Team:TUDelft/Color overview

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=Color output=
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===Color/Smell output===
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A lot of the color and aroma compounds that occur in nature are derived from a common precursor: Farnesyl PyroPhosphate (FPP). FPP is a natural occurring molecule in ''Escherichia coli'' but it is present in very small amounts. ''E. coli'' incorporates the FPP into its cell membrane. To enable cells to express color and aroma compounds in easily detectable amounts it is necessary to overexpress FPP. There is a downside to this, however, as FPP is toxic to ''E. coli''. This means FPP has to be drained constantly. We will do that by producing either a color or an aroma, but it also means we need to tune FPP expression so that it does not accumulate in the cells.
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A lot of the color and aroma compounds that occur in nature are derived from a common precursor: Farnesyl PyroPhosphate (FPP). FPP is a natural occurring molecule in Eschirichia Coli but it is present in very small amounts. To enable cells to express color and aroma compounds in easily detectable amounts it may be necessary to overexpress a pathway that produces FPP. To do this, either the wild-type E. Coli pathway could be overexpressed or another pathway can be introduced into an E. Coli pathway. We have chosen to introduce the mevalonate pathway, because …. Most of the mevalonate pathway enzymes which we will introduce also occur naturally in E. Coli, but the enzymes of the last two steps are ‘borrowed’ from the yeast djlkfjlk djlfjdl. We will first focus on this part, overexpressing FPP, before we will move on to pathways creating colored or smelling bacteria. Although we should aim to have a mechanism present to drain the excess FPP, FPP is toxic to cells in large amounts.  
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There are two ways to overexpress FPP. First of all, the endogenous DXP pathway of ''E. coli'' could be overexpressed. However, it has been shown that this is not very efficient<span id="cite_ref_1">[[Team:TUDelft/Color_overview#cite_note_1|[1]]]</span><span id="cite_ref_2">[[Team:TUDelft/Color_overview#cite_note_2|[2]]]</span>. Alternatively, we could try to engineer part of the mevalonate pathway of ''Saccharomyces cerevisiae'' into ''E. coli'' together with a few other ''S. cerevisiae'' and ''E. coli'' enzymes. It has been shown that this is an effective strategy to overproduce FPP in ''E. coli'' <span id="cite_ref_3">[[Team:TUDelft/Color_overview#cite_note_3|[3]]]</span>. An overview of the enzymes involved in the production of FPP is present in figure 1, at the bottom of this page. Once overproduction of FPP is achieved, we can focus on making a color or smell. To do this, we want to use the BioBricks created by the [https://2007.igem.org/Edinburgh/Yoghurt Edinburgh] team last year in their self-flavoring yoghurt project.  
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In figure x we show the mevalonate pathway as we would like to introduce it into our E. Coli.  
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[[Image:TUDelftPathway.jpg|thumb|center|figure 1. Color pathway as it will be introduced into ''E. coli''. Products in black, enzymes in blue and italics.]]
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==References==
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<li id="cite_note_1"> [[Team:TUDelft/Color_overview#cite_ref_1 | ^]] Kajiwara S, Fraser PD, Kondo K, Misawa N. Expression of an exogenous isopentenyl diphosphate isomerase gene enhances isoprenoid biosynthesis in ''Escherichia coli''. ''The Biochemical Journal'', 324(2):421-426, 1997. [http://www.ncbi.nlm.nih.gov/pubmed/9182699 PMID:9182699] </li>
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<li id="cite_note_2"> [[Team:TUDelft/Color_overview#cite_ref_2 | ^]] Kim SW, Keasling JD. Metabolic engineering of the nonmevalonate isopentenyl diphosphate synthesis pathway in ''Escherichia coli'' enhances lycopene production. ''Biotechnology and Bioengineering'', 72(4):408-15, 2001. [http://www.ncbi.nlm.nih.gov/pubmed/11180061 PMID:11180061] </li>
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<li  id="cite_note_3"> [[Team:TUDelft/Color_overview#cite_ref_3 | ^]] V. Martin, D. Pitera, S. Withers, J. Newman and J. Keasling. Engineering a mevalonate pathway in ''Escherichia coli'' for production of terpenoids. ''Nature Biotechnology''. 21(7):796-801, 2003. [http://www.ncbi.nlm.nih.gov/pubmed/12778056 PMID:12778056] </li>
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</ol>
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Latest revision as of 13:59, 29 October 2008

Color output

A lot of the color and aroma compounds that occur in nature are derived from a common precursor: Farnesyl PyroPhosphate (FPP). FPP is a natural occurring molecule in Escherichia coli but it is present in very small amounts. E. coli incorporates the FPP into its cell membrane. To enable cells to express color and aroma compounds in easily detectable amounts it is necessary to overexpress FPP. There is a downside to this, however, as FPP is toxic to E. coli. This means FPP has to be drained constantly. We will do that by producing either a color or an aroma, but it also means we need to tune FPP expression so that it does not accumulate in the cells.

There are two ways to overexpress FPP. First of all, the endogenous DXP pathway of E. coli could be overexpressed. However, it has been shown that this is not very efficient[1][2]. Alternatively, we could try to engineer part of the mevalonate pathway of Saccharomyces cerevisiae into E. coli together with a few other S. cerevisiae and E. coli enzymes. It has been shown that this is an effective strategy to overproduce FPP in E. coli [3]. An overview of the enzymes involved in the production of FPP is present in figure 1, at the bottom of this page. Once overproduction of FPP is achieved, we can focus on making a color or smell. To do this, we want to use the BioBricks created by the Edinburgh team last year in their self-flavoring yoghurt project.

figure 1. Color pathway as it will be introduced into E. coli. Products in black, enzymes in blue and italics.

References

  1. ^ Kajiwara S, Fraser PD, Kondo K, Misawa N. Expression of an exogenous isopentenyl diphosphate isomerase gene enhances isoprenoid biosynthesis in Escherichia coli. The Biochemical Journal, 324(2):421-426, 1997. [http://www.ncbi.nlm.nih.gov/pubmed/9182699 PMID:9182699]
  2. ^ Kim SW, Keasling JD. Metabolic engineering of the nonmevalonate isopentenyl diphosphate synthesis pathway in Escherichia coli enhances lycopene production. Biotechnology and Bioengineering, 72(4):408-15, 2001. [http://www.ncbi.nlm.nih.gov/pubmed/11180061 PMID:11180061]
  3. ^ V. Martin, D. Pitera, S. Withers, J. Newman and J. Keasling. Engineering a mevalonate pathway in Escherichia coli for production of terpenoids. Nature Biotechnology. 21(7):796-801, 2003. [http://www.ncbi.nlm.nih.gov/pubmed/12778056 PMID:12778056]
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