A versatile and sensitive tritium-based radioassay for measuring hydrogenase activity in aquatic sediments

Journal of Microbiological Methods

Volumn 66, Issue 1, 2006, Pages 136-146

  Soffientino, Bruno ^a   Spivack, Arthur J ^a   Smith, David C ^a   Roggenstein, Edward B ^a   D'Hondt, Steven ^a  

^a UNIVERSITY OF RHODE ISLAND   (United States)

Author keywords

Enzyme radioassay; Hydrogen; Hydrogenase; Microbial activity; Sediment

Indexed keywords

HYDROGENASE;

ARTICLE; CLOSTRIDIUM PASTEURIANUM; DESULFOVIBRIO VULGARIS; ENZYME ACTIVITY; ISOTOPE LABELING; LIQUID SCINTILLATION COUNTING; MICHAELIS MENTEN KINETICS; PRIORITY JOURNAL; RADIOASSAY; SEDIMENT; SYRINGE;

CLOSTRIDIUM; DESULFOVIBRIO VULGARIS; GEOLOGIC SEDIMENTS; HYDROGEN; HYDROGENASE; SCINTILLATION COUNTING; TRITIUM; WATER;

CLOSTRIDIUM PASTEURIANUM; DESULFOVIBRIO VULGARIS;

EID: 33646805770     PISSN: 01677012     EISSN: None     Source Type: Journal    
DOI: 10.1016/j.mimet.2005.11.004     Document Type: Article

References (42)

1. Abram J.W., and Nedwell D.B. Hydrogen as a substrate for methanogenesis and sulphate reduction in anaerobic saltmarsh sediments. Arch. Microbiol. 117 (1978) 93-97
2. Abram J.W., and Nedwell D.B. Inhibition of methanogenesis by sulphate reducing bacteria competing for transferred hydrogen. Arch. Microbiol. 117 (1978) 89-92
3. Adams M.W.W. The structure and mechanism of iron-hydrogenases. Biochim. Biophys. Acta 1020 (1990) 115-145
4. Albracht S.P.J. Nickel hydrogenases: in search for the active site. Biochim. Biophys. Acta 1188 (1994) 167-204
5. Anand S.R., and Krasna A.I. Catalysis of the H2-HTO exchange by hydrogenase. A new assay for hydrogenase. Biochemistry 4 (1965) 2747-2753
6. Arnosti C. Measurement of depth- and site-related differences in polysaccharide hydrolysis rates in marine sediments. Geochim. Cosmochim. Acta 59 (1995) 4247-4257
7. Arnosti C. A new method for measuring polysaccharide hydrolysis rates in marine environments. Org. Geochem. 25 (1996) 105-115
8. Arnosti C., Jørgensen B.B., Sagemann J., and Thamdrup B. Temperature dependence of microbial degradation of organic matter in marine sediments: polysaccharide hydrolysis, oxygen consumption, and sulfate reduction. Mar. Ecol., Prog. Ser. (1998) 59-70
9. Chapelle F.H., O'Neill K., Bradley P.M., Methe' B.A., Ciufo S.A., Knobel L.L., and Lovley D.R. A hydrogen-based subsurface microbial community dominated by methanogens. Nature 415 (2002) 312-315
10. Conrad R., Phelps T.J., and Zeikus J.G. Gas metabolism evidence in support of the juxtaposition of hydrogen-producing and methanogenic bacteria in sewage sludge and lake sediments. Appl. Environ. Microbiol. 50 (1985) 595-601
11. D'Hondt S., Rutherford S., and Spivack A.J. Metabolic activity of subsurface life in deep-sea sediments. Science 295 (2002) 2067-2070
12. D'Hondt S., Jørgensen B.B., Miller D.J., Batzke A., Blake R., Cragg B.A., et al. Distributions of microbial activities in deep subseafloor sediments. Science 306 (2004) 2216-2221
13. Farkas A., and Fischer E. On the activation of hydrogen by Proteus vulgaris. J. Biol. Chem. 167 (1947) 787-805
14. Goodwin S., Conrad R., and Zeikus J.G. Influence of pH on microbial hydrogen metabolism in diverse sedimentary ecosystems. Appl. Environ. Microbiol. 54 (1988) 590-593
15. Hallahan D.L., Fernandez V.M., Hatchikian C.E., and Cammack R. Proton-tritium exchange activity of activated and deactivated forms of Desulfovibrio gigas hydrogenase. Biochim. Biophys. Acta 874 (1986) 72-75
16. Hallahan D.L., Fernandez V.M., Hatchikian C.E., and Hall D.O. Differential inhibition of catalytic sites in Desulfovibrio gigas hydrogenase. Biochimie 68 (1986) 49-54
17. Hoberman H.D., and Rittenberg D. Biological catalysis of the exchange reaction between water and hydrogen. J. Biol. Chem. 147 (1943) 211-227
18. Hoehler T.M., Alperin M.J., Albert D.B., and Martens C.S. Thermodynamic control on hydrogen concentrations in anoxic sediments. Geochim. Cosmochim. Acta 62 (1998) 1745-1756
19. Jørgensen B.B. Bacteria and marine biogeochemistry. In: Schulz H.D., and Zabel M. (Eds). Marine Geochemistry (2000), Springer, Berlin 173-207
20. Kallmeyer J., Ferdelman T., Weber A., Fossing H., and Jørgensen B.B. A cold chromium distillation procedure for radiolabeled sulfide applied to sulfate reduction measurements. Limnol. Oceanogr. Methods 2 (2004) 171-180
21. Kilpatrick M., and McKinney Jr. C.D. Kinetics of the reaction of lithiu borohydride in aqueous acid solution. J. Am. Chem. Soc. 72 (1950) 5474-5476
22. Kotelnikova S., and Pedersen K. Distribution and activity of methanogens and homoacetogens in deep granitic aquifers at Aspo Hard Rock Laboratory, Sweden. FEMS Microbiol. Ecol. 26 (1998) 121-134
23. Krasna A.I. Oxygen-stable hydrogenase and assay. Methods in Enzymology vol. 53 (1978), Academic Press, New York 296-314
24. Krasna A.I., and Rittenberg D. The mechanism of action of the enzyme hydrogenase. J. Am. Chem. Soc. 76 (1954) 3015-3020
25. Lovley D.R., and Klug M.J. Sulfate reducers can outcompete methanogens at freshwater sulfate concentrations. Appl. Environ. Microbiol. 45 (1983) 187-192
26. Lovley D.R., and Goodwin S. Hydrogen concentrations as an indicator of the predominant terminal electron-accepting reactions in aquatic sediments. Geochim. Cosmochim. Acta 52 (1988) 2993-3003
27. Lovley D.R., Dwyer D.F., and Klug M.J. Kinetic analysis of competition between sulfate reducers and methanogens for hydrogen in sediments. Appl. Environ. Microbiol. 43 (1982) 1373-1379
28. Lupton F.S., and Zeikus J.G. Physiological basis for sulfate-dependent hydrogen competition between sulfidogens and methanogens. Curr. Microbiol. 11 (1984) 7-12
29. Lyon E.J., Shima S., Buurman G., Chowdhury S., Batschauer A., Steinbach K., and Thauer R.K. UV-A/blue-light inactivation of the 'metal free' hydrogenase (Hmd) from methanogenic archaea. The enzyme contains iron after all. Eur. J. Biochem. 27 (2004) 195-204
30. Meyer-Reil L.A. Measurement of hydrolytic activity and incorporation of dissolved organic substrates by microorganisms in marine sediments. Mar. Ecol., Prog. Ser. 31 (1986) 143-149
31. Meyer-Reil L.A., and Koester M. Microbial life in pelagic sediments: the impact of environmental parameters on enzymatic degradation of organic material. Mar. Ecol., Prog. Ser. 81 (1992) 65-72
32. Poremba K. Hydrolytic enzymatic activity in deep-sea sediments. FEMS Microbiol. Ecol. 16 (1995) 213-222
33. Poremba K., and Hoppe H.G. Spatial variation of benthic microbial production and hydrolytic enzymatic activity down the continental slope of the Celtic Sea. Mar. Ecol., Prog. Ser. 118 (1995) 237-245
34. Schauble E.A. Applying stable isotope fractionation theory to new systems. In: Johnson C.M., Beard B.L., and Albarede F. (Eds). Geochemistry of Non-Traditional Stable Isotopes (2004) 65-101
35. Schink B. Energetics of syntrophic cooperation in methanogenic degradation. Microbiol. Mol. Biol. Rev. 61 (1997) 262-280
36. Schink B., and Zeikus J.G. Ecology of aerobic hydrogen-oxidizing bacteria in two freshwater lake ecosystems. Can. J. Microbiol. 30 (1984) 260-265
37. Schink B., Lupton F.S., and Zeikus J.G. Radioassay for hydrogenase activity in viable cells and documentation of aerobic hydrogen-consuming bacteria living in extreme environments. Appl. Environ. Microbiol. 45 (1983) 1491-1500
38. Schlesinger H.I., Brown H.C., Finholt A.E., Gilbreath J.R., Hoekstra H.R., and Hyde E.K. Sodium borohydride, its hydrolysis and its use as a reducing agent and in the generation of hydrogen. J. Am. Chem. Soc. 75 (1953) 215-219
39. Sørensen J., Christensen D., and Jørgensen B.B. Volatile fatty acids and hydrogen as substrates for sulfate reducing bacteria in anaerobic marine sediment. Appl. Environ. Microbiol. 42 (1981) 5-11
40. Spear J.R., Walker J.J., McCollom T.M., and Pace N.R. Hydrogen and bioenergetics in the Yellowstone geothermal ecosystem. Proc. Nat. Acad. Sci. 102 (2005) 2555-2560
41. Thauer R.K., Klein A.R., and Hartmann G.C. Reactions with molecular hydrogen in microorganisms: evidence for a purely organic hydrogenation catalyst. Chem. Rev. 96 (1996) 3031-3042
42. Vignais P.M., Billoud B., and Meyer J. Classification and phylogeny of hydrogenases. FEMS Microbiol. Rev. 25 (2001) 455-501