Characterization of the key pathways of dissimilatory nitrate reduction and their response to complex organic substrates in hyporheic sediments

Limnology and Oceanography

Volumn 57, Issue 2, 2012, Pages 387-400

  Lansdown, K ^a,b   Trimmer, M ^a   Heppell, C M ^b   Sgouridis, F ^a,b,d   Ullah, S ^c,e   Heathwaite, A L ^c   Binley, A ^c   Zhang, H ^c  

^a QUEEN MARY UNIVERSITY OF LONDON   (United Kingdom)

^b QUEEN MARY UNIVERSITY OF LONDON   (United Kingdom)

^c LANCASTER UNIVERSITY   (United Kingdom)

^d OPEN UNIVERSITY   (United Kingdom)

^e KEELE UNIVERSITY   (United Kingdom)

Author keywords

[No Author keywords available]

Indexed keywords

DENITRIFICATION; FLUVIAL DEPOSIT; HYPORHEIC ZONE; LABORATORY METHOD; NITRATE; POOL-RIFFLE SEQUENCE; REDUCTION; RIVER BED; SEDIMENT CHEMISTRY; SUBSTRATE;

CUMBRIA; ENGLAND; LEITH RIVER; UNITED KINGDOM;

EID: 84863229746     PISSN: 00243590     EISSN: None     Source Type: Journal    
DOI: 10.4319/lo.2012.57.2.0387     Document Type: Article

References (52)

1. ARANGO, C. P., J. L. TANK, J. L. SCHALLER, T. V. ROYER, M. L. BERNOT, AND W. B. DAVID. 2007. Benthic organic carbon influences denitrification in streams with high nitrate concentration. Freshw. Biol. 52: 1210-1222, doi:10.1111/j.1365-2427.2007.01758.x
2. BAKER, M. A., H. M. VALETT, AND C. N. DAHM. 2000. Organic carbon supply and metabolism in a shallow groundwater ecosystem. Ecology 81: 3133-3148, doi:10.1890/0012-9658(2000)081[3133:OCSAMI]2.0.CO;2
3. BOULTON, A. J., T. DATRY, T. KASAHARA, M. MUTZ, AND J. A. STANFORD. 2010. Ecology and management of the hyporheic zone: Stream-groundwater interactions of running waters and their floodplains. J. North Am. Benthol. Soc. 29: 26-40.
4. BULL, A. T. 1980. Biodegradation: Some attitudes and strategies of microorganisms and microbiologists, p. 107-136. In D. C. Ellwood, J. N. Hedger, M. J. Latham, J. M. Lynch, and J. H. Slater [eds.], Contemporary microbial ecology. Academic Press.
5. BURGIN, A. J., AND S. K. HAMILTON. 2007. Have we overemphasized the role of denitrification in aquatic ecosystems? A review of nitrate removal pathways. Front. Ecol. Environ. 5: 89-96, doi:10.1890/1540-9295(2007)5[89:HWOTRO]2.0.CO;2
6. DALSGAARD, T., B. THAMDRUP, AND D. E. CANFIELD. 2005. Anaerobic ammonium oxidation (anammox) in the marine environment. Res. Microbiol. 156: 457-464, doi:10.1016/j.resmic.2005.01.011
7. DAUWE, B., J. J. MIDDELBURG, AND P. M. J. HERMAN. 2001. Effect of oxygen on the degradability of organic matter in subtidal and intertidal sediments of the North Sea area. Mar. Ecol. Prog. Ser. 215: 13-22, doi:10.3354/meps215013
8. DUFF, J. H., AND F. J. TRISKA. 2000. Nitrogen biogeochemistry and surface-subsurface exchange in streams, p. 197-220. In J. B. Jones and P. J. Mulholland [eds.], Streams and groundwaters. Academic Press.
9. FENCHEL, T., AND T. H. BLACKBURN. 1979. Bacteria and mineral cycling. Academic Press.
10. FINDLAY, S. 1995. Importance of surface-subsurface exchange in stream ecosystems: The hyporheic zone. Limnol. Oceanogr. 40: 159-164, doi:10.4319/lo.1995.40.1.0159
11. FINDLAY, S. E. G., R. L. SINSABOUGH, W. V. SOBCZAK, AND M. HOOSTAL. 2003. Metabolic and structural response of hyporheic microbial communities to variations in supply of dissolved organic matter. Limnol. Oceanogr. 48: 1608-1617, doi:10.4319/lo.2003.48.4.1608
12. FISCHER, H., F. KLOEP, S. WILZCEK, AND M. T. PUSCH. 2005. A river's liver-microbial processes within the hyporheic zone of a large lowland river. Biogeochemistry 76: 349-371, doi:10.1007/s10533-005-6896-y
13. GARCÍA-RUIZ, R., S. N. PATTINSON, AND B. A. WHITTON. 1998. Denitrification in river sediments: Relationship between process rate and properties of water and sediment. Freshw. Biol. 39: 467-476, doi:10.1046/j.1365-2427.1998.00295.x
14. GILBERT, J., M.-J. DOLE-OLIVIER, P. MARMONIER, AND P. VERVIER. 1990. Surface water-groundwater ecotones, p. 199-225. In R. J. Naiman and H. Décamps [eds.], The ecology & management of aquatic terrestrial ecotones. The Parthenon Publishing Group.
15. HEDGES, J. I., AND J. H. STERN. 1984. Carbon and nitrogen determination of carbonate-containing solids. Limnol. Oceanogr. 29: 657-663, doi:10.4319/lo.1984.29.3.0657
16. HOLMES, R. M., J. B. JONES, S.G. FISHER, AND N. B. GRIMM. 1996. Denitrification in a nitrogen-limited stream ecosystem. Biogeochemistry 33: 125-146, doi:10.1007/BF02181035
17. HULTH, S., R. C. ALLER, AND F. GILBERT. 1999. Coupled anoxic nitrification manganese reduction in marine sediments. Geochim. Cosmochim. Acta 63: 49-66, doi:10.1016/S0016-7037(98)00285-3
18. KAPLAN, L. A., AND J. D. NEWBOLD. 1995. Measurement of streamwater biodegradable dissolved organic carbon with a plug-flow reactor. Water Res. 29: 2696-2706, doi:10.1016/0043-1354(95)00135-8
19. KAPLAN, L. A., AND J. D. NEWBOLD. 2000. Surface and subsurface dissolved organic carbon, p. 237-258. In J. B. JONES and P. J. MULHOLLAND [eds.], Streams and groundwaters. Academic Press.
20. KÄSER, D. H., A. BINLEY, A. L. HEATHWAITE, AND S. KRAUSE. 2009. Spatio-temporal variations of hyporheic flow in a rifflepool sequence. Hydrol. Processes 23: 2138-2149, doi:10.1002/hyp.7317
21. KELSO, B. H., R. V. SMITH, AND R. J. LAUGHLIN. 1999. Effects of carbon substrates on nitrite accumulation in freshwater sediments. Appl. Environ. Microbiol. 65: 61-66.
22. KRAUSE, S., L. HEATHWAITE, A. BINLEY, AND P. KEENAN. 2009. Nitrate concentration changes at the groundwater-surface water interface of a small Cumbrian river. Hydrol. Processes 23: 2195-2211, doi:10.1002/hyp.7213
23. LEFEBVRE, S., P. MARMONIER, AND J. L. PEIRY. 2006. Nitrogen dynamics in rural streams: Differences between geomorphic units. Ann. Limnol. - Int. J. Lim. 42: 43-52, doi:10.1051/limn/2006005
24. LEFEBVRE, S., P. MARMONIER, AND G. PINAY. 2004. Stream regulation and nitrogen dynamics in sediment interstices: Comparison of natural and straightened sectors of a third order stream. River Res. Appl. 20: 499-512, doi:10.1002/rra.765
25. MALCOLM, I. A., C. SOULSBY, AND A. F. YOUNGSON. 2006. Highfrequency logging technologies reveal state-dependent hyporheic process dynamics: Implications for hydroecological studies. Hydrol. Processes 20: 615-622, doi:10.1002/hyp.6107
26. MERMILLOD-BLONDIN, F., L. MAUCLAIRE, AND B. MONTUELLE. 2005. Use of slow filtration columns to assess oxygen respiration, consumption of dissolved organic carbon, nitrogen transformations and microbial parameters in hyporheic sediments. Water Res. 39: 1687-1698, doi:10.1016/j.watres.2005.02.003
27. MULHOLLAND, P. J., AND OTHERS. 2009. Nitrate removal in stream ecosystems measured by N-15 addition experiments: Denitrification. Limnol. Oceanogr. 54: 666-680, doi:10.4319/lo.2009.54.3.0666
28. MULHOLLAND, P. J., AND OTHERS. 2008. Stream denitrification across biomes and its response to anthropogenic nitrate loading. Nature 452: 202-206, doi:10.1038/nature06686
29. NICHOLLS, J. C., AND M. TRIMMER. 2009. Widespread occurrence of the anammox reaction in estuarine sediments. Aquat. Microb. Ecol. 55: 105-113, doi:10.3354/ame01285
30. NIELSEN, L. P. 1992. Denitrification in sediment determined from nitrogen isotope pairing. FEMS Microbiol. Ecol. 86: 357-362, doi:10.1111/j.1574-6968.1992.tb04828.x
31. PENTON, C. R., A. H. DEVOL, AND J. M. TIEDJE. 2006. Molecular evidence for the broad distribution of anaerobic ammoniumoxidizing bacteria in freshwater and marine sediments. Appl. Environ. Microbiol. 72: 6829-6832, doi:10.1128/AEM.01254-06
32. PFENNING, K. S., AND P. B. MCMAHON. 1997. Effect of nitrate, organic carbon, and temperature on potential denitrification rates in nitrate-rich riverbed sediments. J. Hydrol. 187: 283-295, doi:10.1016/S0022-1694(96)03052-1
33. PRECHT, E., U. FRANKE, L. POLERECKY, AND M. HUETTEL. 2004. Oxygen dynamics in permeable sediments with wave-driven pore water exchange. Limnol. Oceanogr. 49: 693-705, doi:10.4319/lo.2004.49.3.0693
34. RISGAARD-PETERSEN, N., R. L. MEYER, M. SCHMID, M. S. M. JETTEN, A. ENRICH-PRAST, S. RYSGAARD, AND N. P. REVSBECH. 2004. Anaerobic ammonium oxidation in an estuarine sediment. Aquat. Microb. Ecol. 36: 293-304, doi:10.3354/ame036293
35. REVSBECH, S. RYSGAARD, AND N. P. REVSBECH. 1995. Combined microdiffusion-hypobromite oxidation method for determining nitrogen-15 isotope in ammonium. Soil Sci. Soc. Am. J. 59: 1077-1080, doi:10.2136/sssaj1995.03615995005900040018x
36. RIVETT, M. O., S. R. BUSS, P. MORGAN, J.W. N. SMITH, AND C. D. BEMMENT. 2008. Nitrate attenuation in groundwater: A review of biogeochemical controlling processes. Water Res. 42: 4215-4232, doi:10.1016/j.watres.2008.07.020
37. SEITZINGER, S. P., L. P. NIELSEN, J. CAFFREY, AND P. B. CHRISTENSEN. 1993. Denitrification measurements in aquatic sediments-a comparison of 3 methods. Biogeochemistry 23: 147-167, doi:10.1007/BF00023750
38. SHEIBLEY, R. W., J. H. DUFF, A. P. JACKMAN, AND F. J. TRISKA. 2003. Inorganic nitrogen transformations in the bed of the Shingobee River, Minnesota: Integrating hydrologic and biological processes using sediment perfusion cores. Limnol. Oceanogr. 48: 1129-1140, doi:10.4319/lo.2003.48.3.1129
39. SMART, R. M., AND J. W. BARKO. 1985. Laboratory culture of submersed freshwater macrophytes on natural sediments. Aquat. Bot. 21: 251-263, doi:10.1016/0304-3770(85)90053-1
40. SOBCZAK, W. V., AND S. FINDLAY. 2002. Variation in bioavailability of dissolved organic carbon among stream hyporheic flowpaths. Ecology 83: 3194-3209, doi:10.1890/0012-9658(2002)083[3194:VIBODO]2.0.CO;2
41. SOBCZAK, W. V., AND S. DYE. 2003. Relationships between DOC bioavailability and nitrate removal in an upland stream: An experimental approach. Biogeochemistry 62: 309-327, doi:10.1023/A:1021192631423
42. STELZER, R. S., L. A. BARTSCH, W. B. RICHARDSON, AND E. A. STRAUSS. 2011. The dark side of the hyporheic zone: Depth profiles of nitrogen and its processing in stream sediments. Freshw. Biol. 56: 2021-2033, doi:10.1111/j.1365-2427.2011.02632.x
43. STOREY, R. G., D. D. WILLIAMS, AND R. R. FULTHORPE. 2004. Nitrogen processing in the hyporheic zone of a pastoral stream. Biogeochemistry 69: 285-313, doi:10.1023/B:BIOG.0000031049.95805.ec
44. THAMDRUP, B., AND T. DALSGAARD. 2000. The fate of ammonium in anoxic manganese oxide-rich marine sediment. Geochim. Cosmochim. Acta 64: 4157-4164, doi:10.1016/S0016-7037(00)00496-8
45. THAMDRUP, B., AND T. DALSGAARD. 2002. Production of N2 through anaerobic ammonium oxidation coupled to nitrate reduction in marine sediments. Appl. Environ. Microbiol. 68: 1312-1318, doi:10.1128/AEM.68.3.1312-1318.2002
46. TIEDJE, J. M. 1988. Ecology of denitrification and dissimilatory nitrate reduction to ammonium, p. 179-244. In A. J. B. Zehnder [ed.], Biology of anaerobicmicroorganisms. John Wiley and Sons.
47. TRIMMER, M., AND J. C. NICHOLLS. 2009. Production of nitrogen gas via anammox and denitrification in intact sediment cores along a continental shelf to slope transect in the North Atlantic. Limnol. Oceanogr. 54: 577-589, doi:10.4319/lo.2009.54.2.0577
48. TRIMMER, M., J. C. NICHOLLS, AND R. DEFLANDRE. 2003. Anaerobic ammonium oxidation measured in sediments along the Thames Estuary, United Kingdom. Appl. Environ. Microbiol. 69: 6447-6454, doi:10.1128/AEM.69.11.6447-6454.2003
49. TRIMMER, M., I. A. SANDERS, AND C. M. HEPPELL. 2009. Carbon and nitrogen cycling in a vegetated lowland chalk river impacted by sediment. Hydrol. Processes 23: 2225-2238, doi:10.1002/hyp.7276
50. TRISKA, F. J., J. H. DUFF, AND R. J. AVANZINO. 1993. The role of water exchange between a stream channel and its hyporheic zone in nitrogen cycling at the terrestrial aquatic interface. Hydrobiologia 251: 167-184, doi:10.1007/BF00007177
51. WEISS, R. F. 1970. The solubility of nitrogen, oxygen and argon in water and seawater. Deep-Sea Res 17: 721-735, doi:10.1016/0011-7471(70)90037-9
52. YOSHINARI, T., R. HYNES, AND R. KNOWLES. 1977. Acetylene inhibition of nitrous oxide reduction and measurement of denitrification and nitrogen fixation in soil. Soil Biol. Biochem. 9: 177-183, doi:10.1016/0038-0717(77)90072-4