esterase (EST4) with the highest activity was selected from the target clones for further characterization. EST4 displayed excellent catalytic activity for the synthesis of flavor esters in non-aqueous media with high substrate concentrations.
Construction and characterization of a marine mud metagenomic library
Fosmids are good vectors for constructing metagenomic libraries due to their high cloning efficiency, improved stability in Escherichia coli, and optimal (40 kb) insert size . A total yield of approximately 1.5 μg of 40 kb high-quality DNA was obtained, as described in the Methods (Additional file 1: Figure S1). The marine mud metagenomic library revealed more than 40,000 fosmid clones and represented about 1.6 Gb of the microbial community DNA. Given an average prokaryotic genome of approximately 4 Mb, the library reached a theoretical size of over 400 genomes. An analysis of the insert fragments by digestion of 10 randomly selected clones with NotI indicated that 90 % of the clones contained different inserts with an average size of 40 kb (Additional file 2: Figure S2). This restriction analysis suggests that the metagenomic library is of high quality and diversity.
Functional screening and identification of lipolytic clones
Sub-cloning and sequence analysis
Properties of the lipolytic proteins from marine mud metagenomic library and similar proteins in GenBank
G + C (%)
Closest protein and accession no.
Hypothetical protein GM46_7020 (KGA09150)
2e − 171
7e − 135
Putative beta-lactamase class C (AAZ48934)
Uncultured bacterium WWRS-2005
Alpha/beta hydrolase (WP_024569139)
3e − 98
Hypothetical protein GM46_7005 (KGA09147)
4e − 170
Phylogenetic relationships of the novel lipolytic enzymes
Heterologous expression of lipolytic genes and purification of EST4
Effect of temperature and pH on enzyme activity and thermostability
The effects of pH and temperature on the enzymatic activity of EST4 were investigated using p-NP butyrate (C4) as a test substrate. The enzyme displayed a maximum activity at pH values between 7.6 and 8.6, and the optimal pH was 8.0. EST4 was rapidly inactivated at lower pH values (pH < 7.0). However, EST4 showed relatively high activity under alkaline conditions and retained approximately 76 % of the maximum activity at pH 9.16. Thus, we concluded that EST4 is an alkaline esterase (Fig. 4b). EST4 displayed activity over the broad range from 20 to 60 °C (Fig. 4c), with an optimal activity at 45 °C. The esterase activity increased linearly with temperature up to 45 °C, and then decreased at higher temperatures.
The thermostability of EST4 was determined by analyzing the residual activity at various time intervals after pre-incubation of the purified enzyme for up to 60 h at various temperatures (40–60 °C; Fig. 4d). EST4 exhibited good thermostability with residual activity of approximately 50 % after incubation at 40 or 45 °C for 55 or 46 h, respectively. At 50 °C, the half-life of EST4 was 10 h, whereas at 55 or 60 °C, the residual activity decreased sharply within 3 h. Based on the optimal activity temperature and thermostability of the purified enzyme, EST4 can be used efficiently within a broad temperature range and is suitable for biotechnological applications performed at high temperatures.
Effect of detergents, metal ions, and organic solvents on EST4 activity
Effect of metal ions on EST4 activity
Relative activity (%)a
100.0 ± 4.2
100.0 ± 0.8
97.0 ± 3.6
95.2 ± 2.1
95.1 ± 2.9
92.2 ± 0.8
94.1 ± 2.9
98.0 ± 1.0
92.4 ± 4.7
83.8 ± 3.6
87.6 ± 3.3
57.4 ± 1.0
87.1 ± 5.3
66.9 ± 4.8
78.8 ± 2.5
67.1 ± 2.4
77.0 ± 3.0
57.1 ± 4.8
74.5 ± 4.0
44.5 ± 5.8
63.6 ± 3.0
31.6 ± 3.5
Effect of detergents on EST4 activity
Relative activity (%)a
100.0 ± 4.2
97.62 ± 1.3
102.90 ± 2.8
108.71 ± 2.1
122.50 ± 1.4
99.29 ± 5.3
0.26 ± 0.6
Effects of organic solvents on EST4 activity
log P a
Residual activity (%)b at concentration (%, v/v) of
100.0 ± 2.1
100.0 ± 3.8
100.0 ± 0.5
82.8 ± 1.7
61.7 ± 8.6
0.6 ± 1.5
92.1 ± 2.5
19.4 ± 4.2
5.8 ± 2.0
90.6 ± 9.4
23.2 ± 1.8
1.3 ± 3.2
102.0 ± 7.7
0.5 ± 2.4
4.9 ± 2.1
53.1 ± 6.4
85.2 ± 1.3
96.2 ± 2.7
7.8 ± 1.4
89.0 ± 4.3
81.3 ± 7.9
97.0 ± 0.9
37.9 ± 3.3
76.1 ± 4.7
92.8 ± 4.3
63.5 ± 1.6
88.1 ± 4.0
90.1 ± 0.5
80.1 ± 2.7
92.7 ± 5.9
99.7 ± 1.8
53.1 ± 4.6
95.3 ± 10.6
98.6 ± 0.5
66.1 ± 2.8
96.9 ± 5.6
97.6 ± 1.3
85.5 ± 5.4
90.0 ± 10.9
98.4 ± 1.0
EST4 was apparently more stable in hydrophobic organic solvents than in hydrophilic organic solvents. The esterase was extremely stable in hydrophobic organic solvents (log P ≥ 2.0) at both 50 and 100 % (v/v) concentration, retaining approximately 90 % of its original activity after incubation for 12 h (Table 4). Generally, many synthetic reactions catalyzed by lipolytic enzymes are carried out in water-immiscible organic solvents with small amounts of water [31–33]. Therefore, the remarkable stability of EST4 makes it an attractive candidate for transesterification and ester synthesis reactions that involve high log P solvents such as n-hexane . Although some previous studies describe a noticeable tolerance of esterase for organic solvents , there are no reports of an organic solvent-tolerant and thermostable esterase from a marine mud metagenomic library.
Potential application of EST4 in the synthesis of short-chain flavor esters
Esterases have often been used to synthesize short-chain flavor esters (e.g., cinnamyl acetate, citronellyl acetate, geranyl acetate, and isoamyl acetate) through transesterification in non-aqueous systems. Unfortunately, the biosynthesis of alcohol esters is often limited by low substrate concentrations, as high amounts of water-soluble alcohols denature the enzyme by interfering with the enzyme-bound water layer .
From the applications viewpoint, a high substrate concentration is beneficial for enzymatic processes since it can improve the space–time yield and greatly reduce the cost of product isolation. In the present study, short-chain esters were efficiently synthesized by esterase EST4 using substrate concentrations that were significantly higher than those used in other reports [40–42]. Dhake et al. reported a cinnamyl acetate yield of 99 % in 24 h with an immobilized lipase from Rhizopus oryzae using a fairly low substrate concentration (0.33 M) . For the production of geranyl acetate in solvent-free systems with an immobilized lipase from Rhizopus oligosporus NRRL 5905, a maximum molar conversion of 67 % was achieved with 100 mM substrate after 48 h at 30 °C . To the best of our knowledge, this manuscript is the first report of an esterase biocatalyst with such high alcohol tolerance and high conversion rate, and further providing remarkable resistance to ester and alcohol denaturation during biosynthesis of various short-chain flavor esters. These results proved that EST4 is one of the most promising biocatalysts for the synthesis of short-chain flavor esters at high substrate concentrations and has great potential for large-scale commercial production of flavor esters.
In summary, we identified a novel thermostable esterase, EST4, from a marine mud metagenomic library. EST4 is highly stable in organic solvents and it efficiently synthesized various short-chain flavor esters in non-aqueous media under high substrate concentrations (up to 3.0 M). The outstanding characteristics of EST4 make it a potential candidate for the industrial biosynthesis of relevant short-chain flavor esters under mild conditions. This study also broadens the diversity of lipolytic genes and demonstrates that the metagenomic approach is a useful technique for discovering novel enzymes with potential for industrial applications.
Chemicals and reagents
Phanta super-fidelity DNA polymerase (Vazyme, Nanjing, China) was used for DNA amplification. Alkaline phosphatase, calf intestinal (CIP) and restriction enzymes NotI and Sau3AI were purchased from New England BioLabs (Ipswich, MA, USA). Other restriction enzymes and T4 DNA ligase were supplied by MBI Fermentas (Baltimore, MD, USA). The p-nitrophenyl ester series, p-nitrophenol, citronellol, geraniol, cinnamyl alcohol, and isoamyl alcohol were purchased from Sigma-Aldrich (St. Louis, MO, USA). All other commercially available chemicals and solvents were of analytical or higher grade.
Bacterial strains, plasmids, and growth conditions
The E. coli EPI300™-T1R and pCC1FOS fosmid vectors (CopyControl Fosmid Library Production Kit, Epicentre Biotechnologies, Madison, WI, USA) were used to construct the metagenomic library. E. coli DH5α and the pBluescript II SK(+) vector (Stratagene, Heidelberg, Germany) were used for the sub-cloning steps and sequencing. E. coli BL21 (DE3)/pET-28a (+) (Novagen, Madison, MI, USA) and E. coli Top10Fʹ/pLLP-OmpA (Seebio, Shanghai, China) were used as the recombinant protein expression system. E. coli cells were grown aerobically at 37 °C in Luria–Bertani (LB)-Miller medium supplemented with appropriate antibiotics.
DNA extraction and purification from marine mud
The marine mud was obtained from the Yellow Sea, China. The marine mud’s metagenomic DNA was isolated using the Mo Bio Power Soil DNA isolation kit (MO BIO Laboratories, Inc., Carlsbad, CA, USA). In order to remove any co-extracted humic substances and other contaminants, the metagenomic DNA was further purified and concentrated through ethanol precipitation.
Metagenomic library construction and screening
The metagenomic library was constructed using the CopyControl pCC1FOS Fosmid Library Production Kit (Epicentre Biotechnologies) following the manufacturer’s protocol. Transformants were grown on LB agar with 12.5 μg mL−1 chloramphenicol (Chl) at 37 °C for 20 h, washed with LB medium containing 10 % glycerol, and stored at −80 °C. To validate the library, 10 clones were randomly selected and fosmid DNAs were purified using the alkaline lysis protocol . The positive controls contained Fosmid Control DNA (Epicentre Biotechnologies), and the negative controls contained E. coli host DNA without any fosmid. Digestion with the restriction enzyme NotI and further visualization in an agarose gel revealed that the average size of the cloned fragments was about 40 kb and that the DNA inserts were different.
For lipolytic activity screening, the metagenomic library pools were appropriately diluted with sterile water, incubated on LB agar containing 12.5 μg mL−1 Chl and 0.5 % (v/v) emulsified tributyrin at 37 °C for 2–3 days . Clones with clear halos around individual colonies, which indicated hydrolysis of tributyrin, were chosen as positive clones. To confirm that the observed phenotype could be attributed to the metagenomic DNA insert, the fosmid DNAs were purified using an alkaline lysis protocol  and retransformed on the same type of indicator plate.
Sub-cloning and sequence analysis of lipolytic genes
The pooled insert DNA fragments from the fosmids of positive clones were partially digested with Sau3AI to collect 3–6 kb DNA fragments, ligated to the BamHI-linearized pBluescript II SK(+) vector, and transformed into E. coli DH5α cells. The transformants were grown overnight at 37 °C in LB (ampicillin100 μg mL−1) agar containing 0.5 % (v/v) tributyrin to assess lipolytic activity. Clones with clear halos on the screening plates were selected as positive clones and sent for further sequencing.
The nucleotide sequences of the inserted DNAs from the positive sub-clones were sequenced (BGI, Shenzhen, China). ORFs were identified using the NCBI ORF Finder (http://www.ncbi.nlm.nih.gov/gorf.html). The predicted functions of the ORFs were annotated using a BLASTP search against the NCBI non-redundant protein sequence database to determine the closest protein and microorganism (http://www.ncbi.nlm.nih.gov/blast/).
Multiple sequence alignments were carried out using the Clustal X program  and exported using ESPript 3.0 (http://espript.ibcp.fr/ESPript/cgi-bin/ESPript.cgi). Phylogenetic relationships among lipolytic members in each protein family were analyzed through a neighbor-joining phylogenetic analysis. One thousand bootstrap replicates were performed using the MEGA software (MEGA 6.0) .
Cloning and expression of lipolytic genes in E. coli
Recombinant DNA techniques were performed according to standard protocols . The gene est1, est2, est3, and est5 generated an N-terminal His-tag of the recombinant target protein and est4 generated a C-terminal His-tag of the recombinant target protein. All the recombinant expression plasmids were transformed into E. coli BL21 (DE3) or E. coli Top10Fʹ. The recombinant E. coli cells were cultivated at 37 °C in LB-Miller medium containing appropriate antibiotics. Isopropyl-β-D-1-thiogalactopyranoside (IPTG) was added (final concentration: 0.1 mM) to induce the cultures when the OD600 reached 0.6–0.8. The E. coli BL21 (DE3) and E. coli 10Fʹ cultures were further incubated for 20 h at 20 °C or 30 °C, respectively. The induced cells were harvested through centrifugation (5000×g, 10 min) at 4 °C and stored at −20 °C. The harvested cells were re-suspended in 100 mM Tris–HCl (pH 8.0) and disrupted by sonication. The cell debris was removed by centrifugation (8000×g, 20 min). The clear supernatants were collected and analyzed using SDS-PAGE (12.5 %) . The gels were stained with Coomassie blue R250 and then destained.
Purification of esterase EST4
The harvested cells expressing EST4 were resuspended in buffer A (50 mM Tris–HCl, pH 8.0; 300 mM NaCl; 10 mM imidazole), disrupted by sonication, and the cell lysate was centrifuged at 8000×g for 20 min. The resulting supernatant was loaded onto a Ni–NTA column (1 mL, Qiagen, Hilden, Germany) at a flow rate of 1.0 mL min−1, which was equilibrated with buffer A. The column was subsequently washed with 20 mM imidazole in buffer A to remove the impurity protein. The fractions containing the target protein were eluted with 250 mM imidazole in buffer A. The eluted protein was then combined and dialyzed extensively against Tris–HCl buffer (100 mM, pH 8.0) to remove the high concentrations of imidazole and salt . Finally, the purity of the target protein was determined by SDS-PAGE.
Enzyme characterization of esterase EST4
The characteristics of purified EST4 were determined as previously described . All measurements were carried out in triplicate. The standard assays for catalytic activity were carried out using a spectrophotometric method with p-NP butyrate (C4) as the substrate (unless otherwise indicated) at 30 °C for 5 min. The assay mixture (1 mL) contained 1 mM p-NP esters and 100 mM Tris–HCl buffer (pH 8.0). After pre-incubation for 5 min, the reaction was started by addition of EST4 and terminated by addition of 1 mL of 1 % SDS. The absorbance at 405 nm was measured. One unit of esterase was defined as the amount of enzyme needed to liberate 1 μmol p-NP in 1 min.
The substrate range was determined under standard conditions using p-NP esters with acyl-chains of various lengths: p-NP acetate (C2), p-NP butyrate (C4), p-NP caprylate (C8), p-NP caprate (C10), p-NP laurate (C12), and p-NP palmitate (C16).
The optimal pH for EST4 activity was determined in the pH range from 5.2 to 10.28 under standard conditions. The following buffers were used: 100 mM sodium citrate buffer (pH 5.2–6.4), 100 mM sodium phosphate buffer (pH 6.4–8.0), 100 mM Tris–HCl buffer (pH 8.0–9.0), and 100 mM glycine-NaOH buffer (pH 9.0–10.28).
The optimal temperature for EST4 activity was measured in the temperature range from 20 to 60 °C under standard conditions. The thermostability was determined by pre-incubating the partially purified enzyme at 40–60 °C for up to 60 h and then analyzing the residual activity.
Effect of detergents, metal ions, and organic solvents on EST4 activity
The effect of detergents on the esterase activity was analyzed by incubating the enzyme for 30 min at 30 °C in 100 mM Tris–HCl (pH 8.0) containing 0.5 % (w/v) SDS, CTAB, Triton X-100, Tween 20, Tween 40, Tween 60, or Tween 80. The effect of metal ions (CaCl2, MgCl2, MnCl2, ZnCl2, CuCl2, CoCl2, NiCl2, FeSO4, or FeCl3) and the chelating agent EDTA on the activity of EST4 was determined at final concentrations of 1 and 5 mM.
To estimate the organic solvent tolerance of EST4, enzyme solutions were mixed with various organic solvents at a final concentration of 20 or 50 % (v/v), as described by Li et al. . The mixtures were incubated at 30 °C while shaking at 200 rpm for 12 h. The organic solvents used included dimethyl sulfoxide (DMSO), dimethylformamide (DMF), methanol, acetonitrile, ethanol, acetone, isopropanol, benzene, toluene, cyclohexane, n-hexane, n-heptane, and isooctane.
The effect of neat organic solvents on the esterase activity was investigated using the method described by Li et al. . Powdered EST4 and organic solvents were mixed in sealed vessels and incubated at 30 °C while shaking at 200 rpm for 12 h. The bulk of the solvent was removed by centrifugation at 8000×g for 5 min, and then the residual solvent was evaporated. After the esterase was resuspended in 100 mM Tris–HCl buffer (pH 8.0), the residual activities were determined under standard conditions.
Synthesis of short-chain flavor esters
To study the catalytic behavior of esterase EST4, short-chain flavor esters were synthesized through the transesterification of various aliphatic and aromatic alcohols with vinyl acetate as an acyl donor, under optimal reaction conditions. The cells containing esterase EST4 were centrifuged, washed once with 100 mM Tris–HCl (pH 8.0), and then lyophilized by vacuum freezing. The transesterification reactions were carried out as follows: alcohol and vinyl acetate (1:2 molar ratio of alcohol/acyl donor) were mixed with 5.0 mL of n-hexane, followed by the addition of 50 mg dry cell powder. The reaction mixtures were incubated in a shaking water bath at 40 °C and 200 rpm. At appropriate intervals, samples were withdrawn from the reaction mixtures and analyzed by gas chromatography (GC). A parallel reaction under the same conditions without the addition of the enzyme was used as a control. The conversion rate (%) for ester synthesis was calculated from the conversion of alcohol to ester after a given time.
The reaction samples were analyzed using a 6890 gas chromatograph (Agilent Technology, USA) equipped with a flame ionization detector (FID). The separation was performed on an HP-5 capillary column (5 % phenyl methyl siloxane capillary, 30.0 m × 250 μm × 0.25 μm nominal, Agilent Technology, USA), using n-octanol as an internal standard. For cinnamyl acetate, citronellyl acetate, and geranyl acetate, the column temperature was kept at 120 °C for 0.5 min, heated to 180 °C at 10 °C min−1, and then maintained at 180 °C for 0.5 min. For isoamyl acetate, the column temperature was kept at 90 °C for 0.5 min, heated to 130 °C at 5 °C min−1, and then maintained at 130 °C for 0.5 min. The injector and detector temperatures were both set to 250 °C. The conversion was calculated using the peak areas.
Nucleotide sequence accession numbers
The nucleotide sequences of the lipolytic genes of est1, est2, est3, est4, and est5 have been submitted to the GenBank database with accession numbers [GenBank:KT288112, GenBank:KT288113, GenBank:KT288114, GenBank:KR028985, and GenBank:KT288115, respectively].
DW and HW designed the study. WG carried out the bulk of the experiments and wrote the manuscript. KW, LC, HF, ZZ and BG contributed to the metagenomic library construction and screening of lipolytic clones. All authors have read and approved the final manuscript.
This work was supported by the National Natural Science Foundation of China (No. 21406068/B060804), the Fundamental Research Funds for the Central Universities, National Basic Research Program of China (No. 2012CB721103), and the National High Technology Research and Development Program of China (863, Program NO.2012AA022206).
The authors declare that they have no competing interests.
Open AccessThis article is distributed under the terms of the Creative Commons Attribution 4.0 International License (http://creativecommons.org/licenses/by/4.0/), which permits unrestricted use, distribution, and reproduction in any medium, provided you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons license, and indicate if changes were made. The Creative Commons Public Domain Dedication waiver (http://creativecommons.org/publicdomain/zero/1.0/) applies to the data made available in this article, unless otherwise stated.
- Arpigny JL, Jaeger KE. Bacterial lipolytic enzymes: classification and properties. Biochem J. 1999;343:177–83.View ArticleGoogle Scholar
- Nardini M, Dijkstra BW. α/β Hydrolase fold enzymes: the family keeps growing. Curr Opin Struct Biol. 1999;9:732–7.View ArticleGoogle Scholar
- Baumann M, Hauer BH, Bornscheuer UT. Rapid screening of hydrolases for the enantioselective conversion of ‘difficult-to-resolve’ substrates. Tetrahedron Asymmetry. 2000;11:4781–90.View ArticleGoogle Scholar
- Bornscheuer UT, Ordonez GR, Hidalgo A, Gollin A, Lyon J, Hitchman TS, et al. Selectivity of lipases and esterases towards phenol esters. J Mol Catal B Enzym. 2005;36:8–13.View ArticleGoogle Scholar
- Bornscheuer UT, Kazlauskas RJ. Hydrolases in organic synthesis: regio- and stereoselective biotransformations. Hoboken: Wiley; 2006.Google Scholar
- Amann RI, Ludwig W, Schleifer KH. Phylogenetic identification and in situ detection of individual microbial cells without cultivation. Microbiol Mol Biol Rev. 1995;59(1):143–69.Google Scholar
- Lorenz Patrick, Eck Jürgen. Metagenomics and industrial applications. Nat Rev Microbiol. 2005;3:510–6.View ArticleGoogle Scholar
- Jeon JH, Kim JT, Kim YJ, Kim HK, Lee HS, Kang SG, et al. Cloning and characterization of a new cold-active lipase from a deep-sea sediment metagenome. Appl Microbiol Biotechnol. 2009;81:865–74.View ArticleGoogle Scholar
- Rhee JK, Ahn DG, Kim YG, Oh JW. New thermophilic and thermostable esterase with sequence similarity to the hormone-sensitive lipase family, cloned from a metagenomic library. Appl Environ Microbiol. 2005;71:817–25.View ArticleGoogle Scholar
- Oh K-H, Nguyen G-S, Kim E-Y, Kourist R, Bornscheuer U, Oh T-K, et al. Characterization of a novel esterase isolated from intertidal flat metagenome and its tertiary alcohols synthesis. J Mol Catal B Enzym. 2012;80:67–73.View ArticleGoogle Scholar
- Jimenez DJ, Montana JS, Alvarez D, Baena S. A novel cold active esterase derived from Colombian high Andean forest soil metagenome. World J Microbiol Biotechnol. 2012;28:361–70.View ArticleGoogle Scholar
- Zhang T, Han WJ. Gene cloning and characterization of a novel esterase from activated sludge metagenome. Microb Cell Fact. 2009;8:67.View ArticleGoogle Scholar
- Li J-G, Zhang K-G, Han W-J. Cloning and biochemical characterization of a novel lipolytic gene from activated sludge metagenome, and its gene product. Microb Cell Fact. 2010;9:83.View ArticleGoogle Scholar
- Liaw RB, Cheng MP, Wu MC, Lee CY. Use of metagenomic approaches to isolate lipolytic genes from activated sludge. Bioresour Technol. 2010;101:8323–9.View ArticleGoogle Scholar
- Lammle K, Zipper H, Breuer M, Hauer B, Buta C, Brunner H, et al. Identification of novel enzymes with different hydrolytic activities by metagenome expression cloning. J Biotechnol. 2007;127:575–92.View ArticleGoogle Scholar
- Ranjan R, Grover A, Kapardar RK, Sharma R. Isolation of novel lipolytic genes from uncultured bacteria of pond water. Biochem Biophys Res Commun. 2005;335:57–65.View ArticleGoogle Scholar
- Xing MN, Zhang XZ, Huang H. Application of metagenomic techniques in mining enzymes from microbial communities for biofuel synthesis. Biotechnol Adv. 2012;30:920–9.View ArticleGoogle Scholar
- Schrader J, Etschmann MMW, Sell D, Hilmer JM, Rabenhorst J. Applied biocatalysis for the synthesis of natural flavour compounds—current industrial processes and future prospects. Biotechnol Lett. 2004;26:463–72.View ArticleGoogle Scholar
- Serra S, Fuganti C, Brenna E. Biocatalytic preparation of natural flavours and fragrances. Trends Biotechnol. 2005;23:193–8.View ArticleGoogle Scholar
- Longo MA, Sanromán MA. Production of food aroma compounds: microbial and enzymatic methodologies. Food Technol Biotechnol. 2006;44(3):335–53.Google Scholar
- Vandamme EJ, Soetaert W. Bioflavours and fragrances via fermentation and biocatalysis. J Chem Technol Biotechnol. 2002;77:1323–32.View ArticleGoogle Scholar
- Kim UJ, Shizuya H, de Jong PJ, Birren B, Simon MI. Stable propagation of cosmid sized human DNA inserts in an F factor based vector. Nucleic Acids Res. 1992;20:1083–5.View ArticleGoogle Scholar
- Knox JR, Moews PC, Frere J-M. Molecular evolution of bacterial-lactam resistance. Chem Biol. 1996;3:937–47.View ArticleGoogle Scholar
- Schmidt JA, Browning GF, Markham PF. Mycoplasma hyopneumoniae p65 surface lipoprotein is a lipolytic enzyme with a preference for shorter-chain fatty acids. J Bacteriol. 2004;186:5790–8.View ArticleGoogle Scholar
- Fu C, Hu Y, Xie F, Guo H, Ashforth EJ, Polyak SW, et al. Molecular cloning and characterization of a new cold-active esterase from a deep-sea metagenomic library. Appl Microbiol Biotechnol. 2011;90:961–70.View ArticleGoogle Scholar
- Peng Q, Zhang X, Shang M, Wang X, Wang G, Li B, et al. A novel esterase gene cloned from a metagenomic library from neritic sediments of the South China sea. Microb Cell Fact. 2011;10:95.View ArticleGoogle Scholar
- Torres S, Castro GR. Non-aqueous biocatalysis in homogeneous solvent systems. Food Technol Biotechnol. 2004;42:271–7.Google Scholar
- Lima VMG, Krieger N, Mitchell DA, Baratti JC, Filippis ID, Fontana JD. Evaluation of the potential for use in biocatalysis of a lipase from a wild strain of Bacillus megaterium. J Mol Catal B Enzym. 2004;31:53–61.View ArticleGoogle Scholar
- Zhao L-L, Xu J-H, Zhao J, Pan J, Wang Z-L. Biochemical properties and potential applications of an organic solvent-tolerant lipase isolated from Serratia marcescens ECU1010. Process Biochem. 2008;43:626–33.View ArticleGoogle Scholar
- Li M, Yang LR, Xu G, Wu JP. Screening, purification and characterization of a novel cold-active and organic solvent-tolerant lipase from Stenotrophomonas maltophilia CGMCC 4254. Bioresour Technol. 2013;148:114–20.View ArticleGoogle Scholar
- Oguntimein GB, Erdmann H, Schmid RD. Lipase catalyzed synthesis of sugar ester in organic solvents. Biotechnol Lett. 1993;15:175–80.View ArticleGoogle Scholar
- Kwon SJ, Han JJ, Rhee JS. Production and in situ separation mono- or diacyl-glycerol catalyzed by lipases in n-hexane. Enzyme Microb Technol. 1995;17:700–4.View ArticleGoogle Scholar
- Zarevucka M, Zalska Z, Rejzek M, Streinz L, Wimmer Z, Mackova M, et al. Lipase-mediated hydrolysis and esterification. Enzyme Microb Technol. 1995;17:866–9.View ArticleGoogle Scholar
- Lescic I, Vukelic B, Majeric-Elenkov M, Saenger W, Abramic M. Substrate specificity and effects of water-miscible solvents on the activity and stability of extracellular lipase from Streptomyces rimosus. Enzyme Microb Technol. 2001;29:548–53.View ArticleGoogle Scholar
- Jin P, Pei X, Du P, Yin X, Xiong X, Wu H, et al. Overexpression and characterization of a new organic solvent-tolerant esterase derived from soil metagenomic DNA. Bioresour Technol. 2012;116:234–40.View ArticleGoogle Scholar
- Fjerbaek L, Christensen KV, Norddahl B. A review of the current state of biodiesel production using enzymatic transesterification. Biotechnol Bioeng. 2009;102:1298–315.View ArticleGoogle Scholar
- Kanwar SS, Sharma C, Verma ML, Chauhan S, Chimni SS, Chauhan GS. Short-chain ester synthesis by transesterification employing poly (MAc-co-DMA-cl-MBAm) hydrogel-bound lipase of Bacillus coagulans MTCC-6375. J Appl Polym Sci. 2008;109:1063–71.View ArticleGoogle Scholar
- Romero MD, Calvo L, Alba C, Daneshfar A. A kinetic study of isoamyl acetate synthesis by immobilized lipase-catalyzed acetylation in n-hexane. J Biotechnol. 2007;127:269–77.View ArticleGoogle Scholar
- Torres S, Baigori MD, Swathy SL, Pandey A, Castro GR. Enzymatic synthesis of banana flavour (isoamyl acetate) by Bacillus licheniformis S-86 esterase. Food Res Int. 2009;42:454–60.View ArticleGoogle Scholar
- Dhake KP, Tambade PJ, Qureshi ZS, Singhal RS, Bhanage BM. HPMC-PVA film immobilized Rhizopus oryzae lipase as a biocatalyst for transesterification reaction. ACS Catal. 2011;1:316–22.View ArticleGoogle Scholar
- Yadav GD, Borkar IV. Kinetic and mechanistic investigation of microwave-assisted lipase catalyzed synthesis of citronellyl acetate. Ind Eng Chem Res. 2009;48:7915–22.View ArticleGoogle Scholar
- Mahapatra P, Kumari A, Kumar GV, Banerjee R, Nag A. Kinetics of solvent-free geranyl acetate synthesis by Rhizopus oligosporus NRRL 5905 lipase immobilized on to cross-linked silica. Biocatal Biotransform. 2009;27:124–30.View ArticleGoogle Scholar
- Sambrook J, Russel DW. Molecular cloning: a laboratory manual. New York: Cold Spring Harbour; 1989.Google Scholar
- Kok RG, Christoffels VM, Vosman B, Hellingwerf KJ. Growth-phase-dependent expression of the lipolytic system of Acinetobacter calcoaceticus BD413 cloning of a gene encoding one of the esterases. J Gen Microbiol. 1993;139:2329–42.View ArticleGoogle Scholar
- Larkin MA, Blackshields G, Brown NP, Chenna R, McGettigan PA, McWilliam H, et al. Clustal W and Clustal X version 2.0. Bioinformatics. 2007;23:2947–8.View ArticleGoogle Scholar
- Tamura K, Stecher G, Peterson D, Filipski A, Kumar S. MEGA6: Molecular evolutionary genetics analysis version 6.0. Mol Biol Evol. 2013;30:2725–9.View ArticleGoogle Scholar
- Sambrook J, Russell DW. SDS-polyacrylamide gel electrophoresis of proteins. 4th ed. New York: Cold Spring Harbor Protocols; 2006.Google Scholar
- Wang H, Sun H, Wei D. Discovery and characterization of a highly efficient enantioselective mandelonitrile hydrolase from Burkholderia cenocepacia J2315 by phylogeny-based enzymatic substrate specificity prediction. BMC Biotechnol. 2013;13:14.View ArticleGoogle Scholar