메뉴 건너뛰기




Volumn 6, Issue , 2012, Pages

Redox balance is key to explaining full vs. partial switching to low-yield metabolism

Author keywords

Escherichia coli; Flux balance analysis with molecular crowding; Genome scale metabolic model; Lactococcus lactis; Metabolic switching; Overflow metabolism; Redox balance; Saccharomyces cerevisiae

Indexed keywords

BACTERIA (MICROORGANISMS); ESCHERICHIA COLI; LACTOCOCCUS LACTIS; SACCHAROMYCES CEREVISIAE;

EID: 84858717996     PISSN: None     EISSN: 17520509     Source Type: Journal    
DOI: 10.1186/1752-0509-6-22     Document Type: Article
Times cited : (100)

References (40)
  • 1
    • 0027489709 scopus 로고
    • Kinetics of growth and sugar consumption in yeasts
    • 10.1007/BF00871229, 8279829
    • van Dijken JP, Weusthuis RA, Pronk JT. Kinetics of growth and sugar consumption in yeasts. Antonie Van Leeuwenhoek 1993, 63(3-4):343-352. 10.1007/BF00871229, 8279829.
    • (1993) Antonie Van Leeuwenhoek , vol.63 , Issue.3-4 , pp. 343-352
    • van Dijken, J.P.1    Weusthuis, R.A.2    Pronk, J.T.3
  • 2
    • 0028146781 scopus 로고
    • Stoichiometric flux balance models quantitatively predict growth and metabolic by-product secretion in wild-type Escherichia coli W3110
    • 201879, 7986045
    • Varma A, Palsson B. Stoichiometric flux balance models quantitatively predict growth and metabolic by-product secretion in wild-type Escherichia coli W3110. Appl Environ Microbiol 1994, 60(10):3724-3731. 201879, 7986045.
    • (1994) Appl Environ Microbiol , vol.60 , Issue.10 , pp. 3724-3731
    • Varma, A.1    Palsson, B.2
  • 3
    • 0035209302 scopus 로고    scopus 로고
    • Bacillus subtilis metabolism and energetics in carbon-limited and excess-carbon chemostat culture
    • 10.1128/JB.183.24.7308-7317.2001, 95580, 11717290
    • Dauner M, Storni T, Sauer U. Bacillus subtilis metabolism and energetics in carbon-limited and excess-carbon chemostat culture. J Bacteriol 2001, 183(24):7308-7317. 10.1128/JB.183.24.7308-7317.2001, 95580, 11717290.
    • (2001) J Bacteriol , vol.183 , Issue.24 , pp. 7308-7317
    • Dauner, M.1    Storni, T.2    Sauer, U.3
  • 4
    • 0018357964 scopus 로고
    • Change from homo- to heterolactic fermentation by Streptococcus lactis resulting from glucose limitation in anaerobic chemostat cultures
    • 218245, 108249
    • Thomas TD, Ellwood DC, Longyear VM. Change from homo- to heterolactic fermentation by Streptococcus lactis resulting from glucose limitation in anaerobic chemostat cultures. J Bacteriol 1979, 138:109-117. 218245, 108249.
    • (1979) J Bacteriol , vol.138 , pp. 109-117
    • Thomas, T.D.1    Ellwood, D.C.2    Longyear, V.M.3
  • 5
    • 33846015888 scopus 로고    scopus 로고
    • Analysis of growth of Lactobacillus plantarum WCFS1 on a complex medium using a genome-scale metabolic model
    • 10.1074/jbc.M606263200, 17062565
    • Teusink B, Wiersma A, Molenaar D, Francke C, de Vos WM, Siezen RJ, Smid EJ. Analysis of growth of Lactobacillus plantarum WCFS1 on a complex medium using a genome-scale metabolic model. J Biol Chem 2006, 281(52):40041-40048. 10.1074/jbc.M606263200, 17062565.
    • (2006) J Biol Chem , vol.281 , Issue.52 , pp. 40041-40048
    • Teusink, B.1    Wiersma, A.2    Molenaar, D.3    Francke, C.4    de Vos, W.M.5    Siezen, R.J.6    Smid, E.J.7
  • 6
    • 33749478922 scopus 로고    scopus 로고
    • Cancer's molecular sweet tooth and the Warburg effect
    • 10.1158/0008-5472.CAN-06-1501, 16982728
    • Kim JW, Dang CV. Cancer's molecular sweet tooth and the Warburg effect. Cancer Res 2006, 66(18):8927-8930. 10.1158/0008-5472.CAN-06-1501, 16982728.
    • (2006) Cancer Res , vol.66 , Issue.18 , pp. 8927-8930
    • Kim, J.W.1    Dang, C.V.2
  • 7
    • 4143067908 scopus 로고    scopus 로고
    • Biochemistry of exercise-induced metabolic acidosis
    • 10.1152/ajpregu.00114.2004, 15308499
    • Robergs RA, Ghiasvand F, Parker D. Biochemistry of exercise-induced metabolic acidosis. Am J Physiol Regul Integr Comp Physiol 2004, 287(3):R502-R516. 10.1152/ajpregu.00114.2004, 15308499.
    • (2004) Am J Physiol Regul Integr Comp Physiol , vol.287 , Issue.3
    • Robergs, R.A.1    Ghiasvand, F.2    Parker, D.3
  • 8
    • 0020687005 scopus 로고
    • Thermodynamic efficiency of microbial growth is low but optimal for maximal growth rate
    • Westerhoff HV, Hellingwerf KJ, Dam KV. Thermodynamic efficiency of microbial growth is low but optimal for maximal growth rate. P Natl Acad Sci USA 1983, 80:305-309.
    • (1983) P Natl Acad Sci USA , vol.80 , pp. 305-309
    • Westerhoff, H.V.1    Hellingwerf, K.J.2    Dam, K.V.3
  • 9
    • 0027121369 scopus 로고
    • Physiological and energetic aspects of bacterial metabolite overproduction
    • Tempest DW, Neijssel OM. Physiological and energetic aspects of bacterial metabolite overproduction. FEMS Microbiol Lett 1992, 79(1-3):169-176.
    • (1992) FEMS Microbiol Lett , vol.79 , Issue.1-3 , pp. 169-176
    • Tempest, D.W.1    Neijssel, O.M.2
  • 10
    • 0028926047 scopus 로고
    • Energetics of bacterial growth: balance of anabolic and catabolic reactions
    • 239354, 7708012
    • Russell JB, Cook GM. Energetics of bacterial growth: balance of anabolic and catabolic reactions. Microbiol Rev 1995, 59:48-62. 239354, 7708012.
    • (1995) Microbiol Rev , vol.59 , pp. 48-62
    • Russell, J.B.1    Cook, G.M.2
  • 11
    • 38449091553 scopus 로고    scopus 로고
    • The energy spilling reactions of bacteria and other organisms
    • 10.1159/000103591, 17693707
    • Russell JB. The energy spilling reactions of bacteria and other organisms. J Mol Microbiol Biotechnol 2007, 13(1-3):1-11. 10.1159/000103591, 17693707.
    • (2007) J Mol Microbiol Biotechnol , vol.13 , Issue.1-3 , pp. 1-11
    • Russell, J.B.1
  • 12
    • 73149109962 scopus 로고    scopus 로고
    • Shifts in growth strategies reflect tradeoffs in cellular economics
    • 2795476, 19888218
    • Molenaar D, van Berlo R, de Ridder D, Teusink B. Shifts in growth strategies reflect tradeoffs in cellular economics. Mol Syst Biol 2009, 5:323. 2795476, 19888218.
    • (2009) Mol Syst Biol , vol.5 , pp. 323
    • Molenaar, D.1    van Berlo, R.2    de Ridder, D.3    Teusink, B.4
  • 13
    • 0019132335 scopus 로고
    • Are growth rates of Escherichia coli in batch cultures limited by respiration?
    • 294601, 6998942
    • Andersen KB, Von Meyenburg K. Are growth rates of Escherichia coli in batch cultures limited by respiration?. J Bacteriol 1980, 144:114-123. 294601, 6998942.
    • (1980) J Bacteriol , vol.144 , pp. 114-123
    • Andersen, K.B.1    Von Meyenburg, K.2
  • 14
    • 0030463296 scopus 로고    scopus 로고
    • Flux analysis and control of the central metabolic pathways in Escherichia coli
    • 10.1111/j.1574-6976.1996.tb00255.x, 8988566
    • Holms H. Flux analysis and control of the central metabolic pathways in Escherichia coli. FEMS Microbiol Rev 1996, 19(2):85-116. 10.1111/j.1574-6976.1996.tb00255.x, 8988566.
    • (1996) FEMS Microbiol Rev , vol.19 , Issue.2 , pp. 85-116
    • Holms, H.1
  • 15
    • 0031030714 scopus 로고    scopus 로고
    • Theoretical approaches to the evolutionary optimization of glycolysis: thermodynamic and kinetic constraints
    • 10.1111/j.1432-1033.1997.0191a.x, 9030739
    • Heinrich R, Montero F, Klipp E, Waddell TG, Melendez-Hevia E. Theoretical approaches to the evolutionary optimization of glycolysis: thermodynamic and kinetic constraints. Eur J Biochem 1997, 243(1-2):191-201. 10.1111/j.1432-1033.1997.0191a.x, 9030739.
    • (1997) Eur J Biochem , vol.243 , Issue.1-2 , pp. 191-201
    • Heinrich, R.1    Montero, F.2    Klipp, E.3    Waddell, T.G.4    Melendez-Hevia, E.5
  • 16
    • 43449132092 scopus 로고    scopus 로고
    • Is maximization of molar yield in metabolic networks favoured by evolution?
    • 10.1016/j.jtbi.2007.12.008, 18249414
    • Schuster S, Pfeiffer T, Fell DA. Is maximization of molar yield in metabolic networks favoured by evolution?. J Theor Biol 2008, 252(3):497-504. 10.1016/j.jtbi.2007.12.008, 18249414.
    • (2008) J Theor Biol , vol.252 , Issue.3 , pp. 497-504
    • Schuster, S.1    Pfeiffer, T.2    Fell, D.A.3
  • 18
    • 77951803596 scopus 로고    scopus 로고
    • Catabolic efficiency of aerobic glycolysis: the Warburg effect revisited
    • 10.1186/1752-0509-4-58, 2880972, 20459610
    • Vazquez A, Liu J, Zhou Y, Oltvai ZN. Catabolic efficiency of aerobic glycolysis: the Warburg effect revisited. BMC Syst Biol 2010, 4:58. 10.1186/1752-0509-4-58, 2880972, 20459610.
    • (2010) BMC Syst Biol , vol.4 , pp. 58
    • Vazquez, A.1    Liu, J.2    Zhou, Y.3    Oltvai, Z.N.4
  • 19
    • 33846849322 scopus 로고    scopus 로고
    • Fermentative lifestyle in yeasts belonging to the Saccharomyces complex
    • 10.1111/j.1742-4658.2007.05645.x, 17239085
    • Merico A, Sulo P, Piskur J, Compagno C. Fermentative lifestyle in yeasts belonging to the Saccharomyces complex. FEBS J 2007, 274(4):976-989. 10.1111/j.1742-4658.2007.05645.x, 17239085.
    • (2007) FEBS J , vol.274 , Issue.4 , pp. 976-989
    • Merico, A.1    Sulo, P.2    Piskur, J.3    Compagno, C.4
  • 20
    • 14244256095 scopus 로고    scopus 로고
    • Experimental identification and quantification of glucose metabolism in seven bacterial species
    • 10.1128/JB.187.5.1581-1590.2005, 1064017, 15716428
    • Fuhrer T, Fischer E, Sauer U. Experimental identification and quantification of glucose metabolism in seven bacterial species. J Bacteriol 2005, 187(5):1581-1590. 10.1128/JB.187.5.1581-1590.2005, 1064017, 15716428.
    • (2005) J Bacteriol , vol.187 , Issue.5 , pp. 1581-1590
    • Fuhrer, T.1    Fischer, E.2    Sauer, U.3
  • 21
    • 0034625143 scopus 로고    scopus 로고
    • The Escherichia coli MG1655 in silico metabolic genotype: its definition, characteristics, and capabilities
    • Edwards JS, Palsson B. The Escherichia coli MG1655 in silico metabolic genotype: its definition, characteristics, and capabilities. P Natl Acad Sci USA 2000, 97(10):5528-5533.
    • (2000) P Natl Acad Sci USA , vol.97 , Issue.10 , pp. 5528-5533
    • Edwards, J.S.1    Palsson, B.2
  • 22
    • 34547887655 scopus 로고    scopus 로고
    • Intracellular crowding defines the mode and sequence of substrate uptake by Escherichia coli and constrains its metabolic activity
    • Beg QK, Vazquez A, Ernst J, de Menezes MA, Bar-Joseph Z, Barabasi AL, Oltvai ZN. Intracellular crowding defines the mode and sequence of substrate uptake by Escherichia coli and constrains its metabolic activity. P Natl Acad Sci USA 2007, 104(31):12663-12668.
    • (2007) P Natl Acad Sci USA , vol.104 , Issue.31 , pp. 12663-12668
    • Beg, Q.K.1    Vazquez, A.2    Ernst, J.3    de Menezes, M.A.4    Bar-Joseph, Z.5    Barabasi, A.L.6    Oltvai, Z.N.7
  • 23
    • 79953661070 scopus 로고    scopus 로고
    • Genome-scale metabolic modeling elucidates the role of proliferative adaptation in causing the Warburg effect
    • 10.1371/journal.pcbi.1002018, 3053319, 21423717
    • Shlomi T, Benyamini T, Gottlieb E, Sharan R, Ruppin E. Genome-scale metabolic modeling elucidates the role of proliferative adaptation in causing the Warburg effect. PLoS Comput Biol 2011, 7(3):e1002018. 10.1371/journal.pcbi.1002018, 3053319, 21423717.
    • (2011) PLoS Comput Biol , vol.7 , Issue.3
    • Shlomi, T.1    Benyamini, T.2    Gottlieb, E.3    Sharan, R.4    Ruppin, E.5
  • 24
    • 23944440242 scopus 로고    scopus 로고
    • Modeling Lactococcus lactis using a genome-scale flux model
    • 10.1186/1471-2180-5-39, 1185544, 15982422
    • Oliveira AP, Nielsen J, Forster J. Modeling Lactococcus lactis using a genome-scale flux model. BMC Microbiol 2005, 5:39. 10.1186/1471-2180-5-39, 1185544, 15982422.
    • (2005) BMC Microbiol , vol.5 , pp. 39
    • Oliveira, A.P.1    Nielsen, J.2    Forster, J.3
  • 26
    • 3843128481 scopus 로고    scopus 로고
    • Reconstruction and validation of Saccharomyces cerevisiae iND750, a fully compartmentalized genome-scale metabolic model
    • 10.1101/gr.2250904, 442145, 15197165
    • Duarte NC, Herrgard MJ, Palsson B. Reconstruction and validation of Saccharomyces cerevisiae iND750, a fully compartmentalized genome-scale metabolic model. Genome Res 2004, 14(7):1298-1309. 10.1101/gr.2250904, 442145, 15197165.
    • (2004) Genome Res , vol.14 , Issue.7 , pp. 1298-1309
    • Duarte, N.C.1    Herrgard, M.J.2    Palsson, B.3
  • 28
    • 58149185126 scopus 로고    scopus 로고
    • BRENDA, AMENDA and FRENDA the enzyme information system: new content and tools in 2009
    • (Database issue)
    • Chang A, Scheer M, Grote A, Schomburg I, Schomburg D. BRENDA, AMENDA and FRENDA the enzyme information system: new content and tools in 2009. Nucleic Acids Res 2009, 37:(Database issue):D588-D592.
    • (2009) Nucleic Acids Res , vol.37
    • Chang, A.1    Scheer, M.2    Grote, A.3    Schomburg, I.4    Schomburg, D.5
  • 29
    • 0012926979 scopus 로고    scopus 로고
    • Effect of specific growth rate on fermentative capacity of baker's yeast
    • 106631, 9797269
    • Hoek PV, Dijken JPV, Pronk JT. Effect of specific growth rate on fermentative capacity of baker's yeast. Appl Environ Microbiol 1998, 64(11):4226-4233. 106631, 9797269.
    • (1998) Appl Environ Microbiol , vol.64 , Issue.11 , pp. 4226-4233
    • Hoek, P.V.1    Dijken, J.P.V.2    Pronk, J.T.3
  • 30
    • 0037417864 scopus 로고    scopus 로고
    • Engineering the metabolism of Escherichia coli W3110 for the conversion of sugar to redox-neutral and oxidized products: homoacetate production
    • Causey TB, Zhou S, Shanmugam KT, Ingram LO. Engineering the metabolism of Escherichia coli W3110 for the conversion of sugar to redox-neutral and oxidized products: homoacetate production. P Natl Acad Sci USA 2003, 100(3):825-832.
    • (2003) P Natl Acad Sci USA , vol.100 , Issue.3 , pp. 825-832
    • Causey, T.B.1    Zhou, S.2    Shanmugam, K.T.3    Ingram, L.O.4
  • 32
    • 33847785682 scopus 로고    scopus 로고
    • Increasing NADH oxidation reduces overflow metabolism in Saccharomyces cerevisiae
    • Vemuri GN, Eiteman MA, McEwen JE, Olsson L, Nielsen J. Increasing NADH oxidation reduces overflow metabolism in Saccharomyces cerevisiae. P Natl Acad Sci USA 2007, 104(7):2402-2407.
    • (2007) P Natl Acad Sci USA , vol.104 , Issue.7 , pp. 2402-2407
    • Vemuri, G.N.1    Eiteman, M.A.2    McEwen, J.E.3    Olsson, L.4    Nielsen, J.5
  • 33
    • 33646578756 scopus 로고    scopus 로고
    • Overflow metabolism in Escherichia coli during steady-state growth: transcriptional regulation and effect of the redox ratio
    • 10.1128/AEM.72.5.3653-3661.2006, 1472329, 16672514
    • Vemuri GN, Altman E, Sangurdekar DP, Khodursky AB, Eiteman MA. Overflow metabolism in Escherichia coli during steady-state growth: transcriptional regulation and effect of the redox ratio. Appl Environ Microbiol 2006, 72(5):3653-3661. 10.1128/AEM.72.5.3653-3661.2006, 1472329, 16672514.
    • (2006) Appl Environ Microbiol , vol.72 , Issue.5 , pp. 3653-3661
    • Vemuri, G.N.1    Altman, E.2    Sangurdekar, D.P.3    Khodursky, A.B.4    Eiteman, M.A.5
  • 34
    • 77955970107 scopus 로고    scopus 로고
    • Optimality models in the age of experimental evolution and genomics
    • Bull JJ, Wang IN. Optimality models in the age of experimental evolution and genomics. J Evolution Biol 2010, 23(9):1820-1838.
    • (2010) J Evolution Biol , vol.23 , Issue.9 , pp. 1820-1838
    • Bull, J.J.1    Wang, I.N.2
  • 35
    • 0035917865 scopus 로고    scopus 로고
    • Cooperation and competition in the evolution of ATP-producing pathways
    • 10.1126/science.1058079, 11283355
    • Pfeiffer T, Schuster S, Bonhoeffer S. Cooperation and competition in the evolution of ATP-producing pathways. Science 2001, 292(5516):504-507. 10.1126/science.1058079, 11283355.
    • (2001) Science , vol.292 , Issue.5516 , pp. 504-507
    • Pfeiffer, T.1    Schuster, S.2    Bonhoeffer, S.3
  • 36
    • 33745310267 scopus 로고    scopus 로고
    • Resource competition and social conflict in experimental populations of yeast
    • 10.1038/nature04624, 16724064
    • MacLean RC, Gudelj I. Resource competition and social conflict in experimental populations of yeast. Nature 2006, 441(7092):498-501. 10.1038/nature04624, 16724064.
    • (2006) Nature , vol.441 , Issue.7092 , pp. 498-501
    • MacLean, R.C.1    Gudelj, I.2
  • 37
    • 11844280852 scopus 로고    scopus 로고
    • Game-theoretical approaches to studying the evolution of biochemical systems
    • 10.1016/j.tibs.2004.11.006, 15653322
    • Pfeiffer T, Schuster S. Game-theoretical approaches to studying the evolution of biochemical systems. Trends Biochem Sci 2005, 30:20-25. 10.1016/j.tibs.2004.11.006, 15653322.
    • (2005) Trends Biochem Sci , vol.30 , pp. 20-25
    • Pfeiffer, T.1    Schuster, S.2
  • 38
    • 79959610766 scopus 로고    scopus 로고
    • Economics of membrane occupancy and respiro-fermentation
    • 3159977, 21694717
    • Zhuang K, Vemuri GN, Mahadevan R. Economics of membrane occupancy and respiro-fermentation. Mol Syst Biol 2011, 7:500. 3159977, 21694717.
    • (2011) Mol Syst Biol , vol.7 , pp. 500
    • Zhuang, K.1    Vemuri, G.N.2    Mahadevan, R.3
  • 39
    • 77951612556 scopus 로고    scopus 로고
    • BiGG: a Biochemical Genetic and Genomic knowledgebase of large scale metabolic reconstructions
    • 10.1186/1471-2105-11-213, 2874806, 20426874
    • Schellenberger J, Park JO, Conrad TM, Palsson B. BiGG: a Biochemical Genetic and Genomic knowledgebase of large scale metabolic reconstructions. BMC Bioinformatics 2010, 11:213. 10.1186/1471-2105-11-213, 2874806, 20426874.
    • (2010) BMC Bioinformatics , vol.11 , pp. 213
    • Schellenberger, J.1    Park, J.O.2    Conrad, T.M.3    Palsson, B.4
  • 40
    • 34347258175 scopus 로고    scopus 로고
    • Quantitative prediction of cellular metabolism with constraint-based models: the COBRA Toolbox
    • 10.1038/nprot.2007.99, 17406635
    • Becker SA, Feist AM, Mo ML, Hannum G, Palsson B, Herrgard MJ. Quantitative prediction of cellular metabolism with constraint-based models: the COBRA Toolbox. Nat Protoc 2007, 2(3):727-738. 10.1038/nprot.2007.99, 17406635.
    • (2007) Nat Protoc , vol.2 , Issue.3 , pp. 727-738
    • Becker, S.A.1    Feist, A.M.2    Mo, M.L.3    Hannum, G.4    Palsson, B.5    Herrgard, M.J.6


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.