Migration and Transformation Mechanism and Source Analysis of "Three Nitrogen" Pollutants in Groundwater

Authors

  • Ji Long Shang

    Harbin Center for Integrated Natural Resources Survey, China Geological Survey (CGS), Harbin 150086, China; Observation and Research S tation of Earth Critical Zone in Black Soil, Harbin, Ministry of Natural Resources, Harbin 150086, China

  • Tao Liu

    Harbin Center for Integrated Natural Resources Survey, China Geological Survey (CGS), Harbin 150086, China; Observation and Research S tation of Earth Critical Zone in Black Soil, Harbin, Ministry of Natural Resources, Harbin 150086, China

  • Lin Guo

    Harbin Center for Integrated Natural Resources Survey, China Geological Survey (CGS), Harbin 150086, China; Observation and Research S tation of Earth Critical Zone in Black Soil, Harbin, Ministry of Natural Resources, Harbin 150086, China

  • Xu Wang

    Harbin Center for Integrated Natural Resources Survey, China Geological Survey (CGS), Harbin 150086, China; Observation and Research S tation of Earth Critical Zone in Black Soil, Harbin, Ministry of Natural Resources, Harbin 150086, China

  • Qi Fa Sun

    Harbin Center for Integrated Natural Resources Survey, China Geological Survey (CGS), Harbin 150086, China; Observation and Research S tation of Earth Critical Zone in Black Soil, Harbin, Ministry of Natural Resources, Harbin 150086, China

DOI:

https://doi.org/10.30564/jees.v8i8.13750
Received: 9 July 2026 | Revised: 25 July 2026 | Accepted: 31 July 2026 | Published Online: 14 August 2026

Abstract

Contamination of groundwater with the three forms of nitrogen (nitrate N, nitrite N, ammonium N) is a common environmental issue in agricultural, urban, industrial and animal production areas. The nitrogen species are highly mobile, stable, toxic, and redox-sensitive, but are also strongly coupled by biogeochemical reactions. This review systematically summarises the occurrence characteristics, migration behaviour, transformation mechanisms, and source analysis methods for three nitrogen pollutants in groundwater. Nitrate is highly soluble, poorly adsorbed, and the most mobile of the different forms in toxic aquifers. Although nitrite is normally transient, its presence may indicate incomplete nitrification, incomplete denitrification, or a lack of redox stability. Across the levels of ammonium, adsorption, ion exchange, organic nitrogen mineralization, dissimilatory nitrate reduction to ammonium (DNRA), and reducing environments are more strongly affected. The largest nitrogen sources are fertilizer application, manure, sewage leakage, septic systems, livestock wastewater, landfill leachate, industrial discharges, atmospheric deposition, soil organic nitrogen, and geological release of N. But the identification of sources is complicated by the transformation processes as groundwater moves. Thus, a combination of hydrochemical, stable isotopes, microbial functional genes, groundwater flow analysis, laboratory experiments and reactive transport modeling is crucial for the use of integrated approaches. This review emphasizes the importance of moving away from the traditional single-species approach towards a coupled source–migration–transformation approach and offers scientific guidance to support groundwater nitrogen pollution tracing, risk assessment, and remediation.

Keywords:

Groundwater Contamination; Three Nitrogen Pollutants; Nitrate; Ammonium; Source Apportionment

References

[1] Islam, M.S., 2023. Groundwater: Sources, functions, and quality. In Hydrogeochemical Evaluation and Groundwater Quality. Springer: Cham, Switzerland. pp. 17–36.

[2] West, L.J., Sinha, S., 2019. Groundwater. In: Holden, J. (Ed.). Water Resources. Routledge: London, UK. pp. 151–194.

[3] Nath, A., Bhuyan, P., Gogoi, N., et al., 2023. Pesticides and chemical fertilizers: Role in soil degradation, groundwater contamination, and human health. In: Singh, R., Singh, P., Tripathi, S., et al. (Eds.). Xenobiotics in Urban Ecosystems: Sources, Distribution and Health Impacts. Springer: Cham, Switzerland. pp. 131–160.

[4] Feng, B., Ma, Y., Qi, Y., et al., 2022. Health risk assessment of groundwater nitrogen pollution in Yinchuan plain. Journal of Contaminant Hydrology. 249, 104031.

[5] Roumelis, C., Willert, F., Scaccia, M., et al., 2025. Water table fluctuations control nitrate and ammonium fate in coastal aquifers. Water Resources Research. 61(1), e2024WR038087.

[6] Maiti, B.K., Moura, I., Moura, J.J., 2025. Nitrate–nitrite interplay in the nitrogen biocycle. Molecules. 30(14), 3023.

[7] Han, L.-L., Wang, H., Ge, L., et al., 2023. Transition of source/sink processes and fate of ammonium in groundwater along with redox gradients. Water Research. 231, 119600.

[8] Fossen Johnson, S., 2022. Nitrates and methemoglobinemia. In: Tsadilas, C. (Ed.). Nitrate Handbook. CRC Press: Boca Raton, FL, USA.

[9] Farhan, M., Khan, Q.F., Sharif, F., et al., 2024. Nutrient Contamination in Water. In: Alshemmari, H., Hashmi, M.Z., Kavil, Y.N., et al. (Eds.). Contaminated Land and Water: Remediation and Management. Springer: Cham, Switzerland. pp. 91–100.

[10] Oubeid, A.M.A., Hilal, I., Kebd, A., et al., 2025. Global applications of stable isotopes for identifying nitrate pollution sources in groundwater: A comprehensive review. Frontiers in Water. 7, 1666498.

[11] Liu, Y., Zhang, Y., Lv, H., et al., 2025. Research on the traceability and treatment of nitrate pollution in groundwater: A comprehensive review. Environmental Geochemistry and Health. 47(4), 107.

[12] Pan, Y., She, D., Ding, J., et al., 2024. Coping with groundwater pollution in high-nitrate leaching areas: The efficacy of denitrification. Environmental Research. 250, 118484.

[13] Liu, W., Du, Y., Ning, J., et al., 2026. Geogenic Ammonium Enrichment in Alluvial-Lacustrine Aquifer Systems: Coupled Controls of Microbial Pathways and Organic Matter Composition. Environmental Science & Technology. 60(2), 2088–2100.

[14] Zhong, S., Li, B., Chen, Q., et al., 2025. Identifying groundwater anthropogenic disturbances and their predominant impact on microbial nitrogen cycling at a former contamination site adjacent to Baiyangdian Lake. Water Research. 280, 123544.

[15] Liang, Y., Ma, R., Fu, H., et al., 2024. Unravelling coupled hydrological and geochemical controls on long-term nitrogen enrichment in a large river basin. Environmental Science & Technology. 58(48), 21315–21326.

[16] Wang, Z., Ahmad, H.A., Teng, Z.-J., et al., 2022. Widespread but overlooked DNRA process in a full-scale simultaneous partial nitrification, anammox, and denitrification plant. ACS ES&T Water. 2(8), 1360–1369.

[17] Xu, S., Kang, P., Sun, Y., 2016. A stable isotope approach and its application for identifying nitrate source and transformation process in water. Environmental Science and Pollution Research. 23(2), 1133–1148.

[18] Xin, L., Zuo, R., Wang, J., et al., 2021. Advances in researches on ammonia, nitrite and nitrate on migration and transformation in the groundwater level fluctuation zone. Hydrogeology & Engineering Geology. 48(2), 27–36.

[19] Craswell, E., 2021. Fertilizers and nitrate pollution of surface and ground water: An increasingly pervasive global problem. SN Applied Sciences. 3(4), 518.

[20] Zhang, M., He, B., Chu, Y., et al., 2025. Review on the distribution and influencing factors of nitrate and ammonia in regional groundwater: Current status, differences and analytic techniques. Environmental Earth Sciences. 84(13), 375.

[21] Krause, S., Tecklenburg, C., Munz, M., et al., 2013. Streambed nitrogen cycling beyond the hyporheic zone: Flow controls on horizontal patterns and depth distribution of nitrate and dissolved oxygen in the upwelling groundwater of a lowland river. Journal of Geophysical Research: Biogeosciences. 118(1), 54–67.

[22] Shen, S., Ma, T., Du, Y., et al., 2023. Contrastive mechanisms of groundwater ammonium enrichment in different hydrogeologic settings. Science of the Total Environment. 875, 162542.

[23] Katz, B.G., 2019. Nitrate contamination in karst groundwater. In: White, W.B., Culver, W.B., Pipan, T. (Eds.). Encyclopedia of Caves. Elsevier: Amsterdam, The Netherlands. pp. 756–760.

[24] Zhang, I.H., Sun, X., Jayakumar, A., et al., 2023. Partitioning of the denitrification pathway and other nitrite metabolisms within global oxygen deficient zones. ISME Communications. 3(1), 76.

[25] Zhang, Q., Wang, H., Zhang, F., et al., 2025. Exploring the role of surface micro-topography in governing dissolved nitrogen dynamics in agricultural runoff during rainfall. Water Research. 287, 124400.

[26] Machado-Silva, F., Weintraub, M.N., Ward, N.D., et al., 2024. Short-term groundwater level fluctuations drive subsurface redox variability. Environmental Science & Technology. 58(33), 14687–14697.

[27] Liu, X., Beusen, A.H.W., van Grinsven, H.J.M., et al., 2024. Impact of groundwater nitrogen legacy on water quality. Nature Sustainability. 7(7), 891–900.

[28] Chinyem, F.I., Beusen, A.H.W., van Grinsven, H.J.M., 2024. Determination of aquifer hydraulic parameters and groundwater protective capacity in parts of Nsukwa clan, Nigeria. Environmental Monitoring and Assessment. 196(3), 243.

[29] Zhou, W., Lei, M., Jiang, X., et al., 2022. Atlas of Karst Collapses. Springer: London, UK.

[30] Saadat, A.M., Khodambashi Emami, S., Hamidifar, H., 2024. A review on storage process models for improving water quality modeling in rivers. Hydrology. 11(11), 187.

[31] Zhang, M., Yan, B., Li, Y., et al., 2024. Fluorescence-Enhanced Tb-MOF for Highly Sensitive and Selective Detection of Ammonia Nitrogen in Groundwater. ACS ES&T Water. 4(4), 1393–1402.

[32] Zhu, X., Yang, F., Pang, Q., et al., 2025. Fluvial dissolved organic matter quality modulates microbial nitrate transformation: Enhanced denitrification under low carbon-to-nitrate ratio. Environmental Science & Technology. 59(43), 23456–23465.

[33] Choudhary, M., Muduli, M., Ray, S., 2022. A comprehensive review on nitrate pollution and its remediation: Conventional and recent approaches. Sustainable Water Resources Management. 8(4), 113.

[34] Chamoli, A., Bhambri, A., Karn, S.K., et al., 2024. Ammonia, nitrite transformations and their fixation by different biological and chemical agents. Chemistry and Ecology. 40(2), 166–199.

[35] Wang, H., Li, P., Liu, X., et al., 2024. Groundwater flow regime shapes nitrogen functional traits by affecting microbial community assembly processes in the subsurface. Science of the Total Environment. 949, 175083.

[36] Perović, M., Dimkić, M., 2021. Transformation of nitrogen compounds in groundwater. In: Dimkić, M. (Ed.). Alluvial Aquifer Processes. IWA Publishing: Washington, DC, USA.

[37] Su, Y., Peng, Y., Wang, J., et al., 2023. Rapid enrichment of anammox bacteria and transformation to partial denitrification/anammox with nitrification/denitrification sludge. Science of the Total Environment. 856, 158973.

[38] Lee, D.U., Woo, S.-H., Svoronos, S., et al., 2010. Influence of alternating oxic/anoxic conditions on growth of denitrifying bacteria. Water Research. 44(6), 1819–1824.

[39] Hao, Y., Zheng, T., Liu, L., et al., 2025. Occurrence of dissimilatory nitrate reduction to ammonium (DNRA) in groundwater table fluctuation zones during dissolved organic nitrogen leaching through unsaturated zone. Journal of Hazardous Materials. 489, 137501.

[40] Zhu, G., Shi, H., Zhong, L., et al., 2025. Nitrous oxide sources, mechanisms and mitigation. Nature Reviews Earth & Environment. 6(9), 574–592.

[41] Wang, C., He, T., Zhang, M., et al., 2024. Review of the mechanisms involved in dissimilatory nitrate reduction to ammonium and the efficacies of these mechanisms in the environment. Environmental Pollution. 345, 123480.

[42] Rahman, M.M., Peipoch, M., Kan, J., et al., 2024. Dissimilatory nitrate reduction to ammonium (DNRA) can undermine nitrogen removal effectiveness of persistently reducing riparian sediments. ACS ES&T Water. 4(9), 3873–3881.

[43] Zhu, Y., Dai, H., Yuan, S., 2023. The competition between heterotrophic denitrification and DNRA pathways in hyporheic zone and its impact on the fate of nitrate. Journal of Hydrology. 626, 130175.

[44] Wang, K., Li, J., Gu, X., et al., 2023. How to provide nitrite robustly for anaerobic ammonium oxidation in mainstream nitrogen removal. Environmental Science & Technology. 57(51), 21503–21526.

[45] Zhai, Y., Han, Y., Lu, H., et al., 2022. Interactions between anthropogenic pollutants (biodegradable organic nitrogen and ammonia) and the primary hydrogeochemical component Mn in groundwater: Evidence from three polluted sites. Science of the Total Environment. 808, 152162.

[46] Ayiti, O.E., Babalola, O.O., 2022. Factors influencing soil nitrification process and the effect on environment and health. Frontiers in Sustainable Food Systems. 6, 821994.

[47] Al–Obaidi, M., Syan, C., 2022. Binary exchange of calcium, magnesium, potassium and sodium in calcareous soils in Kurdistan region of Iraq. IOP Conference Series: Earth and Environmental Science. 1120, 12016.

[48] Richard-Cerda, J.C. Bockstiegel, M., Muñoz-Vega, E., 2024. From High-Resolution Monitoring to Process Understanding: Geochemical, Isotopic, and Modeling Approaches for Assessing Nitrate Transformation and Impacts at an Agricultural Site. ACS EST Water. (11), 4917–4931.

[49] Dong, H., Huang, L., Zhao, L., et al., 2022. A critical review of mineral–microbe interaction and co-evolution: Mechanisms and applications. National Science Review. 9(10), nwac128.

[50] Zhao, L., Chen, J., Shen, G., et al., 2025. Dissimilatory nitrate reduction to ammonia in the natural environment and wastewater treatment facilities: A comprehensive review. Environmental Technology & Innovation. 37, 104011.

[51] Wang, H., Zhi, C., Xu, D., et al., 2025. Impact of salinity on nitrogen cycling and microbial community functional potential in groundwater of the Yellow River Delta. Applied Geochemistry. 197, 106669.

[52] Wang, L., Li, M., 2024. Review of soil dissolved organic nitrogen cycling: Implication for groundwater nitrogen contamination. Journal of Hazardous Materials. 461, 132713.

[53] Altunışık, A., 2026. Nitrogen pollution: Problems, sources, and impacts. In: Kurniawan, T.A., Anouzla, A. (Eds.). Nonpoint Source Nitrogen Pollution: Challenges, Solutions, and Sustainable Approaches. Elsevier: Amsterdam, The Netherlands. pp. 3–23.

[54] Burkart, M.R., Stoner, J.D., 2008. Nitrogen in groundwater associated with agricultural systems. In: Hatfield, J.L., Follett, R.F. (Eds.). Nitrogen in the Environment: Sources, Problems, and Management. Elsevier: Amsterdam, The Netherlands. pp. 177–202.

[55] Lal, B., Nayak, V., Kumar, A., et al., 2022. A perspective view of nitrogen: soil, plants and water. In: Kumar, A., Kumar, P., Singh, S.S., et al. (Eds.). Agriculture, Livestock Production and Aquaculture: Advances for Smallholder Farming Systems Volume 1. Springer: Cham, Switzerland. pp. 113–135.

[56] Qi, G., Zhang, B., Tian, B., et al., 2023. Characterization of dissolved organic matter from agricultural and livestock effluents: Implications for water quality monitoring. International Journal of Environmental Research and Public Health. 20(6), 5121.

[57] Zhao, B., Wang, S., Wang, A., et al., 2025. Water and Nitrogen Transport in Wheat and Maize: Impacts of Irrigation, Fertilization, and Soil Management. Agriculture. 15(23), 2442.

[58] Lusk, M.G., Toor, G.S., Yang, Y.-Y., et al., 2017. A review of the fate and transport of nitrogen, phosphorus, pathogens, and trace organic chemicals in septic systems. Critical Reviews in Environmental Science and Technology. 47(7), 455–541.

[59] Mester, T., Szabó, G., Sajtos, Z., et al., 2023. Assessment of groundwater decontamination processes around a dismantled septic tank using GIS and statistical analysis. Water. 15(5), 884.

[60] Abdel-Shafy, H.I., Ibrahim, A.M., Al-Sulaiman, A.M., et al., 2024. Landfill leachate: Sources, nature, organic composition, and treatment: An environmental overview. Ain Shams Engineering Journal. 15(1), 102293.

[61] Moloantoa, K.M., Khetsha, Z.P., van Heerden, E., et al., 2022. Nitrate water contamination from industrial activities and complete denitrification as a remediation option. Water. 14(5), 799.

[62] Punde, S.B., Kulkarni, M.N., 2025. A critical review on physicochemical parameters in water quality management: Key indicators for sustainability and pollution mitigation. International Journal of Creative Research Thoughts. 13(8), a380‒a393.

[63] Brondi, M., Eisa, M., Bortoletto-Santos, R., et al., 2023. Recovering, stabilizing, and reusing nitrogen and carbon from nutrient-containing liquid waste as ammonium carbonate fertilizer. Agriculture. 13(4), 909.

[64] Li, J., Liu, Y., Dai, W., et al., 2023. Nitrate attenuation with rising groundwater levels: An integrated assessment using isotope tracers and microbial signatures. Journal of Hydrology. 624, 129911.

[65] Bhagwat, A., Ojha, C.S.P., Kumar, S., et al., 2024. Use of environmental isotopes in leachate studies through multiple isotopic analysis—A review. Environmental Technology Reviews. 13(1), 214–234.

[66] Duan, L., Wu, Y., Fan, J., et al., 2023. Identification of nitrogen pollution sources and transport transformation processes in groundwater of different landforms using C, H, N, and O isotope techniques: An example from the lower Weihe River. Environmental Science and Pollution Research. 30(11), 29442–29457.

[67] Song, W., Liu, X.-Y., 2025. Isotopic insights into the anthropogenic nitrogen cycle: A review. Nitrogen Cycling. 2(1).

[68] Mao, H., Wang, C., Qu, S., et al., 2023. Source and evolution of sulfate in the multi-layer groundwater system in an abandoned mine—Insight from stable isotopes and Bayesian isotope mixing model. Science of the Total Environment. 859, 160368.

[69] Hartanto, P., Lubis, R.F., Alam, B.Y.C.S.S.S., et al., 2024. Multivariate Data Analysis to Assess Groundwater Hydrochemical Characterization in Rawadanau Basin, Banten Indonesia. Rudarsko-Geološko-Naftni Zbornik. 39(1), 141–154.

[70] Zhang, Y., Li, F., Zhang, Q., et al., 2014. Tracing nitrate pollution sources and transformation in surface-and ground-waters using environmental isotopes. Science of the Total Environment. 490, 213–222.

[71] Liu, H., Liu, Y., Sun, H., et al., 2026. Source apportionment of inorganic nitrogen in shallow groundwater in the Chengdu plain area based on multiple quantitative and qualitative methods. Environmental Earth Sciences. 85(1), 29.

[72] Ma, Y., Wu, Q., Wang, X., et al., 2025. Carbon components in organic amendments drive nitrogen metabolism in one-year-long anaerobic soil microcosms. Frontiers in Microbiology. 16, 1588169.

[73] Willert, F., Scaccia, M., Bernal, S., et al., 2026. Changes in nitrogen concentrations in an upland Mediterranean riparian aquifer during water table fluctuations: Insights from soil column experiments. Hydrogeology Journal. 34(5), 1435–1452.

[74] Samborska-Goik, K., Pogrzeba, M., 2024. A critical review of the modelling tools for the reactive transport of organic contaminants. Applied Sciences. 14(9), 3675.

[75] Cardiff, M., Schachter, L., Krause, J., et al., 2023. Quantifying annual nitrogen loss to groundwater via edge‐of‐field monitoring: method and application. Groundwater. 61(1), 21–34.

[76] Qian, F., Liu, Y., Mo, C., et al., 2023. Response of partial nitritation/anammox granules to biodegradable organic input in bacterial community and functions. Journal of Water Process Engineering. 51, 103442.

[77] Liao, R., Song, P., Wang, J., et al., 2022. Development of water quality management strategies based on multi-scale field investigation of nitrogen distribution: A case study of Beiyun River, China. Environmental Science and Pollution Research. 29(37), 56511–56524.

[78] Niu, X., Jia, X., Yang, X., et al., 2022. Tracing the sources and fate of NO3− in the vadose zone–groundwater system of a thousand-year-cultivated region. Environmental Science & Technology. 56(13), 9335–9345.

[79] Judeh, T., Almasri, M.N., Shadeed, S.M., et al., 2022. Use of GIS, statistics and machine learning for groundwater quality management: Application to nitrate contamination. Water Resources. 49(3), 503–514.

[80] Kontos, Y.N., Kassandros, T., Perifanos, K., et al., 2022. Machine learning for groundwater pollution source identification and monitoring network optimization. Neural Computing and Applications. 34(22), 19515–19545.

[81] Islam, F.S., 2025. Groundwater pollution and contamination: Sources, impacts, management, and the integration of AI/ML for future solutions. Research Journal in Civil, Industrial and Mechanical Engineering. 2(2), 1–52.

[82] Nejatian, N., Abbaspour, M., Javidan, P., et al., 2024. Evaluation of the vulnerability and pathways of groundwater pollution in the Zanjanrud river basin by an integrated modeling approach. Modeling Earth Systems and Environment. 10(2), 2295–2308.

Downloads

How to Cite

Shang, J. L., Liu, T., Guo, L., Wang, X., & Sun, Q. F. (2026). Migration and Transformation Mechanism and Source Analysis of "Three Nitrogen" Pollutants in Groundwater. Journal of Environmental & Earth Sciences, 8(8), 696–720. https://doi.org/10.30564/jees.v8i8.13750