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Volumn 92, Issue 2, 2011, Pages 347-358

Reconstruction and verification of a genome-scale metabolic model for Synechocystis sp. PCC6803

Author keywords

Flux balance analysis; Genome scale metabolic model; PCC6803; Synechocystis sp

Indexed keywords

CONSTRAINT-BASED; CYANOBACTERIUM SYNECHOCYSTIS; ENVIRONMENTAL CONDITIONS; FLUX BALANCE ANALYSIS; GENOME-SCALE METABOLIC MODELS; HIGH PRODUCTIVITY; IN-SILICO MODELS; METABOLIC ACTIVITY; METABOLIC CAPABILITIES; METABOLIC CHARACTERISTICS; METABOLIC FLUX; METABOLIC FLUX ANALYSIS; METABOLIC REACTIONS; MIXOTROPHIC; PCC6803; PRODUCTION PROCESS; SIMULATED RESULTS; SUSTAINABLE ENERGY; SYNECHOCYSTIS SP;

EID: 82455199087     PISSN: 01757598     EISSN: 14320614     Source Type: Journal    
DOI: 10.1007/s00253-011-3559-x     Document Type: Article
Times cited : (64)

References (49)
  • 2
    • 70449592325 scopus 로고    scopus 로고
    • Enhancing sesquiterpene production in Saccharomyces cerevisiae through in silico driven metabolic engineering
    • Asadollahi MA, Maury J, Patil KR, Schalk M, Clark A, Nielsen J (2009) Enhancing sesquiterpene production in Saccharomyces cerevisiae through in silico driven metabolic engineering. Metab Eng 11:328-334
    • (2009) Metab Eng , vol.11 , pp. 328-334
    • Asadollahi, M.A.1    Maury, J.2    Patil, K.R.3    Schalk, M.4    Clark, A.5    Nielsen, J.6
  • 3
    • 71849086611 scopus 로고    scopus 로고
    • Direct photosynthetic recycling of carbon dioxide to isobutyraldehyde
    • Atsumi S, Higashide W, Liao JC (2009) Direct photosynthetic recycling of carbon dioxide to isobutyraldehyde. Nat Biotechnol 27:1177-1180
    • (2009) Nat Biotechnol , vol.27 , pp. 1177-1180
    • Atsumi, S.1    Higashide, W.2    Liao, J.C.3
  • 5
    • 0034177573 scopus 로고    scopus 로고
    • Membrane heredity and early chloroplast evolution
    • DOI 10.1016/S1360-1385(00)01598-3, PII S1360138500015983
    • Cavalier-Smith T (2000) Membrane heredity and early chloroplast evolution. Trends Plant Sci 5:174-182 (Pubitemid 30192275)
    • (2000) Trends in Plant Science , vol.5 , Issue.4 , pp. 174-182
    • Cavalier-Smith, T.1
  • 6
    • 0027142977 scopus 로고
    • PsaL subunit is required for the formation of photosystem I trimers in the cyanobacterium Synechocystis sp
    • Chitnis VP, Chitnis PR (1993) PsaL subunit is required for the formation of photosystem I trimers in the cyanobacterium Synechocystis sp. PCC 6803. FEBS Lett 336:330-334
    • (1993) PCC 6803. FEBS Lett , vol.336 , pp. 330-334
    • Chitnis, V.P.1    Chitnis, P.R.2
  • 7
    • 77952265112 scopus 로고    scopus 로고
    • In silico identification of gene amplification targets for improvement of lycopene production
    • Choi HS, Lee SY, Kim TY, Woo HM (2010) In silico identification of gene amplification targets for improvement of lycopene production. Appl Environ Microbiol 76:3097-3105
    • (2010) Appl Environ Microbiol , vol.76 , pp. 3097-3105
    • Choi, H.S.1    Lee, S.Y.2    Kim, T.Y.3    Woo, H.M.4
  • 8
    • 0030954407 scopus 로고    scopus 로고
    • Serine synthesis in cyanobacteria by a nonphotorespiratory pathway
    • DOI 10.1034/j.1399-3054.1997.1000114.x
    • Colman B, Norman EG (1997) Serine synthesis in cyanobacteria by a nonphotorespiratory pathway. Physiol Plant 100:133-136 (Pubitemid 27235693)
    • (1997) Physiologia Plantarum , vol.100 , Issue.1 , pp. 133-136
    • Colman, B.1    Norman, E.G.2
  • 9
  • 10
    • 70349296964 scopus 로고    scopus 로고
    • Metabolic engineering of cyanobacteria for ethanol production
    • Dexter J, Fu P (2009) Metabolic engineering of cyanobacteria for ethanol production. Energy Environ Sci 2:857-864
    • (2009) Energy Environ Sci , vol.2 , pp. 857-864
    • Dexter, J.1    Fu, P.2
  • 11
    • 55949125406 scopus 로고    scopus 로고
    • The photorespiratory glycolate metabolism is essential for cyanobacteria and might have been conveyed endosymbiontically to plants
    • Eisenhut M, Ruth W, Haimovich M, Bauwe H, Kaplan A, Hagemann M(2008) The photorespiratory glycolate metabolism is essential for cyanobacteria and might have been conveyed endosymbiontically to plants. Proc Natl Acad Sci USA 105:17199-17204
    • (2008) Proc Natl Acad Sci US.A. , vol.105 , pp. 17199-17204
    • Eisenhut, M.1    Ruth, W.2    Haimovich, M.3    Bauwe, H.4    Kaplan, A.5    Hagemann, M.6
  • 12
    • 45149111660 scopus 로고    scopus 로고
    • The growing scope of applications of genome-scale metabolic reconstructions using Escherichia coli
    • DOI 10.1038/nbt1401, PII NBT1401
    • Feist AM, Palsson BO (2008) The growing scope of applications of genome-scale metabolic reconstructions using Escherichia coli. Nat Biotechnol 26:659-667 (Pubitemid 351824691)
    • (2008) Nature Biotechnology , vol.26 , Issue.6 , pp. 659-667
    • Feist, A.M.1    Palsson, B.O.2
  • 15
    • 27144533653 scopus 로고    scopus 로고
    • Reconstructing the metabolic network of a bacterium from its genome
    • DOI 10.1016/j.tim.2005.09.001, PII S0966842X05002490
    • Francke C, Siezen RJ, Teusink B (2005) Reconstructing the metabolic network of a bacterium from its genome. Trends Microbiol 13:550-558 (Pubitemid 41506897)
    • (2005) Trends in Microbiology , vol.13 , Issue.11 , pp. 550-558
    • Francke, C.1    Siezen, R.J.2    Teusink, B.3
  • 16
    • 0032762209 scopus 로고    scopus 로고
    • Evolution of organellar genomes
    • Gray MW (1999) Evolution of organellar genomes. Curr Opin Genet Dev 9:678-687
    • (1999) Curr Opin Genet Dev , vol.9 , pp. 678-687
    • Gray, M.W.1
  • 17
    • 0020049959 scopus 로고
    • Transformation in the Cyanobacterium Synechocystis sp
    • Grigorieva G, Shestakov S (1982) Transformation in the Cyanobacterium Synechocystis sp. 6803. FEMS Microbiol Lett 13:367-370
    • (1982) 6803. FEMS Microbiol Lett , vol.13 , pp. 367-370
    • Grigorieva, G.1    Shestakov, S.2
  • 18
    • 0035706670 scopus 로고    scopus 로고
    • Synechocystis sp. PCC 6803 - A useful tool in the study of the genetics of cyanobacteria
    • DOI 10.1023/A:1013887908680
    • Ikeuchi M, Tabata S (2001) Synechocystis sp. PCC 6803-a useful tool in the study of the genetics of cyanobacteria. Photosynth Res 70:73-83 (Pubitemid 34128539)
    • (2001) Photosynthesis Research , vol.70 , Issue.1 , pp. 73-83
    • Ikeuchi, M.1    Tabata, S.2
  • 19
    • 0020600413 scopus 로고
    • Primary structure of the peptidoglycan from the unicellular cyanobacterium Synechocystis sp. strain PCC 6714
    • Jurgens UJ, Drews G, Weckesser J (1983) Primary structure of the peptidoglycan from the unicellular cyanobacterium Synechocystis sp. strain PCC 6714. J Bacteriol 154:471-478 (Pubitemid 13115470)
    • (1983) Journal of Bacteriology , vol.154 , Issue.1 , pp. 471-478
    • Jurgens, U.J.1    Drews, G.2    Weckesser, J.3
  • 20
    • 0033982936 scopus 로고    scopus 로고
    • KEGG: Kyoto Encyclopedia of Genes and Genomes
    • Kanehisa M, Goto S (2000) KEGG: Kyoto Encyclopedia of Genes and Genomes. Nucleic Acids Res 28:27-30 (Pubitemid 30047706)
    • (2000) Nucleic Acids Research , vol.28 , Issue.1 , pp. 27-30
    • Kanehisa, M.1    Goto, S.2
  • 23
    • 77956710803 scopus 로고    scopus 로고
    • The metabolic network of Synechocystis sp. PCC 6803: Systemic properties of autotrophic growth
    • Knoop H, Zilliges Y, Lockau W, Steuer R (2010) The metabolic network of Synechocystis sp. PCC 6803: Systemic properties of autotrophic growth. Plant Physiol 154:410-422
    • (2010) Plant Physiol , vol.154 , pp. 410-422
    • Knoop, H.1    Zilliges, Y.2    Lockau, W.3    Steuer, R.4
  • 24
    • 33645089172 scopus 로고    scopus 로고
    • Proteomic analysis of heterotrophy in Synechocystis sp
    • Kurian D, Jansen T, Maenpaa P (2006) Proteomic analysis of heterotrophy in Synechocystis sp. PCC 6803. Proteomics 6:1483-1494
    • (2006) PCC 6803. Proteomics , vol.6 , pp. 1483-1494
    • Kurian, D.1    Jansen, T.2    Maenpaa, P.3
  • 25
    • 0031886445 scopus 로고    scopus 로고
    • 31P NMR spectroscopic study
    • DOI 10.1007/s002030050560
    • Lawrence BA, Suarez C, DePina A, Click E, Kolodny NH, Allen MM (1998) Two internal pools of soluble polyphosphate in the cyanobacterium Synechocystis sp. strain PCC 6308: An in vivo 31P NMR spectroscopic study. Arch Microbiol 169:195-200 (Pubitemid 28098689)
    • (1998) Archives of Microbiology , vol.169 , Issue.3 , pp. 195-200
    • Lawrence, B.A.1    Suarez, C.2    DePina, A.3    Click, E.4    Kolodny, N.H.5    Allen, M.M.6
  • 26
    • 29144484729 scopus 로고    scopus 로고
    • Metabolic engineering of Escherichia coli for enhanced production of succinic acid, based on genome comparison and in silico gene knockout simulation
    • DOI 10.1128/AEM.71.12.7880-7887.2005
    • Lee SJ, Lee DY, Kim TY, Kim BH, Lee J, Lee SY (2005) Metabolic engineering of Escherichia coli for enhanced production of succinic acid, based on genome comparison and in silico gene knockout simulation. Appl Environ Microbiol 71:7880-7887 (Pubitemid 41805090)
    • (2005) Applied and Environmental Microbiology , vol.71 , Issue.12 , pp. 7880-7887
    • Lee, S.J.1    Lee, D.-Y.2    Kim, T.Y.3    Kim, B.H.4    Lee, J.5    Lee, S.Y.6
  • 27
    • 70449336249 scopus 로고    scopus 로고
    • Engineering a platform for photosynthetic isoprene production in cyanobacteria, using Synechocystis as the model organism
    • Lindberg P, Park S, Melis A (2010) Engineering a platform for photosynthetic isoprene production in cyanobacteria, using Synechocystis as the model organism. Metab Eng 12:70-79
    • (2010) Metab Eng , vol.12 , pp. 70-79
    • Lindberg, P.1    Park, S.2    Melis, A.3
  • 28
    • 0344222215 scopus 로고    scopus 로고
    • Determination of bacterial cell dry mass by transmission electron microscopy and densitometric image analysis
    • Loferer-Krossbacher M, Klima J, Psenner R (1998) Determination of bacterial cell dry mass by transmission electron microscopy and densitometric image analysis. Appl Environ Microbiol 64:688-694 (Pubitemid 28079842)
    • (1998) Applied and Environmental Microbiology , vol.64 , Issue.2 , pp. 688-694
    • Loferer-Krossbacher, M.1    Klima, J.2    Psenner, R.3
  • 29
    • 1642457253 scopus 로고    scopus 로고
    • The effects of alternate optimal solutions in constraint-based genome-scale metabolic models
    • DOI 10.1016/j.ymben.2003.09.002
    • Mahadevan R, Schilling CH (2003) The effects of alternate optimal solutions in constraint-based genome-scale metabolic models. Metab Eng 5:264-276 (Pubitemid 38122488)
    • (2003) Metabolic Engineering , vol.5 , Issue.4 , pp. 264-276
    • Mahadevan, R.1    Schilling, C.H.2
  • 30
    • 74549189949 scopus 로고    scopus 로고
    • Flux Design: In silico design of cell factories based on correlation of pathway fluxes to desired properties
    • Melzer G, Esfandabadi ME, Franco-Lara E, Wittmann C (2009) Flux Design: In silico design of cell factories based on correlation of pathway fluxes to desired properties. BMC Syst Biol 3:120
    • (2009) BMC Syst Biol , vol.3 , pp. 120
    • Melzer, G.1    Esfandabadi, M.E.2    Franco-Lara, E.3    Wittmann, C.4
  • 32
    • 0031812609 scopus 로고    scopus 로고
    • CyanoBase, a www database containing the complete nucleotide sequence of the genome of Synechocystis sp. strain PCC6803
    • DOI 10.1093/nar/26.1.63
    • Nakamura Y, Kaneko T, Hirosawa M, Miyajima N, Tabata S (1998) CyanoBase, a www database containing the complete nucleotide sequence of the genome of Synechocystis sp. strain PCC6803. Nucleic Acids Res 26:63-67 (Pubitemid 28291513)
    • (1998) Nucleic Acids Research , vol.26 , Issue.1 , pp. 63-67
    • Nakamura, Y.1    Kaneko, T.2    Hirosawa, M.3    Miyajima, N.4    Tabata, S.5
  • 35
    • 73149122136 scopus 로고    scopus 로고
    • Applications of genome-scale metabolic reconstructions
    • Oberhardt MA, Palsson BO, Papin JA (2009) Applications of genome-scale metabolic reconstructions. Mol Syst Biol 5:320
    • (2009) Mol Syst Biol , vol.5 , pp. 320
    • Oberhardt, M.A.1    Palsson, B.O.2    Papin, J.A.3
  • 36
    • 34249934691 scopus 로고    scopus 로고
    • Metabolic engineering of Escherichia coli for the production of L-valine based on transcriptome analysis and in silico gene knockout simulation
    • Park JH, Lee KH, Kim TY, Lee SY (2007) Metabolic engineering of Escherichia coli for the production of L-valine based on transcriptome analysis and in silico gene knockout simulation. Proc Natl Acad Sci USA 104:7797-7802
    • (2007) Proc Natl Acad Sci US.A. , vol.104 , pp. 7797-7802
    • Park, J.H.1    Lee, K.H.2    Kim, T.Y.3    Lee, S.Y.4
  • 37
    • 0014155612 scopus 로고
    • The metabolism of acetate by the blue-green algae, Anabaena variabilis and Anacystis nidulans
    • Pearce J, Carr NG (1967) The metabolism of acetate by the blue-green algae, Anabaena variabilis and Anacystis nidulans. J Gen Microbiol 49:301-313
    • (1967) J Gen Microbiol , vol.49 , pp. 301-313
    • Pearce, J.1    Carr, N.G.2
  • 38
    • 0015441506 scopus 로고
    • Metabolism of glucose by unicellular blue-green algae
    • Pelroy RA, Rippka R, Stanier RY (1972) Metabolism of glucose by unicellular blue-green algae. Arch Microbiol 87:303-322
    • (1972) Arch Microbiol , vol.87 , pp. 303-322
    • Pelroy, R.A.1    Rippka, R.2    Stanier, R.Y.3
  • 39
    • 0035949438 scopus 로고    scopus 로고
    • Characterization of three bioenergetically active respiratory terminal oxidases in the cyanobacterium Synechocystis sp. strain PCC 6803
    • DOI 10.1016/S0378-1097(01)00356-1, PII S0378109701003561
    • Pils D, Schmetterer G (2001) Characterization of three bioenergetically active respiratory terminal oxidases in the cyanobacterium Synechocystis sp. strain PCC 6803. FEMS Microbiol Lett 203:217-222 (Pubitemid 32913618)
    • (2001) FEMS Microbiology Letters , vol.203 , Issue.2 , pp. 217-222
    • Pils, D.1    Schmetterer, G.2
  • 40
    • 13544267729 scopus 로고    scopus 로고
    • Functional in situ evaluation of photosynthesis-protecting carotenoids in mutants of the cyanobacterium Synechocystis PCC6803
    • DOI 10.1016/j.jphotobiol.2004.11.007, PII S1011134404001769
    • Schafer L, Vioque A, Sandmann G (2005) Functional in situ evaluation of photosynthesis-protecting carotenoids in mutants of the cyanobacterium Synechocystis PCC6803. J Photochem Photobiol B Biol 78:195-201 (Pubitemid 40220987)
    • (2005) Journal of Photochemistry and Photobiology B: Biology , vol.78 , Issue.3 , pp. 195-201
    • Schafer, L.1    Vioque, A.2    Sandmann, G.3
  • 41
    • 0033136109 scopus 로고    scopus 로고
    • Metabolic pathway analysis: Basic concepts and scientific applications in the post-genomic era
    • DOI 10.1021/bp990048k
    • Schilling CH, Schuster S, Palsson BO, Heinrich R (1999) Metabolic pathway analysis: Basic concepts and scientific applications in the post-genomic era. Biotechnol Prog 15:296-303 (Pubitemid 29270673)
    • (1999) Biotechnology Progress , vol.15 , Issue.3 , pp. 296-303
    • Schilling, C.H.1    Schuster, S.2    Palsson, B.O.3    Heinrich, R.4
  • 42
    • 0019156478 scopus 로고
    • Lipopolysaccharides in four strains of the unicellular cyanobacterium Synechocystis
    • DOI 10.1007/BF00427196
    • SchmidtW, Drews D,Weckesser J,Mayer H (1980) Lipopolysaccharides in four strains of the unicellular cyanobacterium Synechocystis. Arch Microbiol 127:217-222 (Pubitemid 11208255)
    • (1980) Archives of Microbiology , vol.127 , Issue.3 , pp. 217-222
    • Schmidt, W.1    Drews, G.2    Weckesser, J.3    Mayer, H.4
  • 43
    • 69249206723 scopus 로고    scopus 로고
    • Localization of cytochrome b6f complexes implies an incomplete respiratory chain in cytoplasmic membranes of the cyanobacterium Synechocystis sp
    • Schultze M, Forberich B, Rexroth S, Dyczmons NG, Roegner M, Appel J (2009) Localization of cytochrome b6f complexes implies an incomplete respiratory chain in cytoplasmic membranes of the cyanobacterium Synechocystis sp. PCC 6803. Biochim Biophys Acta 1787:1479-1485
    • (2009) PCC 6803. Biochim Biophys Acta , vol.1787 , pp. 1479-1485
    • Schultze, M.1    Forberich, B.2    Rexroth, S.3    Dyczmons, N.G.4    Roegner, M.5    Appel, J.6
  • 44
    • 28844474830 scopus 로고    scopus 로고
    • Flux balance analysis of photoautotrophic metabolism
    • DOI 10.1021/bp050246d
    • Shastri AA, Morgan JA (2005) Flux balance analysis of photoautotrophic metabolism. Biotechnol Prog 21:1617-1626 (Pubitemid 41778984)
    • (2005) Biotechnology Progress , vol.21 , Issue.6 , pp. 1617-1626
    • Shastri, A.A.1    Morgan, J.A.2
  • 45
    • 69249154275 scopus 로고    scopus 로고
    • Development and experimental verification of a genome-scale metabolic model for Corynebacterium glutamicum
    • Shinfuku Y, Sorpitiporn N, Sono M, Furusawa C, Hirasawa T, Shimizu H (2009) Development and experimental verification of a genome-scale metabolic model for Corynebacterium glutamicum. Microb Cell Fac 8:43
    • (2009) Microb Cell Fac , vol.8 , pp. 43
    • Shinfuku, Y.1    Sorpitiporn, N.2    Sono, M.3    Furusawa, C.4    Hirasawa, T.5    Shimizu, H.6
  • 46
    • 0037001967 scopus 로고    scopus 로고
    • Rubisco: Structure, regulatory interactions, and possibilities for a better enzyme
    • DOI 10.1146/annurev.arplant.53.100301.135233
    • Spreitzer RJ, Salvucci ME (2002) Rubisco: Structure, regulatory interactions, and possibilities for a better enzyme. Annu Rev Plant Biol 53:449-475 (Pubitemid 36257503)
    • (2002) Annual Review of Plant Biology , vol.53 , pp. 449-475
    • Spreitzer, R.J.1    Salvucci, M.E.2
  • 47
    • 0000288410 scopus 로고
    • Synechocystis PCC6803 mutants defective in desaturation of fatty acids
    • Wada H, Murata N (1989) Synechocystis PCC6803 mutants defective in desaturation of fatty acids. Plant Cell Physiol 30:971-978
    • (1989) Plant Cell Physiol , vol.30 , pp. 971-978
    • Wada, H.1    Murata, N.2
  • 48
    • 0033823409 scopus 로고    scopus 로고
    • Energetics and carbon metabolism during growth of microalgal cells under photoautotrophic, mixotrophic and cyclic light-autotrophic/dark-heterotrophic conditions
    • Yang C, Hua Q, Shimizu K (2000) Energetics and carbon metabolism during growth of microalgal cells under photoautotrophic, mixotrophic and cyclic light-autotrophic/dark-heterotrophic conditions. Biochem Eng J 6:87-102
    • (2000) Biochem Eng J , vol.6 , pp. 87-102
    • Yang, C.1    Hua, Q.2    Shimizu, K.3
  • 49
    • 0036663559 scopus 로고    scopus 로고
    • 13C-labeled glucose
    • DOI 10.1006/mben.2002.0226
    • Yang C, Hua Q, Shimizu K (2002) Metabolic flux analysis in Synechocystis using isotope distribution from 13C-labeled glucose. Metab Eng 4:202-216 (Pubitemid 35474127)
    • (2002) Metabolic Engineering , vol.4 , Issue.3 , pp. 202-216
    • Yang, C.1    Hua, Q.2    Shimizu, K.3


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