TY - JOUR AU - de Bont, J. PY - 1998 DA - 1998// TI - Solvent-tolerant bacteria in biocatalysis JO - Trends Biotechnol VL - 16 UR - https://doi.org/10.1016/S0167-7799(98)01234-7 DO - 10.1016/S0167-7799(98)01234-7 ID - de Bont1998 ER - TY - JOUR AU - Ramos, J. L. AU - Duque, E. AU - Gallegos, M. T. AU - Godoy, P. AU - Ramos-Gonzalez, M. I. AU - Rojas, A. AU - Teran, W. AU - Segura, A. PY - 2002 DA - 2002// TI - Mechanisms of solvent tolerance in gram-negative bacteria JO - Annu Rev Microbiol VL - 56 UR - https://doi.org/10.1146/annurev.micro.56.012302.161038 DO - 10.1146/annurev.micro.56.012302.161038 ID - Ramos2002 ER - TY - JOUR AU - Wackett, L. P. PY - 2003 DA - 2003// TI - Pseudomonas putida - a versatile biocatalyst JO - Nat Biotechnol VL - 21 UR - https://doi.org/10.1038/nbt0203-136 DO - 10.1038/nbt0203-136 ID - Wackett2003 ER - TY - JOUR AU - Santos VAP, M. d. AU - Heim, S. AU - Strätz, M. AU - Timmis, K. N. PY - 2004 DA - 2004// TI - Insights into the genomic basis of niche specificity of Pseudomonas putida strain KT2440 JO - Environ Microbiol VL - 6 UR - https://doi.org/10.1111/j.1462-2920.2004.00734.x DO - 10.1111/j.1462-2920.2004.00734.x ID - Santos VAP2004 ER - TY - JOUR AU - Poblete-Castro, I. AU - Becker, J. AU - Dohnt, K. AU - dos Santos, V. M. AU - Wittmann, C. PY - 2012 DA - 2012// TI - Industrial biotechnology of Pseudomonas putida and related species JO - Appl Microbiol Biotechnol VL - 93 UR - https://doi.org/10.1007/s00253-012-3928-0 DO - 10.1007/s00253-012-3928-0 ID - Poblete-Castro2012 ER - TY - JOUR AU - Ramos, J. AU - Wasserfallen, A. AU - Rose, K. AU - Timmis, K. PY - 1987 DA - 1987// TI - Redesigning metabolic routes: manipulation of TOL plasmid pathway for catabolism of alkylbenzoates JO - Science VL - 235 UR - https://doi.org/10.1126/science.3468623 DO - 10.1126/science.3468623 ID - Ramos1987 ER - TY - JOUR AU - Nelson, K. E. AU - Weinel, C. AU - Paulsen, I. T. AU - Dodson, R. J. AU - Hilbert, H. PY - 2002 DA - 2002// TI - Complete genome sequence and comparative analysis of the metabolically versatile Pseudomonas putida KT2 440 JO - Environ Microbiol VL - 4 UR - https://doi.org/10.1046/j.1462-2920.2002.00366.x DO - 10.1046/j.1462-2920.2002.00366.x ID - Nelson2002 ER - TY - JOUR AU - Puchałka, J. AU - Oberhardt, M. A. AU - Godinho, M. AU - Bielecka, A. AU - Regenhardt, D. AU - Timmis, K. N. AU - Papin, J. A. AU - Martins dos Santos, V. A. PY - 2008 DA - 2008// TI - Genome-scale reconstruction and analysis of the Pseudomonas putida KT2440 metabolic network facilitates applications in biotechnology JO - PLoS Comput Biol VL - 4 UR - https://doi.org/10.1371/journal.pcbi.1000210 DO - 10.1371/journal.pcbi.1000210 ID - Puchałka2008 ER - TY - JOUR AU - Oberhardt, M. A. AU - Puchałka, J. AU - Martins dos Santos, V. A. AU - Papin, J. A. PY - 2011 DA - 2011// TI - Reconciliation of genome-scale metabolic reconstructions for comparative systems analysis JO - PLoS Comput Biol VL - 7 UR - https://doi.org/10.1371/journal.pcbi.1001116 DO - 10.1371/journal.pcbi.1001116 ID - Oberhardt2011 ER - TY - JOUR AU - Reed, J. L. AU - Vo, T. D. AU - Schilling, C. H. AU - Palsson, B. O. PY - 2003 DA - 2003// TI - An expanded genome-scale model of Escherichia coli K-12 (iJR904 GSM/GPR) JO - Genome Biol VL - 4 UR - https://doi.org/10.1186/gb-2003-4-9-r54 DO - 10.1186/gb-2003-4-9-r54 ID - Reed2003 ER - TY - JOUR AU - Varma, A. AU - Palsson, B. O. PY - 1994 DA - 1994// TI - Stoichiometric flux balance models quantitatively predict growth and metabolic by-product secretion in wild-type Escherichia-Coli W3110 JO - Appl Environ Microbiol VL - 60 ID - Varma1994 ER - TY - JOUR AU - Hanegraaf, P. AU - Muller, E. PY - 2001 DA - 2001// TI - The dynamics of the macromolecular composition of biomass JO - J Theor Biol VL - 212 UR - https://doi.org/10.1006/jtbi.2001.2369 DO - 10.1006/jtbi.2001.2369 ID - Hanegraaf2001 ER - TY - JOUR AU - Lange, H. C. AU - Heijnen, J. J. PY - 2001 DA - 2001// TI - Statistical reconciliation of the elemental and molecular biomass composition of Saccharomyces cerevisiae JO - Biotechnol Bioeng VL - 75 UR - https://doi.org/10.1002/bit.10054 DO - 10.1002/bit.10054 ID - Lange2001 ER - TY - JOUR AU - Pramanik, J. AU - Keasling, J. D. PY - 1997 DA - 1997// TI - Stoichiometric model of Escherichia coli metabolism: incorporation of growth-rate dependent biomass composition and mechanistic energy requirements JO - Biotechnol Bioeng VL - 56 UR - https://doi.org/3.0.CO;2-J DO - 3.0.CO;2-J ID - Pramanik1997 ER - TY - JOUR AU - Pramanik, J. AU - Keasling, J. D. PY - 1998 DA - 1998// TI - Effect of Escherichia coli biomass composition on central metabolic fluxes predicted by a stoichiometric model JO - Biotechnol Bioeng VL - 60 UR - https://doi.org/3.0.CO;2-Q DO - 3.0.CO;2-Q ID - Pramanik1998 ER - TY - JOUR AU - Fuhrer, T. AU - Fischer, E. AU - Sauer, U. PY - 2005 DA - 2005// TI - Experimental identification and quantification of glucose metabolism in seven bacterial species JO - J Bacteriol VL - 187 UR - https://doi.org/10.1128/JB.187.5.1581-1590.2005 DO - 10.1128/JB.187.5.1581-1590.2005 ID - Fuhrer2005 ER - TY - JOUR AU - van Duuren, J. B. J. H. AU - Wijte, D. AU - Leprince, A. AU - Karge, B. AU - Puchałka, J. AU - Wery, J. AU - Santos VAP, M. d. AU - Eggink, G. AU - Mars, A. E. PY - 2011 DA - 2011// TI - Generation of a catR deficient mutant of P. putida KT2440 that produces cis, cis-muconate from benzoate at high rate and yield JO - J Biotechnol VL - 156 UR - https://doi.org/10.1016/j.jbiotec.2011.08.030 DO - 10.1016/j.jbiotec.2011.08.030 ID - van Duuren2011 ER - TY - JOUR AU - Martin, E. AU - MacLeod, R. PY - 1971 DA - 1971// TI - Isolation and chemical composition of the cytoplasmic membrane of a gram-negative bacterium JO - J Bacteriol VL - 105 ID - Martin1971 ER - TY - JOUR AU - Kalwarczyk, T. AU - Tabaka, M. AU - Holyst, R. PY - 2012 DA - 2012// TI - Biologistics-diffusion coefficients for complete proteome of Escherichia coli JO - Bioinformatics VL - 28 UR - https://doi.org/10.1093/bioinformatics/bts537 DO - 10.1093/bioinformatics/bts537 ID - Kalwarczyk2012 ER - TY - JOUR AU - Sohn, S. AU - Kim, T. AU - Park, J. AU - Lee, S. PY - 2010 DA - 2010// TI - In silico genome-scale metabolic analysis of Pseudomonas putida KT2440 for polyhydroxyalkanoate synthesis, degradation of aromatics and anaerobic survival JO - Biotechnol J VL - 5 UR - https://doi.org/10.1002/biot.201000124 DO - 10.1002/biot.201000124 ID - Sohn2010 ER - TY - JOUR AU - Passman, F. J. AU - Jones, G. E. PY - 1985 DA - 1985// TI - Preparation and analysis of Pseudomonas-Putida cells for elemental composition JO - Geomicrob J VL - 4 UR - https://doi.org/10.1080/01490458509385931 DO - 10.1080/01490458509385931 ID - Passman1985 ER - TY - JOUR AU - Monod, J. PY - 1950 DA - 1950// TI - La technique de la culture continue, théorie et applications JO - Ann Inst Pasteur VL - 79 ID - Monod1950 ER - TY - JOUR AU - Pirt, S. PY - 1982 DA - 1982// TI - Maintenance energy: a general model for energy-limited and energy-sufficient growth JO - Arch Microbiol VL - 133 UR - https://doi.org/10.1007/BF00521294 DO - 10.1007/BF00521294 ID - Pirt1982 ER - TY - JOUR AU - Hazer, B. AU - Steinbüchel, A. PY - 2007 DA - 2007// TI - Increased diversification of polyhydroxyalkanoates by modification reactions for industrial and medical applications JO - Appl Microbiol Biotechnol VL - 74 UR - https://doi.org/10.1007/s00253-006-0732-8 DO - 10.1007/s00253-006-0732-8 ID - Hazer2007 ER - TY - JOUR AU - Klinke, S. AU - Dauner, M. AU - Scott, G. AU - Kessler, B. AU - Witholt, B. PY - 2000 DA - 2000// TI - Inactivation of isocitrate lyase leads to increased production of medium-chain-length poly(3-hydroxyalkanoates) in Pseudomonas putida JO - Appl Environ Microbiol VL - 66 UR - https://doi.org/10.1128/AEM.66.3.909-913.2000 DO - 10.1128/AEM.66.3.909-913.2000 ID - Klinke2000 ER - TY - JOUR AU - Poblete-Castro, I. AU - Binger, D. AU - Rodrigues, A. AU - Becker, J. AU - Martins Dos Santos, V. A. AU - Wittmann, C. PY - 2013 DA - 2013// TI - In-silico-driven metabolic engineering of Pseudomonas putida for enhanced production of poly-hydroxyalkanoates JO - Metab Eng VL - 15 UR - https://doi.org/10.1016/j.ymben.2012.10.004 DO - 10.1016/j.ymben.2012.10.004 ID - Poblete-Castro2013 ER - TY - JOUR AU - Lam, C. M. AU - Suárez Diez, M. AU - Godinho, M. AU - Martins dos Santos, V. A. PY - 2012 DA - 2012// TI - Programmable bacterial catalysis - designing cells for biosynthesis of value-added compounds JO - FEBS Lett VL - 586 UR - https://doi.org/10.1016/j.febslet.2012.02.030 DO - 10.1016/j.febslet.2012.02.030 ID - Lam2012 ER - TY - CHAP AU - Bremer, H. AU - Dennis, P. PY - 1996 DA - 1996// TI - Modulation of chemical composition and other parameters of the cell by growth rate BT - Escherichia coli and Salmonella ID - Bremer1996 ER - TY - JOUR AU - Du Preez, J. AU - Lategan, P. AU - Toerien, D. PY - 1984 DA - 1984// TI - Influence of the growth rate on the macromolecular composition of Acinetobacter calcoaceticus in carbon-limited chemostat culture JO - FEMS Microbiol Lett VL - 23 UR - https://doi.org/10.1111/j.1574-6968.1984.tb01038.x DO - 10.1111/j.1574-6968.1984.tb01038.x ID - Du Preez1984 ER - TY - JOUR AU - Baart, G. AU - Willemsen, M. AU - Khatami, E. AU - de Haan, A. AU - Zomer, B. AU - Beuvery, E. C. AU - Tramper, J. AU - Martens, D. E. PY - 2008 DA - 2008// TI - Modeling Neisseria meningitidis B metabolism at different specific growth rates JO - Biotechnol Bioeng VL - 101 UR - https://doi.org/10.1002/bit.22016 DO - 10.1002/bit.22016 ID - Baart2008 ER - TY - CHAP AU - Kjeldgaard, N. AU - Gausing, K. PY - 1974 DA - 1974// TI - Regulation of biosynthesis of ribosomes BT - Ribosomes ID - Kjeldgaard1974 ER - TY - JOUR AU - Kayser, A. AU - Weber, J. AU - Hecht, V. AU - Rinas, U. PY - 2005 DA - 2005// TI - Metabolic flux analysis of Escherichia coli in glucose-limited continuous culture. I. Growth-ratedependent metabolic efficiency at steady state JO - Microbiology VL - 151 UR - https://doi.org/10.1099/mic.0.27481-0 DO - 10.1099/mic.0.27481-0 ID - Kayser2005 ER - TY - JOUR AU - Varma, A. AU - Boesch, B. W. AU - Palsson, B. O. PY - 1993 DA - 1993// TI - Stoichiometric interpretation of Escherichia-Coli glucose catabolism under various oxygenation rates JO - Appl Environ Microbiol VL - 59 ID - Varma1993 ER - TY - JOUR AU - Blank, L. M. AU - Ionidis, G. AU - Ebert, B. E. AU - Bühler, B. AU - Schmid, A. PY - 2008 DA - 2008// TI - Metabolic response of Pseudomonas putida during redox biocatalysis in the presence of a second octanol phase JO - FEBS J VL - 275 UR - https://doi.org/10.1111/j.1742-4658.2008.06648.x DO - 10.1111/j.1742-4658.2008.06648.x ID - Blank2008 ER - TY - JOUR AU - Ebert, B. E. AU - Kurth, F. AU - Grund, M. AU - Blank, L. M. AU - Schmid, A. PY - 2011 DA - 2011// TI - Response of Pseudomonas putida KT2440 to increased NADH and ATP demand JO - Appl Environ Microbiol VL - 77 UR - https://doi.org/10.1128/AEM.05588-11 DO - 10.1128/AEM.05588-11 ID - Ebert2011 ER - TY - JOUR AU - Consortium, M. A. Q. C. AU - Shi, L. AU - Reid, L. H. AU - Jones, W. D. AU - Shippy, R. AU - Warrington, J. A. AU - Baker, S. C. AU - Collins, P. J. AU - de Longueville, F. AU - Kawasaki, E. S. AU - Lee, K. Y. AU - Luo, Y. AU - Sun, Y. A. AU - Willey, J. C. AU - Setterquist, R. A. AU - Fischer, G. M. AU - Tong, W. AU - Dragan, Y. P. AU - Dix, D. J. AU - Frueh, F. W. AU - Goodsaid, F. M. AU - Herman, D. AU - Jensen, R. V. AU - Johnson, C. D. AU - Lobenhofer, E. K. AU - Puri, R. K. AU - Schrf, U. AU - Thierry-Mieg, J. AU - Wang, C. AU - Wilson, M. PY - 2006 DA - 2006// TI - The MicroArray Quality Control (MAQC) project shows inter-and intraplatform reproducibility of gene expression measurements JO - Nat Biotechnol VL - 24 UR - https://doi.org/10.1038/nbt1239 DO - 10.1038/nbt1239 ID - Consortium2006 ER - TY - JOUR AU - Rosen, R. AU - Ron, E. PY - 2002 DA - 2002// TI - Proteome analysis in the study of the bacterial heat-shock response JO - Mass Spectrom Rev VL - 21 UR - https://doi.org/10.1002/mas.10031 DO - 10.1002/mas.10031 ID - Rosen2002 ER - TY - JOUR AU - Hartmans, S. AU - Smits, J. AU - Van der Werf, M. AU - Volkering, F. AU - De Bont, J. PY - 1989 DA - 1989// TI - Metabolism of styrene oxide and 2-phenylethanol in the styrene-degrading Xanthobacter strain 124X JO - Appl Environ Microbiol VL - 55 ID - Hartmans1989 ER - TY - JOUR AU - del Castillo, T. AU - Ramos, J. L. AU - Rodríguez-Herva, J. J. AU - Fuhrer, T. AU - Sauer, U. AU - Duque, E. PY - 2007 DA - 2007// TI - Convergent peripheral pathways catalyze initial glucose catabolism in Pseudomonas putida: genomic and flux analysis JO - J Bacteriol VL - 189 UR - https://doi.org/10.1128/JB.00203-07 DO - 10.1128/JB.00203-07 ID - del Castillo2007 ER - TY - JOUR AU - Latrach Tlemçani, L. AU - Corroler, D. AU - Barillier, D. AU - Mosrati, R. PY - 2008 DA - 2008// TI - Physiological states and energetic adaptation during growth of Pseudomonas putida mt-2 on glucose JO - Arch Microbiol VL - 190 UR - https://doi.org/10.1007/s00203-008-0380-8 DO - 10.1007/s00203-008-0380-8 ID - Latrach Tlemçani2008 ER - TY - JOUR AU - Benthin, S. AU - Nielsen, J. AU - Villadsen, J. PY - 1991 DA - 1991// TI - A simple and reliable method for the determination of cellular RNA content JO - Biotechnol Tech VL - 5 UR - https://doi.org/10.1007/BF00152753 DO - 10.1007/BF00152753 ID - Benthin1991 ER - TY - JOUR AU - Herbert, D. AU - Phipps, P. AU - Strange, R. PY - 1971 DA - 1971// TI - Chemical analysis of microbial cells JO - Methods Microbiol VL - 5 UR - https://doi.org/10.1016/S0580-9517(08)70641-X DO - 10.1016/S0580-9517(08)70641-X ID - Herbert1971 ER - TY - JOUR AU - Izard, J. AU - Limberger, R. PY - 2003 DA - 2003// TI - Rapid screening method for quantitation of bacterial cell lipids from whole cells JO - J Microbiol Methods VL - 55 UR - https://doi.org/10.1016/S0167-7012(03)00193-3 DO - 10.1016/S0167-7012(03)00193-3 ID - Izard2003 ER - TY - JOUR AU - Driessen, A. J. AU - Nouwen, N. PY - 2008 DA - 2008// TI - Protein translocation across the bacterial cytoplasmic membrane JO - Annu Rev Biochem VL - 77 UR - https://doi.org/10.1146/annurev.biochem.77.061606.160747 DO - 10.1146/annurev.biochem.77.061606.160747 ID - Driessen2008 ER - TY - JOUR AU - Stead, D. E. PY - 1992 DA - 1992// TI - Grouping of plant-pathogenic and some other Pseudomonas Spp by using cellular fatty-acid profiles JO - Int J Syst Bacteriol VL - 42 UR - https://doi.org/10.1099/00207713-42-2-281 DO - 10.1099/00207713-42-2-281 ID - Stead1992 ER - TY - JOUR AU - Forsberg, C. AU - Ward, J. PY - 1972 DA - 1972// TI - N-acetylmuramyl-L-alanine amidase of bacillus licheniformis and its L-form JO - J Bacteriol VL - 110 ID - Forsberg1972 ER - TY - JOUR AU - Kauffman, K. AU - Prakash, P. AU - Edwards, J. PY - 2003 DA - 2003// TI - Advances in flux balance analysis JO - Curr Opin Biotechnol VL - 14 UR - https://doi.org/10.1016/j.copbio.2003.08.001 DO - 10.1016/j.copbio.2003.08.001 ID - Kauffman2003 ER - TY - JOUR AU - Mahadevan, R. AU - Schilling, C. H. PY - 2003 DA - 2003// TI - The effects of alternate optimal solutions in constraint-based genome-scale metabolic models JO - Metab Eng VL - 5 UR - https://doi.org/10.1016/j.ymben.2003.09.002 DO - 10.1016/j.ymben.2003.09.002 ID - Mahadevan2003 ER - TY - JOUR AU - Reed, J. L. AU - Palsson, B. O. PY - 2003 DA - 2003// TI - Thirteen years of building constraint-based in silico models of Escherichia coli JO - J Bacteriol VL - 185 UR - https://doi.org/10.1128/JB.185.9.2692-2699.2003 DO - 10.1128/JB.185.9.2692-2699.2003 ID - Reed2003 ER - TY - JOUR AU - Teusink, B. AU - Wiersma, A. AU - Molenaar, D. AU - Francke, C. AU - de Vos, W. M. AU - Siezen, R. J. AU - Smid, E. J. PY - 2006 DA - 2006// TI - Analysis of growth of Lactobacillus plantarum WCFS1 on a complex medium using a genome-scale metabolic model JO - J Biol Chem VL - 281 UR - https://doi.org/10.1074/jbc.M606263200 DO - 10.1074/jbc.M606263200 ID - Teusink2006 ER -