CHE.496/2008/Projects/2/Group 2: Difference between revisions
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*Foundational | *Foundational | ||
**Parts for genetic circuits | **Parts for genetic circuits | ||
**New chassis ( | ***New light sensor (i.e., new wavelength) | ||
**New chassis (e.g., yeast) | |||
***Standardized plasmids | |||
***Standardized restriction sites | |||
**Optimizing existing parts (e.g., inverter) | **Optimizing existing parts (e.g., inverter) | ||
**Compartmentalization/insulation | **Compartmentalization/insulation | ||
**Molecular screens (filters) that enable signal isolation and insulation (inside the cells and in between cells) | ***Molecular screens (filters) that enable signal isolation and insulation (inside the cells and in between cells) | ||
*Computational | *Computational | ||
Line 22: | Line 24: | ||
**Quality characterization techniques | **Quality characterization techniques | ||
**Ways to insulate biological signals | **Ways to insulate biological signals | ||
*Genetic Circuit Engineering | *Genetic Circuit Engineering | ||
Line 37: | Line 32: | ||
**Ethylene biosensor | **Ethylene biosensor | ||
**Algae that sense light and displays permanent memory | **Algae that sense light and displays permanent memory | ||
*Metabolic Engineering | |||
**Polysaccharide synthesis (for food) | |||
**Bioplastic production | |||
**Chemical degradation (toxin breakdown) | |||
***Oil | |||
***CO2 | |||
***Plastics | |||
===List of top two project ideas=== | |||
*'''Biological production of plastic''' | |||
**Polyhydroxyalkanoates (PHAs) are naturally synthesized polyesters in ''Ralstonia eutropha'' | |||
**These PHAs are used for energy storage | |||
**Polyhydroxybutyrate (PHB) is a PHA and could possible replace polypropylene | |||
**Biologically-produced plastics represent a sustainable chemical industry that is not dependent on petroleum | |||
**Three genes necessary for PHB synthesis: PhaA, PhaB and PhaC (from Pohlmann ''et al.'', 2006) | |||
**Pathway: 2 acetyl-CoA are condensed into acetoacetyl-CoA by PhaA. Then, PhaB (NADPH-dependent) reduces this to (R)-3-hydroxybutyryl-CoA. Finally, this is polymerized into PHB by PhaC. | |||
**''PhaA'' (code for acetyl-CoA acetyltransferase) [http://www.ncbi.nlm.nih.gov/entrez/viewer.fcgi?val=NC_008313.1&from=1559207&to=1560388&dopt=fasta Nucleotide sequence] | |||
**Possible use in tissue engineering applications (PHB is found in blood plasma) | |||
**Chassis: ''E. coli'' | |||
*'''Biological degradation of plastic''' | |||
**Biodegradation of natural plastics | |||
***PHAs are biodegradable. | |||
***''Ralstonia eutropha'' breaks down PHB using PhaZ1, PhaZ2 and PhaY1. | |||
**Biodegradation of synthetic plastics | |||
***''Streptomyces'', a gram-positive bacteria, can naturally break down polyethylene | |||
***''Phanerochaete chrysosporium'' manganese peroxidase breaks down polyethylene [http://www.ncbi.nlm.nih.gov/entrez/viewer.fcgi?db=nuccore&qty=1&c_start=1&list_uids=155203612&uids=&dopt=fasta&dispmax=5&sendto=&fmt_mask=0&from=begin&to=end&extrafeatpresent=1&ef_CDD=8&ef_MGC=16&ef_HPRD=32&ef_STS=64&ef_tRNA=128&ef_microRNA=256&ef_Exon=512 Nucleotide sequence] |
Latest revision as of 12:03, 28 March 2008
Group 2's project overview and part design
List of initial ideas
- Foundational
- Parts for genetic circuits
- New light sensor (i.e., new wavelength)
- New chassis (e.g., yeast)
- Standardized plasmids
- Standardized restriction sites
- Optimizing existing parts (e.g., inverter)
- Compartmentalization/insulation
- Molecular screens (filters) that enable signal isolation and insulation (inside the cells and in between cells)
- Parts for genetic circuits
- Computational
- modeling of biotech-relevant microorganisms
- Synthetic Biology Tools
- Quality characterization techniques
- Ways to insulate biological signals
- Genetic Circuit Engineering
- Light-based repressilator
- Light switch
- Biosensing
- Ethylene biosensor
- Algae that sense light and displays permanent memory
- Metabolic Engineering
- Polysaccharide synthesis (for food)
- Bioplastic production
- Chemical degradation (toxin breakdown)
- Oil
- CO2
- Plastics
List of top two project ideas
- Biological production of plastic
- Polyhydroxyalkanoates (PHAs) are naturally synthesized polyesters in Ralstonia eutropha
- These PHAs are used for energy storage
- Polyhydroxybutyrate (PHB) is a PHA and could possible replace polypropylene
- Biologically-produced plastics represent a sustainable chemical industry that is not dependent on petroleum
- Three genes necessary for PHB synthesis: PhaA, PhaB and PhaC (from Pohlmann et al., 2006)
- Pathway: 2 acetyl-CoA are condensed into acetoacetyl-CoA by PhaA. Then, PhaB (NADPH-dependent) reduces this to (R)-3-hydroxybutyryl-CoA. Finally, this is polymerized into PHB by PhaC.
- PhaA (code for acetyl-CoA acetyltransferase) Nucleotide sequence
- Possible use in tissue engineering applications (PHB is found in blood plasma)
- Chassis: E. coli
- Biological degradation of plastic
- Biodegradation of natural plastics
- PHAs are biodegradable.
- Ralstonia eutropha breaks down PHB using PhaZ1, PhaZ2 and PhaY1.
- Biodegradation of synthetic plastics
- Streptomyces, a gram-positive bacteria, can naturally break down polyethylene
- Phanerochaete chrysosporium manganese peroxidase breaks down polyethylene Nucleotide sequence
- Biodegradation of natural plastics