Transformation of organic residues into plant-available nutrients occurs through decomposition and mineralization and is mediated by saprophytic microorganisms and fauna. Of particular interest is the recycling of the essential plant elements—N, P, and S—contained in organic residues. If organic residues can supply sufficient nutrients during crop growth, a reduction in fertilizer use is possible. The challenge is synchronizing nutrient release from organic residues with crop nutrient demands throughout the growing season. This paper presents a conceptual model describing the pattern of nutrient release from organic residues in relation to crop nutrient uptake. Next, it explores experimental approaches to measure the physical, chemical, and biological barriers to decomposition and nutrient mineralization. Methods are proposed to determine the rates of decomposition and nutrient release from organic residues. Practically, this information can be used by agricultural producers to determine if plant-available nutrient supply is sufficient to meet crop demands at key growth stages or whether additional fertilizer is needed. Finally, agronomic practices that control the rate of soil biota-mediated decomposition and mineralization, as well as those that facilitate uptake of plant-available nutrients, are identified. Increasing reliance on soil biological activity could benefit crop nutrition and health in sustainable agroecosystems. 1. Introduction Agricultural scientists and practitioners face major challenges in the 21st century. They must produce enough nutritious food to feed a growing world population, which is increasing at rate of 1.14% per year and expected to reach 9.5 billion by 2050 [1]. Agroecosystems are also under pressure to produce greater quantities of fiber for biofuel production. For example, the European Union directive on renewable energy set a target of 10% biofuel, while legislation in the United States will require 20% renewables in fuel by 2022. It is critical that these targets be achieved without compromising food production, which is possible with careful agricultural management. The practices of multiple cropping and using by-products of biofuel production as animal feed resulted in an increase of 19 million ha of net harvested area from 2000 to 2010 in the United States, Brazil, Indonesia, Malaysia, China, Mozambique, South Africa, and 27 European Union member states [2]. By 2010, these countries produced 86 billion L of ethanol and 15 billion L of biodiesel and also had a net gain in land available to produce food for human and
References
[1]
United Nations, Population, Development and the Environment 2013, United Nations, Department of Economic and Social Affairs, Population Divisions, 2013, http://www.unpopulation.org/.
[2]
J. W. A. Langeveld, J. Dixon, H. van Keulen, and P. M. F. Quist-Wessel, “Analyzing the effect of biofuel expansion on land use in major producing countries: evidence of increased multiple cropping,” Biofuels, Bioproducts and Biorefining, vol. 8, no. 1, pp. 49–58, 2014.
[3]
J. Rockstr?m, W. Steffen, K. Noone et al., “Planetary boundaries: exploring the safe operating space for humanity,” Ecology and Society, vol. 14, no. 2, article 32, 2009.
[4]
W. de Vries, J. Kros, C. Kroeze, and S. P. Seitzinger, “Assessing planetary and regional nitrogen boundaries related to food security and adverse environmental impacts,” Current Opinion in Environmental Sustainability, vol. 5, no. 3-4, pp. 392–402, 2013.
[5]
G. M. Abdel-Fattah, S. A. El-Haddad, E. E. Hafez, and Y. M. Rashad, “Induction of defense responses in common bean plants by arbuscular mycorrhizal fungi,” Microbiological Research, vol. 166, no. 4, pp. 268–281, 2011.
[6]
S. C. Jung, A. Martinez-Medina, J. A. Lopez-Raez, and M. J. Pozo, “Mycorrhiza-induced resistance and priming of plant defenses,” Journal of Chemical Ecology, vol. 38, no. 6, pp. 651–664, 2012.
[7]
Y. Y. Song, M. Ye, C. Y. Li et al., “Priming of anti-herbivore defense in tomato by arbuscular mycorrhizal fungus and involvement of the jasmonate pathway,” Journal of Chemical Ecology, vol. 39, no. 7, pp. 1036–1044, 2013.
[8]
R. Puga-Freitas, S. Barot, L. Taconnat, J.-P. Renou, and M. Blouin, “Signal molecules mediate the impact of the earthworm Aporrectodea caliginosa on growth, development and defence of the plant Arabidopsis thaliana,” PLoS ONE, vol. 7, no. 12, Article ID e49504, 2012.
[9]
M. D. Whiteside, M. O. Garcia, and K. K. Treseder, “Amino acid uptake in arbuscular mycorrhizal plants,” PLoS ONE, vol. 7, no. 10, Article ID e47643, 2012.
[10]
R. D. Bardgett, T. C. Streeter, and R. Bol, “Soil microbes compete effectively with plants for organic-nitrogen inputs to temperate grasslands,” Ecology, vol. 84, no. 5, pp. 1277–1287, 2003.
[11]
K. F. M?nsson, M. O. Olsson, U. Falkengren-Grerup, and G. Bengtsson, “Soil moisture variations affect short-term plant-microbial competition for ammonium, glycine, and glutamate,” Ecology and Evolution, vol. 4, no. 7, pp. 1061–1072, 2014.
[12]
J. R. Reeve, J. L. Smith, L. Carpenter-Boggs, and J. P. Reganold, “Soil-based cycling and differential uptake of amino acids by three species of strawberry (Fragaria spp.) plants,” Soil Biology and Biochemistry, vol. 40, no. 10, pp. 2547–2552, 2008.
[13]
V. J. Nikiforova, M. Bielecka, B. Gakière, et al., “Effect of sulfur availability on the integrity of amino acid biosynthesis in plants,” Amino Acids, vol. 30, no. 2, pp. 173–183, 2006.
[14]
A. E. Richardson, P. A. Hadobas, and J. E. Hayes, “Acid phosphomonoesterase and phytase activities of wheat (Triticum aestivum L.) roots and utilization of organic phosphorus substrates by seedlings grown in sterile culture,” Plant, Cell & Environment, vol. 23, no. 4, pp. 397–405, 2000.
[15]
C. Paungfoo-Lonhienne, J. Visser, T. G. A. Lonhienne, and S. Schmidt, “Past, present and future of organic nutrients,” Plant and Soil, vol. 359, no. 1-2, pp. 1–18, 2012.
[16]
J. K. Whalen, M. L. Kernecker, B. W. Thomas, V. Sachdeva, and C. Ngosong, “Soil food web controls on nitrogen mineralization are influenced by agricultural practices in humid temperate climates,” CAB Reviews: Perspectives in Agriculture, Veterinary Science, Nutrition and Natural Resources, vol. 8, no. 23, pp. 1–18, 2013.
[17]
J. K. Whalen and L. Sampedro, Soil Ecology and Management, CABI Publishers, Wallingford, UK, 2010.
[18]
M. G. Klotz, D. J. Arp, P. S. G. Chain et al., “Complete genome sequence of the marine, chemolithoautotrophic, ammonia-oxidizing bacterium Nitrosococcus oceani ATCC 19707,” Applied and Environmental Microbiology, vol. 72, no. 9, pp. 6299–6315, 2006.
[19]
S. R. Starkenburg, P. S. G. Chain, L. A. Sayavedra-Soto et al., “The genome sequence of the chemolithoautotrophic nitrite-oxidizing bacterium Nitrobacter winogradskyi Nb-255,” Applied and Environmental Microbiology, vol. 72, no. 3, pp. 2050–2063, 2006.
[20]
R. R. Bender, J. W. Haegele, M. L. Ruffo, and F. E. Below, “Nutrient uptake, partitioning, and remobilization in modern, transgenic insect-protected maize hybrids,” Agronomy Journal, vol. 105, no. 1, pp. 161–170, 2010.
[21]
L. J. Abdendroth, R. W. Elmore, M. J. Boyer, and S. K. Marlay, “Corn growth and development,” PMR 1009, Iowa State University Extension, Ames, Iowa, USA, 2011.
[22]
S. F. Yanni, J. K. Whalen, and B. L. Ma, “Crop residue chemistry, decomposition rates, and CO2 evolution in Bt and non-Bt corn agroecosystems in North America: a review,” Nutrient Cycling in Agroecosystems, vol. 87, no. 2, pp. 277–293, 2010.
[23]
F. C. Hoyle and D. V. Murphy, “Influence of organic residues and soil incorporation on temporal measures of microbial biomass and plant available nitrogen,” Plant and Soil, vol. 347, no. 1-2, pp. 53–64, 2011.
[24]
A. E. Miller, J. P. Schimel, T. Meixner, J. O. Sickman, and J. M. Melack, “Episodic rewetting enhances carbon and nitrogen release from chaparral soils,” Soil Biology and Biochemistry, vol. 37, no. 12, pp. 2195–2204, 2005.
[25]
A. Lamparter, J. Bachmann, M.-O. Goebel, and S. K. Woche, “Carbon mineralization in soil: impact of wetting-drying, aggregation and water repellency,” Geoderma, vol. 150, no. 3-4, pp. 324–333, 2009.
[26]
V. Poirier, D. A. Angers, P. Rochette, and J. K. Whalen, “Initial soil organic carbon concentration influences the short-term retention of crop-residue carbon in the fine fraction of a heavy clay soil,” Biology and Fertility of Soils, vol. 49, no. 5, pp. 527–535, 2013.
[27]
O. P. Schulmann and A. V. Tiunov, “Leaf litter fragmentation by the earthworm Lumbricus terrestris L,” Pedobiologia, vol. 43, no. 5, pp. 453–458, 1999.
[28]
J. K. Whalen and R. W. Parmelee, “Quantification of nitrogen assimilation efficiencies and their use to estimate organic matter consumption by the earthworms Aporrectodea tuberculata (Eisen) and Lumbricus terrestris L,” Applied Soil Ecology, vol. 13, no. 3, pp. 199–208, 1999.
[29]
M. H. Beare, R. W. Parmelee, P. F. Hendrix, W. Cheng, D. C. Coleman, and D. A. Crossley Jr., “Microbial and faunal interactions and effects on litter nitrogen and decomposition in agroecosystems,” Ecological Monographs, vol. 62, no. 4, pp. 569–591, 1992.
[30]
S. Gul and J. Whalen, “Plant life history and residue chemistry influences emissions of CO2 and N2 O from soil—perspectives for genetically modified cell wall mutants,” Critical Reviews in Plant Sciences, vol. 32, no. 5, pp. 344–368, 2013.
[31]
S. Gul, S. F. Yanni, and J. K. Whalen, “Lignin controls on soil ecosystem services: implications for biotechnological advances in biofuel crops,” in Lignin: Structural Analysis, Applications in Biomaterials and Ecological Significance, F. Lu, Ed., pp. 375–416, Nova Science, Hauppauge, NY, USA, 2014.
[32]
S. Manzoni, S. M. Schaeffer, G. Katul, A. Porporato, and J. P. Schimel, “A theoretical analysis of microbial eco-physiological and diffusion limitations to carbon cycling in drying soils,” Soil Biology and Biochemistry, vol. 73, no. 6, pp. 69–83, 2014.
[33]
J. M. Steinweg, J. S. Dukes, and M. D. Wallenstein, “Modeling the effects of temperature and moisture on soil enzyme activity: linking laboratory assays to continuous field data,” Soil Biology & Biochemistry, vol. 55, no. 12, pp. 85–92, 2012.
[34]
R. G. Burns, J. L. DeForest, J. Marxsen et al., “Soil enzymes in a changing environment: current knowledge and future directions,” Soil Biology and Biochemistry, vol. 58, pp. 216–234, 2013.
[35]
R. B. Lee, “Phosphate influx and extracellular phosphatase-activity in barley roots and rose cells,” New Phytologist, vol. 109, no. 2, pp. 141–148, 1988.
[36]
D. J. Arp, “Nitrification,” in eLS, John Wiley & Sons, Chichester, UK, 2009.
[37]
S. Otte, J. Schalk, J. G. Kuenen, and M. S. M. Jetten, “Hydroxylamine oxidation and subsequent nitrous oxide production by the heterotrophic ammonia oxidizer Alcaligenes faecalis,” Applied Microbiology and Biotechnology, vol. 51, no. 2, pp. 255–261, 1999.
[38]
A. Ali, S. Sivakami, and N. Raghuram, “Effect of nitrate, nitrite, ammonium, glutamate, glutamine and 2-oxoglutarate on the RNA levels and enzyme activities of nitrate reductase and nitrite reductase in rice,” Physiology and Molecular Biology of Plants, vol. 13, no. 1, pp. 17–25, 2007.
[39]
R. E. McMurtrie, C. M. Iversen, R. C. Dewar et al., “Plant root distributions and nitrogen uptake predicted by a hypothesis of optimal root foraging,” Ecology and Evolution, vol. 2, no. 6, pp. 1235–1250, 2012.
[40]
S. T. Dara, P. E. Fixen, and R. H. Gelderman, “Sufficiency level and diagnosis and recommendation integrated system approaches for evaluating the nitrogen status of corn,” Agronomy Journal, vol. 84, no. 6, pp. 1006–1010, 1992.
[41]
L. E. Parent, A. N. Cambouris, and A. Muhawenimana, “Multivariate diagnosis of nutrient imbalance in potato crops,” Soil Science Society of America Journal, vol. 58, no. 5, pp. 1432–1438, 1994.
[42]
J. M. Blair, “Nitrogen, sulfur and phosphorus dynamics in decomposing deciduous leaf litter in the southern appalachians,” Soil Biology and Biochemistry, vol. 20, no. 5, pp. 693–701, 1988.
[43]
J. K. Whalen, C. Chang, and B. M. Olson, “Nitrogen and phosphorus mineralization potentials of soils receiving repeated annual cattle manure applications,” Biology and Fertility of Soils, vol. 34, no. 5, pp. 334–341, 2001.
[44]
M. St. Luce, J. K. Whalen, N. Ziadi, and B. J. Zebarth, “Nitrogen dynamics and indices to predict soil nitrogen supply in humid temperate soils,” Advances in Agronomy, vol. 112, pp. 55–102, 2011.
[45]
B. A. Caldwell, “Enzyme activities as a component of soil biodiversity: A review,” Pedobiologia, vol. 49, no. 6, pp. 637–644, 2005.
[46]
Centre de Référence en Agriculture et Agroalimentaire du Québec (CRAAQ), Guide de référence en fertilisation, Centre de Référence en Agriculture et Agroalimentaire du Québec (CRAAQ), Québec, Canada, 2nd edition, 2010.
[47]
R. Dinesh and R. P. Dubey, “Nitrogen mineralization rates and kinetics in soils freshly amended with green manures,” Journal of Agronomy and Crop Science, vol. 181, no. 1, pp. 49–53, 1998.
[48]
K. Y. Chan, “An overview of some tillage impacts on earthworm population abundance and diversity—implications for functioning in soils,” Soil and Tillage Research, vol. 57, no. 4, pp. 179–191, 2000.
[49]
X. Feng, K. M. Hills, A. J. Simpson, J. K. Whalen, and M. J. Simpson, “The role of biodegradation and photo-oxidation in the transformation of terrigenous organic matter,” Organic Geochemistry, vol. 42, no. 3, pp. 262–274, 2011.
[50]
A. T. Austin and L. Vivanco, “Plant litter decomposition in a semi-arid ecosystem controlled by photodegradation,” Nature, vol. 442, no. 7102, pp. 555–558, 2006.
[51]
D. M. Linn and J. W. Doran, “Effect of water-filled pore space on carbon dioxide and nitrous oxide production in tilled and non-tilled soils,” Soil Science Society of America Journal, vol. 48, no. 6, pp. 1267–1272, 1984.
[52]
A. Elbon and J. K. Whalen, “Phosphorus supply to vegetable crops from arbuscular mycorrhizal fungi: a review,” Biological Agriculture & Horticulture, 2014.