Biosynthesis - Violacein

Background

Violacein is a violet pigment produced by several bacteria through pathway of 5 related genes, vioA, vioB, vioC, vioD and vioE. It was initially discovered in Chromobacterium violaceum. This metabolite of tryptophan has such special applications as antibacterial, anti-trypanocidal, anti-ulcerogenic, and anticancer drugs.

There are three branches in this pathway which could verify of the Membrane Rudder. We can identify the different end-products by means of separation, such as thin-layer chromatography (TLC), or high-performance liquid chromatography (HPLC). The product proportion change demonstrates the efficiency of alteration in reaction direction.

Violacein Biosynthetic Pathway

The violacein biosynthetic pathway includes 5 key enzymes which work in conjunction. VioA, a flavoenzyme and VioB, a heme protein, they work together to oxidize and dimerize tryptophen into IPA imine dimer. Then vioE induces a indole rearrangement,producing prodeoxyviolacein, also known as PVA.

Fig.1 :The violacein biosynthetic pathway. The purple part on the left indicates the branch of pigment deoxyviolacein.The violet part on the right indicates the branch of pigment violacein. The green part indicates the branch of pigment deoxychromoviridans.

One key prerequisite in the metabolic flux is that: Automatically VioA, VioB and VioE can assemble and function to produce PVA. There exists one intrinsic E.coli enzyme that aids in an additional side reaction, further modifying PVA into a green pigment called deoxychromoviridans(1st main product).

The last two proteins, VioC and VioD are flavin-dependent oxygenases. VioC alone transfers PVA into a purple pigment named deoxyviolacein(2nd main product), while vio C could also act sequentially with vioD. vioD hydroxylates 5-position indole ring, then the other 2-position indole ring is processed by VioC to create the oxindole, and in this way violacein(3rd main product) is produced.

Design of Membrane Assembly

Theoretically our membrane rudder offers a method to fine-tune reaction direction, and in the meantime decrease side-products quantity.

Switch of reaction direction

Since VioA,VioB and VioE normally aggregate to finish the transfer from tryptophen to PVA, the key to direction of the rest part of pathway is if PVA could be passed on to vioD timely. We intergrated M1-vioA with vioC, and M3-vioE with vioD to assure the PVA would be catalyzed by the next enzyme right away.Through connecting VIVID split protein and VioC and VioD seperately, a light signal could efficiently shorten distance between these two enzymes. As long as VVD is photo-induced and dimerized, they could act like magnets that pull vioC and vioD together, facilitating the indole ring rearrangement under catalization of VioC and VioD,in this case violacein should be the dominant product we expect. Since vioB and vioE normally function in dimer state, pRSFduet with rbs-vioB and rbs-vioE was transformed into E.Coli to ensure dimerization, then all five functional enzymes could be expressed now.

To quantify the practical effect of photo-inducing direction alteration, we set a control group and conducted experiments as designed.There was no other difference but one that the control group was induced under absolutely no light signal.

Fig.2 :The violacein Rudder construction. The arrows illustrate the reaction flow.

Suppression over side-reactions

According to the mechanism behind our design of membrane rudder, a considerable reduction of side-product is expected. Under light signal, VioD and VioC get close to other Vio proteins,the assembly of key enzymes near the membrane also lessens the proportion of dissociative intermediates and makes them easier to be captured by VioD and VioC. The overall amount of available tryptophen in a bacterium is fixed, preferance to the production of violacein would inevitably cut the supply to the other branches of reaction. In a word, productivity of side-products will be decreased and tendancy of low production is possible.

To verify our assumption, rbs-vio genes were also inserted in the three modified plasmids and transformed into E.Coli.

Results and Discussion

Overview

By attaching the core enzymes to the VIVID, we managed to control the flow of branched chain reaction, such as violacein biosynthetic pathway. Results indicate that the extracts of bacterial cultures induced by light contained almost no deoxybiolacein while it was produced in the samples restrained from light. Moreover, a significant decrease of side products such as deoxychomoviridans was detected when membrane complex system was present.

Switch Analysis

The switch of the reaction can be realized by the extracellular signals. Through the light induction, the reaction producing deoxyviolacein by vioC alone is inhibited due to the lack of interaction with PVA. On the other hand, as long as light is restrained from the bacteria, however, the above reaction is initiated leading to the production of deoxyviolacein.

Fig.3 :HPLC result (right) and the ratio(left) of deoxyviolacein in sample with light induction and without light induction. HPLC results indicate that the amount of the deoxyviolacein increases greatly from the sample with light induction to sample without light induction. The red part in the chart represents the portion of deoxyviolacein and the blue part represents violacein

The HPLC results show that the peak of deoxyviolacein appears at about 9 minutes after the injection. We find out that under the induction of light, production of deoxyviolacein was inhibited (almost 0%) while most products were violacein. Without the light induction, however, the pathway leading to the deoxyviolacein was initiated and thus deoxyviolacein was produced(about 8%). Such results confirmed our membrane rudder system and indicated that by controlling the extracellular signal, such as light, we are able to manipulate the branched chain reactions thus producing the target products we desire.

Inhibition of side reaction

Membrane complex system would help to reduce the amount of side-products to some extent. Under the case that the enzymes involved in the side reaction are situated in the cytoplasm, they are less competent than the core enzymes attached on the membrane to mediate the subsequent reactions due to the spatial obstacle.

Fig.4 :The HPLC peak aera of deoxychromoviridans from sample with light inducation and RBS-vio control group.

From the HPLC results, we detected a distinct decrease of side-products deoxychomoviridans. Judging from the peak area, we find out that the amount of deoxychromoviridans from rbs-vio control group is nearly eight times that from light-induced group. Such experiment results coincided with our anticipation and demonstrated that the membrane complex system would enhance the usage of substrates and thus reduce the amount of intermediate products and other subsequent side-products.

Reference

1. Balibar, C. J. and C. T. Walsh (2006). "In vitro biosynthesis of violacein from L-tryptophan by the enzymes VioA-E from Chromobacterium violaceum." Biochemistry 45(51): 15444-57.

2. Hoshino, T. "Violacein and related tryptophan metabolites produced by Chromobacterium violaceum: biosynthetic mechanism and pathway for construction of violacein core." Appl Microbiol Biotechnol 91(6): 1463-75.

3. Shrode, L. B., Z. A. Lewis, et al. (2001). "vvd is required for light adaptation of conidiation-specific genes of Neurospora crassa, but not circadian conidiation." Fungal Genet Biol 32(3): 169-81.

Future direction

Fig.5 :Alternative testification for the violacein biosynthetic pathway.

1. Evaluate our membrane rudder system in alternative way. By attaching enzyme vioC and vioE to the VIVID separately, we could further testify whether such system could be controlled by light signal. Under the induction of light, violacein is supposed to be scarce in the pigment extraction if membrane rudder system works as anticipation. On the other hand, the pathway producing violacein would be initiated and triggered if the sample is kept away from light.

2. Explore other potential light-inducing-dimerizable proteins. These proteins could dimerize under the wavelength of light different from 470nm(for VIVID dimerization). Appling these potential proteins as well as VIVID in our membrane rudder device would realize determining pathway of branched chain reaction under various wavelength of light.

3. Investigate various signals for reaction switching. Such signals as chemical signal and transcription signal are all available for the pathway of violacein biosynthetic. We could further our membrane rudder system through extracellular signals as well as intracellular signals.