Analysis of Enhanced Current-Generating Mechanism of Geobacter sulfurreducens Strain via Model-Driven Metabolism Simulation

PLoS ONE

Volumn 8, Issue 9, 2013, Pages

  Meng, Jing ^a   Xu, Zixiang ^b   Guo, Jing ^a   Yue, Yunxia ^a   Sun, Xiao ^a  

^a SOUTHEAST UNIVERSITY   (China)

^b Tianjin Airport Economic Area   (China)

Author keywords

[No Author keywords available]

Indexed keywords

ACETIC ACID; FORMIC ACID; ORGANIC MATTER;

ALGORITHM; ARTICLE; BACTERIAL GROWTH; BACTERIAL METABOLISM; BACTERIAL STRAIN; BIOENERGY; ELECTRIC CURRENT; ELECTRON TRANSPORT; FLUX BALANCE ANALYSIS; GEOBACTER SULFURREDUCENS; MICROBIAL BIOMASS; MICROBIAL FUEL CELL; MICROBIAL RESPIRATION; NONHUMAN; SYSTEM ANALYSIS;

ACETIC ACID; BIOELECTRIC ENERGY SOURCES; ELECTRICITY; ELECTRON TRANSPORT; ELECTRONS; ENERGY METABOLISM; FERRIC COMPOUNDS; GEOBACTER; METABOLIC ENGINEERING; OXYGEN CONSUMPTION;

EID: 84884195957     PISSN: None     EISSN: 19326203     Source Type: Journal    
DOI: 10.1371/journal.pone.0073907     Document Type: Article

References (25)

1. Franks AE, Nevin KP, (2010) Microbial fuel cells, a current review. Energies 3: 899-919. doi:10.3390/en3050899.
2. Franks AE, Malvankar N, Nevin KP, (2010) Bacterial biofilms: the powerhouse of a microbial fuel cell. Biofuels 1: 589-604. doi:10.4155/bfs.10.25.
3. Lovley DR, (2006) Bug juice: harvesting electricity with microorganisms. Nat Rev Microbiol 4: 497-508. doi:10.1038/nrmicro1442. PubMed: 16778836.
4. Ching L, Nikhil SM, Ashley EF, et al. (2013) Engineering geobacter sulfurreducens to produce a highly cohesive conductive matrix with enhanced capacity for current production. Energy. J Environ Sci 6: 1901-1908.
5. Logan BE, (2009) Exoelectrogenic bacteria that power microbial fuel cells. Nat Rev Microbiol 7: 375-381. doi:10.1038/nrmicro2113. PubMed: 19330018.
6. Lovley DR, (2006) Taming electricigens. Scientist 20: 46-46.
7. Strycharz SM, Malanoski AP, Snider RM, Yi H, Lovely DR, et al. (2011) Application of cyclic voltammetry to investigate enhanced catalytic current generation by biofilm-modified anodes of Geobacter sulfurreducens strain DL1 vs. variant strain KN400. Energy. J Environ Sci 4: 896-913.
8. Yi H, Nevin KP, Kim BC, Franks AE, Klimes A, et al. (2009) Selection of a variant of Geobacter sulfurreducens with enhanced capacity for current production in microbial fuel cells. Biosens Bioelectron 24: 3498-3503. doi:10.1016/j.bios.2009.05.004. PubMed: 19487117.
9. Tremblay PL, Summers ZM, Glaven RH, Nevin KP, Zengler K, et al. (2011) A c-type cytochrome and a transcriptional regulator responsible for enhanced extracellular electron transfer in Geobacter sulfurreducens revealed by adaptive evolution. Environ Microbiol 13: 13-23. doi:10.1111/j.1462-2920.2010.02302.x. PubMed: 20636372.
10. Inoue K, Qian X, Morgado L, Kim BC, Mester T, et al. (2010) Purification and characterization of OmcZ, an outer-surface, octaheme c-type cytochrome essential for optimal current production by Geobacter sulfurreducens. Appl Environ Microbiol 76: 3999-4007. doi:10.1128/AEM.00027-10. PubMed: 20400562.
11. Park JH, Lee SY, Kim TY, Kim HU, (2008) Application of systems biology for bioprocess development. Trends Biotechnol 26: 404-412. doi:10.1016/j.tibtech.2008.05.001. PubMed: 18582974.
12. Lee JM, Gianchandani EP, Papin JA, (2006) Flux balance analysis in the era of metabolomics. Brief Bioinform 7: 140-150. doi:10.1093/bib/bbl007. PubMed: 16772264.
13. Thiele I, Palsson BØ, (2010) A protocol for generating a high-quality genome-scale metabolic reconstruction. Nat Protoc 5: 93-121. doi:10.1038/nprot.2009.203. PubMed: 20057383.
14. Oberhardt MA, Palsson BØ, Papin JA, (2009) Applications of genome-scale metabolic reconstructions. Mol Syst Biol 5: 320. PubMed: 19888215.
15. Mahadevan R, Palsson BØ, Lovley DR, (2010) In situ to in silico and back: elucidating the physiology and ecology of Geobacter spp. using genome-scale modelling. Nat Rev Microbiol 9: 39-50. PubMed: 21132020.
16. Malvankar NS, Tuominen MT, Lovley DR, (2012) Biofilm conductivity is a decisive variable for high-current-density Geobacter sulfurreducens microbial fuel cells. Energy. J Environ Sci 5: 5790-5797.
17. Mahadevan R, Bond DR, Butler JE, Esteve-Nuñez A, Coppi MV, et al. (2006) Characterization of metabolism in the Fe (III)-reducing organism Geobacter sulfurreducens by constraint-based modeling. Appl Environ Microbiol 72: 1558-1568. doi:10.1128/AEM.72.2.1558-1568.2006. PubMed: 16461711.
18. Sun J, Sayyar B, Butler JE, Pharkya P, Fahland TR, et al. (2009) Genome-scale constraint-based modeling of Geobacter metallireducens. BMC syst biol 3: 15.
19. Orth JD, Thiele I, Palsson BØ, (2010) What is flux balance analysis? Nat Biotechnol 28: 245-248. doi:10.1038/nbt.1614. PubMed: 20212490.
20. Mahadevan R, Schilling CH, (2003) The effects of alternate optimal solutions in constraint-based genome-scale metabolic models. Metab Eng 5: 264-276. doi:10.1016/j.ymben.2003.09.002. PubMed: 14642354.
21. Schellenberger J, Que R, Fleming RMT, Thiele I, Orth JD, et al. (2011) Quantitative prediction of cellular metabolism with constraint-based models: the COBRA Toolbox v2. 0. Nat Protoc 6: 1290-1307. doi:10.1038/nprot.2011.308. PubMed: 21886097.
22. Segura D, Mahadevan R, Juárez K, Lovley DR, (2008) Computational and experimental analysis of redundancy in the central metabolism of Geobacter sulfurreducens. PLOS Comput Biol 4: 36. doi:10.1371/journal.pcbi.0040036. PubMed: 18266464.
23. Butler JE, Young ND, Lovley DR, (2010) Evolution of electron transfer out of the cell: comparative genomics of six Geobacter genomes. BMC Genomics 11: 40. doi:10.1186/1471-2164-11-40. PubMed: 20078895.
24. Galushko AS, Schink B, (2000) Oxidation of acetate through reactions of the citric acid cycle by Geobacter sulfurreducens in pure culture and in syntrophic coculture. Arch Microbiol 174: 314-321. doi:10.1007/s002030000208. PubMed: 11131021.
25. Izallalen M, Mahadevan R, Burgard A, Postier B, Didonato R, et al. (2008) Geobacter sulfurreducens strain engineered for increased rates of respiration. Metab Eng 10: 267-275. doi:10.1016/j.ymben.2008.06.005. PubMed: 18644460.