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− | [[File:Igemsrishtilogo.png]]
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| + | [[File:hackteria banner1.png]] |
| + | |
| + | == About == |
| + | We consider ourselves amateurs/novices within the context of the IGEM competition. Our endeavor as “outsiders” is to bring our training in the arts and design to synthetic biology. Over this summer, we learnt the tools and techniques of synthetic biology and developed a piece of life which reflects our concerns, namely, the cultural, ethical and aesthetic implications of Synthetic Biology. Using a DIY approach and getting our hands “wet” was a critical element in the learning process. This approach allowed us to engage in constructive discussions with scientists working in the field. Our construct synthesizes Geosmin, an enzyme normally produced by cyanobacteria and actinobacteria. The biosynthesis of geosmin from farnesyl diphosphate is catalyzed by a single enzyme germacradienol/germacrene D synthase. E. coli, does not bear a gene that codes for germacradienol/germacrene D synthase. We have expressed this gene in different strains of E. coli, under control of the pTrc promoter present in the pTrc99a vector. Geosmin is responsible for producing the earthy smell that occurs in the air when rain falls after a dry spell of weather. |
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| == People == | | == People == |
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| ==Ideas== | | ==Ideas== |
| | | |
− | -bacteria that prevents corrosion
| + | [[File:Whiteboard.jpg|820px|none|Click for a closer look]] |
− | | |
− | -Time keeper or clock
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− | | |
− | -Combustible bacteria
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− | | |
− | -Related to weather - smell of rain
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− | | |
− | -Bacteria that is resistant to Scientific Probing/Instruments
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− | | |
− | -Mirror of bacteria
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− | | |
− | -Buoyant bacteria
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− | | |
− | -Interactive bacteria(painting)
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− | | |
− | -Another creature made from bacteria
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− | | |
− | -Bacteria and sound
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− | - Bacteria visualizations. (Both colour changes and 'choreographed' movement)
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− | | |
− | -Neuro transmitters- bacteria as sensors for emotions
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− | | |
− | -Glue
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− | -Bacteria that detects cravings
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− | | |
− | -Magnetic bacteria
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− | -Self mutating Bacteria
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− | -Lie detector
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− | | |
− | -Bacteria creates an identity
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− | | |
− | -Bacteria becoming material on death
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− | -Constructing a 'Bacterial Ecology' | + | Major Outcomes - |
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− | -Bacteria that acts like oil
| + | * [[Ideas for Bacteria.]] |
− | - A lubricant
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− | - A liquid that can withstand high temperatures
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| | | |
| * Facilitate a group of children to design their 'perfect creature' through visual/tactile media and then draw from these experiences and ideas to build another structure. | | * Facilitate a group of children to design their 'perfect creature' through visual/tactile media and then draw from these experiences and ideas to build another structure. |
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| == Workshop == | | == Workshop == |
| | | |
− | === '''May 15th''' ===
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− | -We discussed two Claire Pentacost Readings-[http://www.clairepentecost.org/beyond_face.htm Beyond Face ] and [http://www.clairepentecost.org/lab%20of%20symbolic_text.htm Critical Inventory of BioArt ].
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− | -The gist of the Pentacost readings were that artists work with the symbolic and that the Artist's consent to work and learn in public is important.
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− | -We also discussed the political and cultural implications of Scientific Authority.
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− | -We also looked at Tuur Van Balen's [http://www.tuurvanbalen.com/projects/urbanbiogeography Urban Geography project]
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− | -Most of the Ideas[see above] today, dealt with the use of bacteria as
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− | -a) A sensor or Reactor - (to Inputs,emotions,light..etc)
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− | -b) A Producer (of energy, proteins..etc)
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− | -c) A Material
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| | | |
− | -Is there Any way in which we can look at Bacteria from a purely non-symbiotic / non-anthropomorphic viewpoint?
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− | -Can we use our technological "progress" to give a non-selfish gift back to our ecological siblings?
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| | | |
− | -Replace financial transactions with Bacteria
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| | | |
− | === '''May 16th''' === | + | {| border="0" cellspacing="0" cellpadding="4" align="center" |
| + | ![[Week One]] |
| + | ![[Week Two]] |
| + | ![[Week Three]] |
| + | ![[Week Four]] |
| + | |- |
| + | ![[Week Five]] |
| + | ![[Week Six]] |
| + | ![[Week Seven]] |
| + | ![[Week Eight]] |
| + | |} |
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− | Here's some creatures we created using techno-scientific jargon and aesthetics:
| + | <br/> |
− | <gallery>
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− | File:Non-standard_registry_of_names.jpg|IUpasana's Non Standard Regisitry of Names
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− | File:Upasana.jpg|Upasana's Ideas
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− | File:Bacteria_own.jpg|Neha's ''Materialistica Destructica''
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− | File:DOC160509-16052009101732_Page_07.jpg|Neha's Graph
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− | File:Page_1.jpg| Avni's ''actinodopaine''
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− | File:Description_of_the_Amebitoni_Bacteria.png|Amebitoni_Bacteria
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− | File:2.jpg|Immuno Bacteria
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− | File:Sanya1.jpg|Plastico Collecticus
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− | File:bactiprint.jpg|Id bacteria-Akash
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− | File:bacteria.jpg|
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− | </gallery>
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| | | |
| + | === Other === |
| | | |
− | Today's reading was called [http://www.patriciapiccinini.net/essay.php?id=30 Speculative Fabulations for Technoculture's Generation] by Donna Haraway.
| + | http://www.historyforkids.org/scienceforkids/biology/cells/doing/dna.htm |
| | | |
− | -The article is primarily a review of the Australian artist Patricia Piccinini's work and a recapitulation of Haraway's philosophies .
| + | It is helpful to have an idea of how the other teams are progressing. So, if anyone comes across interesting iGEM team wikis/sites - please put up the links here. |
| | | |
− | -One of the things enduring about the reading was her appeal to "love" our creations, not in a tech.no- phillic sense but in a more nurturing and caring way.
| + | http://igem.uwaterloo.ca/The_UW_iGEM_Team |
| | | |
− | === '''May 17th''' ===
| + | The IBB Pune Team's wiki |
| + | [http://2009.igem.org/Team:IBB_Pune#] |
| | | |
− | '''Hybrid creatures from mythology:'''
| + | [http://2008.igem.org/Team:NYMU-Taipei NYMU-Taipei's 2008 Wiki] |
− | <gallery>
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− | File:anubis - jackal god of mummification.jpg| Anubis- Egyptian Jackal God of Mummification
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− | File:aker.jpg| Double headed Lion- Egyptian Earth god
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− | File:Bastet-_goddess_of_fire.jpg| Bastet - Egyptian Goddess of Fire
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− | File:Bes - dwarf god of music and dance.jpg| Bes - Egyptian dwarf god of music and dance
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− | File:Khepera-_beetle_god_of_rising_sun.jpg| Khepera - Egyptian Beetle God of Rising Sun
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− | File:Montu-_falcon_headed_god_of_war.jpg| Montu - Egyptian God of War
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− | File:Nuva_&_Fuxi_-_half_snakehuman_-_repaired_the_sky.gif| Nuva and Fuxi- Japanese who repaired the sky
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− | File:Rainbow_snake-a_kangaroo's_head,_a_crocodile's_tail_and_a_python's_body,_all_decorated_with_water_lilies_and_waving_tendrils..jpg| Australian Rainbow Snake - Kangaroo's head, Crocodile's tail, Python's body
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− | File:baku.jpg|-Japanese mythology: Devours nighmares; Elephant head+ Lion's mane+ body and tail of horse
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− | File:Futakuchi-onna.jpg|J.M.-Two mouthed woman
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− | File:Sanzuniao-Three_legged_bird.jpg| Chinese three legged bird
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− | File:Yukionna.jpg|J.M.-Snow Goddess; can transform into mist when threatened
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− | File:993.jpg| Lord Ganesha has the head of an elephant and the body of a human.
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− | File:be2.jpg| Nagas
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− | File:Kalki75.jpg| Kalki is Lord Vishnu in his final avatar. He is half white horse and half human.
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− | File:Brahma.jpg| Lord Brahma the creator.
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− | File:Hanuman12.jpg| Hanuman has the face of a monkey and the body of a human.
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− | File:kala_rahu_1.jpg| Rahu has a floating head and is believed to eat the sun and the moon and thereby cause eclipses.
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− | File:kali.jpg| Kali
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− | File:krishna1baby.jpg| Lord Krishna
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− | File:lakshmi parvati and saraswati.jpg| The three goddesses lakshmi, parvati and saraswati.
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− | File:narasimha2.jpg| Narasimha is believed to possess the head of a lion and the body of a human. He is one of the avatars that lord Vishnu takes.
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− | File:Valkyrie.jpg|Valkyrie
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− | File:medusa.png|Medusa
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− | File:colossus.jpg|Colossus
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− | File:Leviathan.jpg|Leviathan
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− | File:mantacore.jpg|Mantacore
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− | File:hydra.jpg|Hydra
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− | File:lucifer.jpg|Lucifer
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− | File:Freyja.jpg|Freyja
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− | File:Heimdall.jpg|Heimdall
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− | File:centaur.jpg|Centaur
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− | | |
− | | |
− | </gallery>
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− | | |
− | *[[The May 17th Notebook]]
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− | | |
− | === '''May 19th''' ===
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− | | |
− | We spent the day in NCBS picking up some standard biological techniques-Gel electrophoresis
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− | And looking at some of the microscopy equipment at NCBS.
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− | | |
− | *[[Mukund's Brief Overview on Synthetic Biology Basics]]
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− | | |
− | *[[Gel Electrophorosis]]
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− | | |
− | *([[Talk:ArtScience_IGEM_team|Click here to discuss]])
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− | | |
− | *[[Streaking and Spreading to obtain bacterial colonies]]
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− | | |
− | *[[Imaging]]
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− | | |
− | *[[Discussion over Lunch]]
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− | | |
− | | |
− | ----
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− | '''Some images of our day at NCBS:'''
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− | | |
− | <gallery>
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− | | |
− | File:DSC01409.JPG|Gel electrophoresis Apparatus
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− | File:DSC01410.JPG|The Voltmeter
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− | File:DSC01411.JPG|Gel Electrophoresis Tray
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− | File:DSC01418.JPG|Some lab equipment we were working with
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− | File:DSC01419.JPG|Using micropipettes
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− | File:DSC01420.JPG|One of the steps of Gel Electrophoresis
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− | File:DSC01422.JPG|Using the Comb Tray
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− | File:DSC01425.JPG|Fixing the comb in the comb tray
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− | File:DSC01426.JPG|The Gel Electrophoresis Apparatus-1
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− | File:DSC01427.JPG|The Gel Electrophoresis Apparatus-2
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− | File:DSC01428.JPG|Using the micropipettes
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− | File:DSC01429.JPG
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− | File:DSC01430.JPG
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− | File:DSC01431.JPG
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− | File:DSC01432.JPG
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− | File:DSC01433.JPG
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− | File:DSC01438.JPG
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− | File:DSC01443.JPG
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− | File:DSC01456.JPG
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− | File:DSC01457.JPG
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− | File:DSC01458.JPG
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− | File:DSC01459.JPG
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− | File:DSC01460.JPG
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− | File:DSC01463.JPG
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− | File:DSC01466.JPG
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− | File:DSC01468.JPG
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− | File:DSC01470.JPG|Mukund's Excercise- Demonstrating how DNA replicates-1
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− | File:DSC01471.JPG|Mukund's Excercise- Demonstrating how DNA replicates-2
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− | File:DSC01472.JPG|Mukund's Excercise- Demonstrating how DNA replicates-3
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− | File:DSC_7960.jpg
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− | File:DSC_7959.jpg
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− | File:DSC_7955.jpg
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− | File:DSC_7947.jpg
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− | File:DSC_7936.jpg
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− | File:DSC_7928.jpg
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− | File:A.jpg
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− | File:DSC_7963.jpg
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− | File:DSC_7976.jpg
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− | File:DSC_7977.jpg
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− | File:DSC_7980.jpg
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− | File:DSC_7985.jpg
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− | </gallery>
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− | | |
− | === '''May 21st''' ===
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− | | |
− | We put down all the information that we had about learnt about geosmin. We then put down the various paths we could take in order to produce the results we wanted. This exercise cleared certain doubts we had, but also raised a lot of questions.
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− | | |
− | <gallery>
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− | File:geosmin_synthesis.jpg|The Scientific Representation
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− | File:Rain_scenario_1.jpg
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− | File:RAin_scenario_2.jpg
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− | File:rain_scenario_3.jpg
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− | File:Bactothing2.png|The Artistic Representation
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− | </gallery>
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− | | |
− | [[First Prototype of the Bacteria]]
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− | | |
− | === ''May 22nd'' ===
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− | | |
− | Today's Reading:
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− | [[File:Jenshauser.png]]
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− | Some basics of Gene Expression and production of Protiens and Enzymes by Gene's
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− | | |
− | | |
− | ===May 25th===
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− | | |
− | '''May 23rd-May 25th'''
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− | Presentation ideas- Bollywood sculpture?
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− | <gallery>
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− | File:Nehasculpture.jpg
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− | File:krupakar_sc.jpg
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− | File:sandeep-machine.png|Its this big box. There is a projection of a window looking out into rain. All the paraphanalia can fit in the space below. fog machine?. The curtain goes all round.
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− | File:Installation_idea.jpg
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− | </gallery>
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− | | |
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− | '''How to read a scientific Paper''' by Mukund
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− | Scan through the entire article quickly and find out what they are saying or trying to say
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− | Do not get lost in the references beyond 2 layers
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− | how to create a gel electrophoresis chamber.[[http://learn.genetics.utah.edu/content/labs/gel/gelchamber]]
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− | | |
− | | |
− | '''Today's Reading:'''
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− | [http://www.elowitz.caltech.edu/publications/Repressilator.pdf A synthetic Oscillatory network of transcriptional regulators]
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− | | |
− | <br/>
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− | | |
− | ===May 27th===
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− | http://openwetware.org/wiki/DIYbio:Notebook/Open_Gel_Box_2.0/RFC1
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− | http://umassigem.blogspot.com/
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− | http://diybio.org/2009/03/20/extract-dna-from-strawberries/
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− | | |
− | | |
− | ===May 28th===
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− | Chicken in a Kaledioscope
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− | == May 29th ==
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− | <gallery>
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− | File:TheArtScientistA.jpg|Neha's 'TheArtScientist'-Page 1
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− | File:The Art ScientistB.jpg|TheArtScientist-Page 2
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− | | |
− | </gallery>
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− | | |
− | | |
− | == May 30th ==
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− | | |
− | | |
− | | |
− | (all DNA pictures have been uploaded. Take your pick [[Special:ListFiles|here]]. (Not like you have a lot of options or anything..))
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− | '''Extracting DNA from Banana:'''
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− | | |
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− | '''What you need'''
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− | # 3 glass or clear plastic cups
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− | # A cup of water
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− | # A banana
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− | # A spoon
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− | # An eyedropper
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− | # A strainer
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− | # A funnel
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− | # A toothpick
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− | # A tablespoon of salt
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− | # 3 Tablespoons of liquid detergent containing Sodium Laurel Sulphate (look at back of the bottle)
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− | # A third of a cup of rubbing alcohol
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− | | |
− | '''What you need to do'''
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− | # Put the rubbing alcohol in the freezer to chill it.
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− | # Mash the banana up with the spoon.
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− | # Strain the pulp through the funnel into one of the empty glasses (You might need some water to help it through.)
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− | # In another glass stir the detergent and salt together.
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− | # Mix the banana pulp and the salty detergent together for about a minute. Try to avoid bubbles.
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− | # When it settles, gently pour the alcohol down the side of the cup over the back end of the spoon. The alcohol should form a layer over the mixture.
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− | # Soon, you'll see tiny white strands of millions DNA gathering between the two layers.
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− | # Pick them out with the toothpick. They should be white, whiter than the rest of the banana pulp. Admire!
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− | '''Exracting DNA from Saliva:'''
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− | | |
− | '''Images of our DNA we extracted from saliva:'''
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− | <gallery>
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− | | |
− | File:NehasDNA.JPG|Neha's DNA
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− | File:KrupakarsDNA.JPG|Krupakar's DNA
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− | File:DhruvsDNA.JPG|Dhruv's DNA
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− | File:SandeepsDNA.JPG|Sandeep's DNA
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− | | |
− | </gallery>
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− | | |
− | | |
− | ===May 31st===
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− | | |
− | Some interesting articles I came across.
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− | | |
− | http://www.thenewatlantis.com/publications/the-promise-and-perils-of-synthetic-biology
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− | | |
− | http://www.nature.com/msb/journal/v2/n1/full/msb4100104.html - I haven't read this one properly yet!! But the topic seems interesting and relevant...
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| | | |
| == Readings == | | == Readings == |
| | | |
| + | '''[[Art and Politics]]''' |
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− | '''Art and Politics''' | + | '''[[Art]]''' |
− | | |
− | Claire Pentecost::Beyond Face[http://www.clairepentecost.org/beyond_face.htm]
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− | | |
− | Claire Pentecost::Outfitting the Laboratory of the Symbolic: Towards a Critical Inventory of BioArt[http://www.clairepentecost.org/lab%20of%20symbolic_text.htm]
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− | | |
− | Donna Haraway::Speculative Fabulations for Technoculture's Generations[http://www.patriciapiccinini.net/essay.php?id=30]
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− | | |
− | Oron Catts, Ionat Zurr::The ethics of experiential engagement with the manipulation of life
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− | | |
− | '''Art'''
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− | | |
− | GeneAeshetics, The Art of Joe Davis[http://www.clondiag.com/frame.php?page=/art/joe.davis/index.php?docid=0]
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− | | |
− | Adam Zaretsky[http://www.emutagen.com/]
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− | | |
− | Patricia Piccinini[http://www.patriciapiccinini.net/]
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− | | |
− | Designer Bodies: Towards a Posthuman Condition[http://www.a-r-c.org.uk/db/about.html]
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− | | |
− | '''Science'''
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− | | |
− | What are bacteria?[http://www.disknet.com/indiana_biolab/b004.htm]
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− | | |
− | Planet of the Bacteria[http://www.stephenjaygould.org/library/gould_bacteria.html]
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− | | |
− | Introductory Video Lectures in Biology[http://videolectures.net/mit7012f04_introduction_biology/
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− | | |
− | DNA from the beginning[http://www.dnaftb.org/22/concept/index.html]
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− | | |
− | '''Design & Technology'''
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− | | |
− | Urban BioGeography[http://www.tuurvanbalen.com/projects/urbanbiogeography]
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− | | |
− | Designer Bacteria may have a future in Fashion[http://www.nytimes.com/2001/08/19/style/designer-bacteria-may-have-a-future-in-fashion.html]
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− | | |
− | Sunlight to Oil via Designer Bacteria[http://www.thinkgene.com/light-oil-with-bacteria/]
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− | | |
− | Loop.ph-Design Research Studio[http://loop.ph/bin/view/Loop/WebHome]
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− | | |
− | Laughing in a sine curve- Abhishek Hazra[[http://abhishekhazra.blogspot.com/2009/04/laughing-in-sine-curve.html]
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− | | |
− | Some interesting bio-design stuff by Brandon Ballangee and the likes. [[http://io9.com/photogallery/biotechnique/1000502846]]
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− | | |
− | '''Synthetic Biology:
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− | '''
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− | | |
− | Student Book from IGEM [http://openwetware.org/images/f/f9/IGEM_Student_Book.pdf]
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− | | |
− | Gel Electrophoresis [http://en.wikipedia.org/wiki/Gel_electrophoresis]
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− | | |
− | Extracting DNA at home [http://nature.ca/genome/05/051/pdfs/DNAextract_e.pdf]
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− | | |
− | Harvard 2006: Explaining their process[[http://parts2.mit.edu/wiki/index.php/Harvard_2006]]
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− | | |
− | The Synthetic Biology Comic[[http://www.nature.com/nature/comics/syntheticbiologycomic/]] The .pdf version is here:[http://mit.edu/endy/www/scraps/comic/AiSB.vol1.pdf]
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− | | |
− | Introduction to Biological Engineering Design [http://openwetware.org/wiki/20.20]
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− | | |
− | Introduction to Synthetic Biology[http://openwetware.org/wiki/Intertech:iSB2008:Materials]
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− | | |
− | Ibio Seminars [http://www.ibioseminars.org/]
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− | | |
− | Gel electrphoresis process[http://web.utk.edu/~khughes/GEL/sld008.htm]
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− | | |
− | Primer on Synthetic Biology[http://openwetware.org/images/3/3d/SB_Primer_100707.pdf]
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− | | |
− | [[File:Keiki-gel-1-225x300.jpg|150px|thumb|none|Drinking straw gel electrophoresis]]
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− | Drinking straw gel electrophoresis[http://maradydd.livejournal.com/417631.html]
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− | | |
− | Open Gel Box [http://openwetware.org/wiki/DIYbio:Notebook/Open_Gel_Box_2.0]
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− | | |
− | BioBricks on Youtube [http://www.youtube.com/user/BioBricksFoundation]
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− | | |
− | [http://diybio.org/wp-content/uploads/2009/04/CodeCon09_SynthBio_tutorial_handout/appendix3%20-%20GinkgoBioworks%20guide%20to%20engineering%20biology.pdf Ginko BioWorks Guide to Synthetic Biology]
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| | | |
− | [http://techtv.mit.edu/collections/mitmuseum/videos/1684-soap-box-do-it-yourself-biology DIY Biology Webcast] | + | '''[[Science]]''' |
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− | [http://groups.google.com/group/diybio/web/diybio-model-organisms DIYBio Model Organisms] | + | '''[[Ethics]]''' |
| | | |
− | '''General Design Links''' | + | '''[[Design & Technology]]''' |
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− | http://psd.tutsplus.com/drawing/the-role-of-sketching-in-the-design-process/
| + | '''[[Synthetic Biology]]''' |
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− | http://www.wallwisher.com/wall/iGemSrishti
| + | '''[[General Design Links]]''' |
We consider ourselves amateurs/novices within the context of the IGEM competition. Our endeavor as “outsiders” is to bring our training in the arts and design to synthetic biology. Over this summer, we learnt the tools and techniques of synthetic biology and developed a piece of life which reflects our concerns, namely, the cultural, ethical and aesthetic implications of Synthetic Biology. Using a DIY approach and getting our hands “wet” was a critical element in the learning process. This approach allowed us to engage in constructive discussions with scientists working in the field. Our construct synthesizes Geosmin, an enzyme normally produced by cyanobacteria and actinobacteria. The biosynthesis of geosmin from farnesyl diphosphate is catalyzed by a single enzyme germacradienol/germacrene D synthase. E. coli, does not bear a gene that codes for germacradienol/germacrene D synthase. We have expressed this gene in different strains of E. coli, under control of the pTrc promoter present in the pTrc99a vector. Geosmin is responsible for producing the earthy smell that occurs in the air when rain falls after a dry spell of weather.
It is helpful to have an idea of how the other teams are progressing. So, if anyone comes across interesting iGEM team wikis/sites - please put up the links here.