Team:TUDelft/Brainstorm

From 2009.igem.org

(Difference between revisions)
(New page: {{Template:TUDelftiGEM2009}} =Brainstorm area= Interesting Links: [http://openwetware.org/wiki/IGEM:Idea_exchange iGEM Idea Exchange] [http://openwetware.org/wiki/Tk:wanted_parts TK...)
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=Brainstorm area=
=Brainstorm area=
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Interesting Links:
Interesting Links:
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[http://openwetware.org/wiki/Synthetic_Biology:Vectors/Wishlist Synthetic_Biology:Vectors/Wishlist]
[http://openwetware.org/wiki/Synthetic_Biology:Vectors/Wishlist Synthetic_Biology:Vectors/Wishlist]
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 +
 +
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==Impulse Signal==
 +
 +
* one suggestion (by Federico_C) from the idea exchange was to create a self-destructing plasmid, which would express once and than destroy itself with a restriction endonuclease in its code.
 +
 +
 +
==Water Soluble Vitamin Production==
 +
 +
* produce Vitamins B and C.
 +
 +
 +
==Stop Quorum Signalling -> Quenching AHL==
 +
 +
* aiiA enzyme [http://www.msk.or.kr/jsp/view_old_journalD.jsp?paperSeq=2133] already has a biobrick [http://partsregistry.org/Part:BBa_C0060 Part:BBa_C0060] but its not secreted.
 +
 +
* halogenated furanones [http://mic.sgmjournals.org/cgi/content/full/151/11/3589?view=long&pmid=16272381] [http://mic.sgmjournals.org/cgi/content/full/148/4/1119?view=long&pmid=11932456] decrease binding activity of LuxR.
 +
 +
* [http://www.molbio.princeton.edu/index.php?option=content&task=view&id=27 Bonnie Bassler]'s research, inhibit quorum signaling with molecules structurally similar to AHL. Her recent [http://www.ted.com/index.php/talks/bonnie_bassler_on_how_bacteria_communicate.html TED Talk].
 +
 +
 +
==Biological Isotope Separation==
 +
 +
* is it even possible?
 +
 +
* according to this [http://jol.liljenzin.se/BOOK.HTM book] in section 2.6.5. [http://jol.liljenzin.se/KAPITEL/CH02NY3.PDF], both chlorella algae and E.coli have isotope enrichment properties (hydrogen, deuterium). no references given.
 +
 +
* possible applications: remove radioactive isotopes from body (cancer treatments), separate heavy water from ocean water, remove carbon 14 and potassium 40 from body/food.
 +
 +
* another paper is '''Bioseparation of Lithium Isotopes by Using Microorganisms, Sakaguchi, Takashi | Tomita, Osamu, Resource and Environmental Biotechnology [Resour. Environ. Biotechnol.]. Vol. 3, no. 2-3, pp. 173-182. 2000. ''' havent found a copy online.
 +
 +
 +
==Saltwater Purification==
 +
 +
* + heavy metal extraction
 +
 +
* diatoms
 +
 +
* Dead Sea organisms
 +
 +
 +
==Xylitol production==
 +
 +
* already attempted, see [http://openwetware.org/images/0/03/6-bolaji.pdf]
 +
 +
 +
==Melatonin Compensation==
 +
 +
* compensate the reduction in melatonin levels caused by the invention of electrical lights
 +
 +
* has been linked to lots of medical problems, see review paper [http://www.psy.ohio-state.edu/nelson/documents/JPinealRes2007.pdf The dark side of light at night: physiological, epidemiological, and ecological consequences]
 +
 +
* would need to implement melatonin detection, synthesis, and a clock
 +
 +
 +
==New Antibiotic Cassettes==
 +
 +
* Biobricks exist for Ampicillin, Kanamycin, Chloramphenicol, and Tetracycline.
 +
 +
* New biobricks needed (see TK:Wishlist), integrate into larger project?
 +
 +
* Cationic peptides, Rhodostreptomycins [http://mit.edu/biology/sinskey/www/Kurosawa2008.pdf]
 +
 +
 +
==Paper Based Microfluidics with bacteria==
 +
 +
* Improve the processing outlined in [http://www.rsc.org/delivery/_ArticleLinking/ArticleLinking.cfm?JournalCode=LC&Year=2008&ManuscriptID=b811135a&Iss=12 FLASH: A rapid method for prototyping paper-based microfluidic devices], see papers from Whitesides group at Harvard.
 +
 +
* use light sensor and output hydrophobic/hydrophilic chemicals that can coat the cellulose in the paper placed on an agar plate
 +
 +
 +
==Close proximity phage expression==
 +
 +
* once a cell is close enough to a target, produce phages and explode
 +
 +
 +
==Anti-Venom System==
 +
 +
* inject bacteria after being bitten
 +
 +
* sense which venom and produce proper anti-venom
 +
 +
 +
==Birth Control Yogurt==
 +
 +
* attacks sperm
 +
 +
* animal use
 +
 +
 +
==Buoyant Bacteria==
 +
 +
* for metal extraction from old mines or ocean
 +
 +
 +
==Excrement Degradation Bacteria==
 +
 +
* dog poo degrades quickly
 +
 +
 +
==Additional Processing of Excretion for Energy==
 +
 +
* Zero Growth -> convert everything to product
 +
 +
 +
==Targeted Delivery==
 +
 +
* use THC for medical benefits without any psychoactive effects
 +
 +
 +
==microRNA and P53==
 +
 +
* inhibit miRNA to increase activity of tumor-suppressor gene p53
 +
 +
* needs targeted delivery system
 +
 +
 +
==Synchronization -> Flashing Colony==
 +
 +
* synchronized flashing
 +
 +
* covalent modification
 +
 +
 +
==Sensor Reporter Spatially Displaced==
 +
 +
 +
 +
==Kalman Filter==
 +
 +
* integrate into larger project
 +
 +
 +
 

Revision as of 20:41, 23 April 2009


Brainstorm area

Interesting Links:


[http://openwetware.org/wiki/IGEM:Idea_exchange iGEM Idea Exchange]

[http://openwetware.org/wiki/Tk:wanted_parts TK: Wanted Parts]

[http://openwetware.org/wiki/IGEM:Projects_categorized iGEM:Projects categorized]

[http://openwetware.org/wiki/Synthetic_Biology:Vectors/Wishlist Synthetic_Biology:Vectors/Wishlist]


Impulse Signal

  • one suggestion (by Federico_C) from the idea exchange was to create a self-destructing plasmid, which would express once and than destroy itself with a restriction endonuclease in its code.


Water Soluble Vitamin Production

  • produce Vitamins B and C.


Stop Quorum Signalling -> Quenching AHL

  • aiiA enzyme [http://www.msk.or.kr/jsp/view_old_journalD.jsp?paperSeq=2133] already has a biobrick [http://partsregistry.org/Part:BBa_C0060 Part:BBa_C0060] but its not secreted.
  • halogenated furanones [http://mic.sgmjournals.org/cgi/content/full/151/11/3589?view=long&pmid=16272381] [http://mic.sgmjournals.org/cgi/content/full/148/4/1119?view=long&pmid=11932456] decrease binding activity of LuxR.
  • [http://www.molbio.princeton.edu/index.php?option=content&task=view&id=27 Bonnie Bassler]'s research, inhibit quorum signaling with molecules structurally similar to AHL. Her recent [http://www.ted.com/index.php/talks/bonnie_bassler_on_how_bacteria_communicate.html TED Talk].


Biological Isotope Separation

  • is it even possible?
  • according to this [http://jol.liljenzin.se/BOOK.HTM book] in section 2.6.5. [http://jol.liljenzin.se/KAPITEL/CH02NY3.PDF], both chlorella algae and E.coli have isotope enrichment properties (hydrogen, deuterium). no references given.
  • possible applications: remove radioactive isotopes from body (cancer treatments), separate heavy water from ocean water, remove carbon 14 and potassium 40 from body/food.
  • another paper is Bioseparation of Lithium Isotopes by Using Microorganisms, Sakaguchi, Takashi | Tomita, Osamu, Resource and Environmental Biotechnology [Resour. Environ. Biotechnol.]. Vol. 3, no. 2-3, pp. 173-182. 2000. havent found a copy online.


Saltwater Purification

  • + heavy metal extraction
  • diatoms
  • Dead Sea organisms


Xylitol production

  • already attempted, see [http://openwetware.org/images/0/03/6-bolaji.pdf]


Melatonin Compensation

  • compensate the reduction in melatonin levels caused by the invention of electrical lights
  • has been linked to lots of medical problems, see review paper [http://www.psy.ohio-state.edu/nelson/documents/JPinealRes2007.pdf The dark side of light at night: physiological, epidemiological, and ecological consequences]
  • would need to implement melatonin detection, synthesis, and a clock


New Antibiotic Cassettes

  • Biobricks exist for Ampicillin, Kanamycin, Chloramphenicol, and Tetracycline.
  • New biobricks needed (see TK:Wishlist), integrate into larger project?
  • Cationic peptides, Rhodostreptomycins [http://mit.edu/biology/sinskey/www/Kurosawa2008.pdf]


Paper Based Microfluidics with bacteria

  • Improve the processing outlined in [http://www.rsc.org/delivery/_ArticleLinking/ArticleLinking.cfm?JournalCode=LC&Year=2008&ManuscriptID=b811135a&Iss=12 FLASH: A rapid method for prototyping paper-based microfluidic devices], see papers from Whitesides group at Harvard.
  • use light sensor and output hydrophobic/hydrophilic chemicals that can coat the cellulose in the paper placed on an agar plate


Close proximity phage expression

  • once a cell is close enough to a target, produce phages and explode


Anti-Venom System

  • inject bacteria after being bitten
  • sense which venom and produce proper anti-venom


Birth Control Yogurt

  • attacks sperm
  • animal use


Buoyant Bacteria

  • for metal extraction from old mines or ocean


Excrement Degradation Bacteria

  • dog poo degrades quickly


Additional Processing of Excretion for Energy

  • Zero Growth -> convert everything to product


Targeted Delivery

  • use THC for medical benefits without any psychoactive effects


microRNA and P53

  • inhibit miRNA to increase activity of tumor-suppressor gene p53
  • needs targeted delivery system


Synchronization -> Flashing Colony

  • synchronized flashing
  • covalent modification


Sensor Reporter Spatially Displaced

Kalman Filter

  • integrate into larger project


 

Retrieved from "http://2009.igem.org/Team:TUDelft/Brainstorm"