Bacterial and fungal contributions to soil nitrogen cycling under Douglas fir and red alder at two sites in Oregon

Soil Biology and Biochemistry

Volumn 40, Issue 2, 2008, Pages 443-451

  Boyle, Stephanie A ^a   Yarwood, Rockie R ^a   Bottomley, Peter J ^a   Myrold, David D ^a  

^a OREGON STATE UNIVERSITY   (United States)

Author keywords

Ammonification; Bronopol; Cycloheximide; Forest soils; Fungal:bacterial ratios; Isotope dilution; Nitrification; Nitrogen mineralization

Indexed keywords

BACTERIA; FATTY ACIDS; FORESTRY; FUNGI; NITRIFICATION; NITROGEN; PHOSPHOLIPIDS;

AMMONIFICATION; BRONOPOL; CYCLOHEXIMIDE; FOREST SOILS; FUNGAL BACTERIAL RATIOS; ISOTOPE DILUTION; NITROGEN MINERALIZATION;

SOILS;

AMMONIFICATION; ANTIBIOTICS; BACTERIUM; BIOMASS; CONIFEROUS TREE; DECIDUOUS TREE; DISSOLVED ORGANIC NITROGEN; FOREST SOIL; FUNGUS; MINERALIZATION; NITRIFICATION; NITROGEN CYCLE; PLANTATION; PROTEIN; SOIL NITROGEN;

BACTERIA; FORESTS; FUNGI; SOIL;

NORTH AMERICA; OREGON; UNITED STATES;

ALNUS; ALNUS RUBRA; BACTERIA (MICROORGANISMS); FUNGI; PROKARYOTA; PSEUDOTSUGA; PSEUDOTSUGA MENZIESII;

EID: 36048958208     PISSN: 00380717     EISSN: None     Source Type: Journal    
DOI: 10.1016/j.soilbio.2007.09.007     Document Type: Article

References (62)

1. Anderson J.P.E., and Domsch K.H. Quantification of bacterial and fungal contributions to soil respiration. Archiv für Mikrobiologie 93 (1973) 113-127
2. Bailey V.L., Smith J.L., and Bolton H. Novel antibiotics as inhibitors for the selective respiratory inhibition method of measuring fungal:bacterial ratios in soil. Biology and Fertility of Soils 38 (2003) 154-160
3. Bardgett R.D., Hobbs P.J., and Frostegård A. Changes in soil fungal:bacterial biomass ratios following reduction in the intensity of management of an upland grassland. Biology and Fertility of Soils 22 (1996) 261-264
4. Bengtson P., Falengren-Grerup U., and Bengtsson G. Spatial distribution of plants and gross N transformation rates in a forest soil. Journal of Ecology 94 (2006) 754-764
5. Binkley D., Sollins P., Bell R., Sachs D., and Myrold D. Biogeochemistry of adjacent conifer and alder-conifer stands. Ecology 73 (1992) 2022-2033
6. Bligh E.G., and Dyer W.J. A rapid method of total lipid extraction and purification. Canadian Journal of Biochemistry and Physiology 37 (1959) 911-917
7. Blume E., Bischoff M., Reichert J.M., Moorman T., Konopka A., and Turco R.F. Surface and subsurface microbial biomass, community structure and metabolic activity as a function of soil depth and season. Applied Soil Ecology 20 (2002) 171-181
8. Booth M.S., Stark J.M., and Rastetter E. Controls on nitrogen cycling in terrestrial ecosystems: a synthetic analysis of literature data. Ecological Monographs 75 (2005) 139-157
9. Boyle, S.A., Bottomley, P.J., Myrold, D.D., in review. Community composition and function of ammonia-oxidizing bacteria and archaea in acidic forest soils of the Pacific Northwest. Environmental Microbiology.
10. Brant J.B., Sulzman E.W., and Myrold D.D. Microbial community utilization of added carbon substrates in response to long-term carbon input manipulation. Soil Biology & Biochemistry 38 (2006) 2219-2232
11. Briones C., Manrubia S.C., Lázaro E., Lazcano A., and Amils R. Reconstructing evolutionary classification of organisms based on translation inhibition response. Molecular Phylogenetics and Evolution 34 (2005) 371-383
12. Bruulsema T.W., and Duxbury J.M. Simultaneous measurement of soil microbial nitrogen, carbon, and carbon isotope ratio. Soil Science Society of America Journal 60 (1996) 1787-1791
13. Castaldi S. Cycloheximide inhibition of peptone-induced nitrate production across a soil moisture gradient. Biology and Fertility of Soils 41 (2005) 288-290
14. - production in a forest and an agricultural soil. Biology and Fertility of Soils 27 (1998) 27-34
15. Chen J., and Stark J.M. Plant species effects and carbon and nitrogen cycling in a sagebrush-crested wheat-grass soil. Soil Biology & Biochemistry 32 (2000) 47-57
16. Davidson E.A., Hart S.C., and Firestone M.K. Internal cycling of nitrate in soils of a mature coniferous forest. Ecology 73 (1992) 1148-1158
17. Dyrness, C., 2005. Soil descriptions and data for soil profiles in the Andrews Experimental Forest, selected reference stands, Research Natural Areas, and National Parks: Long-Term Ecological Research. Corvallis, OR: Forest Science Data Bank: SP001. [Database]. 〈http://www.fsl.orst.edu/lter/data/abstract.cfm?dbcode=SP001〉. (4 January 2007)
18. Fierer N., Schimel J., Cates R., and Zou J. The influence of balsam poplar tannin fractions on carbon and nitrogen dynamics in Alaskan taiga floodplain soils. Soil Biology and Biochemistry 33 (2001) 1827-1839
19. Fierer N., Jackson J.A., Vilgalys R., and Jackson R.B. Assessment of soil microbial community structure by use of taxon-specific quantitative PCR assays. Applied and Environmental Microbiology 71 (2005) 4117-4120
20. Grayston S.J., and Prescott C.E. Microbial communities in forest floors under four tree species in coastal British Columbia. Soil Biology & Biochemistry 37 (2005) 1157-1167
21. Grotta A.T., Gartner B.L., and Radosevich S.R. Influence of species proportion and timing of establishment on stem quality in mixed red alder-Douglas-fir plantations. Canadian Journal of Forest Research 34 (2004) 863-873
22. Grønli K.E., Frostegård A., Bakken L.R., and Ohlson M. Nutrient and carbon additions to the microbial soil community and its impact on tree seedlings in a boreal spruce forest. Plant and Soil 278 (2005) 275-291
23. Hackl E., Zechmeister-Boltenstern S., Bodrossy L., and Sessitsch A. Comparison of diversities and compositions of bacterial populations inhabiting natural forest soils. Applied and Environmental Microbiology 70 (2004) 5057-5065
24. Hammel K.E. Fungal degradation of lignin. In: Cadisch G., and Giller K.E. (Eds). Driven by Nature: Plant Litter Quality and Decomposition (1997), CAB International, Wallingford 33-46
25. Hart S.C., Stark J.M., Davidson E.A., and Firestone M.K. Nitrogen mineralization, immobilization, and nitrification. In: Weaver R.W., Angle S., Bottomley P., Bezdicek D., Smith S., Tabatabai A., and Wollum A. (Eds). Methods of Soil Analysis, Part 2. Microbiological and Biochemical Properties (1994), Soil Science Society of America, Madison 985-1018
26. Hart S.C., Binkley D., and Perry D.A. Influence of red alder on soil nitrogen transformations in two conifer forests of contrasting productivity. Soil Biology & Biochemistry 29 (1997) 1111-1123
27. Herman D.J., Johnson K.K., Jaeger C.H., Schwartz E., and Firestone M.K. Root influence on nitrogen mineralization and nitrification in Avena barbata rhizosphere soil. Soil Science Society of America Journal 70 (2006) 1504-1511
28. Högberg M.N., Högberg P., and Myrold D.D. Is microbial community composition in boreal forest soils determined by pH, C-to-N ratio, the tree, or all three?. Oecologia 150 (2007) 590-601
29. ec value. Soil Biology & Biochemistry 28 (1996) 25-31
30. Kirkham D., and Bartholomew W.V. Equations for following nutrient transformations in soil, utilizing tracer data. Soil Science Society of America Proceedings 18 (1954) 33-34
31. Landi L., Badalucco L., Pomarě F., and Nannipieri P. Effectiveness of antibiotics to distinguish the contributions of fungi and bacteria to net nitrogen mineralization, nitrification and respiration. Soil Biology & Biochemistry 25 (1993) 1771-1778
32. Laughlin R.J., and Stevens R.J. Evidence for fungal dominance of denitrification and codenitrification in a grassland soil. Soil Science Society of America Journal 66 (2002) 1540-1548
33. Leckie S.E., Prescott C.E., Grayston S.J., Neufeld J.D., and Mohn W.W. Characterization of humus microbial communities in adjacent forest types that differ in nitrogen availability. Microbial Ecology 48 (2004) 29-40
34. Lin Q., and Brookes P.C. Comparison of substrate induced respiration, selective inhibition and biovolume measurements of microbial biomass and its community structure in unamended, ryegrass-amended, fumigated and pesticide-treated soils. Soil Biology & Biochemistry 31 (1999) 1999-2014
35. Madigan M.T., Martinko J.M., and Parker J. Brock Biology of Microorganisms (2003), Prentice-Hall, Upper Saddle River, NJ p. 339.
36. Marzluf G.A. Genetic regulation of nitrogen metabolism in the fungi. Microbiology and Molecular Biology Reviews 61 (1997) 17-32
37. Merrick M.J., and Edwards R.A. Nitrogen control in bacteria. Micrbiological Reviews 59 (1995) 604-622
38. Myers R.T., Zak D.R., White D.C., and Peacock A. Landscape-level patterns of microbial community composition and substrate use in upland forest ecosystems. Soil Science Society of America Journal 65 (2001) 359-367
39. Myrold D.D., and Bottomley P.J. Nitrogen mineralization and immobilization. In: Raun W., and Schepers J.S. (Eds). Nitrogen in Agricultural Soils (2007), American Society of Agronomy, Madison, WI in press
40. Myrold D.D., and Posavatz N.R. Potential importance of bacteria and fungi in nitrate assimilation in soils. Soil Biology and Biochemistry 39 (2007) 1737-1743
41. Nilsson L.O., and Wallander H. Production of external mycelium by ectomycorrhizal fungi in a Norway spruce forest was reduced in response to nitrogen fertilization. New Phytologist 158 (2003) 409-416
42. Pennanen T., Liski J., Bååth E., Kitunen V., Uotila J., Westman C.J., and Fritze H. Structure of the microbial communities in coniferous forest soils in relation to site fertility and stand development stage. Microbial Ecology 38 (1999) 168-179
43. Pennanen T., Strömmer R., Markkola A., and Fritze H. Microbial and plant community structure across a primary succession gradient. Scandinavian Journal of Forest Research 16 (2001) 37-43
44. Perakis S.S., Maguire D.A., Bullen T.D., Cromack Jr. K., Waring R.H., and Boyle J.R. Coupled nitrogen and calcium cycles in forests of the Oregon coast range. Ecosystems 9 (2006) 63-74
45. Prescott C.E., Vesterdal L., Pratt J., Venner K.H., de Montigny L.M., and Trofymow J.A. Nutrient concentrations and nitrogen mineralization in forest floors of single species conifer plantations in coastal British Columbia. Canadian Journal of Forest Research 30 (2000) 1341-1352
46. Priha O., Grayston S.J., Hiukka R., Pennanen T., and Smolander A. Microbial community structure and characteristics of the organic matter in soils under Pinus sylvestris, Picea abies, and Betula pendula at two forest sites. Biology and Fertility of Soils 33 (2001) 17-24
47. Radosevich S.R., Hibbs D.E., and Ghersa C.M. Effects of species mixtures on growth and stand development of Douglas-fir and red alder. Canadian Journal of Forest Research 36 (2006) 768-782
48. Ramsey F.L., and Schafer D.W. The statistical sleuth (2002), Thomson Learning, Pacific Grove, CA, Duxbury pp. 374-400
49. Rhoades C.C., and Binkley D. Spatial extent of impact of red alder on soil chemistry of adjacent conifer stands. Canadian Journal of Forest Research 22 (1992) 1434-1437
50. Rice C.W., and Tiedje J.M. Regulation of nitrate assimilation by ammonium in soils and in isolated soil microorganism. Soil Biology & Biochemistry 21 (1989) 597-602
51. Schimel J.P., and Bennett J. Nitrogen mineralization: challenges of a changing paradigm. Ecology 85 (2004) 591-602
52. Schimel J.P., Firestone M.K., and Killham K.S. Identification of heterotrophic nitrification in a Sierran forest soil. Applied and Environmental Microbiology 48 (1984) 802-806
53. Selmants P.C., Hart S.C., Boyle S.I., and Stark J.M. Red alder (Alnus rubra) alters community-level soil microbial function in conifer forests of the Pacific Northwest. Soil Biology & Biochemistry 37 (2005) 1860-1868
54. Shepherd J.A., Waigh R.D., and Gilbert P. Antibacterial action of 2-bromo-2-nitropropane-1,3-diol (Bronopol). Antimicrobial Agents and Chemotherapy 32 (1988) 1693-1698
55. Sinsabaugh R.L., Gallo M.E., Lauber C., Waldrop M.P., and Zak D.R. Extracellular enzyme activities and soil organic matter dynamics for northern hardwood forests receiving simulated nitrogen deposition. Biogeochemistry 75 (2005) 201-215
56. Tungaraza C., Brion N., Rousseau V., Baeyens W., and Goeyens L. Influence of bacterial activities on nitrogen uptake rates determined by the application of antibiotics. Oceanologia 45 (2003) 473-489
57. Vance E.D., Brookes P.C., and Jenkinson D.S. An extraction method for measuring soil microbial biomass-C. Soil Biology & Biochemistry 19 (1987) 703-707
58. Velvis H. Evaluation of the selective respiratory inhibition method for measuring the ratio of fungal:bacterial activity in acid agricultural soils. Biology and Fertility of Soils 25 (1997) 354-360
59. Vermes J., and Myrold D.D. Denitrification in forest soils of Oregon. Canadian Journal of Forest Research 22 (1992) 504-512
60. Wallenstein M.D., McNulty S., Fernandez I.J., Boggs J., and Schlesinger W.H. Nitrogen fertilization decreases forest soil fungal and bacterial biomass in three long-term experiments. Forest Ecology and Management 222 (2006) 459-468
61. West A.W. Improvement of the selective respiratory inhibition technique to measure eukaryote:prokaryote ratios in soils. Journal of Microbiological Methods 5 (1986) 125-138
62. White D.C., and Ringelberg D.B. Signature lipid biomarker analysis. In: Burlage R.S., Atlas R., Stahl D., Geesey G., and Sayler G. (Eds). Techniques in Microbial Ecology (1998), Oxford University Press, New York 255-272