Transcript MIT 2006: Engineering bacteria to smell good

Selected Case Studies
QuickTime™ and a
TIFF (LZ W) decompressor
are needed to see t his picture.
MIT 2006: Engineering
bacteria to smell good
C. breweri
S.
cerevisiae
BSMT
ATF1
wintergreen
banana
Slides borrowed from the 2006 MIT Team
Engineering the scent of bacteria
QuickTime™ and a
TIFF (LZW) decompressor
are needed to see this picture.
What is the desired output?
Components of engineered cell
QuickTime™ and a
TIFF (LZW) decompressor
are needed to see this picture.
What is needed to create the desired output?
Components of engineered cell
QuickTime™ and a
TIFF (LZW) decompressor
are needed to see this picture.
What is needed to create the desired output?
Creating devices with BioBricks
Protein
Regulatory Part/
Protein Coding Part
Promoter
Ribosome Binding
Site
Terminator
Components of scent-producing
devices
QuickTime™ and a
TIFF (LZW) decompressor
are needed to see this picture.
Components of scent-producing
devices
QuickTime™ and a
TIFF (LZW) decompressor
are needed to see this picture.
Components of upstream devices
QuickTime™ and a
TIFF (LZW) decompressor
are needed to see this picture.
QuickTime™ and a
TIFF (LZW) decompressor
are needed to see this picture.
How do you regulate when the
scents are expressed?
QuickTime™ and a
TIFF (LZW) decompressor
are needed to see this picture.
Goal: Sense the growth state of
culture
QuickTime™ and a
TIFF (LZW) decompressor
are needed to see this picture.
Regulating the timing of expression
osmY: active in stationary phase & under high osmotic pressure conditions
osm
Y
osmY + inverter
Regulating the timing of expression
QuickTime™ and a
TIFF (LZW) decompressor
are needed to see this picture.
Design principles
• What is the desired output? What is
needed to create this output?
• What do you want to sense?
• Use of constitutive promoters, inducible
promoters, and inverters
Berkeley 2006
Bacterial Networks
Need: To transfer DNA messages from one
bacterial cell to another
Means: Bacterial Conjugation
Need: To specifically control who can read the
DNA message
Means: Riboregulation
Some slides borrowed from the 2006 Berkeley Team
Ribosome Binding
Site
Protein Coding Part
Regulatory Part/
Promoter
Protein
Terminator
DNA to RNA to Protein
DNA
Ribosome Binding
Site
RNA
Ribosome Binding
Site
Protein
Protein synthesis from RNA
Ribosome
RNA
Ribosome Binding
Site
Protein
Locked structure prevents ribosome
binding
Ribosome
RNA
Ribosome Binding
Site
Protein
RNA “Key” unlocks lock
Ribosome
RNA
Ribosome Binding
Site
Protein
Goal: Create network of cellcell communication
RNA as a regulatory mechanism
• Can activate some “riboswitches” with
small molecules
• Advantage: fast response - transcript is
already made
• Alternative method: block translation by
adding antisense RNA to RBD