Metabolic engineering of Escherichia coli to optimize melanin synthesis from glucose
© Chávez-Béjar et al.; licensee BioMed Central Ltd. 2013
Received: 13 August 2013
Accepted: 5 November 2013
Published: 13 November 2013
Natural aromatic polymers, mainly melanins, have potential and current applications in the cosmetic, pharmaceutical and chemical industries. The biotechnological production of this class of compounds is based on tyrosinase-dependent conversion of L-tyrosine and other aromatic substrates into melanins. The purpose of this work was to apply metabolic engineering for generating Escherichia coli strains with the capacity to synthesize an aromatic polymer from a simple carbon source.
The strategy was based on the expression in E. coli of the MutmelA gene from Rhizobium etli, encoding an improved mutant tyrosinase. To direct the carbon flow from central metabolism into the common aromatic and the L-tyrosine biosynthetic pathways, feedback inhibition resistant versions of key enzymes were expressed in strains lacking the sugar phosphotransferase system and TyrR repressor. The expressed tyrosinase consumed intracellular L-tyrosine, thus causing growth impairment in the engineered strains. To avoid this issue, a two phase production process was devised, where tyrosinase activity was controlled by the delayed addition of the cofactor Cu. Following this procedure, 3.22 g/L of melanin were produced in 120 h with glucose as carbon source. Analysis of produced melanin by Fourier transform infrared spectroscopy revealed similar characteristics to a pure eumelanin standard.
This is the first report of a process for producing melanin from a simple carbon source at grams level, having the potential for reducing production cost when compared to technologies employing L-tyrosine as raw material.
Melanins constitute a diverse class of aromatic polymers synthesized by organisms from most biological groups . The biological functions of this class of compounds are various and mainly related to protection from environmental stresses . Eumelanin, a common type of melanin, is synthesized from L- tyrosine by copper containing enzymes called tyrosinases (monophenol monooxygenase EC 18.104.22.168). Using molecular oxygen, these enzymes catalyze the hydroxylation of L-tyrosine to L-dihydroxyphenylalanine (cresolase activity) and its subsequent oxidation to dopachrome (catecholase activity). Dopachrome non-enzymatically oxidizes and polymerizes to form eumelanin .
The characterization of melanins has revealed properties having potential industrial applications. Melanins can act as UV absorbers, amorphous semiconductors, cation exchangers, X-ray and γ-ray absorbers [2, 4]. Therefore, there is considerable interest in the development of biotechnological processes for the production of these polymers. Production of melanins has been achieved in liquid cultures of naturally melanogenic and also with recombinant microorganisms [5–7]. The expression in Escherichia coli of heterologous genes encoding tyrosinases from Streptomyces antibioticus or Rhizobium etli has resulted in the generation of strains capable of transforming L-tyrosine or other substrates into melanins [7–9]. Production processes based on these recombinant microorganisms consist in the bioconversion of supplemented L-tyrosine into melanin in cultures with minimal or complex media.
Metabolic engineering of E. coli and other bacterial species has been applied to the generation of strains that overproduce L-tyrosine, employing simple sugars as raw material [10, 11]. These strains have the potential for total synthesis of melanin if they also expressed a tyrosinase activity. Recently, a method was developed to enable correlation of melanin production with the amount of L-tyrosine synthesized by engineered strains that express a tyrosinase from R. etli, thus demonstrating the feasibility of melanin production from glucose in E. coli. However, since this method was developed for screening purposes, melanin formation from glucose was only verified by visual inspection in Petri dishes.
An E. coli strain that produces L-tyrosine from a simple carbon source can be transformed to a melanin producer by expressing a gene coding for a tyrosinase. In principle, this strain should enable the development of a biotechnological process for melanin production. However, as previously reported, the generation of a production strain and a fermentation process for melanin production involves several specific challenges. As shown by several groups, melanin production occurs only when cells enter the stationary phase [8, 9, 12]. It is not yet known what factors limit melanin production in the earlier growth phases. It has also been determined that tyrosinase from R. etli is rapidly inactivated at 37°C, therefore, melanin production cultivations must be performed at 30°C, a temperature not optimal for fast growth of E. coli. Finally, the processes involved in melanin formation during its production in a recombinant bacterium are still not known. It is not clear how the melanin precursors exit the cell and whether they polymerize in the periplasm, the external medium or both compartments. Furthermore, melanin precursors are reactive species that could form covalent bonds with other cellular metabolites; therefore, the resulting aromatic polymer could display a chemical composition different from melanin derived from pure L-tyrosine.
In the present work, metabolic engineering and fermentative process strategies were applied to overcome some of the challenges involved in the production of an aromatic polymer similar to melanin in E. coli. This work was based on developing E. coli strains engineered for L-tyrosine production as a platform to express a gene encoding an improved mutant version of a tyrosinase from R. etli. By employing a two-phase production strategy, a final melanin titer of 3.22 g/L was generated in bioreactor cultures with glucose as carbon source.
Bacterial strains and plasmids
E. coli strains and plasmids used in this study
Strain or plasmid
Reference or source
F-, λ-, INV (rnnD-rnnE)1
W3110 ΔptsH, ptsI, crr::km, ΔlacI, lacZ::lox P, Ptrc-galP
W3110/pRW300, pACMutmelA I
W3110/pRW300, pMmelAtyrCpheA CM
VH33/ pRW300, pMmelAtyrCpheA CM
W3110tyrR/pRW300, pACYCtyrCpheA CM
VH33tyrR/pRW300, pMmelAtyrCpheA CM
VH33tyrR/pRW300, pACYCtyrCpheA CM, pCLtktA
Reference or source
Expression plasmid carrying the trc promoter, a multiple cloning site, the T1 and T2 rrnB terminator sequences, the bla and lacIq genes.
Cloning plasmid carrying genes cat and tet. p15A replication origin.
aroG fbr under control of the lacUV5 promoter carries lacIq and tet genes. Replication origin from pBR322.
Carried genes tktA and aada. Derivative of plasmid pCL920 with pSC101 origin of replication.
Gene MutmelA cloned in pTrc99A.
tyrC and pheA CM under the control of trc promoter. pheA CM codes for the chorismate mutase domain of P-protein.
Gen MutmelA cloned in pACY184.
Genes tyrC and pheA CM cloned in pACMutmelAI.
Genes tyrC and pheA CM cloned in pACYC184.
Construction of pACMutmelAI, pMutmelAtyrCpheACM and pACYCtyrCpheACM
The melA gene encodes for a tyrosinase from Rhizobium etli CFN42 . MutMelA is a modified version of MelA tyrosinase, having a single nucleotide change that resulted in the replacement of Asp535 by Gly. This mutant was selected during melA cloning. In plates and liquid bioreactor cultures, the onset of melanin production occurs earlier in strains expressing MutmelA when compared to a strain expressing wild-type melA. However, the rate of melanin synthesis is the same with either version of the tyrosinase . Plasmid pACMutmelA I was constructed by ligating a 2.5 kb Ssp I fragment from pTrcMutmelA to plasmid pACYC184 digested with Eco RV. The 2.5 kb fragment contained the trc promoter, MutmelA gene and the three transcriptional terminators from pTrc99A . In order to subclone tyrC and pheA CM genes into pACMutmelA I, plasmid pTrctyrCpheA CM was digested with Ssp I to generate fragments of 3524 and 1916 bp. The 1916 bp fragment contained the trc promoter, tyrC, pheA CM genes, and the three transcriptional terminators from pTrc99A. Subsequently, plasmid pACMutmelA I was digested with Bstz 17I and ligated to pTrctyrCpheA CM digested with Ssp I to generate plasmid pMutmelAtyrCpheA CM . Finally, in order to eliminate the MutmelA gene, plasmid pMutmelAtyrCpheA CM was digested with BamH I. The BamH I digestion generated two fragments: the fragment of 2120 bp, corresponded to the expected size for the MutmelA gene. The second fragment of 6506 bp contained tyrC and pheA CM genes. This fragment was gel purified and self-ligated to generate pACYCtyrCpheA CM .
Cultivation media and growth conditions for cultures for L-tyrosine and melanin production with recombinant E. coli strains
Selection of transformant cells was performed in Luria-Bertani (LB) medium. Antibiotics (Ab) were used at the following concentrations, per ml: ampicillin (Ap), 200 μg for pTrc99a derivatives. Tetracycline (Tc), 30 μg for pRW300; and chloramphenicol (Cm), 30 μg for pACYC184 derivatives.
Eumelanin shows an absorbance peak at 600 nm, therefore, cell growth was monitored by subtracting the absorbance at 600 nm of supernatants to the 600 nm absorbance of the non-centrifuged cell culture sample . Dry cell weight was calculated multiplying the 600 nm absorbance by a previously determined coefficient factor of 0.37 g/L . Melanin production was determined by measuring absorbance at 400 nm from culture supernatants. One OD400 unit is equivalent to 0.066 g/L of eumelanin . Glucose, glycerol, 3-dehydroshikimate (DHS) and shikimate (SHIK) concentrations were determined by using high performance liquid chromatography with an Aminex HPX-87H column (300 × 7.8 mm; 9 mm) (Bio Rad, CA, USA) in a HPLC system: 600E quaternary bomb, 717 automatic injector, a refraction index detector and a 996 photodiode array detector (Waters Co., USA). Running conditions were: mobile phase, 5 mM H2SO4; flow, 0.5 ml/min and temperature, 50°C. Glucose was identified by refraction index. L-tyrosine concentration was measured using a Phenomenex Synergy Hydro RP18 column (150 × 4.6 mm, 4 μm) (Sigma, St. Louis MO, USA) in an Agilent HPLC system series 1100 (Agilent Technologies, Palo Alto, Ca). Running conditions were: mobile phase, 0.1% acetic acid in 10% methanol; flow, 0.5 ml/min and temperature, 50°C. L-Tyrosine was measured using an UV detector at 280 nm. It is important to point out that L-tyrosine is insoluble in water at concentrations above 0.4 g/L at pH 7.0. Therefore, to solubilise this amino acid, 50 μl of HCl 6 N per ml of culture broth were added to the samples. Subsequently, samples were mixed and incubated at 42° and centrifuged for 30 min. Finally, to eliminate bacterial cells, samples were centrifuged for 5 min at 12000 rpm and the supernatant was employed for determining L-tyrosine concentration. Detection and quantification of L-phenylalanine, L-tryptophan, L-tyrosine and chorismate (CHO) was performed using a Supelco Discovery C18 column (250 × 4.6 mm, 5 μm) (Sigma, St. Louis MO, USA) in an Agilent HPLC system series 1100 that was linked to a mass spectrometer (Agilent LC/MSD series 1100). Running conditions were: mobile phase, 1% acetic acid in 40% methanol; flow, 0.5 ml/min. The effluent was introduced in to the Es source with the following conditions: the capillary voltage was set at 3000 V, a flow of heated nitrogen gas of 200°C was maintained at 13 L/min. Melanin samples employed for Fourier transform infrared spectroscopy (FTIR) analyses were obtained from cultures of strains VH33MGTR and VH33MGTRK. These strains were growth in shake flasks with 1 L of M9 minimal salts medium, supplemented with a mixture of 5 g/L of glucose and 5 g/L of glycerol, 0.1 mM IPTG, at 30°C and 300 rpm. CuSO4 was added at 16 h of culture. After 48 h of culture time; cells were separated from supernatants by centrifugation at 4500 r.p.m, for 5 min at 4°C. The melanin was precipitated from the supernatant by adjusting pH to 2.0 with HCl 1 N and centrifuging at 12000 rpm for 10 min and 20°C. The precipitate was rinsed with distilled water and then dried at 42°C for 48 h. FTIR spectra were performed at room temperature using a Nicolet Magna 750 spectrometer with 4 cm-1 of resolution and 100 scans per spectrum. The samples were finely ground and dispersed in KBr with a ratio of 1:100, and then they were pressed as a wafer of ~25 mg/cm2. Samples were designated as D for melanin produced by VH33MGTR, and E for the melanin synthesized by VH33MGTRK. A commercial eumelanin sample from Sigma was used as reference material.
Results and discussion
Effect of expressing MutmelA and aroG fbr on melanin production and growth capacity in strains W3110M and W3110MG
To determine the phenotypes leading to a high capacity for melanin production from glucose, a series of strains were generated that expressed the melA gene from R. etli, and also with modifications known to have a positive impact on L-tyrosine production. The first step in strain characterization consisted on determining the capacity of strain W3110M (carrying plasmid pACMutmelA I) to transform L-tyrosine into melanin in shake flask cultures. This experiment would provide a reference value for the maximum rate of melanin production resulting from MutmelA expression in this strain when L-tyrosine is non-limiting. W3110M produced melanin from L-tyrosine at a specific rate of production (qMel) of 36.6 mg/gDCW/h with a yield from L-tyrosine (YMel/L-Tyr) of 1.07 g/g, corresponding to the complete conversion of L-tyrosine to melanin. The first evaluation of strains W3110M and W3110MG for producing melanin from glucose was performed in shake flask cultures employing M9 minimal salts medium supplemented with glucose 2 g/L, IPTG and CuSO4. To determine the maximum melanin production capacity in these strains, cultures were also performed in the same medium but with added L-tyrosine 0.4 g/L. In medium containing supplemented L-tyrosine, both strains grew well and produced melanin, as expected (Figure 2). However, a 66% reduction in the specific growth rate (μ) for strain W3110M and a lack of growth of strain W3110MG was observed in the medium lacking L-tyrosine. These results indicate that tyrosinase activity has a negative effect on growth capacity in these two strains. Since growth impairment can be alleviated by the presence of L-tyrosine, it can be assumed that tyrosinase activity is consuming intracellular L-tyrosine, thus causing a phenotype resembling a partial or total auxotrophy for this amino acid in these two strains. It was further determined that all other E. coli W3110 derivative strains employed in this study (W3110MGT, VH33MGT, VH33MGTR, VH33MGTRK) did not show growth in M9 medium lacking L-tyrosine (data not shown). The negative effect on growth rate can be explained by the combined result of L-tyrosine consumption by tyrosinase and the metabolic burden caused by the over expression of genes involved in L-tyrosine and melanin production. In these strains, carbon flow to the common aromatic pathway is enhanced, which should lead to a higher L-tyrosine level when compared to strain W3110M. To determine the extent of carbon flow increase into the common aromatic pathway resulting from expression of aroGfbr, cultures were performed with strains W3110MG and W3110M, and samples from supernatants were subjected to HPLC analysis. Since previous data showed that tyrosinase activity has a negative effect on growth capacity in this strain, cultures were grown using minimal medium lacking CuSO4. Previous reports had shown that absence of the tyrosinase cofactor Cu in culture medium, results in the synthesis of inactive tyrosinase . Therefore, even if gene MutmelA is being expressed and tyrosinase protein is synthesized, in the absence of Cu the enzyme is not active. Under these culture conditions, it was found that growth of strain W3110MG was not impaired in minimal medium lacking L-tyrosine. This result confirmed that tyrosinase activity was causing depletion of intracellular L-tyrosine. When analyzing supernatants from cultures of strain W3110M, final products of the aromatic pathways were not detected. This is an expected result, since wild-type E. coli does not secrete either of these compounds. In contrast, at 16 h of cultivation, in the supernatant of cultures with strain W3110MG the specific concentrations of DHS, SHIK, CHO, L-Phe, L-Tyr and L-Trp were 13.8, 18.4, 54, 21.7, 4.5 and 0.5 mg/g DCW, respectively. These results show, as expected, that expression of aroGfbr increased carbon flow into the common aromatic pathway, resulting in the accumulation and secretion of intermediates and aromatic amino acids. These data also indicate that the observed increase in L-tyrosine synthesis in strain W3110MG is not sufficient for overcoming its depletion by tyrosinase, therefore, growth impairment was observed.
Characterization of strains expressing genes involved in L-Tyr and melanin synthesis
Melanin and L-tyrosine production in shake flask cultures with mineral medium supplemented with 10 g/L glucose*
15.1 ± 3.7
7.10 ± 4.5
6.9 ± 6.4
39.9 ± 2.6
27.5 ± 12.1
55.1 ± 14.9
72.4 ± 1.5
70.6 ± 13.9
91.0 ± 2.5
155 ± 34.8
263 ± 38.9
456 ± 29.4
112 ± 14.8
66.4 ± 0.93
158 ± 46.3
To determine the maximum capacity for L-tyrosine synthesis from glucose by each of the characterized strains, experiments were performed under the same previous conditions but differing in the lack of addition of CuSO4 to the culture medium. As shown in Table 2 and Figure 4, L-tyrosine was found in culture supernatants of all strains, with the exception of W3110M, as expected. The amount of L-tyrosine showed a positive correlation with the melanin titer produced in the conditions where tyrosinase was active. By performing cultures in the presence or absence of CuSO4 a conversion yield of L-tyrosine to melanin could be estimated. As shown in Table 2, the yield value widely differed among strains, with a tendency towards lower conversion efficiency in strains with the higher melanin titers. With the exception of strain W3110MG, all other strains displayed a higher L-tyrosine than melanin production capacity. The accumulation of L-tyrosine in cultures where tyrosinase is active is an indication of a metabolic bottleneck where the rate of synthesis of this amino acid surpasses its rate of consumption by tyrosinase. This is evident in nearly all characterized strains (Figure 3). Strain VH33MGTR showed the highest levels of melanin and L-tyrosine accumulation and therefore, this means a higher potential for melanin production improvement by increasing tyrosinase activity or by means of cultivation process optimization aimed at coupling L-tyrosine and melanin formation processes.
Characterization of the produced melanin
In the ν(C-H) mode (2800–3000 cm-1), absorptions bands at 2955 (vw), 2919(s) and 2850 (m) cm-1 are observed. These bands are associated to νas(C-H3), νas(C-H2) and νs(C-H2) respectively which are typical of aliphatic organic compounds and their assignation is corroborated by the presence of the bands at 1455 and 1380 cm-1 corresponding to δas(C-H) and δs(C-H) vibrations modes. It is evident the changing in the bands intensity from one sample to another showing higher IR absorption for D and E samples. These bands and the ones present in the 1050–1250 cm-1 region could be due to some metabolites produced by the E. coli strains employed in this study (i.e. chorismate and L-phenylalanine) .
The analysis of the 1828–1480 cm-1 zone shows two well defined maxima at 1715 and 1624 cm-1 for the reference sample. These two maxima were assigned to carbonyl stretching (C = O) and to aromatic rings, C = C double bonds, conjugated with C = O and/or COO- groups respectively. For D and E samples, the band at 1715 cm-1 appears as a shoulder due to the displacement to higher frequencies of the band associated to C = C bonds (1624 cm-1) which now appears at about 1650 cm-1. This band also could be related to quinone compounds. Other bands localized from 1480 to 1325 cm-1 frequencies indicate that ionized carboxylic group (COO-) and free carboxylic groups are present in the melanin structures.
In summary, the FT-IR spectra of the produced melanin presented similar features to those of the standard sample. They all show the main absorbance peaks of functional groups, OH, NH, C = C, COOH and C = O of an eumelanin sample.
Bioreactor cultures for melanin production with strains VH33GTR and VH33MGTR
Melanin and L-tyrosine production in bioreactor cultures with mineral medium supplemented with glucose as carbon source*
Final biomass concentration (gDCW/L)
Final L-tyrosine concentration
Final melanin concentration
(g/gDCW · h)
(gMel/gDCW · h)
8.077 ± 0.34
0.112 ± 0.00
0.130 ± 0.02
0.013 ± 0.00
0.155 ± 0.00
9.026 ± 0.16
8.417 ± 0.05
0.129 ± 0.01
0.140 ± 0.00
0.013 ± 0.00
0.004 ± 0.00
0.100 ± 0.01
0.093 ± 0.01
4.152 ± 0.05
3.223 ± 0.35
In this study, an inexpensive carbon source was employed as raw material to determine strain performance parameters for melanin production. The detailed characterization of the generated production strains under different conditions has enabled the identification of potential targets for improvement. Most of the genetic modifications in these strains were chosen to increase carbon flow to the L-tyrosine pathway, leading to the accumulation of 9 g/L. However, the yield from glucose was a relatively low 28%. This result is likely caused by a metabolic bottleneck in the common aromatic pathway, as it has been reported previously . Therefore, a strategy to increase strain performance should consider the identification and overexpression of genes coding for rate-limiting enzymes from this part of metabolism. The observed melanin yield from glucose in strain VH33MGTR was about half of that measured for L-tyrosine in strain VH33GTR. However, the yield resulting from adding L-tyrosine plus melanin in strain VH33MGTR showed a similar value to that observed for L-tyrosine in strain VH33GTR. It is also noteworthy that strain VH33MGTR accumulated in bioreactor cultures approximately 4 g/L of L-tyrosine in addition to 3.22 g/L of melanin. These results indicate that melanin production could be improved in VH33MGTR by increasing tyrosinase activity, thus avoiding L-tyrosine secretion and its extracellular accumulation. Tyrosinase enzymes are a diverse family that can be found in various biological groups. The search for tyrosinase enzymes with improved activity or higher temperature stability should be facilitated by employing a selection scheme based on melanin detection, as it has been reported for detecting improved L-tyrosine production strains .
The various types of melanins are natural products having a wide range of potential applications as multifunctional polymers. The bioconversion of pure L-tyrosine or complex media components to melanin has been the basis for the biotechnological production of this type of polymer . These efforts have resulted in the production of melanin at grams level, with the highest value reported as 6 g/L . In the present study, up to 3.22 g/L of melanin were produced from glucose by employing an engineered strain and a production process based on delayed tyrosinase activation. These results constitute the basis for improvement regarding production cost over previous technologies, when considering the lower cost of glucose, when compared to L-tyrosine.
This work is the first example where engineered E. coli strains and a fermentative process resulted in the production, at grams scale, of an aromatic polymer from glucose with very similar chemical composition to a eumelanin standard. This production process should facilitate further research on the kinetics of melanin formation and the search for potential applications for this type of polymer.
We thank Georgina Hernandez-Chavez and Mercedes Enzaldo for her technical assistance. This work was supported by grant 177568-Z from CONACYT.
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