Professional Documents
Culture Documents
https://encrypted-tbn2.gstatic.com/images?q=tbn:ANd9GcQGs2KN7gCRQkcB9EVK92fuRf2T4xVl7fE4qTSEk2SQMD7NxvJl
Metabolic pathways do
not function in all
organisms ...
Why?
http://www.cs.cmu.edu/~blmt/Seminar/SeminarMaterials/kegg.gif
Koopman, Frank, et al. "Identification and characterization of the furfural and 5-(hydroxymethyl) furfural degradation pathways of Cupriavidus basilensis HMF14." Proceedings of the National Academy of Sciences 107.11 (2010): 4919-4924.
of 19 target genes
Assay clones for ability to consume furfural
Graf, Nadja, and Josef Altenbuchner. "Development of a method for markerless gene deletion in Pseudomonas putida."
Applied and environmental microbiology 77.15 (2011): 5549-5552
https://encrypted-tbn1.gstatic.com/images?q=tbn:ANd9GcQJIN_9NTXxOtUB2JndPngUq0YA6oFae67pwfivV3u9MQQMyCzjR35Nfxnl
Promoter Strength
Transcription
Protein Expression
Expression vs.TIR
Low
Medium
High
Ribosome
Binding Site
Promoter
Codon
Optimization
AUC
AUA
AUU
AUC
AUU
6 Isoleucine
50% AUU
33% AUC
16% AUA
Common Codon
Modified from Maloy, S., V. Stewart, and R. Taylor. 1996. Genetic analysis of
pathogenic bacteria. Cold Spring Harbor Laboratory Press, NY.
AUC
AUA
AUC
AUC
AUU
6 Isoleucine
50% AUC
33% AUU
16% AUA
Fast Codon
Ng, C. Y., Farasat, I., Zomorrodi, A. R., Maranas, C. D. & Salis, H. M. Model-guided
construction and optimization of synthetic metabolism for chemical product synthesis.
Synthetic Biology Engineering Research Center Spring Retreat (2013), Berkeley, CA.
Constructed as gBlocks
Superfolder GFP
BBa_I746916
Green = Common
Blue = Rare
Yellow = Neither
RBS
Fast
Salis, Howard, Voight, Christopher, and Mirsky, Ethan. Automated design of synthetic ribosome
binding sites to control protein expression. Nature Biotechnology 27 (2009): 946 950. Web.
Sequence in Library
Northeast Woody/Warm-season
Biomass Consortium
Science-U
metabolic output
Automate these new technologies for future engineers
to use
QUESTIONS?