Volume 19 Issue 2
May  2026
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Wei-wei Song, Xiao-fu Wei, Si-yuan Li, Xiang-qi Liu, Yu-jia Zhou, Yu-xuan Jiang. 2026: Mechanisms of microbial and functional gene influences on nitrogen cycle in pumping station forebays. Water Science and Engineering, 19(2): 183-197. doi: 10.1016/j.wse.2026.02.003
Citation: Wei-wei Song, Xiao-fu Wei, Si-yuan Li, Xiang-qi Liu, Yu-jia Zhou, Yu-xuan Jiang. 2026: Mechanisms of microbial and functional gene influences on nitrogen cycle in pumping station forebays. Water Science and Engineering, 19(2): 183-197. doi: 10.1016/j.wse.2026.02.003

Mechanisms of microbial and functional gene influences on nitrogen cycle in pumping station forebays

doi: 10.1016/j.wse.2026.02.003
Funds:

This work was supported by the Fundamental Research Funds for the Central Universities (Grant No. B240201187) and the National Natural Science Foundation of China (Grant No. 52100175).

  • Received Date: 2025-05-21
  • Accepted Date: 2026-01-11
  • Available Online: 2026-05-30
  • Nitrogen pollution in rivers has long been a key environmental factor hindering ecosystem recovery. As critical nodes in water systems, pumping station projects further complicate river environmental issues. This study focused on the pumping stations in the Qinhuai River, a tributary in the lower reaches of the Yangtze River in China, and investigated the mechanisms driving the nitrogen cycle in the forebays of pumping stations through field sampling, metagenomic analysis, and statistical methods. The results indicated that the most abundant phylum of nitrogen-cycling microorganisms in the forebays was Pseudomonadota, accounting for 50.29% of the community. The nitrogen cycle processes were primarily dominated by nitrogen assimilation, nitrogen mineralization, and denitrification. The abundance of denitrification-related genes (nirKS and nosZ) and the diversity and abundance of nitrogen-functional microorganisms were higher in rural areas than in urban areas. NH3-N exhibited a strong correlation with microbial communities in rural areas, while dissolved oxygen (DO) and MnO4- were more closely associated with microbial communities in urban areas. Results from partial least squares path modeling (LS-PM) indicated that the maximum path coefficients in rural and urban areas were 0.315 for denitrification functional genes and 0.687 for nitrogen-mineralization functional genes, respectively. The path coefficient for nitrification in urban areas was greater than those for dissimilatory nitrate reduction and denitrification, suggesting that rural conditions are more conducive to nitrogen removal, while urban conditions favor nitrogen fixation. This study provides significant insights for understanding the ecological processes involved in pumping station water diversion projects.

     

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  • [1]
    Beaudor, M., Vuichard, N., Lathiere, J., Evangeliou, N., Van Damme, M., Clarisse, L., Hauglustaine, D., 2023. Global agricultural ammonia emissions simulated with the ORCHIDEE land surface model. Geoscientific Model Development 16(3), 1053-1081. https://doi.org/10.5194/gmd-16-1053-2023.
    [2]
    Cao, J., Sun, Q., Zhao, D., Xu, M., Shen, Q., Wang, D., Wang, Y., Ding, S., 2020. A critical review of the appearance of black-odorous waterbodies in China and treatment methods. Journal of Hazardous Materials 385, 121511. https://doi.org/10.1016/j.jhazmat.2019.121511.
    [3]
    Chen, H., Liu, K., Yang, E., Chen, J., Gu, Y., Wu, S., Yang, M., Wang, H., Wang, D., Li, H., 2023. A critical review on microbial ecology in the novel biological nitrogen removal process: Dynamic balance of complex functional microbes for nitrogen removal. Science of The Total Environment 857, 159462. https://doi.org/10.1016/j.scitotenv.2022.159462.
    [4]
    Chen, S., Elrys, A.S., Yang, W., Du, S., He, M., Cai, Z., Zhang, J., Muller, C., 2024. Soil recalcitrant but not labile organic nitrogen mineralization contributes to microbial nitrogen immobilization and plant nitrogen uptake. Global Change Biology 30(4), e17290. https://doi.org/10.1111/gcb.17290.
    [5]
    Cheng, S., Meng, F., Wang, Y., Zhang, J., Zhang, L., 2024. The potential linkage between sediment oxygen demand and microbes and its contribution to the dissolved oxygen depletion in the Gan River. Frontiers in Microbiology 15, 1413447. https://doi.org/10.3389/fmicb.2024.1413447.
    [6]
    Deng, M., Liu, H., Ouyang, Z., 2022. Characteristics and driving factors of coastal rural domestic waste of the Yellow River Delta in China. Journal of Cleaner Production 353, 131670. https://doi.org/10.1016/j.jclepro.2022.131670.
    [7]
    Evangelistella, C., Valentini, A., Ludovisi, R., Firrincieli, A., Fabbrini, F., Scalabrin, S., Cattonaro, F., Morgante, M., Mugnozza, G.S., Keurentjes, J.J.B., et al., 2017. De novo assembly, functional annotation, and analysis of the giant reed (Arundo donax L.) leaf transcriptome provide tools for the development of a biofuel feedstock. Biotechnology for Biofuels 10, 138, https://doi.org/10.1186/s13068-017-0828-7.
    [8]
    Gong, C., Tian, H., Liao, H., Pan, N., Pan, S., Ito, A., Jain, A.K., Kou-Giesbrecht, S., Joos, F., Sun, Q., et al., 2024. Global net climate effects of anthropogenic reactive nitrogen. Nature 632(8025), 557-563. https://doi.org/10.1038/s41586-024-07714-4.
    [9]
    Gu, Z., Liu, K., Pedersen, M.W., Wang, F., Chen, Y., Zeng, C., Liu, Y., 2021. Community assembly processes underlying the temporal dynamics of glacial stream and lake bacterial communities. Science of The Total Environment 761, 143178. https://doi.org/10.1016/j.scitotenv.2020.143178.
    [10]
    Guan, X., Xu, Y., Zhang, D., Li, H., Li, R., Shi, R., 2024. Microbial nitrogen transformation regulates pathogenic virulence in soil environment. Journal of Environmental Management 369, 122280. https://doi.org/10.1016/j.jenvman.2024.122280.
    [11]
    Guzman-Soto, I., McTiernan, C., Gonzalez-Gomez, M., Ross, A., Gupta, K., Suuronen, E.J., Mah, T., Griffith, M., Alarcon, E., 2021. Mimicking biofilm formation and development: Recent progress in vitro and in vivo biofilm models. iScience 24(5), 102443. https://doi.org/10.1016/j.isci.2021.102443.
    [12]
    Hair, J.F., Hult, G.T.M., Ringle, C.M., Sarstedt, M., 2017. A Primer on Partial Least Squares Structural Equation Modeling (PLS-SEM) (4th Edition). Sage Publications, Thousand Oaks.
    [13]
    Han, X.K, Wang, Z.R., Peng, Y.Z., 2023. A review of several important factors influencing the Anammox process. China Environmental Science 43(5), 2220-2227 (in Chinese).
    [14]
    Hao, Q., Lyu, X., Qin, D., Du, N., Wu, S., Bai, S., Chen, Z., Wang, P., Zhao, X., 2024. Synergistic mechanisms of denitrification in FeS2-based constructed wetlands: Effects of organic carbon availability under day-night alterations. Bioresource Technology 406, 131066. https://doi.org/10.1016/j.biortech.2024.131066.
    [15]
    He, G., Deng, D., Delgado-Baquerizo, M., Liu, W., Zhang, Q., 2025. Global relative importance of denitrification and anammox in microbial nitrogen loss across terrestrial and aquatic ecosystems. Advanced Science 12(8), 2406857. https://doi.org/10.1002/advs.202406857.
    [16]
    He, S., Wang, Y., Li, C., Li, Y., Zhou, J., 2018. The nitrogen removal performance and microbial communities in a two-stage deep sequencing constructed wetland for advanced treatment of secondary effluent. Bioresource Technology 248, 82-88. https://doi.org/10.1016/j.biortech.2017.06.150.
    [17]
    Huang, F., Lin, X., Hu, W., Zeng, F., He, L., Yin, K., 2021. Nitrogen cycling processes in sediments of the Pearl River Estuary: Spatial variations, controlling factors, and environmental implications. CATENA 206, 105545. https://doi.org/10.1016/j.catena.2021.105545.
    [18]
    Huang, W., Chen, X., Wang, K., Chen, J., Zheng, B., Jiang, X., 2019. Comparison among the microbial communities in the lake, lake wetland, and estuary sediments of a plain river network. MicrobiologyOpen 8(2), e00644. https://doi.org/10.1002/mbo3.644.
    [19]
    Jeerh, G., Zhang, M., Tao, S., 2021. Recent progress in ammonia fuel cells and their potential applications. Journal of Materials Chemistry A 9(2), 727-752. https://doi.org/10.1039/D0TA08810B.
    [20]
    Jiang, X., Liu, C., Cai, J., Hu, Y., Shao, K., Tang, X., Gong, Y., Yao, X., Xu, Q., Gao, G., 2023. Relationships between environmental factors and N-cycling microbes reveal the indirect effect of further eutrophication on denitrification and DNRA in shallow lakes. Water Research 245, 120572. https://doi.org/10.1016/j.watres.2023.120572.
    [21]
    Kohtz, A.J., Petrosian, N., Krukenberg, V., Jay, Z.J., Pilhofer, M., Hatzenpichler, R., 2024. Cultivation and visualization of a methanogen of the phylum Thermoproteota. Nature 632, 1118-1123. https://doi.org/10.1038/s41586-024-07631-6.
    [22]
    Kuypers, M.M.M., Marchant, H.K., Kartal, B., 2018. The microbial nitrogen-cycling network. Nature Reviews Microbiology16(5), 263-276.
    [23]
    Lackner, G., Peters, E.E., Helfrich, E.J.N., Piel, J., 2017. Insights into the lifestyle of uncultured bacterial natural product factories associated with marine sponges. Proceedings of the National Academy of Sciences 114(3), E347-E356. https://doi.org/10.1073/pnas.1616234114.
    [24]
    Li, C., Quan, Q., Gan, Y., Dong, J., Fang, J., Wang, L., Liu, J., 2020. Effects of heavy metals on microbial communities in sediments and establishment of bioindicators based on microbial taxa and function for environmental monitoring and management. Science of The Total Environment 749, 141555. https://doi.org/10.1016/j.scitotenv.2020.14155.
    [25]
    Li, X., Gong, Q., Li, Z., 2024. Response characteristics of soil microorganisms under strong disturbance conditions in the riparian zone of the Three Gorges Reservoir area. Scientific Reports 14(1),18394. https://doi.org/10.1038/s41598-024-69533-x.
    [26]
    Li, Y., Yang, N., Qian, B., Yang, Z., Liu, D., Niu, L., Zhang, W., 2018. Development of a bacteria-based index of biotic integrity (Ba-IBI) for assessing ecological health of the Three Gorges Reservoir in different operation periods. Science of The Total Environment 640-641, 255-263. https://doi.org/10.1016/j.scitotenv.2018.05.291.
    [27]
    Lin, W., Li, Y., Li, Y., Zhou, W., Zhang, D., Qi, Z., 2020. Advances in the mechanism of microbe-driven nitrogen cycling. Journal of Plant Nutrition and Fertilizers 26(6), 1146-1155. https://doi.org/10.11674/zwyf.20143.
    [28]
    Liu, J., Zhou, Z., Li, P., Wang, Z., Yan, Y., Yu, X., Li, W., Zheng, T., Cao, Y., Wu, W., et al., 2024. Characteristics of rural domestic sewage discharge and their driving mechanisms: Evidence from the northern region, China. Frontiers of Environmental Science & Engineering 18(7): 83. https://doi.org/10.1007/s11783-024-1843-0.
    [29]
    Liu, Y., Gao, H., Wang, Z., Xue, P., Chen, X., Wang, B., Wen, G., 2025. Nitrogen cycling blocked in constructed wetlands: Mechanisms, developments, and challenges-A review. Water Research X 9, 100401. https://doi.org/10.1016/j.wroa.2025.100401.
    [30]
    Ma, M., Zhang, H., Lauerwald, R., Ciais, P., Regnier, P., 2025. Estimating lateral nitrogen transfers over the last century through the global river network using a land surface model. Earth System Dynamics 16(3), 841-867. https://doi.org/10.5194/esd-16-841-2025.
    [31]
    Mosley, O., Gios, E., Close, M., Weaver, L., Daughney, C., Handley, K., 2022. Nitrogen cycling and microbial cooperation in the terrestrial subsurface. The ISME Journal 16(11), 2561-2573. https://doi.org/10.1038/s41396-022-01300-0.
    [32]
    Nelson, M.B., Martiny, A.C., Martiny, J.B.H., 2016. Global biogeography of microbial nitrogen-cycling traits in soil. Proceedings of the National Academy of Sciences 113(29), 8033-8040. https://doi.org/10.1073/pnas.1601070113.
    [33]
    Pan, X., Lin, L., Cao, X., Jing, Z., Dong, L., Zhai, W., 2024. Response of microbial communities and biogeochemical cycling functions to sediment physicochemical properties and microplastic pollution under damming and water diversion projects. Science of The Total Environment 940, 173209. https://doi.org/10.1016/j.scitotenv.2024.173209.
    [34]
    Qin, Y., Tang, Q., Lu, L., Wang, Y., Izaguirre, I., Li, Z., 2021. Changes in planktonic and sediment bacterial communities under the highly regulated dam in the mid-part of the Three Gorges Reservoir. Applied Microbiology and Biotechnology 105, 839-852. https://doi.org/10.1007/s00253-020-11047-3.
    [35]
    Qiu, Y., Yang, T., Tang, J., Zhao, B., Li, H., Zhuang, W., Zhou, L., 2026. Dissimilatory nitrate reduction to ammonium-induced false stability masks dysfunctional Candidatus Brocadia failure during ANAMMOX start-up from municipal activated sludge. Bioresource Technology 439, 133324. https://doi.org/10.1016/j.biortech.2025.133324.
    [36]
    Ren, Y., Ngo, H.H., Guo, W., Wang, D., Peng, L., Ni, B., Wei, W., Liu, Y., 2020. New perspectives on microbial communities and biological nitrogen removal processes in wastewater treatment systems. Bioresource Technology 297, 122491. https://doi.org/10.1016/j.biortech.2019.122491.
    [37]
    Su, X., Steinman, A.D., Xue, Q., Zhao, Y., Tang, X., Xie, L., 2017. Temporal patterns of phyto- and bacterioplankton and their relationships with environmental factors in Lake Taihu, China. Chemosphere 184, 299-308. https://doi.org/10.1016/j.chemosphere.2017.06.003.
    [38]
    Tang, S., Liao, Y., Xu, Y., Dang, Z., Zhu, X., Ji, G., 2020. Microbial coupling mechanisms of nitrogen removal in constructed wetlands: A review. Bioresource Technology 314, 123759. https://doi.org/10.1016/j.biortech.2020.123759.
    [39]
    Tu, Q., Lin, L., Cheng, L., Deng, Y., He, Z., 2019. NCycDB: A curated integrative database for fast and accurate metagenomic profiling of nitrogen cycling genes. Bioinformatics 35(6), 1040-1048. https://doi.org/10.1093/bioinformatics/bty741.
    [40]
    Wan, D., Li, Q., Liu, Y., Xiao, S., Wang, H., 2019. Simultaneous reduction of perchlorate and nitrate in a combined heterotrophic-sulfur-autotrophic system: Secondary pollution control, pH balance and microbial community analysis. Water Research 165, 115004. https://doi.org/10.1016/j.watres.2019.115004.
    [41]
    Wang, J., Kan, J., Qian, G., Chen, J., Xia, Z., Zhang, X., Liu, H., Sun, J., 2019. Denitrification and anammox: Understanding nitrogen loss from Yangtze Estuary to the East China Sea (ECS). Environmental Pollution 252, 1659-1670. https://doi.org/10.1016/j.envpol.2019.06.025.
    [42]
    Wang, P., Li, J.L., Luo, X.Q., Ahmad, M., Duan, L., Yin, L., Fang, B., Li, S., Yang, Y., Jiang, L., Li, W., 2021. Biogeographical distributions of nitrogen-cycling functional genes in a subtropical estuary. Functional Ecology 36(1), 187-201. https://doi.org/10.1111/1365-2435.13949.
    [43]
    Wang, Z., Yue, F., Xue, L., Wang, Y., Qin, C., Zeng, J., Ding, H., Fu, Y., Li, S., 2023. Soil nitrogen transformation in different land use and implications for karst soil nitrogen loss controlling. CATENA 225, 107026. https://doi.org/10.1016/j.catena.2023.107026.
    [44]
    Wen, X., Zhou, Y., Liang, X., Li, J., Huang, Y., Li, Q., 2023. A novel carbon-nitrogen coupled metabolic pathway promotes the recyclability of nitrogen in composting habitats. Bioresource Technology 381, 129134. https://doi.org/10.1016/j.biortech.2023.129134.
    [45]
    Wu, B., Liu, F., Fang, W., Yang, T., Chen, G., He, Z., Wang, S., 2021. Microbial sulfur metabolism and environmental implications. Science of The Total Environment 778, 146085. https://doi.org/10.1016/j.scitotenv.2021.146085.
    [46]
    Wu, C., Wang, G., Li, J., Li, J., Cao, C., Ge, S., Xie, Y., Chen, J., Liu, S., et al., 2020. Non-agricultural sources dominate the atmospheric NH3 in Xi'an, a megacity in the semi-arid region of China. Science of The Total Environment 722, 137756. https://doi.org/10.1016/j.scitotenv.2020.137756.
    [47]
    Xia, X., Zhang, S., Li, S., Zhang, L., Wang, G., Zhang, L., Wang, J., Li, Z., 2018. The cycle of nitrogen in river systems: Sources, transformation, and flux. Environmental Science: Processes and Impacts 20(6), 863-891. https://doi.org/10.1039/C8EM00042E.
    [48]
    Yan, Z., Chang, B., Song, X., Wang, G., Shan, J., Yang, L., Li, S., Butterbach-Bahl, K., Ju, X., 2024. A microbial-explicit model with comprehensive nitrogen processes to quantify gaseous nitrogen production from agricultural soils. Soil Biology and Biochemistry 189, 109284. https://doi.org/10.1016/j.soilbio.2023.109284.
    [49]
    Yang, F., Qin, J., Peng, Q., Zhang, J., Zhu, Y., Song, F., 2019. Transcriptional regulation and overexpression of glnA gene in Bacillus thuringiensis. Chinese Journal of Biological Control 35(4), 563-569 (in Chinese). https://doi.org/10.16409/j.cnki.2095-039x.2019.04.015.
    [50]
    Yang, J., Finn, D.R., Wang, H., Brunotte, J., Tebbe, C.C., 2025. Seasonal dynamics of prokaryotic nitrogen cycling genes in cropland soils: Effects of soil texture, tillage, and environmental factors. Soil and Tillage Research 253, 106694. https://doi.org/10.1016/j.still.2025.106694.
    [51]
    Yao, Z., Du, S., Liang, C., Zhao, Y, Dini-Andreote, F., Wang, K., Zhang, D., 2019. Bacterial community assembly in a typical estuarine marsh with multiple environmental gradients. Applied and Environmental Microbiology 85(6), e02602-18. https://doi.org/10.1128/AEM.02602-18.
    [52]
    Zhang, L., Huang, S., Peng, X., Liu, B., Zhang, X., Ge, F., Zhou, Q., Wu, Z., 2021. Potential ecological implication of Cladophora oligoclora decomposition: Characteristics of nutrient migration, transformation, and response of bacterial community structure. Water Research 190, 116741. https://doi.org/10.1016/j.watres.2020.116741.
    [53]
    Zhang, Y., Wang, M., Wu, H., Cheng, W., Zhao, L., Yu, G., Ren, J., 2025. Hydroperiodic dynamics of microbial-mediated nitrogen cycling and its multi-element coupling effect in the Weihe River. Water Research 285, 124057. https://doi.org/10.1016/j.watres.2025.124057.
    [54]
    Zhao, W., Chen, Z., Yang, X., Sheng, L., Mao, H., Zhu, S., 2023. Metagenomics reveal arbuscular mycorrhizal fungi altering functional gene expression of rhizosphere microbial community to enhance Iris tectorum's resistance to Cr stress. Science of The Total Environment 895, 164970. https://doi.org/10.1016/j.scitotenv.2023.164970.
    [55]
    Zheng, C., Zhang, X., He, T., Wu, P., Wu, W., Zhang, M., Zhao, H., 2025. New insight into the mechanism of nitrite enhancement on heterotrophic nitrification and aerobic denitrification bacterium in gene expression. Environmental Microbiology 27(3), e70080. https://doi.org/10.1111/1462-2920.70080.
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