Genome-scale in silico modeling and analysis for designing synthetic terpenoid-producing microbial cell factories
暂无分享,去创建一个
Meiyappan Lakshmanan | Dong-Yup Lee | B. Mohanty | Dong-Yup Lee | Bevan Chung | Meiyappan Lakshmanan | M. Klement | Bevan Kai-Sheng Chung | Maximilian Klement | Bijayalaxmi Mohanty | Maximilian Klement | M. Lakshmanan
[1] J. Gershenzon,et al. The function of terpene natural products in the natural world. , 2007, Nature chemical biology.
[2] Santiago Garcia-Vallvé,et al. Working toward a new NIOSH. , 1996, Nucleic Acids Res..
[3] G. Bennett,et al. Metabolic engineering through cofactor manipulation and its effects on metabolic flux redistribution in Escherichia coli. , 2002, Metabolic engineering.
[4] J. Keasling,et al. Engineering a mevalonate pathway in Escherichia coli for production of terpenoids , 2003, Nature Biotechnology.
[5] M. Reuss,et al. In vivo analysis of metabolic dynamics in Saccharomyces cerevisiae : I. Experimental observations. , 1997, Biotechnology and bioengineering.
[6] Jay D. Keasling,et al. Biosynthesis and engineering of isoprenoid small molecules , 2007, Applied Microbiology and Biotechnology.
[7] A. Fürholz,et al. Crosstalk between cytosolic and plastidial pathways of isoprenoid biosynthesis in Arabidopsis thaliana , 2003, Proceedings of the National Academy of Sciences of the United States of America.
[8] A. Bacher,et al. Biosynthesis of isoprenoids via the non-mevalonate pathway , 2004, Cellular and Molecular Life Sciences CMLS.
[9] D. Ro,et al. Characterization of a Root-Specific Arabidopsis Terpene Synthase Responsible for the Formation of the Volatile Monoterpene 1,8-Cineole1 , 2004, Plant Physiology.
[10] G. W. Hatfield,et al. Optimizing scaleup yield for protein production: Computationally Optimized DNA Assembly (CODA) and Translation Engineering. , 2007, Biotechnology annual review.
[11] Jungwon Yoon,et al. The Arabidopsis Information Resource (TAIR): a model organism database providing a centralized, curated gateway to Arabidopsis biology, research materials and community , 2003, Nucleic Acids Res..
[12] J. Bohlmann,et al. Genes, enzymes and chemicals of terpenoid diversity in the constitutive and induced defence of conifers against insects and pathogens. , 2006, The New phytologist.
[13] Wolfram Weckwerth,et al. Proteome Analysis of Arabidopsis Leaf Peroxisomes Reveals Novel Targeting Peptides, Metabolic Pathways, and Defense Mechanisms[W] , 2007, The Plant Cell Online.
[14] S. Govindarajan,et al. Codon bias and heterologous protein expression. , 2004, Trends in biotechnology.
[15] Yanrui Ding,et al. QPSOBT: One codon usage optimization software for protein heterologous expression , 2010 .
[16] Jason A. Papin,et al. Applications of genome-scale metabolic reconstructions , 2009, Molecular systems biology.
[17] John R. Haliburton,et al. Optimization of a heterologous mevalonate pathway through the use of variant HMG-CoA reductases. , 2011, Metabolic engineering.
[18] Susumu Goto,et al. KEGG: Kyoto Encyclopedia of Genes and Genomes , 2000, Nucleic Acids Res..
[19] Mo Xian,et al. Biosynthesis of isoprene in Escherichia coli via methylerythritol phosphate (MEP) pathway , 2011, Applied Microbiology and Biotechnology.
[20] Junfeng Xue,et al. Enhancing Isoprene Production by Genetic Modification of the 1-Deoxy-d-Xylulose-5-Phosphate Pathway in Bacillus subtilis , 2011, Applied and Environmental Microbiology.
[21] F. Quétier,et al. Objective: The Complete Sequence of a Plant Genome. , 1997, The Plant cell.
[22] D. Gomez-Casati,et al. Characterization of an Arabidopsis thaliana mutant lacking a cytosolic non-phosphorylating glyceraldehyde-3-phosphate dehydrogenase , 2006, Plant Molecular Biology.
[23] Z. Sayers,et al. Heterelogous Expression of Plant Genes , 2009, International journal of plant genomics.
[24] D. Gidoni,et al. Peroxisomal Localization of Arabidopsis Isopentenyl Diphosphate Isomerases Suggests That Part of the Plant Isoprenoid Mevalonic Acid Pathway Is Compartmentalized to Peroxisomes1[W] , 2008, Plant Physiology.
[25] A. Aharoni,et al. Terpenoid Metabolism in Wild-Type and Transgenic Arabidopsis Plants Online version contains Web-only data. Article, publication date, and citation information can be found at www.plantcell.org/cgi/doi/10.1105/tpc.016253. , 2003, The Plant Cell Online.
[26] Keith E. J. Tyo,et al. Isoprenoid Pathway Optimization for Taxol Precursor Overproduction in Escherichia coli , 2010, Science.
[27] S. Lee,et al. Metabolic flux analysis and metabolic engineering of microorganisms. , 2008, Molecular bioSystems.
[28] D. Fell,et al. A Genome-Scale Metabolic Model of Arabidopsis and Some of Its Properties1[C][W] , 2009, Plant Physiology.
[29] H. Sahm,et al. Isoprenoid biosynthesis in bacteria: a novel pathway for the early steps leading to isopentenyl diphosphate. , 1993, The Biochemical journal.
[30] Adam M. Feist,et al. A comprehensive genome-scale reconstruction of Escherichia coli metabolism—2011 , 2011, Molecular systems biology.
[31] Jungoh Ahn,et al. Genome-scale metabolic reconstruction and in silico analysis of methylotrophic yeast Pichia pastoris for strain improvement , 2010, Microbial cell factories.
[32] C. Chassagnole,et al. Dynamic modeling of the central carbon metabolism of Escherichia coli. , 2002, Biotechnology and bioengineering.
[33] C. Maranas,et al. Zea mays iRS1563: A Comprehensive Genome-Scale Metabolic Reconstruction of Maize Metabolism , 2011, PloS one.
[34] J. Gershenzon,et al. Two sesquiterpene synthases are responsible for the complex mixture of sesquiterpenes emitted from Arabidopsis flowers. , 2005, The Plant journal : for cell and molecular biology.
[35] Jay D. Keasling,et al. High-Level Production of Amorpha-4,11-Diene, a Precursor of the Antimalarial Agent Artemisinin, in Escherichia coli , 2009, PloS one.
[36] A. Negi,et al. Plant-based anticancer molecules: a chemical and biological profile of some important leads. , 2005, Bioorganic & medicinal chemistry.
[37] J. Keasling,et al. Metabolic engineering of the nonmevalonate isopentenyl diphosphate synthesis pathway in Escherichia coli enhances lycopene production. , 2001, Biotechnology and bioengineering.
[38] Patrick Murray,et al. Metabolic engineering for improved microbial pentose fermentation , 2010, Bioengineered bugs.
[39] J. Gershenzon,et al. Biosynthesis and Emission of Terpenoid Volatiles from Arabidopsis Flowers Article, publication date, and citation information can be found at www.plantcell.org/cgi/doi/10.1105/tpc.007989. , 2003, The Plant Cell Online.
[40] J. Liao,et al. Statins and cardiovascular diseases: from cholesterol lowering to pleiotropy. , 2009, Current pharmaceutical design.
[41] Dong-Yup Lee,et al. Flux-sum analysis: a metabolite-centric approach for understanding the metabolic network , 2009, BMC Systems Biology.
[42] A. Hemmerlin,et al. Cross-talk between the Cytosolic Mevalonate and the Plastidial Methylerythritol Phosphate Pathways in Tobacco Bright Yellow-2 Cells* , 2003, Journal of Biological Chemistry.
[43] U. Sauer,et al. The Soluble and Membrane-bound Transhydrogenases UdhA and PntAB Have Divergent Functions in NADPH Metabolism of Escherichia coli* , 2004, Journal of Biological Chemistry.
[44] N. Price,et al. Genome-Scale Consequences of Cofactor Balancing in Engineered Pentose Utilization Pathways in Saccharomyces cerevisiae , 2011, PloS one.
[45] Bernhard O. Palsson,et al. Connecting Extracellular Metabolomic Measurements to Intracellular Flux States in Yeast , 2022 .
[46] Andreas Liese,et al. Biocatalytic ketone reduction—a powerful tool for the production of chiral alcohols—part II: whole-cell reductions , 2007, Applied Microbiology and Biotechnology.
[47] Sang Yup Lee,et al. Metabolite essentiality elucidates robustness of Escherichia coli metabolism , 2007, Proceedings of the National Academy of Sciences.
[48] L. Carretero-Paulet,et al. Expression and Molecular Analysis of the ArabidopsisDXR Gene Encoding 1-Deoxy-d-Xylulose 5-Phosphate Reductoisomerase, the First Committed Enzyme of the 2-C-Methyl-d-Erythritol 4-Phosphate Pathway1 , 2002, Plant Physiology.
[49] Alan Villalobos,et al. Gene Designer: a synthetic biology tool for constructing artificial DNA segments , 2006, BMC Bioinformatics.
[50] S. Jennewein,et al. Metabolic engineering of taxadiene biosynthesis in yeast as a first step towards Taxol (Paclitaxel) production. , 2008, Metabolic engineering.
[51] M. Rodríguez-Concepcíon,et al. Elucidation of the Methylerythritol Phosphate Pathway for Isoprenoid Biosynthesis in Bacteria and Plastids. A Metabolic Milestone Achieved through Genomics1 , 2002, Plant Physiology.
[52] L. Quek,et al. AraGEM, a Genome-Scale Reconstruction of the Primary Metabolic Network in Arabidopsis1[W] , 2009, Plant Physiology.
[53] Huimin Zhao,et al. Altering Enzyme Substrate and Cofactor Specificity via Protein Engineering , 2011 .
[54] Jay D. Keasling,et al. Identification and microbial production of a terpene-based advanced biofuel , 2011, Nature communications.
[55] W. Eisenreich,et al. Isoprenoid biosynthetic pathways as anti-infective drug targets. , 2005, Biochemical Society transactions.
[56] Wilhelm Gruissem,et al. Biochemistry & Molecular Biology of Plants , 2002 .
[57] M. Rohmer,et al. Isoprenoid biosynthesis via the methylerythritol phosphate pathway: the (E)‐4‐hydroxy‐3‐methylbut‐2‐enyl diphosphate reductase (LytB/IspH) from Escherichia coli is a [4Fe–4S] protein , 2003, FEBS letters.
[58] Yong Wang,et al. In silico analysis and experimental improvement of taxadiene heterologous biosynthesis in Escherichia coli , 2011 .
[59] J. Sacchettini,et al. Creating Isoprenoid Diversity , 1997, Science.
[60] K. Bloch. Sterol molecule: structure, biosynthesis, and function , 1992, Steroids.
[61] M. Elowitz,et al. Synthetic Biology: Integrated Gene Circuits , 2011, Science.