Syntrophic butyrate and propionate oxidation processes: From genomes to reaction mechanisms

Environmental Microbiology Reports

Volumn 2, Issue 4, 2010, Pages 489-499

  Müller, Nicolai ^a   Worm, Petra ^b   Schink, Bernhard ^a   Stams, Alfons J M ^b   Plugge, Caroline M ^b  

^a UNIVERSITY OF KONSTANZ   (Germany)

^b WAGENINGEN UNIVERSITY   (Netherlands)

Author keywords

[No Author keywords available]

Indexed keywords

PELOTOMACULUM THERMOPROPIONICUM; SYNTROPHOBACTER FUMAROXIDANS; SYNTROPHOMONAS WOLFEI; SYNTROPHUS ACIDITROPHICUS; THERMOTOGA MARITIMA;

EID: 78649756861     PISSN: None     EISSN: 17582229     Source Type: Journal    
DOI: 10.1111/j.1758-2229.2010.00147.x     Document Type: Review

References (48)

1. Backiel, J., Juárez, O., Zagorevski, D.V., Wang, Z., Nilges, M.J., and Barquera, B. (2008) Covalent binding of flavins to RnfG and RnfD in the Rnf complex form Vibrio cholera. Biochemistry-US 47: 11273-11284.
2. Bendtsen, J.D., Nielsen, H., Widdick, D., Palmer, T., and Brunak, S. (2005) Prediction of twin-arginine signal peptides. BMC Bioinformatics 6: 167.
3. de Bok, F.A.M., Stams, A.J.M., Dijkema, C., and Boone, D.R. (2001) Pathway of propionate oxidation by a syntrophic culture of Smithella propionica and Methanospirillum hungatei. Appl Environ Microbiol 67: 1800-1804.
4. de Bok, F.A.M., Luijten, M.L.G.C., and Stams, A.J.M. (2002) Biochemical evidence for formate transfer in syntrophic propionate-oxidizing cocultures of Syntrophobacter fumaroxidans and Methanospirillum hungatei. Appl Environ Microbiol 68: 4247-4252.
5. 2-reductases) involved in syntrophic propionate oxidation by Syntrophobacter fumaroxidans. Eur J Biochem 270: 2476-2485.
6. Chabrière, E., Charon, M.H., Volbeda, A., Pieulle, L., Hatchikian, E.C., and Fontecilla-Camps, J.C. (1999) Crystal structures of the key anaerobic enzyme pyruvate: ferredoxin oxidoreductase, free and in complex with pyruvate. Nat Struct Biol 6: 182-190.
7. Dolfing, J., Jiang, B., Henstra, A.M., Stams, A.J.M., and Plugge, C.M. (2008) Syntrophic growth on formate: a new microbial niche in anoxic environments. Appl Environ Microbiol 74: 6126-6131.
8. 2 and formate formation during syntrophic butyrate and propionate degradation. Anaerobe 1: 35-39.
9. Dong, X.Z., Cheng, G., and Stams, A.J.M. (1994) Butyrate oxidation by Syntrophospora bryantii in coculture with different methanogens and in pure culture with pentenoate as electron-acceptor. Appl Microbiol Biotechnol 42: 647-652.
10. Graentzdoerffer, A., Rauh, D., Pich, A., and Andreesen, J.R. (2003) Molecular and biochemical characterization of two tungstenand selenium-containing formate dehydrogenases from Eubacterium acidaminophilum that are associated with components of an iron-only hydrogenase. Arch Microbiol 179: 116-130.
11. Gustafson, W.G., Feinberg, B.A., and Mcfarland, J.T. (1986) Energetics of beta-oxidation - reduction potentials of general fatty acyl-CoA dehydrogenase, electron-transfer flavoprotein, and fatty acyl-CoA substrates. J Biol Chem 261: 7733-7741.
12. Heidelberg, J.F., Seshadri, R., Haveman, S.A., Hemme, C.L., Paulsen, I.T., Kolonay, J.F., et al. (2004) The genome sequence of the anaerobic, sulfate-reducing bacterium Desulfovibrio vulgaris Hildenborough. Nat Biotechnol 22: 554-559.
13. Herrmann, G., Jayamani, E., Mai, G., and Buckel, W. (2008) Energy conservation via electron-transferring flavoprotein in anaerobic bacteria. J Bacteriol 190: 784-791.
14. Hoehler, T.M., Alperin, M.J., Albert, D.B., and Martens, C.S. (2001) Apparent minimum free energy requirements for methanogenic archaea and sulfate-reducing bacteria in an anoxic marine sediment. FEMS Microbiol Ecol 38: 33-41.
15. Ishii, S., Kosaka, T., Hori, K., Hotta, Y., and Watanabe, K. (2005) Coaggregation facilitates interspecies hydrogen transfer between Pelotomaculum thermopropionicum and Methanothermobacter thermoautotrophicus. Appl Environ Microbiol 71: 7838-7845.
16. Jormakka, M., Törnroth, S., Byrne, B., and Iwata, S. (2002) Molecular basis of proton motive force generation: structure of formate dehydrogenase-N. Science 295: 1863-1868.
17. Kosaka, T., Kato, S., Shimoyama, T., Ishii, S., Abe, T., and Watanabe, K. (2008) The genome of Pelotomaculum thermopropionicum reveals niche-associated evolution in anaerobic microbiota. Genome Res 18: 442-448.
18. Kröger, A., Biel, S., Simon, J., Gross, R., Unden, G., and Lancaster, C.R.D. (2002) Fumarate respiration of Wolinella succinogenes: enzymology, energetics and coupling mechanism. Biochim Biophys Acta Bioenerg 1553: 23-38.
19. Kryukov, G.V., and Gladyshev, V.N. (2004) The prokaryotic selenoproteome. EMBO Rep 5: 538-543.
20. van Kuijk, B.L.M., and Stams, A.J.M. (1996) Purification and characterization of malate dehydrogenase from the syntrophic propionate-oxidizing bacterium strain MPOB. FEMS Microbiol Lett 144: 141-144.
21. van Kuijk, B.L.M., Schlösser, E., and Stams, A.J.M. (1998) Investigation of the fumarate metabolism of the syntrophic propionate-oxidizing bacterium strain MPOB. Arch Microbiol 169: 346-352.
22. Kumagai, H., Fujiwara, T., Matsubara, H., and Saeki, K. (1997) Membrane localization, topology, and mutual stabilization of the rnfABC gene products in Rhodobacter capsulatus and implications for a new family of energycoupling NADH oxidoreductases. Biochemistry-US 36: 5509-5521.
23. Lancaster, C.R.D. (2002) Succinate: quinone oxidoreductases: an overview. Biotech Biophys Acta Bioenerg 1553: 1-6.
24. Li, F., Hinderberger, J., Seedorf, H., Zhang, J., Buckel, W., and Thauer, R.K. (2008) Coupled ferredoxin and crotonyl coenzyme a (CoA) reduction with NADH catalyzed by the butyryl-CoA dehydrogenase/Etf complex from Clostridium kluyveri. J Bacteriol 190: 843-850.
25. McInerney, M.J., Bryant, M.P., and Pfennig, N. (1979) Anaerobic bacterium that degrades fatty acids in syntrophic association with methanogens. Arch Microbiol 122: 129-135.
26. McInerney, M.J., Bryant, M.P., Hespell, R.B., and Costerton, J.W. (1981) Syntrophomonas wolfei gen. nov. sp. nov, an anaerobic, syntrophic fatty acid-oxidizing bacterium. Appl Environ Microbiol 41: 1029-1039.
27. McInerney, M.J., Rohlin, L., Mouttaki, H., Kim, U., Krupp, R.S., Rios-Hernandez, L., et al. (2007) The genome of Syntrophus aciditrophicus: life at the thermodynamic limit of microbial growth. Proc Natl Acad Sci USA 104: 7600-7605.
28. McInerney, M.J., Struchtemeyer, C.G., Sieber, J., Mouttaki, H., Stams, A.J.M., Schink, B., et al. (2008) Physiology, ecology, phylogeny, and genomics of microorganisms capable of syntrophic metabolism. Ann N Y Acad Sci 1125: 58-72.
29. Mathews, D.H., Sabina, J., Zuker, M., and Turner, D.H. (1999) Expanded sequence dependence of thermodynamic parameters improves prediction of RNA secondary structure. J Mol Biol 288: 911-940.
30. +-oxidoreductase (Rnf) in Acetobacterium woodii: a novel potential coupling site in acetogens. Ann N Y Acad Sci 1125: 137-146.
31. Müller, N., Schleheck, C., and Schink, B. (2009) Involvement of NADH: acceptor oxidoreductase and butyryl-CoA dehydrogenase in reversed electron transport during syntrophic butyrate oxidation by Syntrophomonas wolfei. J Bacteriol 191: 6167-6177.
32. Nakanishi-Matsui, M., and Futai, M. (2008) Stochastic rotational catalysis of proton pumping F-ATPase. Philos Trans R Soc Lond B Biol Sci 363: 2135-2142.
33. +-translocating NADH-quinone reductase from Vibrio alginolyticus. FEBS Lett 474: 165-168.
34. Richardson, D.J. (2000) Bacterial respiration: a flexible process for a changing environment. Microbiology 146: 551-571.
35. Schink, B. (1997) Energetics of syntrophic cooperation in methanogenic degradation. Microbiol Mol Biol Rev 61: 262-280.
36. Schink, B., and Stams, A.J.M. (2006) Syntrophism among prokaryotes. Prokaryotes 2: 309-335.
37. Schut, G.J., and Adams, M.W.W. (2009) The iron-hydrogenase of Thermotoga maritima utilizes ferredoxin and NADH synergistically: a new perspective on anaerobic hydrogen production. J Bacteriol 191: 4451-4457.
38. Stams, A.J.M., and Plugge, C.M. (2009) Electron transfer in syntrophic communities of anaerobic bacteria and archaea. Nat Rev Microbiol 7: 568-577.
39. Thauer, R.K., and Morris, J.G. (1984) Metabolism of chemotrophic anaerobes: old views and new aspects. Symp Soc Gen Microbiol 36 (Part 2): 123-168.
40. Thauer, R.K., Jungermann, K., and Decker, K. (1977) Energy-conservation in chemotropic anaerobic bacteria. Bacteriol Rev 41: 100-180.
41. Wallrabenstein, C., and Schink, B. (1994) Evidence of reversed electron-transport in syntrophic butyrate or benzoate oxidation by Syntrophomonas wolfei and Syntrophus buswellii. Arch Microbiol 162: 136-142.
42. Wofford, N.Q., Beaty, P.S., and McInerney, M.J. (1986) Preparation of cell-free-extracts and the enzymes involved in fatty-acid metabolism in Syntrophomonas wolfei. J Bacteriol 167: 179-185.
43. Wu, C.G., Liu, X.L., and Dong, X.Z. (2006) Syntrophomonas cellicola sp nov., a spore-forming syntrophic bacterium isolated from a distilled-spirit-fermenting cellar, and assignment of Syntrophospora bryantii to Syntrophomonas bryantii comb. nov. Int J Syst Evol Microbiol 56: 2331-2335.
44. Yano, T., Li, L.S., Weinstein, E., Teh, J.S., and Rubin, H. (2006) Steady-state kinetics and inhibitory action of antitubercular phenothiazines on Mycobacterium tuberculosis type-II NADH-menaquinone oxidoreductase (NDH-2). J Biol Chem 281: 11456-11463.
45. Zhang, Y., and Gladyshev, V.N. (2005) An algorithm for identification of bacterial selenocysteine insertion sequence elements and selenoprotein genes. Bioinformatics 21: 2580-2589.
46. Zhao, H.X., Yang, D.C., Woese, C.R., and Bryant, M.P. (1993) Assignment of fatty acid-beta-oxidizing syntrophic bacteria to Syntrophomonadaceae fam. nov. on the basis of 16S rRNA sequence analyses. Int J Syst Bacteriol 43: 630-630.
47. 2 or formate - description and enzymatic studies. Arch Microbiol 150: 254-266.
48. Zuker, M. (2003) Mfold web server for nucleic acid folding and hybridization prediction. Nucleic Acids Res 31: 3406-3415.