An Underground Revolution: Biodiversity and Soil Ecological Engineering for Agricultural Sustainability

Trends in Ecology and Evolution

Volumn 31, Issue 6, 2016, Pages 440-452

  Bender, S Franz ^a   Wagg, Cameron ^b   van der Heijden, Marcel G A ^a,b,c  

^a AGROSCOPE RECKENHOLZ TÄNIKON RESEARCH STATION ART   (Switzerland)

^b UNIVERSITY OF ZURICH   (Switzerland)

^c UTRECHT UNIVERSITY   (Netherlands)

Author keywords

[No Author keywords available]

Indexed keywords

AGRICULTURAL INTENSIFICATION; AGRICULTURAL MANAGEMENT; ALTERNATIVE AGRICULTURE; BIODIVERSITY; COMMUNITY COMPOSITION; ECOLOGICAL ENGINEERING; ECOSYSTEM SERVICE; ENVIRONMENTAL IMPACT; LAND USE CHANGE; SOIL BIOTA; SOIL ECOSYSTEM; SUBTERRANEAN ENVIRONMENT;

AGRICULTURE; BIODIVERSITY; ECOLOGY; ECOSYSTEM; HUMAN; SOIL;

AGRICULTURE; BIODIVERSITY; ECOLOGY; ECOSYSTEM; HUMANS; SOIL;

EID: 84988311458     PISSN: 01695347     EISSN: None     Source Type: Journal    
DOI: 10.1016/j.tree.2016.02.016     Document Type: Review

References (100)

1. Bardgett R.D., van der Putten W.H. Belowground biodiversity and ecosystem functioning. Nature 2014, 515:505-511.
2. Lal R., Stavi I. Achieving zero net land degradation: challenges and opportunities. J. Arid Environ. A 2015, 112:44-51.
3. Tsiafouli M.A., et al. Intensive agriculture reduces soil biodiversity across Europe. Glob. Change Biol. 2015, 21:973-985.
4. Verbruggen E., et al. Positive effects of organic farming on below-ground mutualists: large-scale comparison of mycorrhizal fungal communities in agricultural soils. New Phytol. 2010, 186:968-979.
5. Foley J., et al. Global consequences of land use. Science 2005, 309:570-574.
6. Wall D.H., et al. Soil biodiversity and human health. Nature 2015, 528:69-76.
7. Bommarco R., et al. Ecological intensification: harnessing ecosystem services for food security. Trends Ecol. Evol. 2013, 28:230-238.
8. Hendrix P.F., et al. Detritus food webs in conventional and no-tillage agroecosystems. Bioscience 1986, 36:374-380.
9. Bardgett R.D., Chan K.F. Experimental evidence that soil fauna enhance nutrient mineralization and plant nutrient uptake in montane grassland ecosystems. Soil Biol. Biochem. 1999, 31:1007-1014.
10. Crotty F.V., et al. Measuring soil protist respiration and ingestion rates using stable isotopes. Soil Biol. Biochem. 2013, 57:919-921.
11. Geisen S., et al. Pack hunting by a common soil amoeba on nematodes. Environ. Microbiol. 2015, 17:4538-4546.
12. Fierer N., et al. Cross-biome metagenomic analyses of soil microbial communities and their functional attributes. Proc. Natl. Acad. Sci. U.S.A. 2012, 109:21390-21395.
13. Elser J.J., et al. Global analysis of nitrogen and phosphorus limitation of primary producers in freshwater, marine and terrestrial ecosystems. Ecol. Lett. 2007, 10:1135-1142.
14. Schlesinger W.H. On the fate of anthropogenic nitrogen. Proc. Natl. Acad. Sci. U.S.A. 2009, 106:203-208.
15. Jones C.M., et al. Recently identified microbial guild mediates soil N2O sink capacity. Nat. Clim. Change 2014, 4:801-805.
16. Nie S.A., et al. Nitrogen loss by anaerobic oxidation of ammonium in rice rhizosphere. ISME J. 2015, 9:2059-2067.
17. Cavagnaro T.R., et al. The role of arbuscular mycorrhizas in reducing soil nutrient loss. Trends Plant Sci. 2015, 20:283-290.
18. 2O emissions from soil. ISME J. 2014, 8:1336-1345.
19. Zhang X., et al. Effects of arbuscular mycorrhizal fungi on N2O emissions from rice paddies. Water Air Soil Pollut. 2015, 226:1-10.
20. Smith S.E., Read D.J. Mycorrhizal Symbiosis 2008, Academic Press.
21. Bender S.F., van der Heijden M.G.A. Soil biota enhance agricultural sustainability by improving crop yield, nutrient uptake and reducing nitrogen leaching losses. J. Appl. Ecol. 2015, 52:228-239.
22. Jobbágy E.G., Jackson R.B. The vertical distribution of soil organic carbon and its relation to climate and vegetation. Ecol. Appl. 2000, 10:423-436.
23. Amundson R., et al. Soil and human security in the 21st century. Science 2015, 348:1261071.
24. Creamer R.E., et al. Ecological network analysis reveals the inter-connection between soil biodiversity and ecosystem function as affected by land use across Europe. Appl. Soil Ecol. 2015, 97:112-124.
25. Six J., et al. Bacterial and fungal contributions to carbon sequestration in agroecosystems. Soil Sci. Soc. Am. J. 2006, 70:555-569.
26. Tardy V., et al. Shifts in microbial diversity through land use intensity as drivers of carbon mineralization in soil. Soil Biol. Biochem. 2015, 90:204-213.
27. Lavelle P., et al. Soil invertebrates and ecosystem services. Eur. J. Soil Biol. 2006, 42:3-15.
28. Rillig M.C., Mummey D.L. Mycorrhizas and soil structure. New Phytol. 2006, 171:41-53.
29. Sackett T., et al. Linking soil food web structure to above- and belowground ecosystem processes: a meta-analysis. Oikos 2010, 119:1984-1992.
30. Trap J., et al. Ecological importance of soil bacterivores for ecosystem functions. Plant Soil 2015, 398:1-24.
31. van Groenigen J.W., et al. Earthworms increase plant production: a meta-analysis. Sci. Rep. 2014, 4:6365.
32. Pellegrino E., et al. Responses of wheat to arbuscular mycorrhizal fungi: a meta-analysis of field studies from 1975 to 2013. Soil Biol. Biochem. 2015, 84:210-217.
33. Strickland M.S., et al. Testing the functional significance of microbial community composition. Ecology 2009, 90:441-451.
34. 2O emissions from soil. Glob. Change Biol. 2011, 17:1497-1504.
35. Philippot L., et al. Loss in microbial diversity affects nitrogen cycling in soil. ISME J. 2013, 7:1609-1619.
36. Nielsen U., et al. Soil biodiversity and carbon cycling: a review and synthesis of studies examining diversity-function relationships. Eur. J. Soil Sci. 2011, 62:105-116.
37. Tuck S.L., et al. Land-use intensity and the effects of organic farming on biodiversity: a hierarchical meta-analysis. J. Appl. Ecol. 2014, 51:746-755.
38. Hunt H.W., Wall D.H. Modelling the effects of loss of soil biodiversity on ecosystem function. Glob. Change Biol. 2002, 8:33-50.
39. Griffiths B.S., et al. Ecosystem response of pasture soil communities to fumigation-induced microbial diversity reductions: an examination of the biodiversity-ecosystem function relationship. Oikos 2000, 90:279-294.
40. van der Heijden M.G.A., et al. A widespread plant-fungal-bacterial symbiosis promotes plant biodiversity, plant nutrition, seedling recruitment. ISME.J. 2015, 10:389-399.
41. Wagg C., et al. Soil biodiversity and soil community composition determine ecosystem multifunctionality. Proc. Natl. Acad. Sci. U.S.A. 2014, 111:5266-5270.
42. Schimel J.P., Schaeffer S.M. Microbial control over carbon cycling in soil. Front. Microbiol. 2012, 3:348.
43. van Elsas J.D., et al. Microbial diversity determines the invasion of soil by a bacterial pathogen. Proc. Natl. Acad. Sci. U.S.A. 2012, 109:1159-1164.
44. Yachi S., Loreau M. Biodiversity and ecosystem productivity in a fluctuating environment: The insurance hypothesis. Proc. Natl. Acad. Sci. U.S.A. 1999, 96:1463-1468.
45. Isbell F., et al. Biodiversity increases the resistance of ecosystem productivity to climate extremes. Nature 2015, 526:574-577.
46. Orgiazzi A., et al. Soil biodiversity and DNA barcodes: opportunities and challenges. Soil Biol. Biochem. 2015, 80:244-250.
47. Prosser J.I., et al. Essay - The role of ecological theory in microbial ecology. Nat. Rev. Microbiol. 2007, 5:384-392.
48. Hines J., et al. Towards an integration of biodiversity-ecosystem functioning and food-web theory to evaluate connections between multiple ecosystem services. Adv. Ecol. Res. 2015, 53:161-199.
49. Bradford M.A., et al. Discontinuity in the responses of ecosystem processes and multifunctionality to altered soil community composition. Proc. Natl. Acad. Sci. U.S.A. 2014, 111:14478-14483.
50. Vitousek P.M., et al. Human alteration of the global nitrogen cycle: sources and consequences. Ecol. Appl. 1997, 7:737-750.
51. Kuntz M., et al. Influence of reduced tillage on earthworm and microbial communities under organic arable farming. Pedobiologia 2013, 56:251-260.
52. Brennan A., et al. Collembola abundances and assemblage structures in conventionally tilled and conservation tillage arable systems. Pedobiologia 2006, 50:135-145.
53. McDaniel M.D., et al. Does agricultural crop diversity enhance soil microbial biomass and organic matter dynamics? A meta-analysis. Ecol. Appl. 2013, 24:560-570.
54. de Vries F.T., et al. Soil food web properties explain ecosystem services across European land use systems. Proc. Natl. Acad. Sci. U.S.A. 2013, 110:14296-14301.
55. Mäder P., et al. Soil fertility and biodiversity in organic farming. Science 2002, 296:1694-1697.
56. Seufert V., et al. Comparing the yields of organic and conventional agriculture. Nature 2012, 485:229-232.
57. Foley J.A., et al. Solutions for a cultivated planet. Nature 2011, 478:337-342.
58. Mann C.C. Crop scientists seek a new revolution. Science 1999, 283:310-314.
59. Steffen W., et al. Planetary boundaries: guiding human development on a changing planet. Science 2015, 347:1259855.
60. Dobson A. Population dynamics of pathogens with multiple host species. Am. Nat. 2004, 164:64-78.
61. Beare M.H., et al. Microbial and faunal interactions and effects on litter nitrogen and decomposition in agroecosystems. Ecol. Monogr. 1992, 62:569-591.
62. Pittelkow C.M., et al. Productivity limits and potentials of the principles of conservation agriculture. Nature 2015, 517:365-368.
63. Brown M.W., Tworkoski T. Pest management benefits of compost mulch in apple orchards. Agric. Ecosyst. Environ. 2004, 103:465-472.
64. Güereña D.T., et al. Partitioning the contributions of biochar properties to enhanced biological nitrogen fixation in common bean (Phaseolus vulgaris). Biol. Fertil. Soils 2015, 51:479-491.
65. Lugato E., et al. Potential carbon sequestration of European arable soils estimated by modelling a comprehensive set of management practices. Glob. Change Biol. 2014, 20:3557-3567.
66. Li L., et al. Diversity enhances agricultural productivity via rhizosphere phosphorus facilitation on phosphorus-deficient soils. Proc. Natl. Acad. Sci. U.S.A. 2007, 104:11192-11196.
67. Deguchi S., et al. White clover living mulch increases the yield of silage corn via arbuscular mycorrhizal fungus colonization. Plant Soil 2007, 291:291-299.
68. Zhu Y., et al. Genetic diversity and disease control in rice. Nature 2000, 406:718-722.
69. Tilman D., et al. The influence of functional diversity and composition on ecosystem processes. Science 1997, 277:1300-1302.
70. Vandermeer J., et al. Global change and multi-species agroecosystems: concepts and issues. Agric. Ecosyst. Environ. 1998, 67:1-22.
71. Bulgarelli D., et al. Revealing structure and assembly cues for Arabidopsis root-inhabiting bacterial microbiota. Nature 2012, 488:91-95.
72. Peiffer J.A., et al. Diversity and heritability of the maize rhizosphere microbiome under field conditions. Proc. Natl. Acad. Sci. U.S.A. 2013, 110:6548-6553.
73. Müller U., Sachs J. Engineering microbiomes to improve plant and animal health. Trends Microbiol. 2015, 23:606-617.
74. Skiba M., et al. Plant influence on nitrification. Biochem. Soc. Trans. 2011, 39:275.
75. Chaparro J., et al. Manipulating the soil microbiome to increase soil health and plant fertility. Biol. Fertil. Soils 2012, 48:489-499.
76. Oldroyd G.E.D. Speak, friend, and enter: signalling systems that promote beneficial symbiotic associations in plants. Nat. Rev. Microbiol. 2013, 11:252-263.
77. Walder F., van der Heijden M.G.A. Regulation of resource exchange in the arbuscular mycorrhizal symbiosis. Nat. Plants 2015, 1:15159.
78. Mendes R., et al. Deciphering the Rhizosphere microbiome for disease-suppressive bacteria. Science 2011, 332:1097-1100.
79. Panke-Buisse K., et al. Selection on soil microbiomes reveals reproducible impacts on plant function. ISME J. 2015, 9:980-989.
80. Bardgett R.D., et al. Going underground: root traits as drivers of ecosystem processes. Trends Ecol. Evol. 2014, 29:692-699.
81. Sawers R.J.H., et al. Cereal mycorrhiza: an ancient symbiosis in modern agriculture. Trends Plant Sci. 2008, 13:93-97.
82. Fodder Crops and Amenity Grasses 2010, Springer. B. Boller (Ed.).
83. Sieverding E. Vesicular-Arbuscular Mycorrhiza Management In Tropical Ecosystems 1991, Sonderpublikation der GTZ.
84. Ceballos I., et al. The in vitro mass-produced model mycorrhizal fungus, Rhizophagus irregularis, significantly increases yields of the globally important food security crop cassava. PLoS ONE 2013, 8:e70633.
85. Köhl L., et al. Establishment and effectiveness of inoculated arbuscular mycorrhizal fungi in agricultural soils. Plant Cell Environ. 2016, 39:136-146.
86. Vargas M.A.T., et al. Response of field-grown bean (Phaseolus vulgaris L.) to Rhizobium inoculation and nitrogen fertilization in two Cerrados soils. Biol. Fertil. Soils 2000, 32:228-233.
87. Kupferschmied P., et al. Promise for plant pest control: root-associated pseudomonads with insecticidal activities. Front. Plant Sci. 2013, 4:10-3389.
88. Pieterse C.M.J., et al. Induced systemic resistance by beneficial microbes. Annu. Rev. Phytopathol. 2014, 52:347-375.
89. Bashan Y., et al. Advances in plant growth-promoting bacterial inoculant technology: formulations and practical perspectives (1998-2013). Plant Soil 2013, 378:1-33.
90. Rasmann S., et al. Recruitment of entomopathogenic nematodes by insect-damaged maize roots. Nature 2005, 434:732-737.
91. Turlings T.C., et al. The importance of root-produced volatiles as foraging cues for entomopathogenic nematodes. Plant Soil 2012, 358:51-60.
92. Schwartz M.W., et al. The promise and the potential consequences of the global transport of mycorrhizal fungal inoculum. Ecol. Lett. 2006, 9:501-515.
93. Schlaeppi K., Bulgarelli D. The plant microbiome at work. Mol. Plant-Microbe Interact. 2014, 28:212-217.
94. Philippot L., et al. Going back to the roots: the microbial ecology of the rhizosphere. Nat. Rev. Microbiol. 2013, 11:789-799.
95. Lal R. Challenges and opportunities in precision agriculture. Soil-Specific Farming: Precision Agriculture 2015, 391-400. CRC Press. R. Lal, B.A. Stewart (Eds.).
96. Kennedy T.L., et al. Reduced nitrous oxide emissions and increased yields in California tomato cropping systems under drip irrigation and fertigation. Agric. Ecosyst. Environ. 2013, 170:16-27.
97. Bardgett R.D., Wardle D.A. Aboveground-Belowground Linkages: Biotic Interactions, Ecosystem Processes, and Global Change 2010, Oxford University Press.
98. Allan E., et al. Land use intensification alters ecosystem multifunctionality via loss of biodiversity and changes to functional composition. Ecol. Lett. 2015, 18:834-843.
99. Delgado-Baquerizo M., et al. Microbial diversity drives multifunctionality in terrestrial ecosystems. Nat. Comm. 2016, 7:10541.
100. Byrnes J.E., et al. Investigating the relationship between biodiversity and ecosystem multifunctionality: challenges and solutions. Methods Ecol. Evol. 2014, 5:111-124.