Virginia/Projects/2

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==Harvesting Biomass and Light to Power Butanol Biosynthesis==
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==Harvesting Cellulose and Light to Power Butanol Biosynthesis==
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At the 2007 iGEM Jamboree, we will present our synthetic biology approach to the design and implementation of a novel metabolic pathway in ''E. coli'' that utilizes cellulose and sunlight as sole energy sources for the biosynthesis of butanol, an alternative liquid transportation fuel.  Click [http://www.openwetware.org/wiki/IGEM:VGEM/2007/Projects here] to find our more about our other projects that will not be presented this year.
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Send comments to [mailto:mcarthur@virginia.edu?subject=VGEM_Query George McArthur]
===Methods and Materials===
===Methods and Materials===
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We will analyze butanol production via gas chromatography and mass spectroscopy.  
We will analyze butanol production via gas chromatography and mass spectroscopy.  
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Our experimental scaffold (still in development) is as follows:
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Our experimental scaffold is as follows:
What is the butanol tolerance of WT cells and of transformed cells?
What is the butanol tolerance of WT cells and of transformed cells?
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Send comments to [mailto:mcarthur@virginia.edu?subject=VGEM_Query George McArthur]
 

Latest revision as of 03:59, 27 October 2007

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HOME PROJECT INTRO APPROACH PROCEDURES RESULTS [http://partsregistry.org/cgi/partsdb/pgroup.cgi?pgroup=iGEM2007&group=Virginia BIOBRICKS] [http://openwetware.org/wiki/IGEM:VGEM/2007/Notebook eNOTEBOOK] [http://www.seas.virginia.edu/VGEM/ WEBSITE]

Harvesting Cellulose and Light to Power Butanol Biosynthesis

Send comments to George McArthur

Methods and Materials

We will analyze butanol production via gas chromatography and mass spectroscopy.

Our experimental scaffold is as follows:

What is the butanol tolerance of WT cells and of transformed cells?

1) Butanol Tolerance

Hypothesis: Transformed cells will be more resistant to extracellular butanol than WT 

   * Add varying amounts of butanol to broths of transformed and non-transformed cells
   * Determine amounts of butanol cells can withstand before dying
   * Count cells with hemocytometer and blue stain

Note: Depending on butanol tolerance we will consider butanol tolerance transformed cells as wildtype (WT). If it doesn't give any significant tolerance we will just use the original strain.

Can cells survive with only cellulose carbon source?

2) Effect of Cellulase

Hypothesis: Transformed cells should be able to grow on low glucose/high cellulose media. No growth for WT. 

   * Transform cells with cellulase
   * Grow transformed cells and control cells on low glucose media supplemented with cellulose
   * Observe growth amounts

Does thiolase increase the production of acetoacetyl-CoA from acetyl-CoA relative to WT?

3) Effect of Thiolase

Hypothesis: Thiolase-transformed cells will have increased acetoacetyl-CoA production than WT, and most if cellulase-transformed 

   * Transform cells with thiolase
   * Transform cellulase-cells (ex.2) with thiolase
   * Plate transformed cells (thiolase and thiolase + cellualse, and control cells)
   * Test for acetoacetyl-CoA production

Note: If thiolase confers much greater acetoacetyl-CoA production, we will include it by default in the rest of the experiments requiring the central pathway.

How much butanol is produced from acetyl coa to butanol, with and without alcohol dehydrogenase?

4a) Acetyl CoA to Butanol (-cellulase, +thiolase, +central pathway, +aad, -alcohol dehydrogenase, -AOTC/AOTD)

Hypothesis: Transformed cells will produce butanol. WT will not 

   * Transform cells with thiolase, central pathway, aad/aad2
   * Grow transformed and control cells
   * Test for Butanol


4b) Acetyl CoA to Butanol (-cellulase, +thiolase, +central pathway, +aad, +alcohol dehydrogenase, -AOTC/AOTD)

Hypothesis: Transformed cells will produce butanol, more than in ex. 4a. WT will not 

   * Transform cells with thiolase, central pathway, aad/aad2, alcohol dehydrogenase
   * Test for butanol production


How much butanol is produced from cellulase to acetyl coa to butanol, with and without alcohol dehydrogenase?

5a)Cellulase to Acetyl CoA to Butanol (+cellulase, +thiolase, +central pathway, +aad, -alcohol dehydrogenase, -AOTC/AOTD)

Hypothesis: Transformed cells will produce butanol. WT will not. 

   * Transform cells with cellulase, thiolase, central pathway, and aad/aad2
   * Grow transformed and control cells
   * Test for Butanol


5b) Cellulase to Acetyl CoA to Butanol (+cellulase, +thiolase, +central pathway, +aad, +alcohol dehydrogenase, -AOTC/AOTD)

Hypothesis: Transformed cells will produce butanol, and at higher amounts than in ex. 5a. WT will not. 

   * Transform cells with cellulase, thiolase, central pathway, aad/aad2, alcohol dehydrogenase
   * Grow transformed and control cells
   * Test for Butanol


How much butanol is produced via only the bottom pathway (AOTC/AOTD genes) with and without the alcohol dehydrogenase?

6a)Butyrate (butyric acid) to Butanol (-cellulase, -thiolase, -central pathway, +aad, -alcohol dehydrogenase, +AOTC/AOTD) IN FLOW

Hypothesis: Pathway will produce butanol. There will be no butanol in WT 

   * Transform cells with AOTC/AOTD and aad/aad2
   * Grow transformed and control cells
   * Measure butanol production with varying concentrations of initial butyric acid


6b) Butyrate (butyric acid) to Butanol (-cellulase, -thiolase, -central pathway, +aad, +alcohol dehydrogenase, +AOTC/AOTD)

Hypothesis: Pathway will produce butanol, more than in ex.6a. There will be no butanol in WT 

   * Transform cells with aad, AOTC/AOTD, and alc. dehydro.
   * Grow transformed and control cells
   * Measure butanol production with varying concentrations of initial butyric acid


How much butanol from acetyl coa to butanol, including AOTC/AOTD, and with and without alcohol dehydrogenase?

7a) Acetyl CoA to Butanol with Butyrate pathway (-cellulase, +thiolase, +central pathway, +aad, -alcohol dehydrogenase, +AOTC/AOTD)

Hypothesis: This is the complete pathway, but without alcohol dehyd. High butanol production expected. 

   * Transform cells with thiolase, central pathway, aad, AOTC/AOTD
   * Test for butanol production


7b) Acetyl CoA to Butanol with Butyrate pathway (-cellulase, +thiolase, +central pathway, +aad, +alcohol dehydrogenase, +AOTC/AOTD)

Hypothesis: This is the complete pathway, without cellulase. High butanol production expected. 

   * Transform cells with thiolase, central pathway, aad, AOTC/AOTD, and alc. dehydro.
   * Test for butanol production


How much butanol from cellulase to acetyl coa to butanol, including ctfa/b, and with and without alcohol dehydrogenase?

8a) Cellulase to Butanol with Butyrate pathway (+cellulase, +thiolase, +central pathway, +aad, -alcohol dehydrogenase, +AOTC/AOTD)

Hypothesis: This is the complete pathway, without alcohol dehydr. There should be maximum production of butanol. 

   * Transform cells with cellulase, thiolase, central pathway, aad, AOTC/AOTD, and alc. dehydro.
   * Test for butanol production


8b) Cellulase to Butanol with Butyrate pathway (+cellulase, +thiolase, +central pathway, +aad, +alcohol dehydrogenase, +AOTC/AOTD)

Hypothesis: This is the complete pathway. There should be maximum production of butanol. 

   * Transform cells with cellulase, thiolase, central pathway, aad, AOTC/AOTD, and alc. dehydro.
   * Test for butanol production


Will cells transformed with the proteorhodopsin pathway survive with only light, will it produce butanol, and if so how much will it increase butanol production when combined with other pathways?

9a) Effect of Proteorhodopsin 

   * Transform cells with proteorhodopsin genes
   * grow on minimal nutrient media
   * observe growth vs. control strains


9b) Proteorhodopsin to butanol 

   * If ex.9a cells grow at all,
   * transform cells with central pathway genes and proteorhodopsin
   * test for butanol production


9c) Proteorhodopsin to butanol, full pathway 

   * add proteorhodopsin to ex.8b cells
   * test for butanol production



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