Dynamic flux balance analysis of batch fermentation: Effect of genetic manipulations on ethanol production

Bioprocess and Biosystems Engineering

Volumn 37, Issue 4, 2014, Pages 617-627

  Lisha, K P ^a   Sarkar, Debasis ^a  

^a INDIAN INSTITUTE OF TECHNOLOGY   (India)

Author keywords

Batch fermentation; Co culture; Dynamic flux balance modeling; Ethanol; Mixed substrate; Mono culture

Indexed keywords

BACTERIA; ETHANOL; FERMENTATION; METABOLIC ENGINEERING; OPTIMIZATION;

BATCH FERMENTATION; COCULTURE; FLUX BALANCE MODEL; MIXED SUBSTRATES; MONO-CULTURE;

BIOETHANOL;

ALCOHOL; GLUCOSE; XYLOSE;

ALCOHOL PRODUCTION; ARTICLE; BACTERIAL STRAIN; BACTERIUM CULTURE; BATCH FERMENTATION; CHEMICAL COMPOSITION; COCULTURE; COMPUTER MODEL; DYNAMIC FLUX BALANCE ANALYSIS; ESCHERICHIA COLI; GENETIC ENGINEERING; GENETIC MANIPULATION; METABOLIC ENGINEERING; NONHUMAN; PRIORITY JOURNAL; SACCHAROMYCES CEREVISIAE; SIMULATION; BIOLOGICAL MODEL; GENETICS; GROWTH, DEVELOPMENT AND AGING; METABOLISM;

COCULTURE TECHNIQUES; ESCHERICHIA COLI; ETHANOL; MODELS, BIOLOGICAL; SACCHAROMYCES CEREVISIAE;

EID: 84898538483     PISSN: 16157591     EISSN: 16157605     Source Type: Journal    
DOI: 10.1007/s00449-013-1027-y     Document Type: Article

References (32)

1. Zaldivar J, Nielsen J, Olsson L (2001) Fuel ethanol production from lignocellulose: a challenge for metabolic engineering and process integration. Appl Microbiol Biotechnol 56:17-34 (Pubitemid 32663881)
2. Bothast RJ, Nichols NN, Dien BS (1999) Fermentations with new recombinant organisms. Biotechnol Prog 15:867-875 (Pubitemid 29475625)
3. Dien BS, Cotta MA, Jeffries TW (2003) Bacteria engineered for fuel ethanol production: current status. Appl Microbiol Biotechnol 63:258-266 (Pubitemid 38139281)
4. Jeffries TW, Jin YS (2004) Metabolic engineering for improved fermentation of pentoses by yeasts. Appl Microbiol Biotechnol 63:495-509 (Pubitemid 38232698)
5. Eiteman MA, Lee SA, Altman E (2008) A co-fermentation strategy to consume sugar mixtures effectively. J Biol Eng 2:3
6. Fu N, Peiris P, Markham J, Bavor J (2009) A novel co-culture process with Zymomonas mobilis and Pichia stipitis for efficient ethanol production on glucose/xylose mixtures. Enzyme Microb Technol 45:210-217
7. Chen Y (2011) Development and application of co-culture for ethanol production by co-fermentation of glucose and xylose: a systematic review. J Ind Microbiol Biotechnol 38:581-597
8. Varma A, Palsson BO (1994) Metabolic flux balancing: basic concepts, scientific and practical use. Nat Biotechnol 12:994-998
9. Edwards JS, Covert M, Palsson BO (2002) Metabolic modelling of microbes: the flux balance approach. Environ Microbiol 4:133-140 (Pubitemid 34544038)
10. Orth JD, Thiele I, Palsson BO (2010) What is flux balance analysis?. Nat Biotechnol 28:245-248
11. Oddone GM, Mills DA, Block DE (2009) A dynamic, genomescale flux model of Lactococcus lactis to increase specific recombinant protein expression. Metab Eng 11:367-381
12. Smallbone K, Simeonidis E (2009) Flux balance analysis: a geometric perspective. J Theor Biol 258:311-315
13. Kauffman KJ, Prakash P, Edwards JS (2003) Advances in flux balance analysis. Curr Opin Biotechnol 14:491-496 (Pubitemid 37298033)
14. Hjersted JL, Henson MA, Mahadevan R (2007) Genome-scale analysis of Saccharomyces cerevisiae metabolism and ethanol production in fed-batch culture. Biotechnol Bioeng 97:1190-1204 (Pubitemid 47195316)
15. Hanly TJ, Henson MA (2011) Dynamic flux balance modeling of microbial co-cultures for efficient batch fermentation of glucose and xylose mixtures. Biotechnol Bioeng 108:376-385
16. Hanly TJ, Urello M, Henson MA (2012) Dynamic flux balance modeling of S. cerevisiae and E. coli co-cultures for efficient consumption of glucose/xylose mixtures. Appl Microbiol Biotechnol 93:2529-2541
17. Bro C, Regenberg B, Forster J, Nielsen J (2006) In silico aided metabolic engineering of Saccharomyces cerevisiae for improved bioethanol production. Metab Eng 8:102-111 (Pubitemid 43356393)
18. Duarte NC, Herrgard MJ, Palsson BO (2004) Reconstruction and validation of Saccharomyces cerevisiae iND750, a fully compartmentalized genome-scale metabolic model. Genome Res 14:1298-1309 (Pubitemid 39036129)
19. Fiest AM et al. (2007) A genome-scale metabolic reconstruction for Escherichia coli K-12 MG1655 that accounts for 1260 ORFs and thermodynamic information. Mol Syst Biol 3:121
20. Papagianni M, Boonpooh Y, Mattey M, Kristiansen B (2007) Substrate inhibition kinetics of Saccharomyces cerevisiae in fedbatch cultures operated at constant glucose and maltose concentration levels. J Ind Microbiol Biotechnol 34:301-309 (Pubitemid 46434819)
21. Sainz J, Pizarro F, Correa JRP, Agosin E (2003) Modeling of yeast metabolism and process dynamics in batch fermentation. Biotechnol Bioeng 81:818-828 (Pubitemid 36313720)
22. Becker SA, Feist AM, Mo ML, Hannum G, Palsson BO, Herrgard MJ (2007) Quantitative prediction of cellular metabolism with constraint-based models: the COBRA Toolbox. Nat Protoc 2:727-738 (Pubitemid 47040034)
23. Nissen TL, Brandt MCK, Nielsen J, Villadsen J (2000) Optimization of ethanol production in Saccharomyces cerevisiae by metabolic engineering of the ammonium assimilation. Metab Eng 2:69-77 (Pubitemid 30491368)
24. Nissen TL, Hamann CW, Brandt MCK, Nielsen J, Villadsen J (2000) Anaerobic and aerobic batch cultivations of Saccharomyces cerevisiae mutants impaired in glycerol synthesis. Yeast 16:463-474 (Pubitemid 30162687)
25. Kanehisa M, Goto S (2000) KEGG: Kyoto encyclopedia of genes and genomes. Nucleic Acids Res 28:27-30 (Pubitemid 30047706)
26. Kuyper M, Toirkens MJ, Diderich JA, Winkler AA, van Dijken JP, Pronk JT (2005) Evolutionary engineering of mixed-sugar utilization by a xylose-fermenting Saccharomyces cerevisiae strain. FEMS Yeast Res 5:925-934 (Pubitemid 40941017)
27. Eslamloueyan R, Setoodeh P (2011) Optimization of fed-batch recombinant yeast fermentation for ethanol production using a reduced dynamic flux balance model based on artificial neural networks. Chem Eng Comm 198:1309-1338
28. Edwards JS, Ibarra RU, Palsson BO (2001) In silico predictions of Escherichia coli metabolic capabilities are consistent with experimental data. Nat Biotechnol 19:125-130 (Pubitemid 32144439)
29. Simeonidis E, Murabito E, Smallbone K, Westerhoff HV (2010) Why does yeast ferment? A flux balance analysis study. Biochem Soc T 38(5):1225-1229
30. Govindaswamy S, VaneLM(2007) Kinetics of growth and ethanol production on different carbon substrates using genetically engineered xylose-fermenting yeast. Bioresource Technol 98:677-685 (Pubitemid 44376832)
31. Krahulec S, Petschacher B, Wallner M, Longus K, Klimacek M, Nidetzky B (2010) Fermentation of mixed glucose-xylose substrates by engineered strains of Saccharomyces cerevisiae : role of the coenzyme specificity of xylose reductase, and effect of glucose on xylose utilization. Microb Cell Fact 9:16
32. Roca C, Nielsen J, Olsson L (2003) Metabolic engineering of ammonium assimilation in xylose-fermenting Saccharomyces cerevisiae improves ethanol production. Appl Env Microbiol 69:4732-4736 (Pubitemid 36992935)