Ecological control analysis: Being(s) in control of mass flux and metabolite concentrations in anaerobic degradation processes

Environmental Microbiology

Volumn 9, Issue 2, 2007, Pages 500-511

  Röling, Wilfred F M ^a   Van Breukelen, Boris M ^a   Bruggeman, Frank J ^a   Westerhoff, Hans V ^a  

^a VU UNIVERSITY AMSTERDAM   (Netherlands)

Author keywords

[No Author keywords available]

Indexed keywords

TETRACHLOROETHYLENE; TRICHLOROETHYLENE;

ANAEROBIC BACTERIUM; ARTICLE; BIOREMEDIATION; ECOSYSTEM; FERMENTATION; HUMIC SUBSTANCE; METABOLISM; OXIDATION REDUCTION REACTION; PHYSIOLOGY;

BACTERIA, ANAEROBIC; BIODEGRADATION, ENVIRONMENTAL; ECOSYSTEM; FERMENTATION; HUMIC SUBSTANCES; OXIDATION-REDUCTION; TETRACHLOROETHYLENE; TRICHLOROETHYLENE;

METHANOBACTERIALES;

EID: 33846088428     PISSN: 14622912     EISSN: 14622920     Source Type: Journal    
DOI: 10.1111/j.1462-2920.2006.01167.x     Document Type: Article

References (61)

1. Ahring, B.K., and Westermann, P. (1988) Product inhibition of butyrate metabolism by acetate and hydrogen in a thermophilic coculture. Appl Environ Microbiol 54: 2393-2397.
2. Bakker, B.M., Michels, P.A.M., Opperdoes, F.R., and Westerhoff, H.V. (1999) What controls glycolysis in bloodstream form Trypanosoma brucei? J Biol Chem 274: 14551-14559.
3. Ballapragada, B.S., Stensel, H.D., Puhakka, J.A., and Ferguson, J.F. (1997) Effect of hydrogen on reductive dechlorination of chlorinated ethenes. Environ Sci Technol 31: 1728-1734.
4. Beaty, P.S., and McInerney, M.J. (1989) Effects of organicacid anions on the growth and metabolism of Syntrophomonas-wolfei in pure culture and in defined consortia. Appl Environ Microbiol 55: 977-983.
5. 4 production in a rice paddy soil: model and experimental validation. Geochim Cosmochim Acta 65: 2055-2066.
6. 2 or formate uptake. Appl Environ Microbiol 55: 1735-1741.
7. Chapelle, F.H. (2001) Ground-Water Microbiology and Geochemistry. New York, NY, USA: John Wiley & Sons.
8. Christensen, T.H., Bjerg, P.L., Banwart, S.A., Jakobsen, R., Heron, G., and Albrechtsen, H.J. (2000) Characterization of redox conditions in groundwater contaminant plumes. J Contam Hydrol 45: 165-241.
9. Conrad, R., Phelps, T.J., and Zeikus, J.G. (1985) Gas metabolism evidence in support of the juxtaposition of hydrogen-producing and methanogenic bacteria in sewage-sludge and lake-sediments. Appl Environ Microbiol 50: 595-601.
10. Dolfing, J., and Tiedje, J.M. (1988) Acetate inhibition of methanogenic, syntrophic benzoate degradation. Appl Environ Microbiol 54: 1871-1873.
11. Dwyer, D.F., Weegaerssens, E., Shelton, D.R., and Tiedje, J.M. (1988) Bioenergetic conditions of butyrate metabolism by a syntrophic, anaerobic bacterium in coculture with hydrogen-oxidizing methanogenic and sulfidogenic bacteria. Appl Environ Microbiol 54: 1354-1359.
12. Fell, D. (1997) Understanding the Control of Metabolism. London, UK: Portland Press.
13. Fennell, D.E., and Gossett, J.M. (1998) Modeling the production of and competition for hydrogen in a dechlorinating culture. Environ Sci Technol 32: 2450-2460.
14. Fennell, D.E., Gossett, J.M., and Zinder, S.H. (1997) Comparison of butyric acid, ethanol, lactic acid, and propionic acid as hydrogen donors for the reductive dechlorination of tetrachloroethene. Environ Sci Technol 31: 918-926.
15. Fukuzaki, S., Nishio, N., Shobayashi, M., and Nagai, S. (1990) Inhibition of the fermentation of propionate to methane by hydrogen, acetate, and propionate. Appl Environ Microbiol 56: 719-723.
16. Getz, W.M., Westerhoff, H.V., Hofmeyr, J.H.S., and Snoep, J.L. (2003) Control analysis of trophic chains. Ecol Model 168: 153-171.
17. 4-producing enrichment. Biotechnol Bioeng 40: 768-776.
18. Groen, A.K., Wanders, R.J.A., Westerhoff, H.V., Van der Meer, R., and Tager, J.M. (1982) Quantification of the contribution of various steps to the control of mitochondrial respiration. J Biol Chem 257: 2754-2757.
19. Heinrich, R., and Rapoport, T.A. (1974) Linear steady-state treatment of enzymatic chains - general properties, control and effector strength. Eur J Biochem 42: 89-95.
20. Hoefnagel, M.H.N., Starrenburg, M.J.C., Martens, D.E., Hugenholtz, J., Kleerebezem, M., Van Swam, I.I., et al. (2002) Metabolic engineering of lactic acid bacteria, the combined approach: kinetic modelling, metabolic control and experimental analysis. Microbiology 148: 1003-1013.
21. Hoehler, T.M., Alperin, M.J., Albert, D.B., and Martens, C.S. (1998) Thermodynamic control on hydrogen concentrations in anoxic sediments. Geochim Cosmochim Acta 62: 1745-1756.
22. 2 cycling in sedimentary and phototrophic ecosystems. Antonie Van Leeuwenhoek 81: 575-585.
23. Hofmeyr, J.H.S., Cornish-bowden, A., and Rohwer, J.M. (1993) Taking enzyme-kinetics out of control - putting control into regulation. Eur J Biochem 212: 833-837.
24. Hoh, C.Y., and Cord-Ruwisch, R. (1996) A practical kinetic model that considers endproduct inhibition in anaerobic digestion processes by including the equilibrium constant. Biotechnol Bioeng 51: 597-604.
25. Hoh, C.Y., and Cord-Ruwisch, R. (1997) Experimental evidence for the need of thermodynamic considerations in modelling of anaerobic environmental bioprocesses. Water Sci Technol 36: 109-115.
26. Jackson, B.E., and McInerney, M.J. (2002) Anaerobic microbial metabolism can proceed close to thermodynamic limits. Nature 415: 454-456.
27. 2 concentrations in a landfill leachate plume (Grindsted, Denmark): in situ energetics of terminal electron acceptor processes. Environ Sci Technol 32: 2142-2148.
28. Kacser, H., Burns, J.A., and Fell, D.A. (1995) The control of flux. Biochem Soc Trans 23: 341-366.
29. Kahn, D., and Westerhoff, H.V. (1991) Control-theory of regulatory cascades. J Theor Biol 153: 255-285.
30. Kaspar, H.F., and Wuhrmann, K. (1978) Kinetic-parameters and relative turnovers of some important catabolic reactions in digesting sludge. Appl Environ Microbiol 36: 1-7.
31. Kleerebezem, R., and Stams, A.J.M. (2000) Kinetics of syntrophic cultures: a theoretical treatise on butyrate fermentation. Biotechnol Bioeng 67: 529-543.
32. Kowalchuk, G.A., and Stephen, J.R. (2001) Ammoniaoxidizing bacteria: a model for molecular microbial ecology. Annu Rev Microbiol 55: 485-529.
33. Krab, K., Wagner, M.J., Wagner, A.M., and Moller, I.M. (2000) Identification of the site where the electron transfer chain of plant mitochondria is stimulated by electrostatic charge screening. Eur J Biochem 267: 869-876.
34. Kristjansson, J.K., Schonheit, P., and Thauer, R.K. (1982) Different Ks values for hydrogen of methanogenic bacteria and sulfate reducing bacteria - an explanation for the apparent inhibition of methanogenesis by sulfate. Arch Microbiol 131: 278-282.
35. Lovley, D.R. (2000) Fe(III)- and Mn(IV)-reducing prokaryotes. In The Prokaryotes, 3rd edn. Dworkin, M., Falkow, S., Rosenberg, K., Schleifer, H., and Stackebrandt, E. (eds). New York, NY, USA: Springer-Verlag. [WWW document]. URL http://link.springer-ny.com/link/service/books/10125/
36. Lovley, D.R., and Goodwin, S. (1988) Hydrogen concentrations as an indicator of the predominant terminal electronaccepting reactions in aquatic sediments. Geochim Cosmochim Acta 52: 2993-3003.
37. Lovley, D.R., Dwyer, D.F., and Klug, M.J. (1982) Kinetic-analysis of competition between sulfate reducers and methanogens for hydrogen in sediments. Appl Environ Microbiol 43: 1373-1379.
38. Luijten, M.L.G.C., Roelofsen, W., Langenhoff, A.A.M., Schraa, G., and Stams, A.J.M. (2004) Hydrogen threshold concentrations in pure cultures of halorespiring bacteria and at a site polluted with chlorinated ethenes. Environ Microbiol 6: 646-650.
39. Oude Elferink, S.J.W.H., Luppens, S.B.I., Marcelis, C.L.M., and Stams, A.J.M. (1998) Kinetics of acetate oxidation by two sulfate reducers isolated from anaerobic granular sludge. Appl Environ Microbiol 64: 2301-2303.
40. 4-reduction interface. Geochim Cosmochim Acta 60: 3169-3175.
41. Quant, P.A. (1993) Experimental application of top-down control analysis to metabolic systems. Trends Biochem Sci 18: 26-30.
42. Rabus, R., Hansen, T., and Widdel, F. (1999) Dissmilatory sulfate- and sulfur-reducing prokaryotes. In The Prokaryotes, 3rd edn. Dworkin, M., Falkow, S., Rosenberg, K., Schleifer, H., and Stackebrandt, E. (eds). New York, NY, USA: Springer-Verlag. [WWW document]. URL http://link.springer-ny.com/link/ service/books/10125/.
43. 2 under resting and growing conditions. Arch Microbiol 137: 26-32.
44. Roden, E.E., and Wetzel, R.G. (2003) Competition between Fe(III)-reducing and methanogenic bacteria for acetate in iron-rich freshwater sediments. Microb Ecol 45: 252-258.
45. Schink, B. (1997) Energetics of syntrophic cooperation in methanogenic degradation. Microbiol Mol Biol Rev 61: 262-280.
46. Schmidt, J.E., and Ahring, B.K. (1993) Effects of hydrogen and formate on the degradation of propionate and butyrate in thermophilic granules from an upflow anaerobic sludge blanket reactor. Appl Environ Microbiol 59: 2546-2551.
47. Scholten, J.C.M., and Conrad, R. (2000) Energetics of syntrophic propionate oxidation in defined batch and chemostat cocultures. Appl Environ Microbiol 66: 2934-2942.
48. Scholten, J.C.M., van Bodegom, P.M., Vogelaar, J., van Ittersum, A., Hordijk, K., Roelofsen, W., and Stams, A.J.M. (2002) Effect of sulfate and nitrate on acetate conversion by anaerobic microorganisms in a freshwater sediment. FEMS Microbiol Ecol 42: 375-385.
49. Seitz, H.J., Schink, B., Pfennig, N., and Conrad, R. (1990) Energetics of syntrophic ethanol oxidation in defined chemostat cocultures. 2. Energy sharing in biomass production. Arch Microbiol 155: 89-93.
50. Smatlak, C.R., Gossett, J.M., and Zinder, S.H. (1996) Comparative kinetics of hydrogen utilization for reductive dechlorination of tetrachloroethene and methanogenesis in an anaerobic enrichment culture. Environ Sci Technol 30: 2850-2858.
51. Stams, A.J.M. (1994) Metabolic interactions between anaerobic bacteria in methanogenic environments. Anton Van Leeuwenhoek 66: 271-294.
52. Stouthamer, A.H. (1979) The search for correlation between theoretical and experimental growth yields. In Microbial Biochemistry. Quayle, J.R. (ed.). Baltimore, MD, USA: University Park Press, pp. 1-49.
53. Voolapalli, R.K., and Stuckey, D.C. (1999) Relative importance of trophic group concentrations during anaerobic degradation of volatile fatty acids. Appl Environ Microbiol 65: 5009-5016.
54. Vroblesky, D.A., Bradley, P.M., and Chapelle, F.H. (1997) Lack of correlation between organic acid concentrations and predominant electon-accepting processes in a contaminated aquifer. Environ Sci Technol 31: 1416-1418.
55. Warikoo, V., McInerney, M.J., Robinson, J.A., and Suflita, J.M. (1996) Interspecies acetate transfer influences the extent of anaerobic benzoate degradation by syntrophic consortia. Appl Environ Microbiol 62: 26-32.
56. Watson, I.A., Oswald, S.E., Mayer, K.U., Wu, Y.X., and Banwart, S.A. (2003) Modeling kinetic processes controlling hydrogen and acetate concentrations in an aquifer-derived microcosm. Environ Sci Technol 37: 3910-3919.
57. Westerhoff, H.V., and Chen, Y.D. (1984) How do enzyme activities control metabolite concentrations? An additional theorem in the theory of metabolic control. Eur J Biochem 142: 425-430.
58. Westerhoff, H.V., and Kell, D.B. (1987) Matrix-method for determining steps most rate-limiting to metabolic fluxes in biotechnological processes. Biotechnol Bioeng 30: 101-107.
59. Westerhoff, H.V., Getz, W.M., van Verseveld, H.W., Hofmeyr, J.-H.S., and Snoep, J.L. (2002) Bioinformatics, cellular flows, and calculation. Ernst Schering Res Found Workshop 38: 221-243.
60. Westermann, P., Ahring, B.K., and Mah, R.A. (1989) Temperature compensation in Methanosarcina barkeri by modulation of hydrogen and acetate affinity. Appl Environ Microbiol 55: 1262-1266.
61. Whitman, W.B., Bowen, T.L., and Boone, D.R. (1999) The methanogenic bacteria. In The Prokaryotes, 3rd edn. Dworkin, M., Falkow, S., Rosenberg, K., Schleifer, H., and Stackebrandt, E. (eds). New York, NY, USA: Springer-Verlag. [WWW document]. URL http://link.springer-ny.com/link/service/ books/10125/.