CeCaFDB - A curated database for flux distribution in central carbon metabolism systems.

Species	Reference
Actinobacillus succinogenes	Metab Eng. 2008 Jan;10(1):55-68. 13C-metabolic flux analysis of Actinobacillus succinogenes fermentative metabolism at different NaHCO3 and H2 concentrations. McKinlay JB, Vieille C.
	Metab Eng. 2007 Mar;9(2):177-92. Determining Actinobacillus succinogenes metabolic pathways and fluxes by NMR and GC-MS analyses of 13C-labeled metabolic product isotopomers. McKinlay JB, Shachar-Hill Y, Zeikus JG, et al. Metab Eng. 2008 Jan;10(1):55-68. 13C-metabolic flux analysis of Actinobacillus succinogenes fermentative metabolism at different NaHCO3 and H2 concentrations. McKinlay JB, Vieille C.
Agrobacterium tumefaciens	J Bacteriol. 2005 Mar;187(5):1581-90. Experimental identification and quantification of glucose metabolism in seven bacterial species. Fuhrer T, Fischer E, Sauer U.
	J Bacteriol. 2005 Mar;187(5):1581-90. Experimental identification and quantification of glucose metabolism in seven bacterial species. Fuhrer T, Fischer E, Sauer U.
Arthrobacter sp	J Biotechnol. 2013 Dec;168(4):355-61. Metabolic flux analysis of Arthrobacter sp. CGMCC 3584 for cAMP production based on 13C tracer experiments and gas chromatography-mass spectrometry. Niu H, Chen Y, Yao S,et al.
	J Biotechnol. 2013 Dec;168(4):355-61. Metabolic flux analysis of Arthrobacter sp. CGMCC 3584 for cAMP production based on 13C tracer experiments and gas chromatography-mass spectrometry. Niu H, Chen Y, Yao S,et al.
Ashbya gossypii	J Biosci Bioeng. 2014 Aug 13. pii: S1389-1723(14)00230-8. Comparative metabolic flux analysis of an Ashbya gossypii wild type strain and a high riboflavin-producing mutant strain. Jeong BY, Wittmann C, Kato T, et al.
	J Biosci Bioeng. 2014 Aug 13. pii: S1389-1723(14)00230-8. Comparative metabolic flux analysis of an Ashbya gossypii wild type strain and a high riboflavin-producing mutant strain. Jeong BY, Wittmann C, Kato T, et al.
Aspergillus nidulans	PLoS One. 2008 3(12):e3847. Systems analysis unfolds the relationship between the phosphoketolase pathway and growth in Aspergillus nidulans. Panagiotou G, Andersen MR, Grotkjaer T, et al.
	Microbiology. 2005 Jul;151:2209-21. CreA influences the metabolic fluxes of Aspergillus nidulans during growth on glucose and xylose. David H, Krogh AM, Roca C, Akesson M, et al. PLoS One. 2008 3(12):e3847. Systems analysis unfolds the relationship between the phosphoketolase pathway and growth in Aspergillus nidulans. Panagiotou G, Andersen MR, Grotkjaer T, et al.
Aspergillus niger	Metab Eng. 2000 Jan;2(1):34-41. Construction and characterization of an oxalic acid nonproducing strain of Aspergillus niger. Pedersen H, Christensen B, Hjort C, et al.
	Metab Eng. 2000 Jan;2(1):34-41. Construction and characterization of an oxalic acid nonproducing strain of Aspergillus niger. Pedersen H, Christensen B, Hjort C, et al. Metab Eng. 2012 Jan;14(1):47-58. Integration of in vivo and in silico metabolic fluxes for improvement of recombinant protein production. Driouch H, Melzer G, Wittmann C.
Bacillus megaterium	J Biotechnol. 2007 Dec;132(4):385-94. Effect of different carbon sources on central metabolic fluxes and the recombinant production of a hydrolase from Thermobifida fusca in Bacillus megaterium. Furch T, Wittmann C, Wang W, et al.
	Bioprocess Biosyst Eng. 2007 Jan;30(1):47-59. Comparative study on central metabolic fluxes of Bacillus megaterium strains in continuous culture using 13C labelled substrates. Furch T, Hollmann R, Wittmann C, et al. J Biotechnol. 2007 Dec;132(4):385-94. Effect of different carbon sources on central metabolic fluxes and the recombinant production of a hydrolase from Thermobifida fusca in Bacillus megaterium. Furch T, Wittmann C, Wang W, et al.
Bacillus subtilis	BMC Syst Biol. 2008 Mar;2:29. Hybrid optimization for 13C metabolic flux analysis using systems parametrized by compactification. Yang TH, Frick O, Heinzle E.
	BMC Syst Biol. 2008 Mar;2:29. Hybrid optimization for 13C metabolic flux analysis using systems parametrized by compactification. Yang TH, Frick O, Heinzle E. Biotechnol Bioeng. 2001 Sep;76(2):144-56. Metabolic flux analysis with a comprehensive isotopomer model in Bacillus subtilis. Dauner M, Bailey JE, Sauer U. Biotechnol Bioeng. 2012 Mar;109(3):763-71. Collisional fragmentation of central carbon metabolites in LC-MS/MS increases precision of 13 C metabolic flux analysis. Ruhl M, Rupp B, Noh K, et al. Biotechnol Prog. 2000 Mar-Apr;16(2):169-75. 13C NMR evidence for pyruvate kinase flux attenuation underlying suppressed acid formation in Bacillus subtilis. Phalakornkule C, Fry B, Zhu T, et al. J Bacteriol. 2005 Mar;187(5):1581-90. Experimental identification and quantification of glucose metabolism in seven bacterial species. Fuhrer T, Fischer E, Sauer U. J Bacteriol. 2008 Sep;190(18):6178-87. CcpN controls central carbon fluxes in Bacillus subtilis. Tannler S, Fischer E, Le Coq D, et al. J Biol Chem. 2012 Aug;287(33):27959-70. 13C-flux analysis reveals NADPH-balancing transhydrogenation cycles in stationary phase of nitrogen-starving Bacillus subtilis. Ruhl M, Le Coq D, Aymerich S,et al. Microb Cell Fact. 2008 Jun;7:19. Maintenance metabolism and carbon fluxes in Bacillus species. Tannler S, Decasper S, Sauer U. Microb Cell Fact. 2014 Mar;13(1):40. Metabolic flux responses to genetic modification for shikimic acid production by Bacillus subtilis strains. Liu DF, Ai GM, Zheng QX, et al. Mol Syst Biol. 2013 Nov;9:709. Transcriptional regulation is insufficient to explain substrate-induced flux changes in Bacillus subtilis. Chubukov V, Uhr M, Le Chat L, et al. Nat Biotechnol. 1997 May;15(5):448-52. Metabolic fluxes in riboflavin-producing Bacillus subtilis. Sauer U, Hatzimanikatis V, Bailey JE, et al.
Basfia succiniciproducens	Biotechnol Bioeng. 2013 Nov;110(11):3013-23. Systems-wide analysis and engineering of metabolic pathway fluxes in bio-succinate producing Basfia succiniciproducens. Becker J, Reinefeld J, Stellmacher R, et al.
	Biotechnol Bioeng. 2013 Nov;110(11):3013-23. Systems-wide analysis and engineering of metabolic pathway fluxes in bio-succinate producing Basfia succiniciproducens. Becker J, Reinefeld J, Stellmacher R, et al.
Chlorobaculum tepidum	J Biol Chem. 2010 Dec;285(50):39544-50. Metabolic flux analysis of the mixotrophic metabolisms in the green sulfur bacterium Chlorobaculum tepidum. Feng X, Tang KH, Blankenship RE, et al.
	J Biol Chem. 2010 Dec;285(50):39544-50. Metabolic flux analysis of the mixotrophic metabolisms in the green sulfur bacterium Chlorobaculum tepidum. Feng X, Tang KH, Blankenship RE, et al.
Corynebacterium glutamicum	Metab Eng. 2010 Jul;12(4):392-400. 13C metabolic flux analysis for larger scale cultivation using gas chromatography-combustion-isotope ratio mass spectrometry. Yuan Y, Yang TH, Heinzle E.
	Adv Biochem Eng Biotechnol. 1996;54:109-54. In vivo stationary flux analysis by 13C labeling experiments. Wiechert W, de Graaf AA. Appl Environ Microbiol. 2004 Dec;70(12):7277-87. Metabolic fluxes in Corynebacterium glutamicum during lysine production with sucrose as carbon source. Wittmann C, Kiefer P, Zelder O. Appl Environ Microbiol. 2005 Dec;71(12):8587-96. Amplified expression of fructose ,6-bisphosphatase in Corynebacterium glutamicum increases in vivo flux through the pentose phosphate pathway and lysine production on different carbon sources. Becker J, Klopprogge C, Zelder O, et al. Appl Environ Microbiol. 2011 Sep;77(18):6644-52. Comparative 13C metabolic flux analysis of pyruvate dehydrogenase complex-deficient, L-valine-producing Corynebacterium glutamicum. Bartek T, Blombach B, Lang S, et al. Biotechnol Bioeng. 1997 Jul;55(1):118-35. Bidirectional reaction steps in metabolic networks: II. Flux estimation and statistical analysis. Wiechert W, Siefke C, de Graaf AA, et al. Biotechnol Bioeng. 1997 Oct;56(2):168-80. Response of the central metabolism of Corynebacterium glutamicum to different flux burdens. Marx A, Striege K, de Graaf AA, et al. Biotechnol Bioeng. 2004 Mar;85(5):497-505. Serial flux mapping of Corynebacterium glutamicum during fed-batch L-lysine production using the sensor reactor approach. Drysch A, El Massaoudi M, Wiechert W, et al. Eur J Biochem. 1998 May;254(1):96-102. Carbon-flux distribution in the central metabolic pathways of Corynebacterium glutamicum during growth on fructose. Dominguez H, Rollin C, Guyonvarch A, et al. Eur J Biochem. 2001 Apr;268(8):2441-55. Application of MALDI-TOF MS to lysine-producing Corynebacterium glutamicum: a novel approach for metabolic flux analysis. Wittmann C, Heinzle E. Eur J Biochem. 2003 Sep;270(17):3525-42. Systematic quantification of complex metabolic flux networks using stable isotopes and mass spectrometry. Klapa MI, Aon JC, Stephanopoulos G. J Bacteriol. 2004 Mar;186(6):1769-84. In-depth profiling of lysine-producing Corynebacterium glutamicum by combined analysis of the transcriptome, metabolome, and fluxome. Kromer JO, Sorgenfrei O, Klopprogge K, et al. J Biosci Bioeng. 2011 Dec;112(6):595-601. Improving protein secretion of a transglutaminase-secreting Corynebacterium glutamicum recombinant strain on the basis of 13C metabolic flux analysis. Umakoshi M, Hirasawa T, Furusawa C, et al. Metab Eng. 1999 Jan;1(1):35-48. Response of the central metabolism in Corynebacterium glutamicum to the use of an NADH-dependent glutamate dehydrogenase. Marx A, Eikmanns BJ, Sahm H, et al. Metab Eng. 2003 Apr;5(2):96-107. Production process monitoring by serial mapping of microbial carbon flux distributions using a novel Sensor Reactor approach: II--(13)C-labeling-based metabolic flux analysis and L-lysine production. Drysch A, El Massaoudi M, Mack C, et al. Metab Eng. 2006 Sep;8(5):432-46. Respirometric 13C flux analysis--Part II: in vivo flux estimation of lysine-producing Corynebacterium glutamicum. Hoon Yang T, Wittmann C, Heinzle E. Metab Eng. 2010 Jul;12(4):392-400. 13C metabolic flux analysis for larger scale cultivation using gas chromatography-combustion-isotope ratio mass spectrometry. Yuan Y, Yang TH, Heinzle E. Metab Eng. 2014 Jun 19;25C:30-37. A de novo NADPH generation pathway for improving lysine production of Corynebacterium glutamicum by rational design of the coenzyme specificity of glyceraldehyde 3-phosphate dehydrogenase. Bommareddy RR, Chen Z, Rappert S, et al. Microb Cell Fact. 2007 Jun;6:19. Study on roles of anaplerotic pathways in glutamate overproduction of Corynebacterium glutamicum by metabolic flux analysis. Shirai T, Fujimura K, Furusawa C, et al. Microb Cell Fact. 2008 Mar;7:8. Metabolic responses to pyruvate kinase deletion in lysine producing Corynebacterium glutamicum. Becker J, Klopprogge C, Wittmann C. Microb Cell Fact. 2009 May;8:25. OpenFLUX: efficient modelling software for 13C-based metabolic flux analysis. Quek LE, Wittmann C, Nielsen LK, et al. Microb Cell Fact. 2012 Oct;11:138. Metabolic engineering of the purine biosynthetic pathway in Corynebacterium glutamicum results in increased intracellular pool sizes of IMP and hypoxanthine. Peifer S, Barduhn T, Zimmet S, et al. Q Rev Biophys. 1998 Feb;31(1):41-106. 13C-NMR, MS and metabolic flux balancing in biotechnology research. Szyperski T.
Desulfovibrio vulgaris	J Bacteriol. 2007 Feb;189(3):940-9. Pathway confirmation and flux analysis of central metabolic pathways in Desulfovibrio vulgaris hildenborough using gas chromatography-mass spectrometry and Fourier transform-ion cyclotron resonance mass spectrometry. Tang Y, Pingitore F, Mukhopadhyay A, et al.
	J Bacteriol. 2007 Feb;189(3):940-9. Pathway confirmation and flux analysis of central metabolic pathways in Desulfovibrio vulgaris hildenborough using gas chromatography-mass spectrometry and Fourier transform-ion cyclotron resonance mass spectrometry. Tang Y, Pingitore F, Mukhopadhyay A, et al.
Escherichia coli	J Bacteriol. 2008 Apr;190(7):2323-30. Cyclic AMP-dependent catabolite repression is the dominant control mechanism of metabolic fluxes under glucose limitation in Escherichia coli. Nanchen A, Schicker A, Revelles O, et al.
	Anal Biochem. 2004 Feb;325(2):308-16. High-throughput metabolic flux analysis based on gas chromatography-mass spectrometry derived 13C constraints. Fischer E, Zamboni N, Sauer U. Appl Environ Microbiol. 1997 Aug;63(8):3205-10. Reduction of aerobic acetate production by Escherichia coli. Farmer WR, Liao JC. Appl Environ Microbiol. 2008 Nov;74(22):7002-15. Global transcription and metabolic flux analysis of Escherichia coli in glucose-limited fed-batch cultivations. Lemuth K, Hardiman T, Winter S, et al. Appl Microbiol Biotechnol. 2004 Jan;63(4):407-17. Metabolic flux analysis of pykF gene knockout Escherichia coli based on 13C-labeling experiments together with measurements of enzyme activities and intracellular metabolite concentrations. Al Zaid Siddiquee K, Arauzo-Bravo MJ, Shimizu K. Appl Microbiol Biotechnol. 2004 Mar;64(1):91-8. Global metabolic response of Escherichia coli to gnd or zwf gene-knockout, based on 13C-labeling experiments and the measurement of enzyme activities. Zhao J, Baba T, Mori H, et al. BMC Syst Biol. 2010 Sep;4:122. A systematic investigation of Escherichia coli central carbon metabolism in response to superoxide stress. Rui B, Shen T, Zhou H, et al. Biotechnol Bioeng. 2008 Apr;99(5):1170-85. Metabolic flux analysis in Escherichia coli by integrating isotopic dynamic and isotopic stationary 13C labeling data. Schaub J, Mauch K, Reuss M. Biotechnol Bioeng. 2014 Jan;111(1):202-8. IsoDesign: a software for optimizing the design of 13C-metabolic flux analysis experiments. Millard P, Sokol S, Letisse F, et al. Biotechnol Prog. 2004 May-Jun;20(3):706-14. Serial 13C-based flux analysis of an L-phenylalanine-producing E.coli strain using the sensor reactor. Wahl A, El Massaoudi M, Schipper D, et al. Biotechnol Prog. 2010 Jan-Feb;26(1):1-10. Rapid media transition: an experimental approach for steady state analysis of metabolic pathways. Link H, Anselment B, Weuster-Botz D. FEMS Microbiol Lett. 2003 Mar;220(2):295-301. Analysis of metabolic and physiological responses to gnd knockout in Escherichia coli by using C-13 tracer experiment and enzyme activity measurement. Jiao Z, Baba T, Mori H, et al. FEMS Microbiol Lett. 2004 Jun;235(1):17-23. Metabolic flux analysis for a ppc mutant Escherichia coli based on 13C-labelling experiments together with enzyme activity assays and intracellular metabolite measurements. Peng L, Arauzo-Bravo MJ, Shimizu K. FEMS Microbiol Rev. 1996 Dec;19(2):85-116. Flux analysis and control of the central metabolic pathways in Escherichia coli. Holms H. J Bacteriol. 2002 Jan;184(1):152-64. Metabolic flux responses to pyruvate kinase knockout in Escherichia coli. Emmerling M, Dauner M, Ponti A, et al. J Bacteriol. 2003 Dec;185(24):7053-67. Responses of the central metabolism in Escherichia coli to phosphoglucose isomerase and glucose-6-phosphate dehydrogenase knockouts. Hua Q, Yang C, Baba T, et al. J Bacteriol. 2005 May;187(9):3171-9. Impact of global transcriptional regulation by ArcA, ArcB, Cra, Crp, Cya, Fnr, and Mlc on glucose catabolism in Escherichia coli. Perrenoud A, Sauer U. J Bacteriol. 2008 Apr;190(7):2323-30. Cyclic AMP-dependent catabolite repression is the dominant control mechanism of metabolic fluxes under glucose limitation in Escherichia coli. Nanchen A, Schicker A, Revelles O, et al. J Bacteriol. 2009 Sep;191(17):5538-48. Metabolic flux analysis of Escherichia coli creB and arcA mutants reveals shared control of carbon catabolism under microaerobic growth conditions. Nikel PI, Zhu J, San KY, et al. J Biol Chem. 2004 Feb;279(8):6613-9. The soluble and membrane-bound transhydrogenases UdhA and PntAB have divergent functions in NADPH metabolism of Escherichia coli. Sauer U, Canonaco F, Heri S, et al. J Biol Chem. 2006 Mar;281(12):8024-33. Latent pathway activation and increased pathway capacity enable Escherichia coli adaptation to loss of key metabolic enzymes. Fong SS, Nanchen A, Palsson BO, et al. J Biotechnol. 2003 Mar;101(2):101-17. Metabolic flux analysis of Escherichia coli K12 grown on 13C-labeled acetate and glucose using GC-MS and powerful flux calculation method. Zhao J, Shimizu K. J Biotechnol. 2006 Mar;122(2):254-66. Effect of lpdA gene knockout on the metabolism in Escherichia coli based on enzyme activities, intracellular metabolite concentrations and metabolic flux analysis by 13C-labeling experiments. Li M, Ho PY, Yao S,et al. J Biotechnol. 2007 Apr;129(2):249-67. Metabolic flux analysis at ultra short time scale: isotopically non-stationary 13C labeling experiments. Noh K, Gronke K, Luo B, et al. J Biotechnol. 2007 Jan;128(1):93-111. Determination of metabolic flux changes during fed-batch cultivation from measurements of intracellular amino acids by LC-MS/MS. Iwatani S, Van Dien S, Shimbo K, et al. J Chromatogr A. 2007 Aug;1159(1-2):134-41. Direct measurement of isotopomer of intracellular metabolites using capillary electrophoresis time-of-flight mass spectrometry for efficient metabolic flux analysis. Toya Y, Ishii N, Hirasawa T, et al. Metab Eng. 2003 Apr;5(2):74-85. A metabolic network analysis & NMR experiment design tool with user interface-driven model construction for depth-first search analysis. Zhu T, Phalakornkule C, Ghosh S, et al. Metab Eng. 2013 Nov;20:49-55. COMPLETE-MFA:complementary parallel labeling experiments technique for metabolic flux analysis. Leighty RW, Antoniewicz MR. Microb Cell Fact. 2012 Sep;11:127. Consequences of phosphoenolpyruvate:sugar phosphotranferase system and pyruvate kinase isozymes inactivation in central carbon metabolism flux distribution in Escherichia coli. Meza E, Becker J, Bolivar F, et al. Microbiology. 2006 Aug;152(Pt 8):2421-31. Indole-3-acetic acid regulates the central metabolic pathways in Escherichia coli. Bianco C, Imperlini E, Calogero R, et al. Mol Syst Biol. 2011 Mar;7:477. Large-scale 13C-flux analysis reveals distinct transcriptional control of respiratory and fermentative metabolism in Escherichia coli. Haverkorn van Rijsewijk BR, Nanchen A, Nallet S, et al. Nat Protoc. 2009;4(6):878-92. (13)C-based metabolic flux analysis. Zamboni N, Fendt SM, Ruhl M, et al.
Geobacillus thermoglucosidasius	Biotechnol Bioeng. 2009 Apr;102(5):1377-86. Analysis of metabolic pathways and fluxes in a newly discovered thermophilic and ethanol-tolerant Geobacillus strain. Tang YJ, Sapra R, Joyner D, et al.
	Biotechnol Bioeng. 2009 Apr;102(5):1377-86. Analysis of metabolic pathways and fluxes in a newly discovered thermophilic and ethanol-tolerant Geobacillus strain. Tang YJ, Sapra R, Joyner D, et al.
Geobacter metallireducens	Appl Environ Microbiol. 2007 Jun;73(12):3859-64. Flux analysis of central metabolic pathways in Geobacter metallireducens during reduction of soluble Fe(III)-nitrilotriacetic acid. Tang YJ, Chakraborty R, Martin HG, et al.
	Appl Environ Microbiol. 2007 Jun;73(12):3859-64. Flux analysis of central metabolic pathways in Geobacter metallireducens during reduction of soluble Fe(III)-nitrilotriacetic acid. Tang YJ, Chakraborty R, Martin HG, et al.
Gluconacetobacter xylinus	Appl Microbiol Biotechnol. 2013 Jul;97(14):6189-99. Metabolic flux analysis of Gluconacetobacter xylinus for bacterial cellulose production. Zhong C, Zhang GC, Liu M, et al.
	Appl Microbiol Biotechnol. 2013 Jul;97(14):6189-99. Metabolic flux analysis of Gluconacetobacter xylinus for bacterial cellulose production. Zhong C, Zhang GC, Liu M, et al.
Homo sapiens	Metab Eng. 2013 Jan;15:206-17. Isotopically nonstationary 13C flux analysis of Myc-induced metabolic reprogramming in B-cells. Murphy TA, Dang CV, Young JD.
	J Biosci Bioeng. 2011 Dec;112(6):616-23. Metabolite channeling and compartmentation in the human cell line AGE1.HN determined by 13C labeling experiments and 13C metabolic flux analysis. Niklas J, Sandig V, Heinzle E. Metab Eng. 2013 Jan;15:206-17. Isotopically nonstationary 13C flux analysis of Myc-induced metabolic reprogramming in B-cells. Murphy TA, Dang CV, Young JD.
Methylobacterium extorquens AM1	Biotechnol Bioeng. 2003 Oct;84(1):45-55. Quantification of central metabolic fluxes in the facultative methylotroph methylobacterium extorquens AM1 using 13C-label tracing and mass spectrometry. Van Dien SJ, Strovas T, Lidstrom ME.
	Biotechnol Bioeng. 2003 Oct;84(1):45-55. Quantification of central metabolic fluxes in the facultative methylotroph methylobacterium extorquens AM1 using 13C-label tracing and mass spectrometry. Van Dien SJ, Strovas T, Lidstrom ME.
Mycobacterium tuberculosis	PLoS Pathog. 2011 Jul;7(7):e1002091. 13C metabolic flux analysis identifies an unusual route for pyruvate dissimilation in mycobacteria which requires isocitrate lyase and carbon dioxide fixation. Beste DJ, Bonde B, Hawkins N, et al.
	PLoS Pathog. 2011 Jul;7(7):e1002091. 13C metabolic flux analysis identifies an unusual route for pyruvate dissimilation in mycobacteria which requires isocitrate lyase and carbon dioxide fixation. Beste DJ, Bonde B, Hawkins N, et al.
Penicillium chrysogenum	Biotechnol Bioeng. 2000 Jun;68(6):602-18. Application of metabolic flux analysis for the identification of metabolic bottlenecks in the biosynthesis of penicillin-G. van Gulik WM, de Laat WT, Vinke JL, et al.
	Biotechnol Bioeng. 2000 Jun;68(6):602-18. Application of metabolic flux analysis for the identification of metabolic bottlenecks in the biosynthesis of penicillin-G. van Gulik WM, de Laat WT, Vinke JL, et al.
Pichia pastoris	Microb Cell Fact. 2012 May;11:57. Metabolic flux profiling of recombinant protein secreting Pichia pastoris growing on glucose: methanol mixtures. Jorda J, Jouhten P, Camara E, et al.
	Appl Environ Microbiol. 2004 Oct;70(10):5905-11. Oxygen- and glucose-dependent regulation of central carbon metabolism in Pichia anomala. Fredlund E, Blank LM, Schnurer J, et al. Microb Cell Fact. 2012 May;11:57. Metabolic flux profiling of recombinant protein secreting Pichia pastoris growing on glucose: methanol mixtures. Jorda J, Jouhten P, Camara E, et al. N Biotechnol. 2014 Jan;31(1):120-32. Metabolic flux analysis of recombinant Pichia pastoris growing on different glycerol/methanol mixtures by iterative fitting of NMR-derived (13)C-labelling data from proteinogenic amino acids. Jorda J, de Jesus SS, Peltier S, et al.
Pseudomonas aeruginosa	PLoS One. 2014 Apr;9(4):e88368. Robustness and plasticity of metabolic pathway flux among uropathogenic isolates of Pseudomonas aeruginosa. Berger A, Dohnt K, Tielen P, et al.
	PLoS One. 2014 Apr;9(4):e88368. Robustness and plasticity of metabolic pathway flux among uropathogenic isolates of Pseudomonas aeruginosa. Berger A, Dohnt K, Tielen P, et al.
Pseudomonas fluorescens	J Bacteriol. 2005 Mar;187(5):1581-90. Experimental identification and quantification of glucose metabolism in seven bacterial species. Fuhrer T, Fischer E, Sauer U.
	J Bacteriol. 2005 Mar;187(5):1581-90. Experimental identification and quantification of glucose metabolism in seven bacterial species. Fuhrer T, Fischer E, Sauer U.
Pseudomonas putida	J Biotechnol. 2009 Aug;143(2):124-9. Metabolic flux analysis of a phenol producing mutant of Pseudomonas putida S12: verification and complementation of hypotheses derived from transcriptomics. Wierckx N, Ruijssenaars HJ, de Winde JH, et al.
	J Bacteriol. 2005 Mar;187(5):1581-90. Experimental identification and quantification of glucose metabolism in seven bacterial species. Fuhrer T, Fischer E, Sauer U. J Biotechnol. 2009 Aug;143(2):124-9. Metabolic flux analysis of a phenol producing mutant of Pseudomonas putida S12: verification and complementation of hypotheses derived from transcriptomics. Wierckx N, Ruijssenaars HJ, de Winde JH, et al.
Rhodobacter sphaeroides	J Bacteriol. 2005 Mar;187(5):1581-90. Experimental identification and quantification of glucose metabolism in seven bacterial species. Fuhrer T, Fischer E, Sauer U.
	J Bacteriol. 2005 Mar;187(5):1581-90. Experimental identification and quantification of glucose metabolism in seven bacterial species. Fuhrer T, Fischer E, Sauer U.
Rhodopseudomonas palustris	J Biol Chem. 2014 Jan;289(4):1960-70. Non-growing Rhodopseudomonas palustris increases the hydrogen gas yield from acetate by shifting from the glyoxylate shunt to the tricarboxylic acid cycle. McKinlay JB, Oda Y, Ruhl M, et al.
	J Biol Chem. 2014 Jan;289(4):1960-70. Non-growing Rhodopseudomonas palustris increases the hydrogen gas yield from acetate by shifting from the glyoxylate shunt to the tricarboxylic acid cycle. McKinlay JB, Oda Y, Ruhl M, et al.
Saccharomyces cerevisiae	Appl Microbiol Biotechnol. 2012 Aug;95(4):1001-10. Physiological characterization of recombinant Saccharomyces cerevisiae expressing the Aspergillus nidulans phosphoketolase pathway: validation of activity through 13C-based metabolic flux analysis. Papini M, Nookaew I, Siewers V, et al.
	Appl Environ Microbiol. 2004 Apr;70(4):2307-17. Molecular basis for anaerobic growth of Saccharomyces cerevisiae on xylose, investigated by global gene expression and metabolic flux analysis. Sonderegger M, Jeppsson M, Hahn-Hagerdal B, et al. Appl Microbiol Biotechnol. 2012 Aug;95(4):1001-10. Physiological characterization of recombinant Saccharomyces cerevisiae expressing the Aspergillus nidulans phosphoketolase pathway: validation of activity through 13C-based metabolic flux analysis. Papini M, Nookaew I, Siewers V, et al. BMC Syst Biol. 2010 Feb;4:12. Transcriptional regulation of respiration in yeast metabolizing differently repressive carbon substrates. Fendt SM, Sauer U. Bioprocess Biosyst Eng. 2013 Sep;36(9):1261-5. Metabolic flux analysis of genetically engineered Saccharomyces cerevisiae that produces lactate under micro-aerobic conditions. Nagamori E, Shimizu K, Fujita H, et al. Biotechnol Bioeng. 2004 May;86(3):251-60. Metabolic pathway analysis of yeast strengthens the bridge between transcriptomics and metabolic networks. Cakir T, Kirdar B, Ulgen KO. Eukaryot Cell. 2003 Jun;2(3):599-608. Identification of in vivo enzyme activities in the cometabolism of glucose and acetate by Saccharomyces cerevisiae by using 13C-labeled substrates. dos Santos MM, Gombert AK, Christensen B, et al. Genome Biol. 2005;6(6):R49. Large-scale 13C-flux analysis reveals mechanistic principles of metabolic network robustness to null mutations in yeast. Blank LM, Kuepfer L, Sauer U. Genome Res. 2005 Oct;15(10):1421-30. Metabolic functions of duplicate genes in Saccharomyces cerevisiae. Kuepfer L, Sauer U, Blank LM. J Bacteriol. 2001 Feb;183(4):1441-51. Network identification and flux quantification in the central metabolism of Saccharomyces cerevisiae under different conditions of glucose repression. Gombert AK, Moreira dos Santos M, et al. J Biol Chem. 2004 Mar;279(10):9125-38. Role of transcriptional regulation in controlling fluxes in central carbon metabolism of Saccharomyces cerevisiae. A chemostat culture study. Daran-Lapujade P, Jansen ML, Daran JM, et al. Metab Eng. 2003 Jan;5(1):16-31. Metabolic flux analysis of xylose metabolism in recombinant Saccharomyces cerevisiae using continuous culture. Pitkanen JP, Aristidou A, Salusjarvi L, et al. Metab Eng. 2005 Sep-Nov;7(5-6):437-44. Comparative metabolic network analysis of two xylose fermenting recombinant Saccharomyces cerevisiae strains. Grotkjaer T, Christakopoulos P, Nielsen J, et al. Microb Cell Fact. 2005 Nov;4:30. Characterization of the metabolic shift between oxidative and fermentative growth in Saccharomyces cerevisiae by comparative 13C flux analysis. Frick O, Wittmann C. Yeast. 2004 Jul;21(9):769-79. Phenotypic characterization of glucose repression mutants of Saccharomyces cerevisiae using experiments with 13C-labelled glucose. Raghevendran V, Gombert AK, Christensen B, et al.
Scheffersomyces stipitis	Microb Cell Fact. 2012 Oct;11:136. Scheffersomyces stipitis: a comparative systems biology study with the Crabtree positive yeast Saccharomyces cerevisiae. Papini M, Nookaew I, Uhlen M, et al.
	Microb Cell Fact. 2012 Oct;11:136. Scheffersomyces stipitis: a comparative systems biology study with the Crabtree positive yeast Saccharomyces cerevisiae. Papini M, Nookaew I, Uhlen M, et al.
Schizosaccharomyces pombe	Appl Microbiol Biotechnol. 2013 Jun;97(11):5013-26. Metabolic fluxes in Schizosaccharomyces pombe grown on glucose and mixtures of glycerol and acetate. Klein T, Heinzle E, Schneider K.
	Appl Microbiol Biotechnol. 2013 Jun;97(11):5013-26. Metabolic fluxes in Schizosaccharomyces pombe grown on glucose and mixtures of glycerol and acetate. Klein T, Heinzle E, Schneider K.
Shewanella oneidensis	Appl Environ Microbiol. 2007 Feb;73(3):718-29. Shewanella oneidensis MR-1 fluxome under various oxygen conditions. Tang YJ, Hwang JS, Wemmer DE, et al.
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Shewanella SPP.	Biotechnol Bioeng. 2009 Mar;102(4):1161-9. Metabolic flux analysis of Shewanella spp. reveals evolutionary robustness in central carbon metabolism. Tang YJ, Martin HG, Dehal PS, et al.
	Biotechnol Bioeng. 2009 Mar;102(4):1161-9. Metabolic flux analysis of Shewanella spp. reveals evolutionary robustness in central carbon metabolism. Tang YJ, Martin HG, Dehal PS, et al.
Sinorhizobium meliloti	J Bacteriol. 2005 Mar;187(5):1581-90. Experimental identification and quantification of glucose metabolism in seven bacterial species. Fuhrer T, Fischer E, Sauer U.
	J Bacteriol. 2005 Mar;187(5):1581-90. Experimental identification and quantification of glucose metabolism in seven bacterial species. Fuhrer T, Fischer E, Sauer U.
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Zymomonas mobilis	Arch Microbiol. 1999 May-Jun;171(6):371-85. Metabolic state of Zymomonas mobilis in glucose-, fructose-, and xylose-fed continuous cultures as analysed by 13C- and 31P-NMR spectroscopy. De Graaf AA, Striegel K, Wittig RM, et al.
	Arch Microbiol. 1999 May-Jun;171(6):371-85. Metabolic state of Zymomonas mobilis in glucose-, fructose-, and xylose-fed continuous cultures as analysed by 13C- and 31P-NMR spectroscopy. De Graaf AA, Striegel K, Wittig RM, et al.

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