Bacterial community response to tillage and nutrient additions in a long-term wheat cropping experiment

Soil Biology and Biochemistry

Volumn 58, Issue , 2013, Pages 281-292

  Bissett, Andrew ^a   Richardson, Alan E ^a   Baker, Geoff ^a   Kirkegaard, John ^a   Thrall, Peter H ^a  

^a CSIRO   (Australia)

Author keywords

Fertilisation; Land use; Microbial function; Microbial structure; Tillage

Indexed keywords

AGRICULTURAL MANAGEMENT PRACTICE; BACTERIAL COMMUNITY; BACTERIAL COMMUNITY STRUCTURE; CELLOBIOSIDE; DRYLAND; ENZYME ASSAYS; FERTILISATION; GLUCOSIDASE; INTERACTIVE EFFECT; LONG-TERM EFFECTS; MAIN EFFECT; MICROBIAL BIOMASS; MICROBIAL FUNCTION; MICROBIAL STRUCTURES; NUTRIENT ADDITION; PHYSICOCHEMICAL PROPERTY; SAMPLING PERIOD; SOIL BACTERIAL COMMUNITY; SOIL MICROBIAL BIOMASS; TILLAGE; TILLAGE TREATMENT; WHEAT CROPPING;

AGRICULTURE; ENZYMES; NUTRIENTS; PHENOLS; RNA; SOCIAL SCIENCES; SOILS;

AGRICULTURAL MACHINERY;

AGRICULTURAL MANAGEMENT; BACTERIUM; BIOMASS; COMMUNITY STRUCTURE; CROPPING PRACTICE; FERTILIZATION (REPRODUCTION); LAND USE CHANGE; LONG-TERM CHANGE; MANAGEMENT PRACTICE; MICROBIAL COMMUNITY; SOIL MICROORGANISM; SOIL NUTRIENT; TILLAGE; WHEAT;

BACTERIA (MICROORGANISMS); TRITICUM AESTIVUM;

EID: 84872666020     PISSN: 00380717     EISSN: None     Source Type: Journal    
DOI: 10.1016/j.soilbio.2012.12.002     Document Type: Article

References (68)

1. Alvear M., Rosas A., Rouanet J.L., Borie F. Effects of three soil tillage systems on some biological activities in an Ultisol from southern Chile. Soil and Tillage Research 2005, 82:195-202.
2. Anderson M.J., Cribble N.A. Partitioning the variation among spatial, temporal and environmental components in a multivariate data set. Austral Ecology 1998, 23:158-167.
3. Bååth E. Thymidine incorporation into macromolecules of bacteria extracted from soil by homogenization-centrifugation. Soil Biology and Biochemistry 1992, 24:1157-1165.
4. Baker J.M., Ochsner T.E., Venterea R.T., Griffis T.J. Tillage and soil carbon sequestration-What do we really know?. Agriculture, Ecosystems & Environment 2007, 118:1-5.
5. Bayer C., Gomes J., Vieira F.C.B., Zanatta J.A., de Cassia Piccolo M., Dieckow J. Methane emission from soil under long-term no-till cropping systems. Soil and Tillage Research 2012, 124:1-7.
6. Bissett A., Richardson A.E., Baker G., Thrall P.H. Long-term land use effects on soil microbial community structure and function. Applied Soil Ecology 2011, 51:66-78.
7. Bonnet E., Van de Peer Y. zt: a software tool for simple and partial Mantel tests. Journal Statistical Software 2002, 7(10):1-12.
8. Bossio D.A., Girvan M.S., Verchot L., Bullimore J., Borelli T., Albrecht A., Scow K.M., Ball A.S., Pretty J.N., Osborn A.M. Soil microbial community response to land use change in an agricultural landscape of western Kenya. Microbial Ecology 2005, 49:50-62.
9. Bremer C., Braker G., Matthies D., Beierkuhnlein C., Conrad R. Plant presence and species combination, but not diversity, influence denitrifier activity and the composition of nirK-type denitrifier communities in grassland soil. FEMS Microbiology Ecology 2009, 70:377-387.
10. Broos K., Macdonald L.M.J., Warne M.S., Heemsbergen D.A., Barnes M.B., Bell M., McLaughlin M.J. Limitations of soil microbial biomass carbon as an indicator of soil pollution in the field. Soil Biology and Biochemistry 2007, 39:2693-2695.
11. Calderon F.J., Jackson L.E., Scow K.M., Rolston D.E. Short-term dynamics of nitrogen, microbial activity, and phospholipid fatty acids after tillage. Soil Science Society of America Journal 2001, 65:118-126.
12. Caporaso J.G., Paszkiewicz K., Field D., Knight R., Gilbert J.A. The Western English Channel contains a persistent microbial seed bank. The ISME Journal 2012, 6:1089-1093.
13. Clarke K.R., Warwick R.M. Change in Marine Communties: an Approach to Statistical Analysis and Interpretation 2001, PRIMER-E, Plymouth, 178 pp. second ed.
14. Cruz-Martinez K., Suttle K.B., Brodie E.L., Power M.E., Andersen G.L., Banfield J.F. Despite strong seasonal responses, soil microbial consortia are more resilient to long-term changes in rainfall than overlying grassland. The ISME Journal 2009, 3:738-744.
15. Culman S.W., Bukowski R., Gauch H.G., Cadillo-Quiroz H., Buckley D.H. T-REX: software for the processing and analysis of T-RFLP data. BMC Bioinformatics 2009, 10:171.
16. DeAngelis K.M., Silver W.L., Thompson A.W., Firestone M.K. Microbial communities acclimate to recurring changes in soil redox potential status. Environmental Microbiology 2011, 12:3137-3149.
17. Deng S.P., Tabatabai M.A. Effect of tillage and residue management on enzyme activities in soils. I. Amidohydrolases. Biology and Fertility of Soils 1996, 22:202-207.
18. Deng S.P., Tabatabai M.A. Effect of tillage and residue management on enzyme activities in soils. II Glycosidases. Biology and Fertility of Soils 1996, 22:208-213.
19. Deng S.P., Tabatabai M.A. Effect of tillage and residue management on enzyme activities in soils: III. Phosphatases and arylsulfatase. Biology and Fertility of Soils 1997, 24:141-146.
20. Drijber R.A., Doran J.W., Parkhurst A.M., Lyon D.J. Changes in soil microbial community structure with tillage under long-term wheat-fallow management. Soil Biology and Biochemistry 2000, 32:1419-1430.
21. Duineveld B.M., Kowalchuk G.A., Keijzer A., van Elsas J.D., van Veen J.A. Analysis of bacterial communities in the rhizosphere of Chrysanthemum via denaturing gradient gel electrophoresis of PCR-amplified 16S rRNA as well as DNA fragments coding for 16S rRNA. Applied and Environmental Microbiology 2001, 67:172-178.
22. DuPont S.T., Culman S.W., Ferris H., Buckley D.H., Glover J.D. No-tillage conversion of harvested perennial grassland to annual cropland reduces root biomass, decreases active carbon stocks, and impacts soil biota. Agriculture, Ecosystems & Environment 2010, 137:25-32.
23. Eric P., Thomas G., Claire A., Allan S., Gillian T. Rhizodeposition shapes rhizosphere microbial community structure in organic soil. New Phytologist 2007, 173:600-610.
24. Fuhrman J.A., Hewson I., Schwalbach M.S., Steele J.A., Brown M.V., Naeem S. Annually reoccurring bacterial communities are predictable from ocean conditions. Proceedings of the National Academy of Sciences 2006, 103:13104-13109.
25. Garland J.L., Mills A.L. Classification and characterization of heterotrophic microbial communities on the basis of patterns of community-level sole-carbon-source utilization. Applied and Environmental Microbiology 1991, 57:2351-2359.
26. Girvan M.S., Bullimore J., Pretty J.N., Osborn A.M., Ball A.S. Soil type is the primary determinant of the composition of the total and active bacterial communities in arable soils. Applied and Environmental Microbiology 2003, 69:1800-1809.
27. Gomez-Rey M.X., Couto-Vazquez A., Gonzalez-Prieto S.J. Nitrogen transformation rates and nutrient availability under conventional plough and conservation tillage. Soil and Tillage Research 2012, 124:144-152.
28. Govaerts B., Verhulst N., Castellanos-Navarrete A., Sayre K.D., Dixon J., Dendooven L. Conservation agriculture and soil carbon sequestration: between myth and farmer reality. Critical Reviews in Plant Sciences 2009, 28:97-122.
29. Grayston S.J., Griffith G.S., Mawdsley J.L., Campbell C.D., Bardgett R.D. Accounting for variability in soil microbial communities of temperate upland grassland ecosystems. Soil Biology and Biochemistry 2001, 33:533-551.
30. Haichar F.e.Z., Marol C., Berge O., Rangel-Castro J.I., Prosser J.I., Balesdent J., Heulin T., Achouak W. Plant host habitat and root exudates shape soil bacterial community structure. The ISME Journal 2008, 2:1221-1230.
31. Haines P.J., Uren N.C. Effects of conservation tillage farming on soil microbial biomass, organic matter and earthworm populations, in north-eastern Victoria. Australian Journal of Experimental Agriculture 1990, 30:365-371.
32. Helgason B.L., Walley F.L., Germida J.J. Long-term no-till management affects microbial biomass but not community composition in Canadian prairie agroecosytems. Soil Biology and Biochemistry 2010, 42:2192-2202.
33. Himes F.L. Nitrogen, sulfur, and phosphorus and the sequestering of carbon. Soil Processes and the Carbon Cycle 1998, 315-320. CRC Press, Boca Raton, FL. R. Lal, J.M. Kimble, R.F. Follett, B.A. Stewart (Eds.).
34. Isbell R.F. The Australian Soil Classification System 2002, CSIRO Publishing, Melbourne. revised ed.
35. Kanwar R.S. Effect of tillage systems on the variability of soil water tensions and soil water content. Transactions of ASAE 1989, 32:605-610.
36. Khan S.A., Mulvaney R.L., Ellsworth T.R., Boast C.W. The myth of nitrogen fertilization for soil carbon sequestration. Journal of Environmental Quality 2007, 36:1821-1832.
37. Kirkby C.A., Kirkegaard J.A., Richardson A.E., Wade L.J., Blanchard C., Batten G. Stable soil organic matter: a comparison of C: N: P: S ratios in Australian and other world soils. Geoderma 2011, 163:197-208.
38. Kirkegaard J.A., Angus J.F., Gardner P.A., Mueller W. Reduced growth and yield of wheat with conservation cropping. I. Field studies in the first year of the cropping phase. Australian Journal of Agricultural Research 1994, 45:511-528.
39. kirkegaard J.K. A review of trends in wheat yield responses to conservation cropping in Australia. Australian Journal of Experimental Agriculture 1995, 35:835-848.
40. Kulmatiski A., Beard K.H. Decoupling plant-growth from land-use legacies in soil microbial communities. Soil Biology and Biochemistry 2008, 40:1059-1068.
41. Lal R., Follett R.F., Kimble J. Achieving soil carbon sequestion in the US: a challenge to the policy makers. Soil Science 2003, 168:827-845.
42. Lupwayi N.Z., Rice W.A., Clayton G.W. Soil microbial diversity and community structure under wheat as influenced by tillage and crop rotation. Soil Biology and Biochemistry 1998, 30:1733-1741.
43. Ma Y., Qin H., Yin C., Gao W., Zhang H., Sui P., Chen Y., Li X. Dynamics of soil water content under different tillage systems in agro-pastural eco-zone. Frontiers of Agriculture in China 2008, 2:208-215.
44. Matocha C.J., Haszler G.R., Grove J.H. Nitrogen fertilization suppresses soil phenol oxidase enzyme activity in no-tillage systems. Soil Science 2004, 169:708-714.
45. McCaig A.E., Glover L.A., Prosser J.I. Molecular analysis of bacterial community structure and diversity in unimproved and improved upland grass pastures. Applied and Environmental Microbiology 1999, 65:1721-1730.
46. Mengoni A., Tatti E., Decorosi F., Viti C., Bazzicalupo M., Giovannetti L. Comparison of 16S rRNA and 16S rDNA T-RFLP approaches to study bacterial communities in soil microcosms treated with chromate as perturbing agent. Microbial Ecology 2005, 50:375-384.
47. Naeem S. Species redundancy and ecosystem reliability. Conservation Biology 1998, 12:39-45.
48. Nogales B., Moore E.R.B., Llobet-Brossa E., Rossello-Mora R., Amann R., Timmis K.N. Combined use of 16S ribosomal DNA and 16S rRNA to study the bacterial community of polychlorinated biphenyl-polluted soil. Applied and Environmental Microbiology 2001, 67:1874-1884.
49. Olsen S.R., Sommers L.E. Phosphorous. Methods of Soil Analysis 1982, 403-430. Soil Science Society of America, Madison, Wisconin, U.S.A. A.L. Page (Ed.).
50. Osborne C.A., Zwart A.B., Broadhurst L.M., Young A.G., Richardson A.E. The influence of sampling strategies and spatial variation on the detected soil bacterial communities under three different land-use types. FEMS Microbiology Ecology 2011, 78:70-79.
51. Ramette A. Quantitative community fingerprinting methods for estimating the abundance of operational taxonomic units in natural microbial communities. Applied and Environmental Microbiology 2009, 75:2495-2505.
52. Rayment G.E., Higginson F.R. Australian Laboratory Handbook of Soil and Water Chemical Methods 1992, Inkata Press, Melbourne, 330 pp.
53. Rousk J., Bååth E. Fungal biomass production and turnover in soil estimated using the acetate-in-ergosterol technique. Soil Biology and Biochemistry 2007, 39:2173-2177.
54. Rowell D.L. Soil Science: Methods and Applications 1994, Longman Group Ltd, UK, London.
55. Saiya-Cork K.R., Sinsabaugh R.L., Zak D.R. The effects of long term nitrogen deposition on extracellular enzyme activity in an Acer saccharum forest soil. Soil Biology and Biochemistry 2002, 34:1309-1315.
56. Schmidt S.K., Costello E.K., Nemergut D.R., Cleveland C.C., Reed S.C., Weintraub M.N., Meyer A.F., Martin A.M. Biogeochemical consequences of rapid microbial turnover and seasonal succession in soil. Ecology 2007, 88:1379-1385.
57. Schoon R., Bissett A., De Beer D. Resilience of pore-water chemistry and calcification in photosynthetic zones of calcifying sediments. Limnology and Oceanography 2010, 55:377-385.
58. Singh B.K., Nazaries L., Munro S., Anderson I.C., Campbell C.D. Use of multiplex terminal restriction fragment length polymorphism for rapid and simultaneous analysis of different components of the soil microbial community. Applied and Environmental Microbiology 2006, 72:7278-7285.
59. Sinsabaugh R.L. Phenol oxidase, peroxidase and organic matter dynamics of soil. Soil Biology and Biochemistry 2010, 42:391-404.
60. 2-driven increases in primary production. Applied Soil Ecology 2003, 24:263-271.
61. Sinsabaugh R.L., Zak D.R., Gallo M., Lauber C., Amonette R. Nitrogen deposition and dissolved organic carbon production in northern temperate forests. Soil Biology and Biochemistry 2004, 36:1509-1515.
62. Six J., Ogle S.M., Jay breidt F., Conant R.,T., Mosier A.,R., Paustian K. The potential to mitigate global warming with no-tillage management is only realized when practised in the long term. Global Change Biology 2004, 10:155-160.
63. Smalla K., Wachtendorf U., Heuer H., Liu W.T., Forney L. Analysis of Biolog GN substrate utilization patterns by microbial communities. Applied and Environmental Microbiology 1998, 64:1220-1225.
64. Spargo J., Cavigelli M., Mirsky S., Maul J., Meisinger J. Mineralizable soil nitrogen and labile soil organic matter in diverse long-term cropping systems. Nutrient Cycling in Agroecosystems 2011, 90:253-266.
65. Stephan A., Meyer A.H., Schmid B. Plant diversity affects culturable soil bacteria in experimental grassland communities. Journal of Ecology 2000, 88:988-998.
66. Stewart B.A., Porter L.K., Beard W.E. Determination of total nitrogen and carbon in soils by a Commercial Dumas Apparatus1. Soil Science Society of America Journal 1964, 28:366-368.
67. Virto I., Barre P., Burlot A., Chenu C. Carbon input differences as the main factor explaining the variability in soil organic C storage in no-tilled compared to inversion tilled agrosystems. Biogeochemistry 2012, 108:17-26.
68. Voroney R.P., Brookes P.C., Beyaert R.P. Soil microbial biomass C, N, P, and S. Soil Sampling and Methods of Analysis 2008, 637-651. CRC Press, Boca Raton, FL. second ed. C. M.R., E.G. Gregorich (Eds.).