Does the chemical nature of soil carbon drive the structure and functioning of soil microbial communities?

Soil Biology and Biochemistry

Volumn 70, Issue , 2014, Pages 54-61

  Ng, E L ^a   Patti, A F ^a   Rose, M T ^a   Schefe, C R ^b   Wilkinson, K ^b   Smernik, R J ^c   Cavagnaro, T R ^a,c  

^a MONASH UNIVERSITY   (Australia)

^b Department of Environment and Primary Industries ^*  (Australia)

^c UNIVERSITY OF ADELAIDE   (Australia)

Author keywords

13C NMR; Carbon cycling; Microbial activity; PLFA; Soil enzymes; Soil organic matter

Indexed keywords

CARBON CYCLING; MICROBIAL ACTIVITIES; PLFA; SOIL ENZYMES; SOIL ORGANIC MATTERS;

CARBON; ENZYMES; MICROORGANISMS; PHOSPHOLIPIDS;

SOILS;

AGRICULTURAL SOIL; CARBON CYCLE; COMMUNITY ECOLOGY; COMMUNITY RESPONSE; COMMUNITY STRUCTURE; FATTY ACID; MICROBIAL ACTIVITY; MICROBIAL COMMUNITY; PHOSPHOLIPID; PYROLYSIS; SOIL CARBON; SOIL MICROORGANISM; SOIL ORGANIC MATTER;

EID: 84891352012     PISSN: 00380717     EISSN: None     Source Type: Journal    
DOI: 10.1016/j.soilbio.2013.12.004     Document Type: Article

References (60)

1. 13C CPMAS NMR: relationships between litter depth, enzyme activities and temperature. Eur. J. Soil. Sci. 2008, 59:486-495.
2. Allison S.D., Jastrow J.D. Activities of extracellular enzymes in physically isolated fractions of restored grassland soils. Soil Biol. Biochem. 2006, 38:3245-3256.
3. Baldock J.A., Smernik R.J. Chemical composition and bioavailability of thermally altered Pinus resinosa (Red pine) wood. Org. Geochem. 2002, 33:1093-1109.
4. Baldock J.A., Masiello C.A., Gélinas Y., Hedges J.I. Cycling and composition of organic matter in terrestrial and marine ecosystems. Mar. Chem. 2004, 92:39-64.
5. Bastida F., Kandeler E., Moreno J.L., Ros M., García C., Hernández T. Application of fresh and composted organic wastes modifies structure, size and activity of soil microbial community under semiarid climate. Appl. Soil Ecol. 2008, 40:318-329.
6. Baumann K., Marschner P., Smernik R.J., Baldock J.A. Residue chemistry and microbial community structure during decomposition of eucalypt, wheat and vetch residues. Soil Biol. Biochem. 2009, 41:1966-1975.
7. Bossio D.A., Scow K.M. Impacts of carbon and flooding on soil microbial communities: phospholipid fatty acid profiles and substrate utilization patterns. Microb. Ecol. 1998, 35:265-278.
8. Cebrian J. Patterns in the fate of production in plant communities. Am. Nat. 1999, 154:449-468.
9. Cross A., Sohi S.P. The priming potential of biochar products in relation to labile carbon contents and soil organic matter status. Soil Biol. Biochem. 2011, 43:2127-2134.
10. Cusack D.F., Silver W.L., Torn M.S., Burton S.D., Firestone M.K. Changes in microbial community characteristics and soil organic matter with nitrogen additions in two tropical forests. Ecology 2011, 92:621-632.
11. De Boer W., Folman L.B., Summerbell R.C., Boddy L. Living in a fungal world: impact of fungi on soil bacterial niche development. Fems Microbiol. Rev. 2005, 29:795-811.
12. De'ath G. Multivariate regression trees: a new technique for modeling species-environment relationships. Ecology 2002, 83:1105-1117.
13. Ekschmitt K., Liu M., Vetter S., Fox O., Wolters V. Strategies used by soil biota to overcome soil organic matter stability - why is dead organic matter left over in the soil?. Geoderma 2005, 128:167-176.
14. FAOSTAT Agriculture Area in the World in 2008 2010.
15. Flavel T.C., Murphy D.V. Carbon and nitrogen mineralization rates after application of organic amendments to soil. J.Environ. Qual. 2006, 35:183-193.
16. Fontaine S., Bardoux G., Abbadie L., Mariotti A. Carbon input to soil may decrease soil carbon content. Ecol. Lett. 2004, 7:314-320.
17. Forster J.C. 3-Soil sampling, handling, storage and analysis. Methods in Applied Soil Microbiology and Biochemistry 1995, 49-121. Academic Press, London. A. Kassem, N. Paolo (Eds.).
18. Frey A., Meckelein B., Externest D., Schmidt M.A. A stable and highly sensitive 3, 3', 5, 5'-tetramethylbenzidine-based substrate reagent for enzyme-linked immunosorbent assays. J. Immunol. Methods. 2000, 233:47-56.
19. Frostegård A., Bååth E. The use of phospholipid fatty acid analysis to estimate bacterial and fungal biomass in soil. Biol. Fert. Soils 1996, 22:59-65.
20. Garrett S.D. Ecological groups of soil fungi: a survey of substrate relationships. New. Phytol. 1951, 50:149-166.
21. Gressel N., McColl J.G., Preston C.M., Newman R.H., Powers R.F. Linkages between phosphorus transformations and carbon decomposition in a forest soil. Biogeochemistry 1996, 33:97-123.
22. Hättenschwiler S., Fromin N., Barantal S. Functional diversity of terrestrial microbial decomposers and their substrates. C.R. Biol. 2011, 334:393-402.
23. Holding A.J. The properties and classification of the predominant Gram-negative bacteria occurring in soil. J.Appl. Microbiol. 1960, 23:515-525.
24. Jastrow J.D., Amonette J.E., Bailey V.L. Mechanisms controlling soil carbon turnover and their potential application for enhancing carbon sequestration. Clim. Change 2007, 80:5-23.
25. Johnsen A.R., Jacobsen O.S. A quick and sensitive method for the quantification of peroxidase activity of organic surface soil from forests. Soil Biol. Biochem. 2008, 40:814-821.
26. King G.M. Enhancing soil carbon storage for carbon remediation: potential contributions and constraints by microbes. Trends. Microbiol. 2011, 19:75-84.
27. Kirk T.K., Farrell R.L. Enzymatic "combustion": the microbial degradation of lignin. Annu. Rev. Microbiol. 1987, 41:465-505.
28. Kleber M. What is recalcitrant soil organic matter?. Environ. Chem. 2010, 7:320-332.
29. Kögel-Knabner I., Ekschmitt K., Flessa H., Guggenberger G., Matzner E., Marschner B., Von Lützow M. An integrative approach of organic matter stabilization in temperate soils: linking chemistry, physics, and biology. J.Plant Nutr. Soil Sci. 2008, 171:5-13.
30. Lal R. Managing soils and ecosystems for mitigating anthropogenic carbon emissions and advancing global food security. Bioscience 2010, 60:708-721.
31. Lal R. Sequestering carbon in soils of agro-ecosystems. Food Policy 2011, 36:S33-S39.
32. Legendre P., Legendre L. Numerical Ecology 2012, 990. Elsevier, Amsterdam.
33. Lehmann J., Rillig M.C., Thies J., Masiello C.A., Hockaday W.C., Crowley D. Biochar effects on soil biota - a review. Soil Biol. Biochem. 2011, 43:1812-1836.
34. Manzoni S., Jackson R.B., Trofymow J.A., Porporato A. The global stoichiometry of litter nitrogen mineralization. Science 2008, 321:684-686.
35. Moorhead D.L., Sinsabaugh R.L. Atheoretical model of litter decay and microbial interaction. Ecol. Monogr. 2006, 76:151-174.
36. Oksanen J., Blanchet F.G., Kindt R., Legendre P., Minchin P.R., O'Hara R.B., Simpson G.L., Solymos P., Stevens M.H.H., Wagner H. Vegan: Community Ecology Package, R Package Version 2.0-4 ed 2012.
37. Orwin K.H., Wardle D.A., Greenfield L.G. Ecological consequences of carbon substrate identity and diversity in a laboratory study. Ecology 2006, 87:580-593.
38. Ouellette M.-H., Legendre P. MVPARTwrap: MVPARTwrap: Additional Functionnalities for Package Mvpart, R Package Version 0.1-9 ed 2013.
39. Pane C., Piccolo A., Spaccini R., Celano G., Villecco D., Zaccardelli M. Agricultural waste-based composts exhibiting suppressivity to diseases caused by the phytopathogenic soil-borne fungi Rhizoctonia solani and Sclerotinia minor. Appl. Soil Ecol. 2013, 65:43-51.
40. Pascault N., Cécillon L., Mathieu O., Hénault C., Sarr A., Lévêque J., Farcy P., Ranjard L., Maron P.A. In situ dynamics of microbial communities during decomposition of wheat, rape, and alfalfa residues. Microb. Ecol. 2010, 60:816-828.
41. Pedersen J.A., Simpson M.A., Bockheim J.G., Kumar K. Characterization of soil organic carbon in drained thaw-lake basins of Arctic Alaska using NMR and FTIR photoacoustic spectroscopy. Org. Geochem. 2011, 42:947-954.
42. Pérez-Piqueres A., Edel-Hermann V., Alabouvette C., Steinberg C. Response of soil microbial communities to compost amendments. Soil. Biol. Biochem. 2006, 38:460-470.
43. Quilty J.R., Cattle S.R. Use and understanding of organic amendments in Australian agriculture: a review. Soil Res. 2011, 49:1-26.
44. R: a Language and Environment for Statistical Computing 2012, R Core Team, R Foundation for Statistical Computing, Vienna, Austria.
45. Rimmer D.L., Abbott G.D. Phenolic compounds in NaOH extracts of UK soils and their contribution to antioxidant capacity. Eur. J. Soil Sci. 2011, 62:285-294.
46. Sanderman J., Farquharson R., Baldock J. Soil Carbon Sequestration Potential: a Review for Australian Agriculture 2010, 81. Department of Climate Change and Energy Efficiency.
47. Schimel J.P., Weintraub M.N. The implications of exoenzyme activity on microbial carbon and nitrogen limitation in soil: a theoretical model. Soil Biol. Biochem. 2003, 35:549-563.
48. Schmidt M.W.I., Torn M.S., Abiven S., Dittmar T., Guggenberger G., Janssens I.A., Kleber M., Kogel-Knabner I., Lehmann J., Manning D.A.C., Nannipieri P., Rasse D.P., Weiner S., Trumbore S.E. Persistence of soil organic matter as an ecosystem property. Nature 2011, 478:49-56.
49. Shi W. Agricultural and ecological significance of soil enzymes: soil carbon sequestration and nutrient cycling. Soil Enzymology 2010, 43-60. Springer, Berlin Heidelberg. G. Shukla, A. Varma (Eds.).
50. Singh B.P., Cowie A.L., Smernik R.J. Biochar carbon stability in a clayey soil as a function of feedstock and pyrolysis temperature. Environ. Sci. Technol. 2012, 46:11770-11778.
51. Sinsabaugh R.L. Phenol oxidase, peroxidase and organic matter dynamics of soil. Soil Biol. Biochem. 2010, 42:391-404.
52. 13C NMR spectra of natural organic matter 1. Model systems and the effects of paramagnetic impurities. Geoderma 2000, 96:101-129.
53. 13C NMR spectra of natural organic matter 2. HF-treated soil fractions. Geoderma 2000, 96:159-171.
54. Spaccini R., Picollo A. Carbon sequestration in soils by hydrophobic protection and in situ catalyzed photopolymerization of soil organic matter (SOM): chemical and physical-chemical aspects of SOM in field plots. Carbon Sequestration in Agricultural Soils 2012, 61-106. Springer. A. Piccolo (Ed.).
55. Strickland M.S., Lauber C., Fierer N., Bradford M.A. Testing the functional significance of microbial community composition. Ecology 2009, 90:441-451.
56. Therneau T.M., Atkinson B., Ripley B. mvpart: Multivariate Partitioning, R Package Version 1.6-0 ed 2012, pp. rpart by Terry M Therneau, Beth Atkinson. R port of rpart by Brian Ripley . Some routines from vegan by Jari Oksanen. Extensions and adaptations of rpart to mvpart by Glenn De'ath.
57. Waring S.A., Bremner J.M. Ammonium production in soil under waterlogged conditions as an index of nitrogen availability [49]. Nature 1964, 201:951-952.
58. Wickings K., Grandy A.S., Reed S.C., Cleveland C.C. The origin of litter chemical complexity during decomposition. Ecol. Lett. 2012, 15:1180-1188.
59. Zelles L. Phospholipid fatty acid profiles in selected members of soil microbial communities. Chemosphere 1997, 35:275-294.
60. Šnajdr J., Cajthaml T., Valášková V., Merhautová V., Petránková M., Spetz P., Leppänen K., Baldrian P. Transformation of Quercus petraea litter: successive changes in litter chemistry are reflected in differential enzyme activity and changes in the microbial community composition. Fems Microbiol. Ecol. 2011, 75:291-303.