Microbial biomass and activity in geomorphic features in forested and urban restored and degraded streams

Ecological Engineering

Volumn 38, Issue 1, 2012, Pages 1-10

  Harrison, Melanie D ^a,e   Groffman, Peter M ^b   Mayer, Paul M ^c   Kaushal, Sujay S ^d  

^a UNIVERSITY OF MARYLAND BALTIMORE COUNTY   (United States)

^b CARY INSTITUTE OF ECOSYSTEM STUDIES   (United States)

^c U S ENVIRONMENTAL PROTECTION AGENCY   (United States)

^d Bldg 142   (United States)

^e NOAA EARTH SYSTEM RESEARCH LABORATORY   (United States)

Author keywords

Denitrification; Methane; Nitrification; Restoration; Urban

Indexed keywords

ANAEROBIC CONDITIONS; BALTIMORE; DEGRADED SITES; DENITRIFICATION POTENTIAL; METHANOGENESIS; METROPOLITAN AREA; MICROBIAL BIOMASS; MICROBIAL PROCESS; MICROBIAL VARIABLES; ORGANIC DEBRIS; SEDIMENT ORGANIC MATTERS; SPATIAL HETEROGENEITY; STANDARD ERRORS; STUDY SITES; TEMPORAL PATTERN; URBAN; URBAN STREAM;

ANOXIC SEDIMENTS; BIOMASS; DEBRIS; DENITRIFICATION; FORESTRY; HYDRAULIC STRUCTURES; IMAGE RECONSTRUCTION; LAKES; METHANE; NITRIFICATION; OXIDATION; SEDIMENTOLOGY;

RESTORATION;

ANOXIC CONDITIONS; BIOMASS; DENITRIFICATION; GEOMORPHOLOGICAL RESPONSE; LAND DEGRADATION; METHANE; MICROBIAL ACTIVITY; RESTORATION ECOLOGY; SPATIOTEMPORAL ANALYSIS; URBAN REGION;

ANAEROBIC PROCESS; BIOMASS; DENITRATION; FORESTRY; GEOLOGY; MICROBIOLOGY; NITROGEN; OXIDATION; RIVERS; SEDIMENTS;

BALTIMORE; MARYLAND; UNITED STATES;

EID: 80155167124     PISSN: 09258574     EISSN: None     Source Type: Journal    
DOI: 10.1016/j.ecoleng.2011.09.001     Document Type: Article

References (60)

1. Aldridge K.T., Brookes J.D., Ganf G.G. Rehabilitation of stream ecosystem functions through the reintroduction of coarse particulate organic matter. Restor. Ecol. 2009, 17:97-106.
2. Arango C.P., Tank J.L. Land use influences the spatiotemporal controls on nitrification and denitrification in headwater streams. J. N. Am. Benthol. Soc. 2008, 27:90-107.
3. Arango C.P., Tank J.L., Johnson L.T., Hamilton S.K. Assimilatory uptake rather than nitrification and denitrification determines nitrogen removal patterns in streams of varying land use. Limnol. Oceanogr. 2008, 53:2558-2572.
4. Arango C.P., Tank J.L., Schaller J.L., Royer T.V., Bernot M.J., David M.B. Benthic organic carbon influences denitrification in streams with high nitrate concentration. Freshwater Biol. 2007, 52:1210-1222.
5. Bernhardt E.S., Palmer M.A., Allan J.D., Alexander G., Barnas K., Brooks S., Carr J., Clayton S., Dahm C., Follstad-Shah J., Galat D., Gloss S., Goodwin P., Hart D., Hassett B., Jenkinson R., Katz S., Kondolf G.M., Lake P.S., Lave R., Meyer J.L., O'Donnell T.K., Pagano L., Powell B., Sudduth E. Ecology-synthesizing US river restoration efforts. Science 2005, 308:636-637.
6. Bilby R.E., Likens G.E. Importance of organic debris dams in the structure and function of stream ecosystems. Ecology 1980, 61:1107-1113.
7. Claessens L., Tague C.L., Groffman P.M., Melack J.M. Longitudinal an seasonal variation of stream N uptake in an urbanizing watershed: effect of organic matter, stream size transient storage an debris dams. Biogeochemistry 2010, 98:45-62.
8. Conrad R. Microbial ecology of methanogens and methanotrophs. Adv. Agron. 2007, 96:1-63.
9. Craig L.S., Palmer M.A., Richardson D.C., Filoso S., Bernhardt E.S., Bledsoe B.P., Doyle M.W., Groffman P.M., Hassett B.A., Kaushal S.S., Mayer P.M., Smith S.M., Wilcock P.R. Stream restoration strategies for reducing river nitrogen loads. Front. Ecol. Environ. 2008, 6:529-538.
10. Doheny E.J., Starsoneck R.J., Mayer P.M., Striz E.A. Pre-restoration geomorphic characteristics of Minebank Run, Baltimore County, Maryland, 2002-04. USGS Scientific Investigations Report 2007, USGS, Reston, VA.
11. Doheny E.J., Starsoneck R.J., Striz E.A., Mayer P.M. Watershed characteristics and pre-restoration surface-water hydrology of Minebank Run, Baltimore County, Maryland, water years 2002-04, USGS Scientific Investigations Report 2006, USGS, Reston, VA.
12. Duerksen C., Snyder C. Nature-friendly Communities: Habitat Protection and Land Use Planning 2005, Island Press, Washington, DC.
13. Findlay S.E.G., Mulholland P.J., Hamilton S.K., Tank J.L., Bernot M.J., Burgin A.J., Crenshaw C.L., Dodds W.K., Grimm N.B., McDowell W.H., Potter J.D., Sobota D.J. Cross-stream comparison of substrate-specific denitrification potential. Biogeochemistry 2011, 10.1007/s10533-010-9512-8.
14. Garcia-Ruiz R., Pattinson S.N., Whitton B.A. Denitrification in river sediments: relationship between process rate and properties of water and sediment. Freshwater Biol. 1998, 39:467-476.
15. Grimm N.B., Sheibley R.W., Crenshaw C.L., Dahm C.N., Roach W.J., Zeglin L.H. N retention and transformation in urban streams. J. N. Am. Benthol. Soc. 2005, 24:626-642.
16. Groffman P.M., Altabet M.A., Bohlke J.K., Butterbach-Bahl K., David M.B., Firestone M.K., Giblin A.E., Kana T.M., Nielsen L.P., Voytek M.A. Methods for measuring denitrification: diverse approaches to a difficult problem. Ecol. Appl. 2006, 16:2091-2122.
17. Groffman P.M., Dorsey A.M., Mayer P.M. N processing within geomorphic structures in urban streams. J. N. Am. Benthol. Soc. 2005, 24:613-625.
18. Groffman P.M., Holland E.A., Myrold D.D., Robertson G.P., Zou X. Denitrification. Standard Soil Methods for Long Term Ecological Research 1999, 272-288. Oxford University Press, New York. G.P. Robertson, C.S. Bledsoe, D.C. Coleman, P. Sollins (Eds.).
19. Hale R.L., Groffman P.M. Chloride effects on nitrogen dynamics in forested and suburban stream debris dams. J. Environ. Qual. 2006, 35:2425-2432.
20. Hall R.O., Baker M.A., Arp C.D., Koch B.J. Hydrologic control of nitrogen removal, storage, and export in a mountain stream. Limnol. Oceanogr. 2009, 54:2128-2142.
21. Harrison M.D., Groffman P.M., Mayer P.M., Kaushal S.S., Newcomer T.A. Denitrification in alluvial wetlands in an urban landscape. J. Environ. Qual. 2011, 40:634-646.
22. Harrison J.A., Matson P.A., Fendorf S.E. Effects of a diel oxygen cycle on nitrogen transformations and greenhouse gas emissions in a eutrophied subtropical stream. Aquat. Sci. 2005, 67:308-315.
23. Inwood S.E., Tank J.L., Bernot M.J. Patterns of denitrification associated with land use in 9 midwestern headwater streams. J. N. Am. Benthol. Soc. 2005, 24:227-245.
24. Jenkinson D.S., Powlson D.S. The effects of biocidal treatments on metabolism in soil V. A method for measuring soil biomass. Soil Biol. Biochem. 1976, 8:209-213.
25. Jones J.B., Mulholland P.J. Influence of drainage topography and elevation on carbon dioxide and methane super saturation of stream water. Biogeochemistry 1998, 40:57-72.
26. Jones J.B., Mulholland P.J. Methane input and evasion in a hardwood forest stream: effects of subsurface flow from shallow and deep pathways. Limnol. Oceanogr. 1998, 4:1243-1250.
27. Kasahara T., Hill A.R. Hyporheic exchange flows induced by constructed riffles and steps in lowland streams in southern Ontario, Canada. Hydrol. Process. 2006, 20:4287-4305.
28. Kasahara T., Hill A.R. Modeling the effects of lowland stream restoration projects on stream-subsurface water exchange. Ecol. Eng. 2008, 32:310-319.
29. Kaushal S.S., Groffman P.M., Mayer P.M., Striz E., Gold A.J. Effects of stream restoration on denitrification in an urbanizing watershed. Ecol. Appl. 2008, 18:789-804.
30. Kemp M.J., Dodds W.K. Centimeter-scale patterns in dissolved oxygen and nitrification rates in a prairie stream. J. N. Am. Benthol. Soc. 2001, 20:347-357.
31. Kemp M.J., Dodds W.K. Comparisons of nitrification and denitrification in prairie and agriculturally influenced streams. Ecol. Appl. 2002, 12:998-1009.
32. Kemp M.J., Dodds W.K. The influence of ammonium, nitrate, and dissolved oxygen concentrations on uptake, nitrification, and denitrification rates associated with prairie stream substrata. Limnol. Oceanogr. 2002, 47:1380-1393.
33. Klocker C., Kaushal S., Groffman P., Mayer P., Morgan R. Nitrogen uptake and denitrification in restored and unrestored streams in urban Maryland, USA. Aquat. Sci. 2009, 71:411-424.
34. Knapp C.W., Dodds W.K., Wilson K.C., O'Brien J.M., Graham D.W. Spatial heterogeneity of denitrification genes in a highly homogenous urban stream. Environ. Sci. Technol. 2009, 43:4273-4279.
35. Kohzu A., Kato C., Iwata T., Kishi D., Murakami M., Nakano S., Wade E. Stream food web fueled by methane-derived carbon. Aquat. Microb. Ecol. 2004, 36:189-194.
36. Larson M.G., Booth B.D., Morley S.A. Effectiveness of large woody debris in stream rehabilitation projects in urban basins. Ecol. Eng. 2001, 18:211-226.
37. Mayer P.M., Groffman P.M., Striz E.A., Kaushal S.S. Nitrogen dynamics at the ground water-surface water interface of a degraded urban stream. J. Environ. Qual. 2010, 39:810-823.
38. McMillan S.K., Piehler M.F., Thompson S.P., Paerl H.W. Denitrification of nitrogen release from senescing algal biomass in coastal agricultural headwater streams. J. Environ. Qual. 2010, 39:274-281.
39. Morel F.M., Hering J.G. Principles and Applications of Aquatic Chemistry 1993, Wiley-Interscience, New York.
40. Mulholland P.J., Hall R.O., Sobota J., Dodds W.K., Findlay S.E.G., Grimm N.B., Hamilton S.K., McDowell W.H., O'Brien J.M., Tank J.L., Ashkenas L.R., Cooper L.W., Dahm C.N., Gregory S.V., Johnson S.L., Meyer J.L., Peterson B.J., Poole G.C., Valett M.H., Webster J.R., Arango C.P., Beaulieu J.J., Bernot M.J., Burgin A.J., Creshaw C.L., Helton A.M., Johnson L.T., Niederlehner B.R., Potter J.D., Sheibley R.W., Thomas S.M. Nitrate removal in stream ecosystems measured by 15N addition experiments: denitrification. Limnol. Oceanogr. 2009, 54:666-680.
41. Mulholland P.J., Helton A.M., Poole G.C., Hall R.O., Hamilton S.K., Peterson B.J., Tank J.L., Ashkenas L.R., Cooper L.W., Dahm C.N., Dodds W.K., Findlay S.E.G., Gregory S.V., Grimm N.B., Johnson S.L., McDowell W.H., Meyer J.L., Valett H.M., Webster J.R., Arango C.P., Beaulieu J.J., Bernot M.J., Burgin A.J., Crenshaw C.L., Johnson L.T., Niederlehner B.R., O'Brien J.M., Potter J.D., Sheibley R.W., Sobota D.J., Thomas S.M. Stream denitrification across biomes and its response to anthropogenic nitrate loading. Nature 2008, 452:202-246.
42. NRC Clean Coastal Waters: Understanding and Reducing the Effects of Nutrient Pollution 2000, National Academy Press, Washington.
43. Opdyke M.R., David M.B., Rhoads B.L. Influence of geomorphological variability in channel characteristics on sediment denitrification in agricultural streams. J. Environ. Qual. 2006, 35:2103-2112.
44. Paul M.J., Meyer J.L. Streams in the urban landscape. Annu. Rev. Ecol. Syst. 2001, 32:333-365.
45. Piña-Ochoa A.E., álvarez-Cobelas M. Denitrification in aquatic environments: a cross system analysis. Biogeochemistry 2006, 81:111-130.
46. Prather M., Derwent R., Ehhalt D., Fraser P.J., Sanhueza E., Zhou X. Other trace gases and atmospheric chemistry. Climate Change 1995: Radiative Forcing of Climate Change and an Evaluation of the IPCC IS92 Emission Scenarios 1995, 73-126. Cambridge University Press, New York. J.T. Houghton, L.G. Meiro Filho, B.A. Callander, N. Harris, A. Kattenburg, K. Maskell (Eds.).
47. Pringle C.M., Naiman R.J., Bretschko G., Karr J.R., Oswood M.W., Webster J.R., Welcomme R.L., Winterbourn M.J. Patch dynamics in lotic systems-the stream as a mosaic. J. N. Am. Benthol. Soc. 1988, 7:503-524.
48. Raghoebarsing A.A., Pol A., van de Pos-Schoonen K.T., Smolder s A.J., Ettwig K.F., Rijpstra W.I., Schouten S., Damsté J.S., Op den Camp H.J., Jetten M.S., Strous M. A microbial consortium couples anaerobic methane oxidation to denitrification. Nature 2006, 440:918-921.
49. Richardson C.J., Flanagan N.E., Ho M., Pahl J.W. Integrated stream and wetland restoration: a watershed approach to improved water quality on the landscape. Ecol. Eng. 2011, 3:25-39.
50. Rosgen D.L. A classification of natural rivers. Catena 1994, 22:169-199.
51. Ryan R.J., Welty C., Larson P.C. Variation in surface water-groundwater exchange with land use in an urban stream. J. Hydrol. 2010, 392:1-11.
52. Sanders I.A., Heppell C.M., Cotton J.A., Wharton G., Hildrew A.G., Flowers E.J., Trimmer M. Emission of methane from chalk streams has potential implications for agricultural practices. Freshwater Biol. 2007, 52:1176-1186.
53. SAS SAS 9.2. Software 2004, SAS Institute Inc. Cary, NC.
54. Shields C.A., Band L.E., Law N., Groffman P.M., Kaushal S.S., Savvas K., Fisher G.T., Belt K.T. Streamflow distribution of non-point source nitrogen export from urban-rural catchments in the Chesapeake Bay watershed. Water Resour. Res. 2008, 44:W09416. 10.1029/2007WR006360.
55. Sivirichi G.M., Kaushal S.S., Mayer P.M., Welty C., Belt K.T., Newcomer T.A., Newcomb K.D., Grese M.M. Longitudinal variability in stream water chemistry and carbon and nitrogen fluxes in restored and degraded urban stream networks. J. Environ. Monitor. 2010, 13:288-303.
56. Sortman V.L. Complications with Urban Stream Restorations Mine Bank Run: A Case Study 2002, ACSE Publications. 10.1061/40695(2004)19.
57. Strauss E.A., Lamberti G.A. Regulation of nitrification in aquatic sediments by organic carbon. Limnol. Oceanogr. 2000, 45:1854-1859.
58. Trimmer M., Maanoja S., Hildrew A.G., Pretty J.L., Grey J. Potential carbon fixation via methane oxidation in well-oxygenated riverbed gravels. Limnol. Oceanogr. 2010, 55:560-568.
59. Walsh C.J., Roy A.H., Feminella J.W., Cottingham P.D., Groffman P.M., Morgan R.P. The urban stream syndrome: current knowledge and the search for a cure. J. N. Am. Benthol. Soc. 2005, 24:706-723.
60. Webster J.R., Mulholland P.J., Tank J.L., Valette M.H., Dodds W.K., Peterson B.J., Bowden W.B., Dahm C.N., Findlay S., Gregory S.V., Grimm N.B., Hamilton S.K., Johnson S.L., Martí E., McDowell W.H., Meyer J.L., Morral D.D., Thomas S.A., Wollheim W.M. Factors affecting ammonium uptake in streams-an inter-biome perspective. Freshwater Biol. 2003, 48:1329-1352.