Biofilms as living catalysts in continuous chemical syntheses

Trends in Biotechnology

Volumn 30, Issue 9, 2012, Pages 453-465

  Halan, Babu ^a   Buehler, Katja ^a   Schmid, Andreas ^a  

^a TU DORTMUND UNIVERSITY   (Germany)

Author keywords

[No Author keywords available]

Indexed keywords

BIO-HYDROGEN; BIOFILM REACTORS; CHEMICAL SYNTHESIS; ELECTRICITY PRODUCTION; ENVIRONMENTAL STRESS; FINE CHEMICALS; LIVING CATALYSTS; NOVEL SOLUTIONS; PRODUCT RECOVERY; SCALE-UP;

BIOREACTORS; BIOREMEDIATION; CATALYSTS;

BIOFILMS;

BACITRACIN; BIOFUEL; PLASTIC;

ARTIFICIAL MEMBRANE; ATOMIC FORCE MICROSCOPY; BACTERIUM CULTURE; BIOCATALYSIS; BIOCATALYST; BIOFILM; BIOFILM REACTOR; BIOFUEL PRODUCTION; CONFOCAL LASER MICROSCOPY; CONTINUOUS FLOW REACTOR; DRUG MANUFACTURE; ENGINEERING; IMMOBILIZATION; NONHUMAN; OPTICAL COHERENCE TOMOGRAPHY; PRIORITY JOURNAL; REVIEW; SCANNING ELECTRON MICROSCOPY; SENSOR; SYNTHESIS;

BIOFILMS; BIOREACTORS; BIOTECHNOLOGY;

EID: 84865179767     PISSN: 01677799     EISSN: 18793096     Source Type: Journal    
DOI: 10.1016/j.tibtech.2012.05.003     Document Type: Review

References (94)

1. Costerton J.W., et al. Microbial biofilms. Annu. Rev. Microbiol. 1995, 49:711-745.
2. Woodley J.M. Microbial biocatalytic processes and their development. Adv. Appl. Microbiol. 2006, 60:1-15.
3. Industrial Biotransformations 2006, Wiley-VCH. A. Liese (Ed.).
4. Rosche B., et al. Microbial biofilms: a concept for industrial catalysis?. Trends Biotechnol. 2009, 27:636-643.
5. Avnir D., et al. Recent bio-applications of sol-gel materials. J. Mater. Chem. 2006, 16:1013-1030.
6. Buchholz K., et al. Biocatalysts and Enzyme Technology 2005, Wiley-VCH.
7. Hekmat D., et al. Optimization of the microbial synthesis of dihydroxyacetone in a semi-continuous repeated-fed-batch process by in situ immobilization of Gluconobacter oxydans. Process Biochem. 2007, 42:71-76.
8. Flemming H.C., Wingender J. The biofilm matrix. Nat. Rev. Microbiol. 2010, 8:623-633.
9. Stewart P.S., Franklin M.J. Physiological heterogeneity in biofilms. Nat. Rev. Microbiol. 2008, 6:199-210.
10. Qureshi N., et al. Biofilm reactors for industrial bioconversion processes: employing potential of enhanced reaction rates. Microb. Cell Fact. 2005, 4:24.
11. Singh R., et al. Biofilms: implications in bioremediation. Trends Microbiol. 2006, 14:389-397.
12. Erable B., et al. Application of electro-active biofilms. Biofouling 2010, 26:57-71.
13. Oliver J.D. Recent findings on the viable but nonculturable state in pathogenic bacteria. FEMS Microbiol. Rev. 2010, 34:415-425.
14. Pamp S.J., et al. Insight into the microbial multicellular lifestyle via flow-cell technology and confocal microscopy. Cytometry A 2009, 75:90-103.
15. Harrison J.J., et al. Multimetal resistance and tolerance in microbial biofilms. Nat. Rev. Microbiol. 2007, 5:928-938.
16. Fang H.H., et al. Effects of toxic metals and chemicals on biofilm and biocorrosion. Water Res. 2002, 36:4709-4716.
17. Halan B., et al. Real-time solvent tolerance analysis of Pseudomonas sp. strain VLB120DeltaC catalytic biofilms. Appl. Environ. Microbiol. 2011, 77:1563-1571.
18. Gross R., et al. Microbial biofilms: new catalysts for maximizing productivity of long-term biotransformations. Biotechnol. Bioeng. 2007, 98:1123-1134.
19. Gross R., et al. Characterization of a biofilm membrane reactor and its prospects for fine chemical synthesis. Biotechnol. Bioeng. 2010, 105:705-717.
20. Halan B., et al. Maximizing the productivity of catalytic biofilms on solid supports in membrane aerated reactors. Biotechnol. Bioeng. 2010, 106:516-527.
21. Li X.Z., et al. Enhanced benzaldehyde tolerance in Zymomonas mobilis biofilms and the potential of biofilm applications in fine-chemical production. Appl. Environ. Microbiol. 2006, 72:1639-1644.
22. Wood T.K., et al. Engineering biofilm formation and dispersal. Trends Biotechnol. 2011, 29:87-94.
23. Lawrence J.R., et al. Scanning transmission X-ray, laser scanning, and transmission electron microscopy mapping of the exopolymeric matrix of microbial biofilms. Appl. Environ. Microbiol. 2003, 69:5543-5554.
24. Fedel M., et al. Microbial biofilm imaging ESEM vs HVSEM. GIT Imaging Microsc. 2007, 2:44-47.
25. Muscariello L., et al. A critical overview of ESEM applications in the biological field. J. Cell Physiol. 2005, 205:328-334.
26. Priester J.H., et al. Enhanced visualization of microbial biofilms by staining and environmental scanning electron microscopy. J. Microbiol. Methods 2007, 68:577-587.
27. Palmer R.J., et al. Confocal microscopy of biofilms - spatiotemporal approaches. Handbook of Biological Confocal Microscopy 2006, 882-900. Springer Science+Business Media. 2nd edn. J.B. Pawley (Ed.).
28. Chiang W.C., et al. Silver-palladium surfaces inhibit biofilm formation. Appl. Environ. Microbiol. 2009, 75:1674-1678.
29. Teitzel G.M., Parsek M.R. Heavy metal resistance of biofilm and planktonic Pseudomonas aeruginosa. Appl. Environ. Microbiol. 2003, 69:2313-2320.
30. Chen M.Y., et al. Staining of extracellular polymeric substances and cells in bioaggregates. Appl. Microbiol. Biotechnol. 2007, 75:467-474.
31. Leis A.P., et al. Optically transparent porous medium for nondestructive studies of microbial biofilm architecture and transport dynamics. Appl. Environ. Microbiol. 2005, 71:4801-4808.
32. Lorite G.S., et al. The role of conditioning film formation and surface chemical changes on Xylella fastidiosa adhesion and biofilm evolution. J. Colloid Interface Sci. 2011, 359:289-295.
33. Yuan S.J., Pehkonen S.O. AFM study of microbial colonization and its deleterious effect on 304 stainless steel by Pseudomonas NCIMB 2021 and Desulfovibrio desulfuricans in simulated seawater. Corros. Sci. 2009, 51:1372-1385.
34. Dufrene Y.F. Using nanotechniques to explore microbial surfaces. Nat. Rev. Microbiol. 2004, 2:451-460.
35. Wagner M., et al. Investigation of the mesoscale structure and volumetric features of biofilms using optical coherence tomography. Biotechnol. Bioeng. 2010, 107:844-853.
36. Kuhl M. Optical microsensors for analysis of microbial communities. Methods Enzymol. 2005, 397:166-199.
37. Revsbech N.P. Analysis of microbial communities with electrochemical microsensors and microscale biosensors. Methods Enzymol. 2005, 397:147-166.
38. Kuhl M., et al. Combined imaging of bacteria and oxygen in biofilms. Appl. Environ. Microbiol. 2007, 73:6289-6295.
39. McBain A.J. Chapter 4: In vitro biofilm models: an overview. Adv. Appl. Microbiol. 2009, 69:99-132.
40. Gieseke A., et al. Nitrification in a biofilm at low pH values: role of in situ microenvironments and acid tolerance. Appl. Environ. Microbiol. 2006, 72:4283-4292.
41. Zhang W., et al. A novel planar flow cell for studies of biofilm heterogeneity and flow-biofilm interactions. Biotechnol. Bioeng. 2011, 108:2571-2582.
42. Benoit M.R., et al. New device for high-throughput viability screening of flow biofilms. Appl. Environ. Microbiol. 2010, 76:4136-4142.
43. Cheng K.C., et al. Advances in biofilm reactors for production of value-added products. Appl. Microbiol. Biotechnol. 2010, 87:445-456.
44. Kunduru M.R., Pometto A.L. Continuous ethanol production by Zymomonas mobilis and Saccharomyces cerevisiae in biofilm reactors. J. Ind. Microbiol. 1996, 16:249-256.
45. Govender S., et al. Nutrient manipulation as a basis for enzyme production in a gradostat bioreactor. Enzyme Microb. Technol. 2010, 46:603-609.
46. Hickey, R. et al. Coskata. Method of conversion of syngas using microorganism on hydrophilic membrane, WO2011068576.
47. Crueger W., Crueger A. Acetic acids. Biotechnology: A Textbook of Industrial Microbiology 1990, 134-147. Science Tech. T.D. Brock (Ed.).
48. Syron E., Casey E. Membrane-aerated biofilms for high rate biotreatment: performance appraisal, engineering principles, scale-up, and development requirements. Environ. Sci. Technol. 2008, 42:1833-1844.
49. Karande, R. et al. TU Dortmund. Segmented flow biofilm reactor, PCT/EP2011/057724.
50. Cotton J.C., et al. Continuous lactic acid fermentation using a plastic composite support biofilm reactor. Appl. Microbiol. Biotechnol. 2001, 57:626-630.
51. Cheng K.C., et al. Effects of plastic composite support and pH profiles on pullulan production in a biofilm reactor. Appl. Microbiol. Biotechnol. 2010, 86:853-861.
52. Yan L., et al. Biofilm-specific cross-species induction of antimicrobial compounds in bacilli. Appl. Environ. Microbiol. 2003, 69:3719-3727.
53. Sarkar S., et al. Production of a potentially novel antimicrobial compound by a biofilm-forming marine Streptomyces sp. in a niche-mimic rotating disk bioreactor. Bioprocess Biosyst. Eng. 2010, 33:207-217.
54. Jeremiasse A.W., et al. Microbial electrolysis cell with a microbial biocathode. Bioelectrochemistry 2010, 78:39-43.
55. Logan B.E., et al. Microbial electrolysis cells for high yield hydrogen gas production from organic matter. Environ. Sci. Technol. 2008, 42:8630-8640.
56. Rabaey K., et al. High current generation coupled to caustic production using a lamellar bioelectrochemical system. Environ. Sci. Technol. 2010, 44:4315-4321.
57. Cheng S., et al. Direct biological conversion of electrical current into methane by electromethanogenesis. Environ. Sci. Technol. 2009, 43:3953-3958.
58. Steinbusch K.J., et al. Bioelectrochemical ethanol production through mediated acetate reduction by mixed cultures. Environ. Sci. Technol. 2010, 44:513-517.
59. Nevin K.P., et al. Microbial electrosynthesis: feeding microbes electricity to convert carbon dioxide and water to multicarbon extracellular organic compounds. MBio 2010, 1:e00103-e00110.
60. Logan B.E. Scaling up microbial fuel cells and other bioelectrochemical systems. Appl. Microbiol. Biotechnol. 2010, 85:1665-1671.
61. Rabaey K., Rozendal R.A. Microbial electrosynthesis - revisiting the electrical route for microbial production. Nat. Rev. Microbiol. 2010, 8:706-716.
62. Logan B.E. Exoelectrogenic bacteria that power microbial fuel cells. Nat. Rev. Microbiol. 2009, 7:375-381.
63. Wilkins M.R., Atiyeh H.K. Microbial production of ethanol from carbon monoxide. Curr. Opin. Biotechnol. 2011, 22:326-330.
64. Tsai, S-P. et al. Coskata. Modular membrane supported bioreactor for conversion of syngas components to liquid products, WO 02/08438.
65. Hickey, R. et al. Coskata. Membrane supported bioreactor for conversion of syngas components to liquid products, WO2008154301.
66. Kopke M., et al. Fermentative production of ethanol from carbon monoxide. Curr. Opin. Biotechnol. 2011, 22:320-325.
67. Setyawati M.I., et al. Self-immobilized recombinant Acetobacter xylinum for biotransformation. Biochem. Eng. J. 2009, 43:78-84.
68. Tsoligkas A.N., et al. Engineering biofilms for biocatalysis. Chembiochem 2010, 12:1391-1395.
69. Stubblefield B.A., et al. Constructing multispecies biofilms with defined compositions by sequential deposition of bacteria. Appl. Microbiol. Biotechnol. 2010, 86:1941-1946.
70. Donlan R.M. Biofilms: microbial life on surfaces. Emerg. Infect. Dis. 2002, 8:881-890.
71. Woodley J.M., Titchener-Hooker N.J. The use of windows of operation as a bioprocess design tool. Bioprocess Eng. 1996, 14:263-268.
72. Ruinatscha R., et al. Productivity of selective electroenzymatic reduction and oxidation reactions: theoretical and practical considerations. Adv. Synth. Catal. 2006, 348:2015-2026.
73. Straathof A.J., et al. The production of fine chemicals by biotransformations. Curr. Opin. Biotechnol. 2002, 13:548-556.
74. Lazarova V., Manem J. Biofilm characterization and activity analysis in water and waste-water treatment. Water Res. 1995, 29:2227-2245.
75. Bouletreau S., et al. Rotating disk electrodes to assess river biofilm thickness and elasticity. Water Res. 2010, 45:1347-1357.
76. Korstgens V., et al. Uniaxial compression measurement device for investigation of the mechanical stability of biofilms. J. Microbiol. Methods 2001, 46:9-17.
77. Paramonova E., et al. Low-load compression testing: a novel way of measuring biofilm thickness. Appl. Environ. Microbiol. 2007, 73:7023-7028.
78. Comte S., et al. Relations between extraction protocols for activated sludge extracellular polymeric substances (EPS) and EPS complexation properties. Part I. Comparison of the efficiency of eight EPS extraction methods. Enzyme Microb. Technol. 2006, 38:237-245.
79. Ivleva N.P., et al. Towards a nondestructive chemical characterization of biofilm matrix by Raman microscopy. Anal. Bioanal. Chem. 2009, 393:197-206.
80. van Groenestijn J.W., et al. Performance and population analysis of a non-sterile trickle bed reactor inoculated with Caldicellulosiruptor saccharolyticus, a thermophilic hydrogen producer. Biotechnol. Bioeng. 2009, 102:1361-1367.
81. Tay A., Yang S.T. Production of L(+)-lactic acid from glucose and starch by immobilized cells of Rhizopus oryzae in a rotating fibrous bed bioreactor. Biotechnol. Bioeng. 2002, 80:1-12.
82. Qureshi N., Maddox I.S. Reactor design for the ABE fermentation using cells of Clostridium acetobutylicum immobilized by adsorption onto bonechar. Bioprocess Eng. 1988, 3:69-72.
83. Cao N., et al. Simultaneous production and recovery of fumaric acid from immobilized Rhizopus oryzae with a rotary biofilm contactor and an adsorption column. Appl. Environ. Microbiol. 1996, 62:2926-2931.
84. Ho K.L., et al. Optimization of L-(+)-lactic acid production by ring and disc plastic composite supports through repeated-batch biofilm fermentation. Appl. Environ. Microbiol. 1997, 63:2533-2542.
85. Bland R.R., et al. Continuous high-rate production of ethanol by zymomonas mobilis in an attached film expanded bed fermenter. Biotechnol. Lett. 1982, 4:323-328.
86. Qureshi N., et al. Scale-up of a high productivity continuous biofilm reactor to produce butanol by adsorbed cells of Clostridium beuerinckii. Food Bioprod. Process. 2004, 82:164-173.
87. Lewis V.P., Yang S.T. Continuous propionic-acid fermentation by immobilized propionibacterium acidipropionici in a novel packed bed bioreactor. Biotechnol. Bioeng. 1992, 40:465-474.
88. Krug T.A., Daugulis A.J. Ethanol production using Zymomonas mobilis immobilized on an ion-exchange Resin. Biotechnol. Lett. 1983, 5:159-164.
89. Weusterbotz D., et al. Continuous ethanol production by Zymomonas mobilis in a fluidized bed reactor. Part II. Process development for the fermentation of hydrolyzed B-starch without sterilization. Appl. Microbiol. Biotechnol. 1993, 39:685-690.
90. Welsh F.W., et al. Solid carriers for a Clostridium acetobutylicum that produces acetone and butanol. Enzyme Microb. Technol. 1987, 9:500-502.
91. Qureshi N., Maddox I.S. Continuous solvent production from whey permeate using cells of Clostridium acetobutylicum immobilized by adsorption onto bonechar. Enzyme Microb. Technol. 1987, 9:668-671.
92. Zhang S., et al. Poly(3-hydroxybutyrate) biosynthesis in the biofilm of Alcaligenes eutrophus, using glucose enzymatically released from pulp fiber sludge. Appl. Environ. Microbiol. 2004, 70:6776-6782.
93. Qureshi N., et al. Continuous solvent production by Clostridium beijerinckii BA101 immobilized by adsorption onto brick. World J. Microbiol. Biotechnol. 2000, 16:377-382.
94. Heydorn A., et al. Quantification of biofilm structures by the novel computer program COMSTAT. Microbiology 2000, 146(Pt 10):2395-2407.