Engineering metabolism through dynamic control.
暂无分享,去创建一个
Nikolaos Anesiadis | William R Cluett | Radhakrishnan Mahadevan | Naveen Venayak | W. R. Cluett | R. Mahadevan | Nikolaos Anesiadis | Naveen Venayak
[1] A. Serganov,et al. A Decade of Riboswitches , 2013, Cell.
[2] T. Hwa,et al. Growth Rate-Dependent Global Effects on Gene Expression in Bacteria , 2009, Cell.
[3] Jay D. Keasling,et al. Engineering Static and Dynamic Control of Synthetic Pathways , 2010, Cell.
[4] Yue Chen,et al. Comprehensive profiling of protein lysine acetylation in Escherichia coli. , 2013, Journal of proteome research.
[5] Guo-Ping Zhao,et al. Acetylation of Metabolic Enzymes Coordinates Carbon Source Utilization and Metabolic Flux , 2010, Science.
[6] C. Nakamura,et al. Metabolic engineering for the microbial production of 1,3-propanediol. , 2003, Current opinion in biotechnology.
[7] B. Palsson,et al. Constraining the metabolic genotype–phenotype relationship using a phylogeny of in silico methods , 2012, Nature Reviews Microbiology.
[8] Mary J. Dunlop,et al. Synthetic Feedback Loop Model for Increasing Microbial Biofuel Production Using a Biosensor , 2012, Front. Microbio..
[9] F. Doyle,et al. Dynamic flux balance analysis of diauxic growth in Escherichia coli. , 2002, Biophysical journal.
[10] R. Sauer,et al. Role of a Peptide Tagging System in Degradation of Proteins Synthesized from Damaged Messenger RNA , 1996, Science.
[11] Brian F. Pfleger,et al. Application of Functional Genomics to Pathway Optimization for Increased Isoprenoid Production , 2008, Applied and Environmental Microbiology.
[12] G. Fink,et al. Regulation of Amino Acid and Nucleotide Biosynthesis in Yeast , 1982 .
[13] Wei Shen,et al. Genetically switched D-lactate production in Escherichia coli. , 2012, Metabolic engineering.
[14] F. Blattner,et al. In silico design and adaptive evolution of Escherichia coli for production of lactic acid. , 2005, Biotechnology and bioengineering.
[15] Tyler J. Ford,et al. Tailored fatty acid synthesis via dynamic control of fatty acid elongation , 2013, Proceedings of the National Academy of Sciences.
[16] Jeffrey J. Tabor,et al. Characterizing bacterial gene circuit dynamics with optically programmed gene expression signals , 2014, Nature Methods.
[17] William R Cluett,et al. EMILiO: a fast algorithm for genome-scale strain design. , 2011, Metabolic engineering.
[18] Christopher A. Voigt,et al. Genetic circuit performance under conditions relevant for industrial bioreactors. , 2012, ACS synthetic biology.
[19] R. Mosteller,et al. Metabolism of individual proteins in exponentially growing Escherichia coli. , 1980, The Journal of biological chemistry.
[20] A. Burgard,et al. Optknock: A bilevel programming framework for identifying gene knockout strategies for microbial strain optimization , 2003, Biotechnology and bioengineering.
[21] C. Tomlin,et al. Expression-level optimization of a multi-enzyme pathway in the absence of a high-throughput assay , 2013, Nucleic acids research.
[22] Sang Yup Lee,et al. Rapid one‐step inactivation of single or multiple genes in Escherichia coli , 2013, Biotechnology journal.
[23] B. Palsson,et al. Stoichiometric flux balance models quantitatively predict growth and metabolic by-product secretion in wild-type Escherichia coli W3110 , 1994, Applied and environmental microbiology.
[24] J. Keasling,et al. Engineering microbial biofuel tolerance and export using efflux pumps , 2011, Molecular systems biology.
[25] J. Keasling,et al. Design of a dynamic sensor-regulator system for production of chemicals and fuels derived from fatty acids , 2012, Nature Biotechnology.
[26] Jeong Wook Lee,et al. Systems metabolic engineering of microorganisms for natural and non-natural chemicals. , 2012, Nature chemical biology.
[27] J. Keasling,et al. High-level semi-synthetic production of the potent antimalarial artemisinin , 2013, Nature.
[28] S. Lee,et al. Production of succinic acid by bacterial fermentation , 2006 .
[29] U. Sauer,et al. Regulation of yeast central metabolism by enzyme phosphorylation , 2012, Molecular systems biology.
[30] James J Collins,et al. Insulating gene circuits from context by RNA processing , 2012, Nature Biotechnology.
[31] T. Hwa,et al. Interdependence of Cell Growth and Gene Expression: Origins and Consequences , 2010, Science.
[32] Carola Engler,et al. A One Pot, One Step, Precision Cloning Method with High Throughput Capability , 2008, PloS one.
[33] Adam P Arkin,et al. Versatile RNA-sensing transcriptional regulators for engineering genetic networks , 2011, Proceedings of the National Academy of Sciences.
[34] Christopher A. Voigt,et al. Ribozyme-based insulator parts buffer synthetic circuits from genetic context , 2012, Nature Biotechnology.
[35] R. Mahadevan,et al. Estimating optimal profiles of genetic alterations using constraint-based models. , 2005, Biotechnology and bioengineering.
[36] Stephen J. Van Dien,et al. From the first drop to the first truckload: commercialization of microbial processes for renewable chemicals. , 2013 .
[37] Germán L. Rosano,et al. Recombinant protein expression in Escherichia coli: advances and challenges , 2014, Front. Microbiol..
[38] Kate Thodey,et al. Applications of genetically-encoded biosensors for the construction and control of biosynthetic pathways. , 2012, Metabolic engineering.
[39] Maxime Durot,et al. Rapid and reliable DNA assembly via ligase cycling reaction. , 2014, ACS synthetic biology.
[40] Wei Shen,et al. Evaluation of Genetic Manipulation Strategies on d-Lactate Production by Escherichia coli , 2011, Current Microbiology.
[41] J. Collins,et al. Programmable cells: interfacing natural and engineered gene networks. , 2004, Proceedings of the National Academy of Sciences of the United States of America.
[42] G. Stephanopoulos,et al. Improving fatty acids production by engineering dynamic pathway regulation and metabolic control , 2014, Proceedings of the National Academy of Sciences.
[43] A. Goldberg,et al. Intracellular protein degradation in mammalian and bacterial cells: Part 2. , 1976, Annual review of biochemistry.
[44] J. Keasling,et al. Engineering dynamic pathway regulation using stress-response promoters , 2013, Nature Biotechnology.
[45] A. Goldberg,et al. Intracellular protein degradation in mammalian and bacterial cells. , 1974, Annual review of biochemistry.
[46] B. Wanner,et al. One-step inactivation of chromosomal genes in Escherichia coli K-12 using PCR products. , 2000, Proceedings of the National Academy of Sciences of the United States of America.
[47] Ali R. Zomorrodi,et al. Mathematical optimization applications in metabolic networks. , 2012, Metabolic engineering.
[48] V. Martin,et al. Reconstitution of a 10-gene pathway for synthesis of the plant alkaloid dihydrosanguinarine in Saccharomyces cerevisiae , 2014, Nature Communications.
[49] Uri Alon,et al. An Introduction to Systems Biology , 2006 .
[50] Hideki Kobayashi,et al. Analysis and design of a genetic circuit for dynamic metabolic engineering. , 2013, ACS synthetic biology.
[51] Steffen Klamt,et al. Enumeration of Smallest Intervention Strategies in Genome-Scale Metabolic Networks , 2014, PLoS Comput. Biol..
[52] Adam P Arkin,et al. RNA processing enables predictable programming of gene expression , 2012, Nature Biotechnology.
[53] J. Liao,et al. Non-fermentative pathways for synthesis of branched-chain higher alcohols as biofuels , 2008, Nature.
[54] W. R. Cluett,et al. Dynamic strain scanning optimization: an efficient strain design strategy for balanced yield, titer, and productivity. DySScO strategy for strain design , 2013, BMC Biotechnology.
[55] H. Salis,et al. Efficient search, mapping, and optimization of multi‐protein genetic systems in diverse bacteria , 2014 .
[56] Ahmad S. Khalil,et al. Synthetic biology: applications come of age , 2010, Nature Reviews Genetics.
[57] G. Barth,et al. Engineering the α-ketoglutarate overproduction from raw glycerol by overexpression of the genes encoding NADP+-dependent isocitrate dehydrogenase and pyruvate carboxylase in Yarrowia lipolytica , 2013, Applied Microbiology and Biotechnology.
[58] G. Stephanopoulos,et al. Optimization of a heterologous pathway for the production of flavonoids from glucose. , 2011, Metabolic engineering.
[59] Adam M. Feist,et al. A comprehensive genome-scale reconstruction of Escherichia coli metabolism—2011 , 2011, Molecular systems biology.
[60] Jay D. Keasling,et al. A model for improving microbial biofuel production using a synthetic feedback loop , 2010, Systems and Synthetic Biology.
[61] J. Micklefield,et al. Reengineering orthogonally selective riboswitches , 2010, Proceedings of the National Academy of Sciences.
[62] Arkady B. Khodursky,et al. Global analysis of mRNA decay and abundance in Escherichia coli at single-gene resolution using two-color fluorescent DNA microarrays , 2002, Proceedings of the National Academy of Sciences of the United States of America.
[63] Adam P Arkin,et al. Supplementary information for Rationally designed families of orthogonal RNA regulators of translation , 2012 .
[64] Christina D Smolke,et al. Synthetic RNA switches as a tool for temporal and spatial control over gene expression. , 2012, Current opinion in biotechnology.
[65] Terence Hwa,et al. Bacterial growth: global effects on gene expression, growth feedback and proteome partition. , 2014, Current opinion in biotechnology.
[66] R. Breaker. Prospects for riboswitch discovery and analysis. , 2011, Molecular cell.
[67] W. R. Cluett,et al. Dynamic metabolic engineering for increasing bioprocess productivity. , 2008, Metabolic engineering.
[68] G. Williams,et al. The relative rates of protein synthesis and degradation in a growing culture of Escherichia coli. , 1980, The Journal of biological chemistry.
[69] Bernhard Ø. Palsson,et al. Genetic Basis of Growth Adaptation of Escherichia coli after Deletion of pgi, a Major Metabolic Gene , 2010, PLoS genetics.
[70] U. Sauer,et al. Coordination of microbial metabolism , 2014, Nature Reviews Microbiology.
[71] Peng Xu,et al. Design and kinetic analysis of a hybrid promoter-regulator system for malonyl-CoA sensing in Escherichia coli. , 2014, ACS chemical biology.
[72] R. Breaker,et al. Genetic Control by Metabolite‐Binding Riboswitches , 2003, Chembiochem : a European journal of chemical biology.
[73] Kevin V Solomon,et al. Tuning primary metabolism for heterologous pathway productivity. , 2013, ACS synthetic biology.
[74] T. Hanai,et al. Metabolic flux redirection from a central metabolic pathway toward a synthetic pathway using a metabolic toggle switch. , 2014, Metabolic engineering.
[75] Christopher A. Voigt,et al. Genetic programs constructed from layered logic gates in single cells , 2012, Nature.
[76] D. G. Gibson,et al. Enzymatic assembly of DNA molecules up to several hundred kilobases , 2009, Nature Methods.
[77] Mohammad M. Ataai,et al. Pyruvate Kinase-Deficient Escherichia coli Exhibits Increased Plasmid Copy Number and Cyclic AMP Levels , 2009, Journal of bacteriology.
[78] K. Shanmugam,et al. Fermentation of 10% (w/v) Sugar to D(−)-Lactate by Engineered Escherichia coli B , 2005, Biotechnology Letters.
[79] L. Nielsen,et al. Quorum-sensing linked RNA interference for dynamic metabolic pathway control in Saccharomyces cerevisiae. , 2015, Metabolic engineering.
[80] Peng Xu,et al. ePathBrick: a synthetic biology platform for engineering metabolic pathways in E. coli. , 2012, ACS synthetic biology.
[81] A. Burgard,et al. Metabolic engineering of Escherichia coli for direct production of 1,4-butanediol. , 2011, Nature chemical biology.
[82] Christopher A. Voigt,et al. Automated design of synthetic ribosome binding sites to control protein expression , 2016 .
[83] M. Gerstein,et al. Global analysis of protein phosphorylation in yeast , 2005, Nature.
[84] John D. Storey,et al. Precision and functional specificity in mRNA decay , 2002, Proceedings of the National Academy of Sciences of the United States of America.
[85] Kevin V. Solomon,et al. A dynamic metabolite valve for the control of central carbon metabolism. , 2012, Metabolic engineering.
[86] W. R. Farmer,et al. Improving lycopene production in Escherichia coli by engineering metabolic control , 2000, Nature Biotechnology.