Team:Washington/Parts

From 2011.igem.org

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==Data for Favorite New Parts==
==Data for Favorite New Parts==
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Fill Me In.. here is an example:
 
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# [http://partsregistry.org/Part:BBa_X0X0X Main Page] - '''BAR responsive promoter, BBa_X0X0X''': promoter can be induced to express a marker gene (GFP) when exposed to skunk smell (Butanethiol, C<sub>4</sub>H<sub>9</sub>SH), but not when exposed to pleasant scents
 
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# [http://partsregistry.org/Part:BBa_XXX00 Main Page] - '''Insulated Vector, BBa_XXX00''': un-induced leaky expression is blocked by transcriptional terminators
 
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# [http://partsregistry.org/Part:BBa_000XX Main Page] - '''BAR Bad Odor Receptor, BBa_000XX''': yellow fluorescent protein-tagged BAR (BBa_X00XX) shows that BAR is produced in E. coli
 
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==='''Diesel Production'''===
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[http://partsregistry.org/Part:BBa_K590025 BBa_K590025 '''"The Petrobrick"''']
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A modular and open platform for the biological production of diesel fuel. The Petrobrick consists of [http://partsregistry.org/wiki/index.php?title=Part:BBa_K590032 AAR] and [http://partsregistry.org/wiki/index.php?title=Part:BBa_K590031 ADC], each behind a standard Elowitz RBS. All of this in psb1C3 regulated by a high constitutive promoter.
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[http://partsregistry.org/wiki/index.php?title=Part:BBa_K590026 BBa_K590026 '''ADC-PSB1C3-High constitutive''']
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The aldehyde decarbonylase behind a high constitutive promoter and an Elowitz RBS. This was an important negative control when testing for alkane production.
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[http://partsregistry.org/wiki/index.php?title=Part:BBa_K590027 BBa_K590027 '''AAR-PSB1C3-High consititutive''']
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The acyl-ACP reductase behind a high constitutive promoter and an Elowitz RBS. This was an important negative control when testing for alkane production.
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[http://partsregistry.org/wiki/index.php?title=Part:BBa_K590031 BBa_K590031 '''Synechococcus elongatus PCC7942 Aldehyde Decarbonylase''']
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This part encodes an enzyme (Aldehyde Decarbonylase (ADC)) that removes the carbonyl group (C=O) from a fatty aldehyde, yielding an alkane one carbon shorter than the original aldehyde and a molecule of formate.  This part has been codon-optimized for ''E. coli''.
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[http://partsregistry.org/wiki/index.php?title=Part:BBa_K590032 BBa_K590032 '''Acyl-ACP Reductase''']
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This part encodes an enzyme that reduces cellular fatty acyl-ACPs, from the bacterial fatty acid biosynthesis pathway, into fatty aldehydes. This part has been codon optimized for ''E. coli''.
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==='''Gluten Destruction'''===
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[http://partsregistry.org/wiki/index.php?title=Part:BBa_K590021 BBa_K590021: '''Kumamolisin-As''']
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An enzyme from the sedolisin family native to ''Alicyclobacillus sendaiensis'' with known collagenase activity at low pH and elevated temperatures.
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[http://partsregistry.org/wiki/index.php?title=Part:BBa_K590022 BBa_K590022: '''Kumamolisin-As_G319S, D358G, D368H''']
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A mutated Kumamolisin-As enzyme aimed to combat gluten intolerance by increased activity with the PQLP peptide, an antigenic epitope in gliadin. This mutant has point mutations at residues 319, 358, and 368 from Glycine to Serine, Aspartate to Glycine, and Aspartate to Histidine, respectively.
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[http://partsregistry.org/wiki/index.php?title=Part:BBa_K590023 BBa_K590023: '''Kumamolisin-As_N291D''']
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A mutated Kumamolisin-As enzyme aimed to combat gluten intolerance by increased activity with the PQLP peptide, an antigenic epitope in gliadin. This mutant has a point mutation at residue 291 from Asparagine to Aspartate.
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[http://partsregistry.org/wiki/index.php?title=Part:BBa_K590024 BBa_K590024: '''Kumamolisin-As_S354N, D358G, D368H''']
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A mutated Kumamolisin-As enzyme aimed to combat gluten intolerance by increased activity with the PQLP peptide, an antigenic epitope in gliadin. This mutant has point mutations at residue 354, 358, and 368 from Serine to Asparagine, Aspartate to Glycine, and Aspartate to Histidine, respectively.
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==='''Gibson Assembly Toolkit'''===
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[http://partsregistry.org/wiki/index.php?title=Part:BBa_K590010 BBa_K590010 '''pGA1A3_pLacGFP''']
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This is a high copy plasmid backbone which has ampicillin resistance, with pLac promoter and GFP.
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[http://partsregistry.org/wiki/index.php?title=Part:BBa_K590011 BBa_K590011 '''pGA1C3_pLacGFP''']
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This is a high copy plasmid backbone which has chloramphenicol resistance, with pLac promoter and GFP.
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[http://partsregistry.org/wiki/index.php?title=Part:BBa_K590012 BBa_K590012 '''pGA4C5_pLacGFP''']
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This is a low copy plasmid backbone which has chloramphenicol resistance, with pLac promoter and GFP.
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[http://partsregistry.org/wiki/index.php?title=Part:BBa_K590013 BBa_K590013 '''pGA4A5_pLacGFP''']
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This is a low copy plasmid backbone which has ampicillin resistance, with pLac promoter and GFP .
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[http://partsregistry.org/wiki/index.php?title=Part:BBa_K590014 BBa_K590014 '''pGA3K3_pLacGFP''']
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This is a medium copy plasmid backbone which has kanamycin resistance, with pLac promoter and GFP.
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==='''Magnetosome Toolkit'''===
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[http://partsregistry.org/wiki/index.php?title=Part:BBa_K590015 BBa_K590015 '''sfGFP_mamK_pGA1C3''']
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This part consists of mamK gene from Magnetospirillum magneticum strain AMB-1, sfGFP in the backbone of pGA1C3. mamK was previously reported for its importance proper magnetosome chain organization in magnetic bacteria; it is bacterial actin-like cytoskeleton protein required for proper alignment of the magnetosomes in a chain.
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[http://partsregistry.org/wiki/index.php?title=Part:BBa_K590016 BBa_K590016 '''sfGFP_mamI_pGA1C3''']
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This part consists of mamI gene from Magnetospirillum magneticum strain AMB-1, sfGFP in the backbone of pGA1C3. MamI is a membrane-localized protein that localizes magnetic vesicles to the surface of cells, thus forming characteristic magnetosome chains.
==Data for Existing Parts==
==Data for Existing Parts==

Revision as of 04:07, 23 September 2011


Data Page


An Overview of the 2011 UW iGEM Teams Summer Projects

Make It: Diesel Production
We achieved production of alkanes, the main component of diesel, in bacteria using our novel PetroBrick.

Break It: Gluten Destruction
Gluten intolerance prevents We reengineered a protease, active at low pH, for strongly enhanced activity against PQLP, the most common motif in the immunogenic peptide.

The GibsonBricks ToolKit
We completed two iGEM toolkits. In the first we created five Gibson Cloning versions of traditional biobrick vectors, and in the second we cloned the genes essential for magnetosome formation and transformed two into E. coli



Data Summary

Data for Favorite New Parts

Diesel Production

BBa_K590025 "The Petrobrick"

A modular and open platform for the biological production of diesel fuel. The Petrobrick consists of AAR and ADC, each behind a standard Elowitz RBS. All of this in psb1C3 regulated by a high constitutive promoter.

BBa_K590026 ADC-PSB1C3-High constitutive

The aldehyde decarbonylase behind a high constitutive promoter and an Elowitz RBS. This was an important negative control when testing for alkane production.

BBa_K590027 AAR-PSB1C3-High consititutive

The acyl-ACP reductase behind a high constitutive promoter and an Elowitz RBS. This was an important negative control when testing for alkane production.

BBa_K590031 Synechococcus elongatus PCC7942 Aldehyde Decarbonylase

This part encodes an enzyme (Aldehyde Decarbonylase (ADC)) that removes the carbonyl group (C=O) from a fatty aldehyde, yielding an alkane one carbon shorter than the original aldehyde and a molecule of formate. This part has been codon-optimized for E. coli.

BBa_K590032 Acyl-ACP Reductase

This part encodes an enzyme that reduces cellular fatty acyl-ACPs, from the bacterial fatty acid biosynthesis pathway, into fatty aldehydes. This part has been codon optimized for E. coli.

Gluten Destruction

BBa_K590021: Kumamolisin-As

An enzyme from the sedolisin family native to Alicyclobacillus sendaiensis with known collagenase activity at low pH and elevated temperatures.

BBa_K590022: Kumamolisin-As_G319S, D358G, D368H

A mutated Kumamolisin-As enzyme aimed to combat gluten intolerance by increased activity with the PQLP peptide, an antigenic epitope in gliadin. This mutant has point mutations at residues 319, 358, and 368 from Glycine to Serine, Aspartate to Glycine, and Aspartate to Histidine, respectively.

BBa_K590023: Kumamolisin-As_N291D

A mutated Kumamolisin-As enzyme aimed to combat gluten intolerance by increased activity with the PQLP peptide, an antigenic epitope in gliadin. This mutant has a point mutation at residue 291 from Asparagine to Aspartate.

BBa_K590024: Kumamolisin-As_S354N, D358G, D368H

A mutated Kumamolisin-As enzyme aimed to combat gluten intolerance by increased activity with the PQLP peptide, an antigenic epitope in gliadin. This mutant has point mutations at residue 354, 358, and 368 from Serine to Asparagine, Aspartate to Glycine, and Aspartate to Histidine, respectively.

Gibson Assembly Toolkit

BBa_K590010 pGA1A3_pLacGFP

This is a high copy plasmid backbone which has ampicillin resistance, with pLac promoter and GFP.

BBa_K590011 pGA1C3_pLacGFP

This is a high copy plasmid backbone which has chloramphenicol resistance, with pLac promoter and GFP.

BBa_K590012 pGA4C5_pLacGFP

This is a low copy plasmid backbone which has chloramphenicol resistance, with pLac promoter and GFP.

BBa_K590013 pGA4A5_pLacGFP

This is a low copy plasmid backbone which has ampicillin resistance, with pLac promoter and GFP .

BBa_K590014 pGA3K3_pLacGFP

This is a medium copy plasmid backbone which has kanamycin resistance, with pLac promoter and GFP.

Magnetosome Toolkit

BBa_K590015 sfGFP_mamK_pGA1C3

This part consists of mamK gene from Magnetospirillum magneticum strain AMB-1, sfGFP in the backbone of pGA1C3. mamK was previously reported for its importance proper magnetosome chain organization in magnetic bacteria; it is bacterial actin-like cytoskeleton protein required for proper alignment of the magnetosomes in a chain.

BBa_K590016 sfGFP_mamI_pGA1C3

This part consists of mamI gene from Magnetospirillum magneticum strain AMB-1, sfGFP in the backbone of pGA1C3. MamI is a membrane-localized protein that localizes magnetic vesicles to the surface of cells, thus forming characteristic magnetosome chains.

Data for Existing Parts

Fill Me In

  1. Experience - Wintergreen odor enzyme generator, BBa_J45119 (MIT, iGEM 2006): 98 out of 100 volunteer subjects standing up to 5 feet away from the bacterial cultures could distinguish wintergreen-producing bacteria from negative controls.
  2. Experience - RBS, BBa_J61110 (Arkin Lab, 2007): Of the 5 RBS Parts we tested, this RBS works best for expressing yellow fluorescent protein-tagged BAR


Improved Parts

Fill Me In

  1. Main Page - Air Freshilizor, BBa_XXXXX: Our mathematical model predicts that the threshold of activation is 10 parts per billion, the concentration of Butanethiol that humans can typically smell


All Submitted Parts

<groupparts>iGEM011 Washington</groupparts>
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