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== 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.
  
 
== People ==
 
== People ==
Line 27: Line 30:
 
==Ideas==
 
==Ideas==
  
-bacteria that prevents corrosion
+
[[File:Whiteboard.jpg|820px|none|Click for a closer look]]
 
 
-Time keeper or clock
 
 
 
-Combustible bacteria
 
 
 
-Related to weather - smell of rain
 
 
 
-Bacteria that is resistant to Scientific Probing/Instruments
 
 
 
-Mirror of bacteria
 
 
 
-Buoyant bacteria
 
 
 
-Interactive bacteria(painting)
 
 
 
-Another creature made from bacteria
 
 
 
-Bacteria and sound
 
  - Bacteria visualizations. (Both colour changes and 'choreographed' movement)
 
 
 
-Neuro transmitters- bacteria as sensors for emotions
 
 
 
-Glue
 
 
 
-Bacteria that detects cravings
 
 
 
-Magnetic bacteria
 
 
 
-Self mutating Bacteria
 
 
 
-Lie detector
 
 
 
-Bacteria creates an identity
 
 
 
-Bacteria becoming material on death
 
  
-Constructing a 'Bacterial Ecology'
+
Major Outcomes -
  
-Bacteria that acts like oil
+
* [[Ideas for Bacteria.]]
  - A lubricant
 
  - A liquid that can withstand high temperatures
 
  
 
* 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''' ===
 
 
-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 ].
 
-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.
 
-We also discussed the political and cultural implications of Scientific Authority.
 
-We also looked at Tuur Van Balen's [http://www.tuurvanbalen.com/projects/urbanbiogeography Urban Geography project]
 
-Most of the Ideas[see above] today, dealt with the use of bacteria as
 
    -a) A sensor or Reactor - (to Inputs,emotions,light..etc)
 
    -b) A Producer (of energy, proteins..etc)
 
      -c) A Material
 
 
-Is there Any way in which we can look at Bacteria from a purely non-symbiotic / non-anthropomorphic viewpoint?
 
-Can we use our technological "progress" to give a non-selfish gift back to our ecological siblings?
 
 
-Replace financial transactions with Bacteria
 
 
=== '''May 16th''' ===
 
 
Here's some creatures we created using techno-scientific jargon and aesthetics:
 
<gallery>
 
File:Non-standard_registry_of_names.jpg|IUpasana's Non Standard Regisitry of Names
 
File:Upasana.jpg|Upasana's Ideas
 
File:Bacteria_own.jpg|Neha's ''Materialistica Destructica''
 
File:DOC160509-16052009101732_Page_07.jpg|Neha's Graph
 
File:Page_1.jpg| Avni's ''actinodopaine''
 
File:Description_of_the_Amebitoni_Bacteria.png|Amebitoni_Bacteria
 
File:2.jpg|Immuno Bacteria
 
File:Sanya1.jpg|Plastico Collecticus
 
File:bactiprint.jpg|Id bacteria-Akash
 
File:bacteria.jpg|
 
</gallery>
 
 
 
Today's reading was called [http://www.patriciapiccinini.net/essay.php?id=30 Speculative Fabulations for Technoculture's Generation] by Donna Haraway.
 
 
-The article is primarily a review of the Australian artist Patricia Piccinini's work and a recapitulation of Haraway's philosophies .
 
 
-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.
 
 
=== '''May 17th''' ===
 
 
'''Hybrid creatures from mythology:'''
 
<gallery>
 
File:anubis - jackal god of mummification.jpg| Anubis- Egyptian Jackal God of Mummification
 
File:aker.jpg| Double headed Lion- Egyptian Earth god
 
File:Bastet-_goddess_of_fire.jpg‎| Bastet - Egyptian Goddess of Fire
 
File:Bes - dwarf god of music and dance.jpg| Bes - Egyptian dwarf god of music and dance
 
File:Khepera-_beetle_god_of_rising_sun.jpg‎| Khepera - Egyptian Beetle God of Rising Sun
 
File:Montu-_falcon_headed_god_of_war.jpg| Montu - Egyptian God of War
 
File:Nuva_&_Fuxi_-_half_snakehuman_-_repaired_the_sky.gif| Nuva and Fuxi- Japanese who repaired the sky
 
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
 
File:baku.jpg|-Japanese mythology: Devours nighmares; Elephant head+ Lion's mane+ body and tail of horse
 
File:Futakuchi-onna.jpg|J.M.-Two mouthed woman
 
File:Sanzuniao-Three_legged_bird.jpg‎| Chinese three legged bird
 
File:Yukionna.jpg|J.M.-Snow Goddess; can transform into mist when threatened
 
File:993.jpg| Lord Ganesha has the head of an elephant and the body of a human.
 
File:be2.jpg| Nagas
 
File:Kalki75.jpg| Kalki is Lord Vishnu in his final avatar. He is half white horse and half human.
 
File:Brahma.jpg| Lord Brahma the creator.
 
File:Hanuman12.jpg| Hanuman has the face of a monkey and the body of a human.
 
File:kala_rahu_1.jpg| Rahu has a floating head and is believed to eat the sun and the moon and thereby cause eclipses.
 
File:kali.jpg| Kali
 
File:krishna1baby.jpg| Lord Krishna
 
File:lakshmi parvati and saraswati.jpg| The three goddesses lakshmi, parvati and saraswati.
 
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.
 
File:Valkyrie.jpg|Valkyrie
 
File:medusa.png|Medusa
 
File:colossus.jpg|Colossus
 
File:Leviathan.jpg|Leviathan
 
File:mantacore.jpg|Mantacore
 
File:hydra.jpg|Hydra
 
File:lucifer.jpg|Lucifer
 
File:Freyja.jpg|Freyja
 
File:Heimdall.jpg|Heimdall
 
File:centaur.jpg|Centaur
 
 
 
</gallery>
 
 
*[[The May 17th Notebook]]
 
 
=== '''May 19th''' ===
 
 
We spent the day in NCBS picking up some standard biological techniques-Gel electrophoresis
 
And looking at some of the microscopy equipment at NCBS.
 
 
*[[Mukund's Brief Overview on Synthetic Biology Basics]]
 
 
*[[Gel Electrophorosis]]
 
 
*([[Talk:ArtScience_IGEM_team|Click here to discuss]])
 
 
*[[Streaking and Spreading to obtain bacterial colonies]]
 
 
*[[Imaging]]
 
 
*[[Discussion over Lunch]]
 
 
 
----
 
Some images of our day at NCBS:
 
 
<gallery>
 
 
File:DSC01409.JPG|Gel electrophoresis Apparatus
 
File:DSC01410.JPG|The Voltmeter
 
File:DSC01411.JPG|Gel Electrophoresis Tray
 
File:DSC01418.JPG|Some lab equipment we were working with
 
File:DSC01419.JPG|Using micropipettes
 
File:DSC01420.JPG|One of the steps of Gel Electrophoresis
 
File:DSC01422.JPG|Using the Comb Tray
 
File:DSC01424.JPG
 
File:DSC01425.JPG
 
File:DSC01426.JPG
 
File:DSC01427.JPG
 
File:DSC01428.JPG
 
File:DSC01429.JPG
 
File:DSC01430.JPG
 
File:DSC01431.JPG
 
File:DSC01432.JPG
 
File:DSC01433.JPG
 
File:DSC01438.JPG
 
File:DSC01443.JPG
 
File:DSC01456.JPG
 
File:DSC01457.JPG
 
File:DSC01458.JPG
 
File:DSC01459.JPG
 
File:DSC01460.JPG
 
File:DSC01463.JPG
 
File:DSC01466.JPG
 
File:DSC01468.JPG
 
File:DSC01470.JPG
 
File:DSC01471.JPG
 
File:DSC01472.JPG
 
File:DSC_7960.jpg
 
File:DSC_7959.jpg
 
File:DSC_7955.jpg
 
File:DSC_7947.jpg
 
File:DSC_7936.jpg
 
File:DSC_7928.jpg
 
File:A.jpg
 
File:DSC_7963.jpg
 
File:DSC_7976.jpg
 
File:DSC_7977.jpg
 
File:DSC_7980.jpg
 
File:DSC_7985.jpg
 
</gallery>
 
 
=== '''May 21st''' ===
 
 
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.
 
  
<gallery>
 
File:geosmin_synthesis.jpg|The Scientific Representation
 
File:Rain_scenario_1.jpg
 
File:RAin_scenario_2.jpg
 
File:rain_scenario_3.jpg
 
File:Bactothing2.png|The Artistic Representation
 
</gallery>
 
  
[[First Prototype of the Bacteria]]
 
  
=== ''May 22nd'' ===
 
  
Today's Reading:
+
{| border=&quot;0&quot; cellspacing=&quot;0&quot; cellpadding=&quot;4&quot; align=&quot;center&quot;
 +
![[Week One]]
 +
![[Week Two]]
 +
![[Week Three]]
 +
![[Week Four]]
 +
|-
 +
![[Week Five]]
 +
![[Week Six]]
 +
![[Week Seven]]
 +
![[Week Eight]]
 +
|}
  
[[File:Jenshauser.png]]
+
&lt;br/&gt;
  
 +
=== Other ===
  
 +
http://www.historyforkids.org/scienceforkids/biology/cells/doing/dna.htm
  
Some basics of Gene Expression and production of Protiens and Enzymes by Gene's
+
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.
  
 +
http://igem.uwaterloo.ca/The_UW_iGEM_Team
  
===May 25th===
+
The IBB Pune Team's wiki
 +
[http://2009.igem.org/Team:IBB_Pune#]
  
'''May 23rd-May 25th'''
+
[http://2008.igem.org/Team:NYMU-Taipei NYMU-Taipei's 2008 Wiki]
 
 
Presentation ideas- Bollywood sculpture?
 
<gallery>
 
File:Nehasculpture.jpg
 
File:krupakar_sc.jpg
 
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.
 
</gallery>
 
 
 
 
 
 
 
'''How to read a scientific Paper''' by Mukund
 
 
 
Scan through the entire article quickly and find out what they are saying or trying to say
 
Do not get lost in the references beyond 2 layers
 
 
 
 
 
how to create a gel electrophoresis chamber.[[http://learn.genetics.utah.edu/content/labs/gel/gelchamber]]
 
 
 
 
 
'''Today's Reading:'''
 
 
 
[http://www.elowitz.caltech.edu/publications/Repressilator.pdf A synthetic Oscillatory network of transcriptional regulators]
 
 
 
<br/>
 
 
 
 
 
===May 27th===
 
http://openwetware.org/wiki/DIYbio:Notebook/Open_Gel_Box_2.0/RFC1
 
 
 
http://umassigem.blogspot.com/
 
  
 
== Readings ==
 
== Readings ==
  
 +
'''[[Art and Politics]]'''
  
'''Art and Politics'''
+
'''[[Art]]'''
 
 
Claire Pentecost::Beyond Face[http://www.clairepentecost.org/beyond_face.htm]
 
 
 
Claire Pentecost::Outfitting the Laboratory of the Symbolic: Towards a Critical Inventory of BioArt[http://www.clairepentecost.org/lab%20of%20symbolic_text.htm]
 
 
 
Donna Haraway::Speculative Fabulations for Technoculture's Generations[http://www.patriciapiccinini.net/essay.php?id=30]
 
 
 
Oron Catts, Ionat Zurr::The ethics of experiential engagement with the manipulation of life
 
 
 
'''Art'''
 
 
 
GeneAeshetics, The Art of Joe Davis[http://www.clondiag.com/frame.php?page=/art/joe.davis/index.php?docid=0]
 
 
 
Adam Zaretsky[http://www.emutagen.com/]
 
 
 
Patricia Piccinini[http://www.patriciapiccinini.net/]
 
 
 
Designer Bodies: Towards a Posthuman Condition[http://www.a-r-c.org.uk/db/about.html]
 
 
 
'''Science'''
 
 
 
What are bacteria?[http://www.disknet.com/indiana_biolab/b004.htm]
 
 
 
Planet of the Bacteria[http://www.stephenjaygould.org/library/gould_bacteria.html]
 
 
 
Introductory Video Lectures in Biology[http://videolectures.net/mit7012f04_introduction_biology/
 
 
 
DNA from the beginning[http://www.dnaftb.org/22/concept/index.html]
 
 
 
'''Design & Technology'''
 
 
 
Urban BioGeography[http://www.tuurvanbalen.com/projects/urbanbiogeography]
 
 
 
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]
 
 
 
Sunlight to Oil via Designer Bacteria[http://www.thinkgene.com/light-oil-with-bacteria/]
 
 
 
Loop.ph-Design Research Studio[http://loop.ph/bin/view/Loop/WebHome]
 
 
 
Laughing in a sine curve- Abhishek Hazra[[http://abhishekhazra.blogspot.com/2009/04/laughing-in-sine-curve.html]
 
 
 
Some interesting bio-design stuff by Brandon Ballangee and the likes. [[http://io9.com/photogallery/biotechnique/1000502846]]
 
 
 
'''Synthetic Biology:
 
'''
 
 
 
Student Book from IGEM [http://openwetware.org/images/f/f9/IGEM_Student_Book.pdf]
 
 
 
Gel Electrophoresis [http://en.wikipedia.org/wiki/Gel_electrophoresis]
 
 
 
Extracting DNA at home [http://nature.ca/genome/05/051/pdfs/DNAextract_e.pdf]
 
 
 
Harvard 2006: Explaining their process[[http://parts2.mit.edu/wiki/index.php/Harvard_2006]]
 
 
 
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]
 
 
 
Introduction to Biological Engineering Design [http://openwetware.org/wiki/20.20]
 
 
 
Introduction to Synthetic Biology[http://openwetware.org/wiki/Intertech:iSB2008:Materials]
 
 
 
Ibio Seminars [http://www.ibioseminars.org/]
 
 
 
Gel electrphoresis process[http://web.utk.edu/~khughes/GEL/sld008.htm]
 
 
 
[[File:Keiki-gel-1-225x300.jpg|150px|thumb|none|Drinking straw gel electrophoresis]]
 
Drinking straw gel electrophoresis[http://maradydd.livejournal.com/417631.html]
 
 
 
Open Gel Box [http://openwetware.org/wiki/DIYbio:Notebook/Open_Gel_Box_2.0]
 
 
 
BioBricks on Youtube [http://www.youtube.com/user/BioBricksFoundation]
 
 
 
[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]
 
  
[http://techtv.mit.edu/collections/mitmuseum/videos/1684-soap-box-do-it-yourself-biology DIY Biology Webcast]
+
'''[[Science]]'''
  
[http://groups.google.com/group/diybio/web/diybio-model-organisms DIYBio Model Organisms]
+
'''[[Ethics]]'''
  
'''General Design Links'''
+
'''[[Design &amp; Technology]]'''
  
http://psd.tutsplus.com/drawing/the-role-of-sketching-in-the-design-process/
+
'''[[Synthetic Biology]]'''
  
http://www.wallwisher.com/wall/iGemSrishti
+
'''[[General Design Links]]'''

Latest revision as of 18:01, 10 December 2010

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.

People

Akash Hirosh

Dhruv Nawani

Nikhil Patil

Upasana Simha

Sandeep Mathew

Sanya Rai Gupta

Avni Sethi

Neha Bhat

Gautam Vishwanath

Krupakar Dhinakaran

Ideas

Click for a closer look

Major Outcomes -

  • 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.
  • Basic information on micro biology-synthetic biology becomes accessible in the forms of brochures/charts/posters in the team's work space.

Workshop

Week One Week Two Week Three Week Four
Week Five Week Six Week Seven Week Eight

<br/>

Other

http://www.historyforkids.org/scienceforkids/biology/cells/doing/dna.htm

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.

http://igem.uwaterloo.ca/The_UW_iGEM_Team

The IBB Pune Team's wiki [1]

NYMU-Taipei's 2008 Wiki

Readings

Art and Politics

Art

Science

Ethics

Design & Technology

Synthetic Biology

General Design Links