User:Jarle Pahr/Metabolic engineering

Notes on metabolic engineering:

sb6.biobricks.org/poster/fitness-and-flux-in-bacterial-metabolism/

Tools

Copeland 2012. Computational tools for metabolic engineering: http://www.sciencedirect.com/science/article/pii/S1096717612000250

Keasling 2012. Synthetic biology and the development of tools for metabolic engineering: http://www.sciencedirect.com/science/article/pii/S1096717612000055

D. Chandran, F.T. Bergmann, H.M. Sauro. Computer-aided design of biological circuits using TinkerCell.

KEGG:

MetaCyc:

Model SEED:

BiGG:

Persons and researchg groups

Gregory Stephanopoulos

Jay D Keasling.

Journals

Metabolic Engineering: http://www.journals.elsevier.com/metabolic-engineering/

Bioengineered

Microbial Cell factories

Journal of Biological Engineering

Metabolomics

Bibliography

Modification of glucose import capacity in Escherichia coli: physiologic consequences and utility for improving DNA vaccine production: http://www.microbialcellfactories.com/content/12/1/42

http://www.frontiersin.org/Microbiotechnology,_Ecotoxicology_and_Bioremediation/10.3389/fmicb.2013.00200/abstract

http://www.ncbi.nlm.nih.gov/pubmed/10511704

Demain, A.L. and S. Sanches. 2007. Microbial synthesis of primary metabolites: Current advances and future prospects. In Fermentation microbiology and biotechnology (eds. Mansi, Bryce, Demain and Allman).

Non-fermentative pathways for synthesis of branched-chain higher alcohols as biofuels: http://www.nature.com/nature/journal/v451/n7174/full/nature06450.html

Metabolic engineeringof Escherichia coli for theproductionofsuccinate from glycerol: http://www.sciencedirect.com/science/article/pii/S1096717610000698

Microbial production of fatty-acid-derived fuels and chemicals from plant biomass: http://www.nature.com/nature/journal/v463/n7280/full/nature08721.html

http://www.ncbi.nlm.nih.gov/pubmed/21241816

ePathBrick: A Synthetic Biology Platform for Engineering Metabolic Pathways in E. coli

Synthetic biology devices as tools for metabolic engineering: http://www.sciencedirect.com/science/article/pii/S1369703X12000903

Parts plus pipes: Synthetic biology approaches to metabolic engineering: http://www.sciencedirect.com/science/article/pii/S1096717611001042

Martin, V. J. , Pitera, D. J. , Withers, S. T. , Newman, J. D. & Keasling, J. D. Engineering a mevalonate pathway in Escherichia coli for production of terpenoids. Nature Biotechnol. 21, 796–802 (2003

P.D. Karp, R. Caspi. A survey of metabolic databases emphasizing the MetaCyc family

http://www.amazon.com/Reprogramming-Microbial-Metabolic-Subcellular-Biochemistry/dp/9400750544/ref=sr_1_2?s=books&ie=UTF8&qid=1373902356&sr=1-2&keywords=Synthetic+Biology%3A+Tools+and+Applications