SynthBioWorkshop2010
From Hackteria
<strong>Synthetic Biology for Artists and Designers 2</strong>
<strong>10th May 2010 </strong>
• Biology - individual understanding and definition.
• Brief History of Biology - Scientists/Microbiologists (Video)
? Anton Von Leeuwenhoek
? Gregor Mendel
? Robert Hooke
? Louis Pasteur
? John Baptiste Van Helmont
? Joseph Jackson Lister
? Theodore Schwann
? Rosalyn Franklin
? Watson & Crick
• Evolution – Brief understanding and controversies
• DNA, Protein – Introduction
• Bacteria E.Coli
• Readings – PDF
? Scientific America – Engineering Life
? Synthesizing DNA of microorganisms for various purposes
? Sequencing of DNA
? Cost factors involved
? Comparison to Moore’s Law
? Human Genome
• Video – (BBC)-The Cell-The Hidden Kingdom
Homework - Reading (PDF)
1. Life: What a concept!
<strong>11th May 2010</strong>
• Recap of yesterday’s learning
• Video lecture by David Sadava
? Expression of genes
? Phenotypes and Alleles
? The Nucleus
? Totipotent Cells
? Cloning
? Genes, chromosomes
? Human genetic information
? Cell processing
• Introduction to Synthetic Biology by Andrew Hessels
• Video – Darwin’s theory on evolution
Homework
1.
2.
<strong>12th May 2010</strong>
• Video Lecture by David Sadava
? Epidemiology
? Lung Cancer gene
? Mutations
? Requirements of a DNA
? Responsibilities of a Protein
? Variety in DNA
? Somatic and Sex Cells
? Virus
? DNA & its properties
? Structure of a DNA
? Replication of DNA
• Video of Watson and his story of the discovery of the DNA model at TED.com
• Readings – Applying engineering to biology
• Reading – Adventures in Synthetic Biology
Homework
1. Reading
2. Online Research
<strong>13th May 2010</strong>
1. Video Lecture by David Sadava
? Spider web theory of protein
? Protein production
? Structure of protein
? Synthesis of Protein
? Human protein synthesis
? Types of proteins
? Expression of Proteins
? Gene – Protein relationship
? Metabolism
? Thermodynamics
? Mechanism, Cell Theory and Evolution
? Ricin and its discovery
? RNA and its role
? Transcription and Translation
? Nirenberg’s Experiment
? Mutations and changes in base pairs
• Video tutorial on DNA replication
• Video tutorial on Protein synthesis
Homework
1. Exercise – Make a piece of art form using any LIVING form that should have the
capability to grow over a period of two months.
<strong>14th May 2010</strong>
1. Video Lecture by David Sadava
Genomes – further details
?
Mutations & Mutagens
?
Cancers caused by mutation of genes by radiation
?
Genetic Damage
?
Leukaemia
?
Scientist Renato del Bucco’s work
?
Hierarchical sequencing
?
Shotgun sequencing – Craig Ventor
?
Bioinformatics
?
Information from a genetic sequence
?
a. Coding sequence
b. Protein amino acid sequence
c. Gene control sequences
Sequential Genomics
?
First genome to be sequenced
?
Hypothetical suggestion of 24000 genes in a human being
?
Synthetic Biology - making artificial genes to bring about a desired result
?
Scientist Werner Arber
?
Restriction Endonuclease
?
How a bacteria prevents Viral infections
?
DNA Mapping
?
Recombinant DNA
?
Stanley Cohen & Herbert Boyer’s Experiment
?
Goals for making rDNA
?
Transgenic animals and plants
?
Naked and Vector DNA
?
<strong>17th May 2010-05-17</strong>
1. Video Lecture by David Sadava
? Isolation of genes
? PKU and dystrophy
? Methods of analyzing DNA
? Reverse Genetics
? Dystrophine Gene and Utrophine
? Gene Therapy
? Nucleic Acid Hybridization
? Genome Library
? DNA Microarray
? Metastasis
2. Exercise - Think of your own creature. Design it. Explain detailed mechanisms using
diagrams. This organism could be hypothetical. Name it.
3. Make a scientific paper on your creature
4. Demonstration of Gabriel’s current prototype of visually representing genetic sequenced
data of a human mitochondria.
Homework – develop and complete creature.
<strong>18th May 2010</strong>
1. Video Documentary – BBC – The Cell – Chemistry of Life
2. Video Documentary – BBC – The Cell – The Spark of Life
3. Discussion of Creatures, peer feedback and progress
<strong>19th May 2010</strong>
<object width="400" height="300"><param name="allowfullscreen" value="true" /><param name="allowscriptaccess" value="always" /><param name="movie" value="http://vimeo.com/moogaloop.swf?clip_id=12045337&server=vimeo.com&show_title=1&show_byline=1&show_portrait=0&color=&fullscreen=1" /><embed src="http://vimeo.com/moogaloop.swf?clip_id=12045337&server=vimeo.com&show_title=1&show_byline=1&show_portrait=0&color=&fullscreen=1" type="application/x-shockwave-flash" allowfullscreen="true" allowscriptaccess="always" width="400" height="300"></embed></object><a href="http://vimeo.com/12045337">Center for Genomic Gastronomy @ Srishti, Bangalore, India</a> from <a href="http://vimeo.com/user3901760">genomic gastronomy</a> on <a href="http://vimeo.com">Vimeo</a>.
1. Presentation by Zac on The center for Genomic Gastronomy
? What is Biotechnolgy
? Perspective of food by all living things
? Geohackers, Biohackers, Geoengineers, Planetcrafters
? Agriculture Biodiversity
? Agrinformatics
? Metadata and food Genomes
? Food System Adaptation
? Agriculture Terrorism
? First world eating issues
? Cuisinformatics
2. Extraction of DNA
<strong>20th May 2010</strong>
1. Presentation of Abstracts of New Creatures
? The Booster Cell
? Supercule
? Thermo Cell
2. Exercise – Create another new creature which does not necessarily have to be a
microorganism or even possible to exist. Completely hypothetical, imaginary of fantastical is
great!
<strong>21st May 2010</strong>
Minutes of the Class
1. Discussion of ideation on creation of machines.
<strong>22nd May 2010</strong>
Minutes of the Class
1. Video Documentary by Craig Ventor
? Scientific Breakthrough – First fully Synthetic Cell to be cultutred.
? Genome copied from Mycoplasma Genatalium
? Genome synthetically prepared in the lab
? Introduced into yeast cells to complete transformation
? Introduced into host bacterial cell which transforms to new organism
? Watermarked with 46 authors, web address and mail ID
? Significance – vaccine production and Oil Spill reduction
2. Artist & other Research
? Stellarc
? Symbiotica
? Orlan
<strong>25th May 2010</strong>
1. Visit to NCBS
? Tour of the Campus
? Meeting with PhD student Mehra and Navneet
? Introduction to the lab space
? Discussion over Science Institutes and their pros and cons
? Tour of other labs with various workflow instruments
<strong>26th May 2010</strong>
Minutes of the Class
1. Video Tutorial by David Sadava
? Bioremediation – using organism to improve the environment
? Fluorescence in nature and different organisms
? TNT used as example
? Degraded by Psuedomonas Putida
? Integrated Pest Management
? Bacteria in decomposition
? Bacteria in Waste Water Treatment
? Extremophiles
? PCR and its significance
2. List of materials required to build the art form made from a living organism
3. Artist & other Research
? Institution of Applied Autonomy
? Center for Post Natural History
? George Gessert
<strong>27th May 2010</strong>
Minutes of the Class
1. Video Documentary by Kary Mullis on the making of the PCR
2. Artist & other Research
? Adam Zaretsky
? Eduardo Kac
? Patricia Piccinni
3. Field work on material for art form construction.
<strong> 1st June </strong>
Yeast Growing http://www.disknet.com/indiana_biolab/b021.htm
