From dirt to industrial applications: Pseudomonas putida as a Synthetic Biology chassis for hosting harsh biochemical reactions.
暂无分享,去创建一个
Antoine Danchin | Víctor de Lorenzo | Max Chavarría | Pablo I Nikel | A. Danchin | V. de Lorenzo | P. Nikel | M. Chavarría
[1] Sam Dukan,et al. Protein Aggregates: an Aging Factor Involved in Cell Death , 2008, Journal of bacteriology.
[2] Jens Nielsen,et al. Impact of synthetic biology and metabolic engineering on industrial production of fine chemicals. , 2015, Biotechnology advances.
[3] Patrick Sobetzko. Transcription-coupled DNA supercoiling dictates the chromosomal arrangement of bacterial genes , 2016, Nucleic acids research.
[4] S. Lee,et al. Systems strategies for developing industrial microbial strains , 2015, Nature Biotechnology.
[5] Benjamin E. Rubin,et al. The circadian oscillator in Synechococcus elongatus controls metabolite partitioning during diurnal growth , 2015, Proceedings of the National Academy of Sciences.
[6] J. Keasling,et al. Synthetic and systems biology for microbial production of commodity chemicals , 2016, npj Systems Biology and Applications.
[7] V. M. D. Martins dos Santos,et al. Programmable bacterial catalysis – designing cells for biosynthesis of value‐added compounds , 2012, FEBS letters.
[8] T. Conway,et al. What’s for Dinner?: Entner-Doudoroff Metabolism inEscherichia coli , 1998, Journal of bacteriology.
[9] Christopher A. Voigt,et al. Synthetic biology to access and expand nature's chemical diversity , 2016, Nature Reviews Microbiology.
[10] D. Fell,et al. A general definition of metabolic pathways useful for systematic organization and analysis of complex metabolic networks , 2000, Nature Biotechnology.
[11] J. Roth,et al. Evidence that a Metabolic Microcompartment Contains and Recycles Private Cofactor Pools , 2013, Journal of bacteriology.
[12] D. G. Gibson,et al. Design and synthesis of a minimal bacterial genome , 2016, Science.
[13] Carbohydrate cycling in micro-organisms: what can (13)C-NMR tell us? , 2002, FEMS microbiology reviews.
[14] P. Nikel,et al. Quantitative Physiology Approaches to Understand and Optimize Reducing Power Availability in Environmental Bacteria , 2015 .
[15] S. J. Lee,et al. Design and development of synthetic microbial platform cells for bioenergy , 2013, Front. Microbiol..
[16] A. Danchin,et al. The logic of metabolism and its fuzzy consequences. , 2014, Environmental microbiology.
[17] Natalio Krasnogor,et al. The ten grand challenges of synthetic life , 2011, Systems and Synthetic Biology.
[18] John C. Chaput,et al. Synthetic Genetic Polymers Capable of Heredity and Evolution , 2012, Science.
[19] Thilo Gross,et al. Supplemental Information Fission Yeast Does Not Age under Favorable Conditions , but Does So after Stress , 2017 .
[20] Jeffrey D Varner,et al. Engineering the spatial organization of metabolic enzymes: mimicking nature's synergy. , 2008, Current opinion in biotechnology.
[21] M. Watve,et al. Evolution of Aging and Death: What Insights Bacteria Can Provide , 2014, The Quarterly Review of Biology.
[22] Juhan Kim,et al. Inhibitory cross-talk upon introduction of a new metabolic pathway into an existing metabolic network , 2012, Proceedings of the National Academy of Sciences.
[23] L. Blank,et al. The Functional Structure of Central Carbon Metabolism in Pseudomonas putida KT2440 , 2014, Applied and Environmental Microbiology.
[24] C. Wittmann,et al. Industrial biotechnology of Pseudomonas putida and related species , 2012, Applied Microbiology and Biotechnology.
[25] U. Sauer,et al. Posttranslational regulation of microbial metabolism. , 2015, Current opinion in microbiology.
[26] Christopher A. Voigt,et al. Advances in genetic circuit design: novel biochemistries, deep part mining, and precision gene expression. , 2013, Current opinion in chemical biology.
[27] Christopher W. Johnson,et al. Opportunities and challenges in biological lignin valorization. , 2016, Current Opinion in Biotechnology.
[28] V. de Lorenzo,et al. The Entner-Doudoroff pathway empowers Pseudomonas putida KT2440 with a high tolerance to oxidative stress. , 2013, Environmental microbiology.
[29] Sang Yup Lee,et al. In silico genome-scale metabolic analysis of Pseudomonas putida KT2440 for polyhydroxyalkanoate synthesis, degradation of aromatics and anaerobic survival. , 2010, Biotechnology journal.
[30] Eduardo Díaz,et al. Genomic analysis of the aromatic catabolic pathways from Pseudomonas putida KT2440. , 2002, Environmental microbiology.
[31] J. Collet,et al. Reducing systems protecting the bacterial cell envelope from oxidative damage , 2015, FEBS letters.
[32] Tau-Mu Yi,et al. Synthetic Morphology Using Alternative Inputs , 2009, PloS one.
[33] Bernhard O. Palsson,et al. A genome-scale metabolic reconstruction of Pseudomonas putida KT2440: iJN746 as a cell factory , 2008, BMC Systems Biology.
[34] Gregory Stephanopoulos,et al. Synthetic biology and metabolic engineering. , 2012, ACS synthetic biology.
[35] O. White,et al. Complete genome sequence and comparative analysis of the metabolically versatile Pseudomonas putida KT2440. , 2002, Environmental microbiology.
[36] V. Lorenzo. From the selfish gene to selfish metabolism: revisiting the central dogma. , 2014 .
[37] J. Liao,et al. Fuelling the future: microbial engineering for the production of sustainable biofuels , 2016, Nature Reviews Microbiology.
[38] U. Jakob,et al. Protein quality control under oxidative stress conditions. , 2015, Journal of molecular biology.
[39] J. Ramos,et al. Mechanisms of solvent resistance mediated by interplay of cellular factors in Pseudomonas putida. , 2015, FEMS microbiology reviews.
[40] Ruben G. A. van Heck,et al. The revisited genome of Pseudomonas putida KT2440 enlightens its value as a robust metabolic chassis. , 2016, Environmental microbiology.
[41] Korneel Rabaey,et al. Anoxic metabolism and biochemical production in Pseudomonas putida F1 driven by a bioelectrochemical system , 2016, Biotechnology for Biofuels.
[42] Elizabeth J Harry,et al. You Are What You Eat: Metabolic Control of Bacterial Division. , 2016, Trends in microbiology.
[43] Antoine Danchin,et al. Chemical reactivity drives spatiotemporal organisation of bacterial metabolism. , 2014, FEMS microbiology reviews.
[44] Natalia N. Ivanova,et al. Facile Recoding of Selenocysteine in Nature. , 2016, Angewandte Chemie.
[45] Xueyang Feng,et al. Invariability of central metabolic flux distribution in Shewanella oneidensis MR‐1 under environmental or genetic perturbations , 2009, Biotechnology progress.
[46] V. de Lorenzo,et al. New Transposon Tools Tailored for Metabolic Engineering of Gram-Negative Microbial Cell Factories , 2014, Front. Bioeng. Biotechnol..
[47] Jisun Kim,et al. Oxidative stress response in Pseudomonas putida , 2014, Applied Microbiology and Biotechnology.
[48] D. Spiteller,et al. Entner–Doudoroff pathway for sulfoquinovose degradation in Pseudomonas putida SQ1 , 2015, Proceedings of the National Academy of Sciences.
[49] Víctor de Lorenzo,et al. SEVA 2.0: an update of the Standard European Vector Architecture for de-/re-construction of bacterial functionalities , 2014, Nucleic Acids Res..
[50] G. Stephanopoulos,et al. Accessing Nature’s diversity through metabolic engineering and synthetic biology , 2016, F1000Research.
[51] A. Prieto,et al. A holistic view of polyhydroxyalkanoate metabolism in Pseudomonas putida. , 2016, Environmental microbiology.
[52] J. Davies,et al. Synthetic morphology: prospects for engineered, self‐constructing anatomies , 2008, Journal of anatomy.
[53] Weiwen Zhang,et al. Cyanobacterial chassis engineering for enhancing production of biofuels and chemicals , 2016, Applied Microbiology and Biotechnology.
[54] R. Breitling,et al. Bacterial Microcompartments: Biomaterials for Synthetic Biology-Based Compartmentalization Strategies. , 2015, ACS biomaterials science & engineering.
[55] Antoine Danchin,et al. Scaling up synthetic biology: Do not forget the chassis , 2012, FEBS letters.
[56] U. Sauer,et al. Convergent Peripheral Pathways Catalyze Initial Glucose Catabolism in Pseudomonas putida: Genomic and Flux Analysis , 2007, Journal of bacteriology.
[57] J. Tamames,et al. Bringing gene order into bacterial shape. , 2001, Trends in genetics : TIG.
[58] A. Danchin. Bacteria as computers making computers , 2008, FEMS microbiology reviews.
[59] Víctor de Lorenzo,et al. The private life of environmental bacteria: pollutant biodegradation at the single cell level. , 2014, Environmental microbiology.
[60] C. O’Hern,et al. The Bacterial Cytoplasm Has Glass-like Properties and Is Fluidized by Metabolic Activity , 2014, Cell.
[61] Víctor de Lorenzo,et al. Genetic programming of catalytic Pseudomonas putida biofilms for boosting biodegradation of haloalkanes. , 2016, Metabolic engineering.
[62] U. Sauer,et al. Pseudomonas putida KT2440 Strain Metabolizes Glucose through a Cycle Formed by Enzymes of the Entner-Doudoroff, Embden-Meyerhof-Parnas, and Pentose Phosphate Pathways* , 2015, The Journal of Biological Chemistry.
[63] K. Timmis,et al. Insights into the genomic basis of niche specificity of Pseudomonas putida KT2440. , 2004, Environmental microbiology.
[64] Lars M. Blank,et al. Response of Pseudomonas putida KT2440 to Increased NADH and ATP Demand , 2011, Applied and Environmental Microbiology.
[65] V. de Lorenzo,et al. Engineering an anaerobic metabolic regime in Pseudomonas putida KT2440 for the anoxic biodegradation of 1,3-dichloroprop-1-ene. , 2013, Metabolic engineering.
[66] Víctor de Lorenzo,et al. The Glycerol-Dependent Metabolic Persistence of Pseudomonas putida KT2440 Reflects the Regulatory Logic of the GlpR Repressor , 2015, mBio.
[67] Juhyun Kim,et al. The Standard European Vector Architecture (SEVA): a coherent platform for the analysis and deployment of complex prokaryotic phenotypes , 2012, Nucleic Acids Res..
[68] P. Marlière,et al. A Metabolic Prototype for Eliminating Tryptophan From The Genetic Code , 2013, Scientific Reports.
[69] Mariliis Tark-Dame,et al. Bacterial chromatin: converging views at different scales. , 2016, Current opinion in cell biology.
[70] M. Laub,et al. Bacterial chromosome organization and segregation. , 2015, Annual review of cell and developmental biology.
[71] R. Milo,et al. Rethinking glycolysis: on the biochemical logic of metabolic pathways. , 2012, Nature chemical biology.
[72] V. de Lorenzo. From the selfish gene to selfish metabolism: revisiting the central dogma. , 2014, BioEssays : news and reviews in molecular, cellular and developmental biology.
[73] Byung-Kwan Cho,et al. Minimal genome: Worthwhile or worthless efforts toward being smaller? , 2016, Biotechnology journal.
[74] Christopher W. Johnson,et al. Aromatic catabolic pathway selection for optimal production of pyruvate and lactate from lignin. , 2015, Metabolic engineering.
[75] M. V. Mendes,et al. Chassis optimization as a cornerstone for the application of synthetic biology based strategies in microbial secondary metabolism , 2015, Front. Microbiol..
[76] Stephan Thies,et al. Pseudomonas putida—a versatile host for the production of natural products , 2015, Applied Microbiology and Biotechnology.
[77] R. Takors,et al. Genome reduction boosts heterologous gene expression in Pseudomonas putida , 2015, Microbial Cell Factories.
[78] Eugene V Koonin,et al. Evolution of genome architecture. , 2009, The international journal of biochemistry & cell biology.
[79] K. Ghosh,et al. Proteome Folding Kinetics Is Limited by Protein Halflife , 2014, PloS one.
[80] Guoqiang Chen,et al. Morphology engineering of bacteria for bio-production. , 2016, Biotechnology advances.
[81] U. Sauer,et al. Coordination of microbial metabolism , 2014, Nature Reviews Microbiology.
[82] Christopher W. Johnson,et al. Lignin valorization through integrated biological funneling and chemical catalysis , 2014, Proceedings of the National Academy of Sciences.
[83] Thomas Nyström,et al. Role of oxidative carbonylation in protein quality control and senescence , 2005, The EMBO journal.
[84] Nick Wierckx,et al. Engineering mediator-based electroactivity in the obligate aerobic bacterium Pseudomonas putida KT2440 , 2015, Front. Microbiol..
[85] V. de Lorenzo,et al. The metabolic cost of flagellar motion in Pseudomonas putida KT2440. , 2014, Environmental microbiology.
[86] K. Timmis,et al. Pedigree and taxonomic credentials of Pseudomonas putida strain KT2440. , 2002, Environmental microbiology.
[87] V. Longo,et al. Assessing chronological aging in bacteria. , 2013, Methods in molecular biology.
[88] C. Trinh,et al. Rational design of efficient modular cells. , 2015, Metabolic engineering.
[89] T. Hwa,et al. Overflow metabolism in E. coli results from efficient proteome allocation , 2015, Nature.
[90] Víctor de Lorenzo,et al. Metabolic and regulatory rearrangements underlying glycerol metabolism in Pseudomonas putida KT2440. , 2014, Environmental microbiology.
[91] Jason A. Papin,et al. Genome-Scale Reconstruction and Analysis of the Pseudomonas putida KT2440 Metabolic Network Facilitates Applications in Biotechnology , 2008, PLoS Comput. Biol..
[92] V. Lorenzo,et al. Biotechnological domestication of pseudomonads using synthetic biology , 2014, Nature Reviews Microbiology.
[93] P. Holliger,et al. Directed evolution of artificial enzymes (XNAzymes) from diverse repertoires of synthetic genetic polymers , 2015, Nature Protocols.
[94] P. Nikel,et al. Escherichia coli redox mutants as microbial cell factories for the synthesis of reduced biochemicals , 2012, Computational and structural biotechnology journal.
[95] Gregg T. Beckham,et al. Adipic acid production from lignin , 2015 .
[96] R. Milo,et al. Central carbon metabolism as a minimal biochemical walk between precursors for biomass and energy. , 2010, Molecular cell.
[97] D. Mazel,et al. Genomic Location of the Major Ribosomal Protein Gene Locus Determines Vibrio cholerae Global Growth and Infectivity , 2015, PLoS genetics.