Nov 26, 2025
Soil Health: Sources Utilized in Plant Nitrogen Uptake
The ordinary understanding among agronomists/soil scientists and plant physiologists for many years is that nitrate (NO3-) and ammonium (NH4+) in the soil solution are the primary sources of plant-available nitrogen (N). In recent years with the increasing interest and prevalence of organic crop production systems, there has been an increasing interest in the possible uptake of organic sources of N, particularly amino acids.
In agricultural communities we sometimes encounter people who claim that organic N fertilizer sources are directly available for plant uptake. This implies that the mineralization process from organic forms to the NO3- and NH4+ forms in the soil is not necessary for the provision of plant available forms.
In response to these claims and corresponding questions, a recent review of the literature confirms that across most terrestrial ecosystems, inorganic N forms, specifically nitrate and ammonium (NO3- and NH4+) remain the dominant source of N taken up by plants (Figure 1).

Figure 1. The nitrogen cycle. Source: Stevenson, 1982.
Some recent research evidence demonstrates that some plants do have the ability to take up organic N compounds (e.g., amino acids). Early tracer investigations demonstrated that some plants could take up amino acids directly from soil (Kielland 1994; Näsholm et al. 1998).
Studies on this topic have shown that amino-N assimilation is particularly taking place in very cold environments and situations such as boreal forests, arctic tundra, alpine heathlands, and ericaceous (heath vegetation) shrublands. These are ecosystems where N mineralization is slow and the organic N pools are large (Schimel and Chapin 1996; Michelsen et al. 1996; Chapin et al. 2003; Näsholm et al. 2009). These are extremely different conditions than agricultural soils of the desert Southwest.
The preponderance of evidence indicates that NO3- and NH4+ do indeed make up the majority of plant N uptake in agricultural crop production systems and most natural ecosystems (Jones et al. 2005; Schimel and Bennett 2004; Näsholm et al. 2009). In most temperate and agricultural systems, inorganic N uptake exceeds that of organic N by a huge margin.
The dominance of NO3- and NH4+ ion uptake is primarily due to the large mineral N pools of inorganic forms that are more mobile in soil solution. In addition, plants have specific and energetically efficient transport systems for both NO3- and NH4+ ion uptake.
Another important factor is due to the intense competition among soil microbes for organic-N, and microbes are competing with plants for mineral/inorganic N (Schimel and Bennett 2004; Inselsbacher and Näsholm 2012). Thus, bioavailable N is primarily in the form of NO3- and NH4+ ions.
Even in the cold soils and high organic matter ecosystems where amino-acid uptake has been demonstrated, inorganic N dominates when both forms are simultaneously available at similar concentrations (Gruffman et al. 2012; Inselsbacher and Näsholm 2012).
An important pattern found in the studies of organic N uptake is that it primarily occurs with three amino acids: glycine, alanine, and glutamine. Plant uptake of amino acids is often facilitated by mycorrhizal fungi, especially ectomycorrhizal associations (Read 1991; Näsholm et al. 1998; Chapin et al. 2003; Näsholm et al. 2009).
Individual amino acid structures for Glycine, Alanine, and Glutamine:
- Glycine: The simplest amino acid, with the structure:

- Alanine: Has a methyl group 𝐶𝐻3 as its side chain, with the structure:

- Glutamine: Has a side chain containing an amide H2N-CO-CH2-CH2 group, with the structure:

Amino acids are the building blocks of proteins and their existence in soil solution is a product of microbial breakdown of organic materials and larger organic compounds.
Amino-N represents a very minor to moderate fraction of plant N supply relative to NO3- and NH4+ on a global basis and it takes place only in very cold and wet environments (Kielland 1994; Näsholm et al. 1998; Jones et al. 2005; Näsholm et al. 2009; and Inselsbacher and Näsholm 2012).
In conclusion, organic N uptake, as amino acids and not large organic compounds, is recognized as occasionally possible in plant N uptake, but it occurs only in cold, low N mineralization environments with a limited number of plant species.
Inorganic N (NH4+, NO3-) are the primary forms of plant-available N in agricultural crop production systems and most natural terrestrial ecosystems.
References:
Bryant, R. B. 2025. Amino acids as fertilizer for agronomic crops: The next green revolution? Agronomy Journal, 117, e70145. https://doi.org/10.1002/agj2.70145
Chapin, F. S., III, McFarland, J., McGuire, A. D., Euskirchen, E. S., Ruess, R., and Kielland, K. (2003). The changing global carbon cycle: linking plant–soil carbon dynamics to global consequences. Biogeochemistry, 60(1), 1–3.
Gruffman, L., Albrectsen, B. R., and Näsholm, T. (2012). Plant nitrogen uptake in relation to plant–soil interactions. Plant and Soil, 350, 85–94.
(Note: Paper often cited for amino-N uptake dynamics.)
Inselsbacher, E., and Näsholm, T. (2012). The below-ground perspective of forest plants: soil provides mainly organic nitrogen for plants and their associated microorganisms. Plant and Soil, 350, 25–40.
Jones, D. L., Healey, J. R., Willett, V. B., Farrar, J. F., and Hodge, A. (2005). Dissolved organic nitrogen uptake by plants—an important N uptake pathway? New Phytologist, 168(1), 3–27.
Kielland, K. (1994). Amino acid absorption by arctic plants: implications for plant nitrogen cycling. Ecology, 75(8), 2373–2383.
Michelsen, A., Schmidt, I. K., Jonasson, S., Quarmby, C., and Sleep, D. (1996). Leaf 15N abundance of subarctic plants provides field evidence that ericoid, ectomycorrhizal and non- and arbuscular mycorrhizal species access different sources of nitrogen. Oecologia, 106, 407–411.
Näsholm, T., Ekblad, A., Nordin, A., Giesler, R., Högberg, M., and Högberg, P. (1998). Boreal forest plants take up organic nitrogen. Science, 279(5347), 859–862.
Näsholm, T., Kielland, K., and Ganeteg, U. (2009). Uptake of organic nitrogen by plants. New Phytologist, 182(1), 31–48.
Read, D. J. (1991). Mycorrhizas in ecosystems. New Phytologist, 118(3), 365–375.
Schimel, J. P., and Bennett, J. (2004). Nitrogen mineralization: challenges of a changing paradigm. Ecology, 85(3), 591–602.
Schimel, J. P., and Chapin, F. S., III. (1996). Tundra plant uptake of amino acid and NH₄⁺ nitrogen in situ: Plants compete well for amino acid N. Nature, 382, 103–105.
Stevenson, F.J. 1982. Origin and distribution of nitrogen in soils. In: F.J. Stevenson, Ed., Nitrogen in Agricultural Soils, American Society of Agronomy, Madison, WI, pp. 1-42.